From 9a51b6bb1add619440ec2f83ecebc36812d609ae Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Thu, 1 Sep 2022 10:51:38 +0200
Subject: [PATCH 01/40] =?UTF-8?q?Deleted=20=C2=BA=20typo?=
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

---
 script.sh | 1 -
 1 file changed, 1 deletion(-)

diff --git a/script.sh b/script.sh
index c88b0cc..82a4254 100755
--- a/script.sh
+++ b/script.sh
@@ -278,7 +278,6 @@ Create_metrics()
   #Generating function list in case of missing
 
   if ! test -f "extrae_functions_for_xml.txt"; then
-    º
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
-- 
GitLab


From fe4efd0d06527d0cc5867aa1ad3c130603c3bf1e Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Thu, 1 Sep 2022 15:30:31 +0200
Subject: [PATCH 02/40] Initial Torque manager added

---
 Job_Creator.py | 40 +++++++++++++++++++++++++++++++++++++++-
 script.sh      | 27 +++++++++++++++++++--------
 2 files changed, 58 insertions(+), 9 deletions(-)

diff --git a/Job_Creator.py b/Job_Creator.py
index 15330c8..4d9f46e 100644
--- a/Job_Creator.py
+++ b/Job_Creator.py
@@ -117,6 +117,41 @@ def create_job_lsf(args):
             lsf_job.write(line)
 
 
+def create_job_torque(args):
+    file_name = args.file_name
+    time = args.set_time
+    cores = args.set_core
+    name = args.job_name
+    cores_per_node = args.set_core_per_node
+    queue = args.set_queue
+    workload = args.set_workload
+    nodes = (cores//cores_per_node)+1
+    hours = time // 60
+    minutes = time % 60
+    file = ["#!/bin/bash \n",
+            "############################################################################### \n",
+            "#PBS -o "+str(name)+".out \n#PBS -e "+str(name)+".err \n"
+            "#PBS --constraint=perfparanoid \n"]
+
+    if cores is not None:
+        file.append("#PBS -l nodes"+str(nodes)":ppn=" + str(cores) + "\n")
+    if time is not None and not 0:
+        file.append("#PBS -l cput=" + str(hours)+":"+str(minutes)+ ":00\n")
+    if name is not None:
+        file.append("#PBS -N " + name + "\n")
+    if queue is not None and not len(queue) == 0:
+        file.append("#PBS -q " + queue + "\n")
+
+    if workload is not None:
+        file.append("\n")
+        for work in workload:
+            file.append(str(work) + "")
+
+    with open(file_name, "w") as torque_job:
+        for line in file:
+            torque_job.write(line)
+
+
 def modify_job(args):
     file_name = args.file_name
     time = args.set_time
@@ -148,6 +183,8 @@ if __name__ == "__main__":
         args.file_name = args.file_name if args.file_name.count(".slurm") else args.file_name + ".slurm"
     elif args.scheduler == "lsf":
         args.file_name = args.file_name if args.file_name.count(".lsf") else args.file_name + ".lsf"
+    elif args.scheduler == "torque":
+        args.file_name = args.file_name if args.file_name.count(".torque") else args.file_name + ".torque"
 
     if os.path.exists(str(args.file_name)):
         os.remove(str(args.file_name))
@@ -156,4 +193,5 @@ if __name__ == "__main__":
         create_job_slurm(args)
     elif args.scheduler == "lsf":
         create_job_lsf(args)
-
+    elif args.scheduler == "torque":
+ 	create_job_torque(args)
diff --git a/script.sh b/script.sh
index 82a4254..9a4911f 100755
--- a/script.sh
+++ b/script.sh
@@ -32,22 +32,31 @@ Job_completed()
 {
   if [ "$Jobs_scheduler" == "slurm" ]; then
     local id1=${1##* }
-    sleep .5
+    sleep 5
     if ! scontrol show job $id1 | grep -q 'JobState=COMPLETED'; then
       Completed=false
     else
       Completed=true
     fi	
 
-  else
-    local id1=${head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1}
-    sleep .5
+  elif [ "$Jobs_scheduler" == "lsf" ]; then
+    local id1=$(head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1)
+    sleep 5
     if ! bjobs -l $id | grep -q 'Status <DONE>'; then
       Completed=false
     else
       Completed=true
     fi
-  fi
+  elif [ "$Jobs_scheduler" == "torque" ]; then
+    local id1=$(head -n1 $1 | awk '{ print $3 }')
+    sleep 5
+    if ! qstat f $id | grep -q 'exit_status = 0'; then
+      Completed=false
+    else
+      Completed=true
+    fi
+
+  
 
 }
 
@@ -98,7 +107,7 @@ Test_arguments()
     exit 1
   fi
   # scheduler correct?
-  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ]; then
+  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ] && [ "$Jobs_scheduler" != "torque" ]; then
     echo "$Jobs_scheduler is not a valid scheduler"
     echo
     exit 1
@@ -133,8 +142,10 @@ Test_arguments()
   # Creating auxiliar vars for submiting jobs
   if [ "$Jobs_scheduler" == "slurm" ]; then 
     job="sbatch"
-  else
-    job="bsub"
+  elif [ "$Jobs_scheduler" == "lsf" ]
+    job="qsub"
+  elif [ "$Jobs_scheduler" == "torque" ]
+    job=""
   fi
 
   
-- 
GitLab


From a313905c0cd2c3a98660e2753450b3feba9620ff Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Thu, 1 Sep 2022 15:52:03 +0200
Subject: [PATCH 03/40] Fixed mistakes in principal files

---
 Job_Creator.py | 6 +++---
 script.sh      | 8 ++++----
 2 files changed, 7 insertions(+), 7 deletions(-)

diff --git a/Job_Creator.py b/Job_Creator.py
index 4d9f46e..dc70f90 100644
--- a/Job_Creator.py
+++ b/Job_Creator.py
@@ -134,9 +134,9 @@ def create_job_torque(args):
             "#PBS --constraint=perfparanoid \n"]
 
     if cores is not None:
-        file.append("#PBS -l nodes"+str(nodes)":ppn=" + str(cores) + "\n")
+        file.append("#PBS -l nodes" + str(nodes) + ":ppn=" + str(cores) + "\n")
     if time is not None and not 0:
-        file.append("#PBS -l cput=" + str(hours)+":"+str(minutes)+ ":00\n")
+        file.append("#PBS -l cput=" + str(hours) + ":"+str(minutes)+ ":00\n")
     if name is not None:
         file.append("#PBS -N " + name + "\n")
     if queue is not None and not len(queue) == 0:
@@ -194,4 +194,4 @@ if __name__ == "__main__":
     elif args.scheduler == "lsf":
         create_job_lsf(args)
     elif args.scheduler == "torque":
- 	create_job_torque(args)
+ 	    create_job_torque(args)
diff --git a/script.sh b/script.sh
index 9a4911f..65193fd 100755
--- a/script.sh
+++ b/script.sh
@@ -55,7 +55,7 @@ Job_completed()
     else
       Completed=true
     fi
-
+  fi
   
 
 }
@@ -142,10 +142,10 @@ Test_arguments()
   # Creating auxiliar vars for submiting jobs
   if [ "$Jobs_scheduler" == "slurm" ]; then 
     job="sbatch"
-  elif [ "$Jobs_scheduler" == "lsf" ]
+  elif [ "$Jobs_scheduler" == "lsf" ]; then
+    job="bsub"
+  elif [ "$Jobs_scheduler" == "torque" ]; then
     job="qsub"
-  elif [ "$Jobs_scheduler" == "torque" ]
-    job=""
   fi
 
   
-- 
GitLab


From 063b8b5afc70ffded273c14317b382a1264658b0 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 5 Sep 2022 13:08:19 +0200
Subject: [PATCH 04/40] Now namelist are not overwritten with the copy only the
 nemo binary

---
 config.bash |  2 +-
 script.sh   | 24 ++++++++++--------------
 2 files changed, 11 insertions(+), 15 deletions(-)

diff --git a/config.bash b/config.bash
index 8d0f4c8..aa4ad29 100644
--- a/config.bash
+++ b/config.bash
@@ -19,7 +19,7 @@ Jobs_queue=debug
 # Compilation_compile:  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
 # Compilation_ref:  Reference configuration
 # Compilation_arch: Architecture used (without the -arch sufix and the .fcm)
-# Compilation_name: Name of the new configutation
+# Compilation_name: Name of the new configutation (Important to not be an existing one)
 # Compilation_sub:  Add or remove subcomponents
 
 
diff --git a/script.sh b/script.sh
index 65193fd..8f6d240 100755
--- a/script.sh
+++ b/script.sh
@@ -252,30 +252,25 @@ Test_Comp()
   fi
 
    
-  #Rename the namelist_cfg if exists in order to not overwrite it
-  if test -f "namelist_cfg"; then
-    mv namelist_cfg namelist_cfg_old
-    cd "$dir" || echo "Error original dir doesn't exist" exit
-    cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-    rm namelist_cfg
-    mv namelist_cfg_old namelist_cfg
-  else
-    cd "$dir" || echo "Error original dir doesn't exist" exit
-    cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-  fi
+  #Copy all the EXP00 data but don't overwrite namelist just the executable
+  cd "$dir" || echo "Error original dir doesn't exist" exit
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
     sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
-  #Solving NEMO 4.2 Errors
-  sed -i 's|ln_zdfiwm * = .true.|ln_zdfiwm   = .false.|g' namelist_cfg #CHANGE DUE TO NON EXISTING FILES
+  #Solving NEMO input file common errors
+
   if test -f "weights_core_orca2_bicubic_noc.nc"; then
     mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
   fi
+
   if test -f "weights_core_orca2_bilinear_noc.nc"; then 
     mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
+
   
 }
 
@@ -297,7 +292,8 @@ Create_metrics()
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed no gprof files generated look at run.err for more info" 
+      echo "Nemo execution failed look at run.err and ocean.output for more info"
+      echo "Remember that the namelist files are now the default, change theme in order to fit with the input files in the dir " 
       echo
       exit 1
     else 
-- 
GitLab


From cd592bc928ce616661fb04e96cd5f586d42fed09 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 5 Sep 2022 15:43:10 +0200
Subject: [PATCH 05/40] Revert "Merge branch 'main' into 'origin/#1'"

This reverts merge request !4
---
 Job_Creator.py | 40 +---------------------------------------
 config.bash    |  2 +-
 script.sh      | 44 +++++++++++++++++++-------------------------
 3 files changed, 21 insertions(+), 65 deletions(-)

diff --git a/Job_Creator.py b/Job_Creator.py
index dc70f90..15330c8 100644
--- a/Job_Creator.py
+++ b/Job_Creator.py
@@ -117,41 +117,6 @@ def create_job_lsf(args):
             lsf_job.write(line)
 
 
-def create_job_torque(args):
-    file_name = args.file_name
-    time = args.set_time
-    cores = args.set_core
-    name = args.job_name
-    cores_per_node = args.set_core_per_node
-    queue = args.set_queue
-    workload = args.set_workload
-    nodes = (cores//cores_per_node)+1
-    hours = time // 60
-    minutes = time % 60
-    file = ["#!/bin/bash \n",
-            "############################################################################### \n",
-            "#PBS -o "+str(name)+".out \n#PBS -e "+str(name)+".err \n"
-            "#PBS --constraint=perfparanoid \n"]
-
-    if cores is not None:
-        file.append("#PBS -l nodes" + str(nodes) + ":ppn=" + str(cores) + "\n")
-    if time is not None and not 0:
-        file.append("#PBS -l cput=" + str(hours) + ":"+str(minutes)+ ":00\n")
-    if name is not None:
-        file.append("#PBS -N " + name + "\n")
-    if queue is not None and not len(queue) == 0:
-        file.append("#PBS -q " + queue + "\n")
-
-    if workload is not None:
-        file.append("\n")
-        for work in workload:
-            file.append(str(work) + "")
-
-    with open(file_name, "w") as torque_job:
-        for line in file:
-            torque_job.write(line)
-
-
 def modify_job(args):
     file_name = args.file_name
     time = args.set_time
@@ -183,8 +148,6 @@ if __name__ == "__main__":
         args.file_name = args.file_name if args.file_name.count(".slurm") else args.file_name + ".slurm"
     elif args.scheduler == "lsf":
         args.file_name = args.file_name if args.file_name.count(".lsf") else args.file_name + ".lsf"
-    elif args.scheduler == "torque":
-        args.file_name = args.file_name if args.file_name.count(".torque") else args.file_name + ".torque"
 
     if os.path.exists(str(args.file_name)):
         os.remove(str(args.file_name))
@@ -193,5 +156,4 @@ if __name__ == "__main__":
         create_job_slurm(args)
     elif args.scheduler == "lsf":
         create_job_lsf(args)
-    elif args.scheduler == "torque":
- 	    create_job_torque(args)
+
diff --git a/config.bash b/config.bash
index aa4ad29..8d0f4c8 100644
--- a/config.bash
+++ b/config.bash
@@ -19,7 +19,7 @@ Jobs_queue=debug
 # Compilation_compile:  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
 # Compilation_ref:  Reference configuration
 # Compilation_arch: Architecture used (without the -arch sufix and the .fcm)
-# Compilation_name: Name of the new configutation (Important to not be an existing one)
+# Compilation_name: Name of the new configutation
 # Compilation_sub:  Add or remove subcomponents
 
 
diff --git a/script.sh b/script.sh
index b28e5b8..4a97f5c 100755
--- a/script.sh
+++ b/script.sh
@@ -39,24 +39,15 @@ Job_completed()
       Completed=true
     fi	
 
-  elif [ "$Jobs_scheduler" == "lsf" ]; then
-    local id1=$(head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1)
+  else
+    local id1=${head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1}
     sleep 5
     if ! bjobs -l $id | grep -q 'Status <DONE>'; then
       Completed=false
     else
       Completed=true
     fi
-  elif [ "$Jobs_scheduler" == "torque" ]; then
-    local id1=$(head -n1 $1 | awk '{ print $3 }')
-    sleep 5
-    if ! qstat f $id | grep -q 'exit_status = 0'; then
-      Completed=false
-    else
-      Completed=true
-    fi
   fi
-  
 
 }
 
@@ -107,7 +98,7 @@ Test_arguments()
     exit 1
   fi
   # scheduler correct?
-  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ] && [ "$Jobs_scheduler" != "torque" ]; then
+  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ]; then
     echo "$Jobs_scheduler is not a valid scheduler"
     echo
     exit 1
@@ -142,10 +133,8 @@ Test_arguments()
   # Creating auxiliar vars for submiting jobs
   if [ "$Jobs_scheduler" == "slurm" ]; then 
     job="sbatch"
-  elif [ "$Jobs_scheduler" == "lsf" ]; then
+  else
     job="bsub"
-  elif [ "$Jobs_scheduler" == "torque" ]; then
-    job="qsub"
   fi
 
   
@@ -252,25 +241,30 @@ Test_Comp()
   fi
 
    
-  #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" || echo "Error original dir doesn't exist" exit
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
+  #Rename the namelist_cfg if exists in order to not overwrite it
+  if test -f "namelist_cfg"; then
+    mv namelist_cfg namelist_cfg_old
+    cd "$dir" || echo "Error original dir doesn't exist" exit
+    cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+    rm namelist_cfg
+    mv namelist_cfg_old namelist_cfg
+  else
+    cd "$dir" || echo "Error original dir doesn't exist" exit
+    cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+  fi
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
     sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
-  #Solving NEMO input file common errors
-
+  #Solving NEMO 4.2 Errors
+  sed -i 's|ln_zdfiwm * = .true.|ln_zdfiwm   = .false.|g' namelist_cfg #CHANGE DUE TO NON EXISTING FILES
   if test -f "weights_core_orca2_bicubic_noc.nc"; then
     mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
   fi
-
   if test -f "weights_core_orca2_bilinear_noc.nc"; then 
     mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
-
   
 }
 
@@ -284,6 +278,7 @@ Create_metrics()
   #Generating function list in case of missing
 
   if ! test -f "extrae_functions_for_xml.txt"; then
+  
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
@@ -292,8 +287,7 @@ Create_metrics()
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed look at run.err and ocean.output for more info"
-      echo "Remember that the namelist files are now the default, change theme in order to fit with the input files in the dir " 
+      echo "Nemo execution failed no gprof files generated look at run.err for more info" 
       echo
       exit 1
     else 
-- 
GitLab


From 87c7e5975e3c1661a9959a5d7391ee4aa6fa03e3 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 5 Sep 2022 15:44:54 +0200
Subject: [PATCH 06/40] Revert "Merge branch 'revert-6eb0eafd' into 'main'"

This reverts merge request !5
---
 Job_Creator.py | 40 +++++++++++++++++++++++++++++++++++++++-
 config.bash    |  2 +-
 script.sh      | 44 +++++++++++++++++++++++++-------------------
 3 files changed, 65 insertions(+), 21 deletions(-)

diff --git a/Job_Creator.py b/Job_Creator.py
index 15330c8..dc70f90 100644
--- a/Job_Creator.py
+++ b/Job_Creator.py
@@ -117,6 +117,41 @@ def create_job_lsf(args):
             lsf_job.write(line)
 
 
+def create_job_torque(args):
+    file_name = args.file_name
+    time = args.set_time
+    cores = args.set_core
+    name = args.job_name
+    cores_per_node = args.set_core_per_node
+    queue = args.set_queue
+    workload = args.set_workload
+    nodes = (cores//cores_per_node)+1
+    hours = time // 60
+    minutes = time % 60
+    file = ["#!/bin/bash \n",
+            "############################################################################### \n",
+            "#PBS -o "+str(name)+".out \n#PBS -e "+str(name)+".err \n"
+            "#PBS --constraint=perfparanoid \n"]
+
+    if cores is not None:
+        file.append("#PBS -l nodes" + str(nodes) + ":ppn=" + str(cores) + "\n")
+    if time is not None and not 0:
+        file.append("#PBS -l cput=" + str(hours) + ":"+str(minutes)+ ":00\n")
+    if name is not None:
+        file.append("#PBS -N " + name + "\n")
+    if queue is not None and not len(queue) == 0:
+        file.append("#PBS -q " + queue + "\n")
+
+    if workload is not None:
+        file.append("\n")
+        for work in workload:
+            file.append(str(work) + "")
+
+    with open(file_name, "w") as torque_job:
+        for line in file:
+            torque_job.write(line)
+
+
 def modify_job(args):
     file_name = args.file_name
     time = args.set_time
@@ -148,6 +183,8 @@ if __name__ == "__main__":
         args.file_name = args.file_name if args.file_name.count(".slurm") else args.file_name + ".slurm"
     elif args.scheduler == "lsf":
         args.file_name = args.file_name if args.file_name.count(".lsf") else args.file_name + ".lsf"
+    elif args.scheduler == "torque":
+        args.file_name = args.file_name if args.file_name.count(".torque") else args.file_name + ".torque"
 
     if os.path.exists(str(args.file_name)):
         os.remove(str(args.file_name))
@@ -156,4 +193,5 @@ if __name__ == "__main__":
         create_job_slurm(args)
     elif args.scheduler == "lsf":
         create_job_lsf(args)
-
+    elif args.scheduler == "torque":
+ 	    create_job_torque(args)
diff --git a/config.bash b/config.bash
index 8d0f4c8..aa4ad29 100644
--- a/config.bash
+++ b/config.bash
@@ -19,7 +19,7 @@ Jobs_queue=debug
 # Compilation_compile:  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
 # Compilation_ref:  Reference configuration
 # Compilation_arch: Architecture used (without the -arch sufix and the .fcm)
-# Compilation_name: Name of the new configutation
+# Compilation_name: Name of the new configutation (Important to not be an existing one)
 # Compilation_sub:  Add or remove subcomponents
 
 
diff --git a/script.sh b/script.sh
index 4a97f5c..b28e5b8 100755
--- a/script.sh
+++ b/script.sh
@@ -39,15 +39,24 @@ Job_completed()
       Completed=true
     fi	
 
-  else
-    local id1=${head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1}
+  elif [ "$Jobs_scheduler" == "lsf" ]; then
+    local id1=$(head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1)
     sleep 5
     if ! bjobs -l $id | grep -q 'Status <DONE>'; then
       Completed=false
     else
       Completed=true
     fi
+  elif [ "$Jobs_scheduler" == "torque" ]; then
+    local id1=$(head -n1 $1 | awk '{ print $3 }')
+    sleep 5
+    if ! qstat f $id | grep -q 'exit_status = 0'; then
+      Completed=false
+    else
+      Completed=true
+    fi
   fi
+  
 
 }
 
@@ -98,7 +107,7 @@ Test_arguments()
     exit 1
   fi
   # scheduler correct?
-  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ]; then
+  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ] && [ "$Jobs_scheduler" != "torque" ]; then
     echo "$Jobs_scheduler is not a valid scheduler"
     echo
     exit 1
@@ -133,8 +142,10 @@ Test_arguments()
   # Creating auxiliar vars for submiting jobs
   if [ "$Jobs_scheduler" == "slurm" ]; then 
     job="sbatch"
-  else
+  elif [ "$Jobs_scheduler" == "lsf" ]; then
     job="bsub"
+  elif [ "$Jobs_scheduler" == "torque" ]; then
+    job="qsub"
   fi
 
   
@@ -241,30 +252,25 @@ Test_Comp()
   fi
 
    
-  #Rename the namelist_cfg if exists in order to not overwrite it
-  if test -f "namelist_cfg"; then
-    mv namelist_cfg namelist_cfg_old
-    cd "$dir" || echo "Error original dir doesn't exist" exit
-    cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-    rm namelist_cfg
-    mv namelist_cfg_old namelist_cfg
-  else
-    cd "$dir" || echo "Error original dir doesn't exist" exit
-    cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-  fi
+  #Copy all the EXP00 data but don't overwrite namelist just the executable
+  cd "$dir" || echo "Error original dir doesn't exist" exit
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
     sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
-  #Solving NEMO 4.2 Errors
-  sed -i 's|ln_zdfiwm * = .true.|ln_zdfiwm   = .false.|g' namelist_cfg #CHANGE DUE TO NON EXISTING FILES
+  #Solving NEMO input file common errors
+
   if test -f "weights_core_orca2_bicubic_noc.nc"; then
     mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
   fi
+
   if test -f "weights_core_orca2_bilinear_noc.nc"; then 
     mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
+
   
 }
 
@@ -278,7 +284,6 @@ Create_metrics()
   #Generating function list in case of missing
 
   if ! test -f "extrae_functions_for_xml.txt"; then
-  
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
@@ -287,7 +292,8 @@ Create_metrics()
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed no gprof files generated look at run.err for more info" 
+      echo "Nemo execution failed look at run.err and ocean.output for more info"
+      echo "Remember that the namelist files are now the default, change theme in order to fit with the input files in the dir " 
       echo
       exit 1
     else 
-- 
GitLab


From b74f9189a22d34dc8137587d7ad4f125eb6d880e Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 5 Sep 2022 15:47:36 +0200
Subject: [PATCH 07/40] Removed files added by error

---
 INSTALL.md                      |   28 -
 TODO.md                         |   14 -
 cfgs/.directory                 |    4 -
 cfgs/2dh_BurstEfficiency.cfg    |  221 -----
 cfgs/barrier-syncr-time.cfg     |   80 --
 cfgs/burst_duration.cfg         |   77 --
 cfgs/burst_useful.cfg           |  150 ----
 cfgs/cycles.cfg                 |  141 ---
 cfgs/dimemas.collectives        |   14 -
 cfgs/dimemas_ideal.cfg          |  159 ----
 cfgs/efficiency_table-global.gp |   31 -
 cfgs/efficiency_table-hybrid.gp |   30 -
 cfgs/efficiency_table.gp        |   31 -
 cfgs/flushing-cycles.cfg        |  148 ---
 cfgs/flushing-inst.cfg          |  148 ---
 cfgs/flushing.cfg               |   76 --
 cfgs/instructions.cfg           |  141 ---
 cfgs/io-call-cycles.cfg         |  148 ---
 cfgs/io-call-instructions.cfg   |  148 ---
 cfgs/io-call-reverse.cfg        |   76 --
 cfgs/modelfactors-all.gp        |   36 -
 cfgs/modelfactors-comm.gp       |   26 -
 cfgs/modelfactors-hybrid.gp     |   37 -
 cfgs/modelfactors-mpi-hybrid.gp |   32 -
 cfgs/modelfactors-onlydata.gp   |   31 -
 cfgs/modelfactors-scale.gp      |   27 -
 cfgs/mpi-call-outside.cfg       |   77 --
 cfgs/mpi-io-cycles.cfg          |  149 ---
 cfgs/mpi-io-instructions.cfg    |  149 ---
 cfgs/mpi-io-reverse.cfg         |   77 --
 cfgs/mpi-io.cfg                 |   77 --
 cfgs/mpi-master-thread.cfg      |   79 --
 cfgs/runtime.cfg                |   72 --
 cfgs/runtime_app.cfg            |   74 --
 cfgs/time_computing.cfg         |  114 ---
 cfgs/timings.cfg                |   72 --
 hybridmetrics.py                | 1496 -------------------------------
 modelfactors.py                 |  192 ----
 plots.py                        |  738 ---------------
 rawdata.py                      |  857 ------------------
 simplemetrics.py                | 1249 --------------------------
 tracemetadata.py                |  376 --------
 utils.py                        |  186 ----
 43 files changed, 8088 deletions(-)
 delete mode 100644 INSTALL.md
 delete mode 100644 TODO.md
 delete mode 100644 cfgs/.directory
 delete mode 100644 cfgs/2dh_BurstEfficiency.cfg
 delete mode 100644 cfgs/barrier-syncr-time.cfg
 delete mode 100644 cfgs/burst_duration.cfg
 delete mode 100644 cfgs/burst_useful.cfg
 delete mode 100644 cfgs/cycles.cfg
 delete mode 100644 cfgs/dimemas.collectives
 delete mode 100644 cfgs/dimemas_ideal.cfg
 delete mode 100644 cfgs/efficiency_table-global.gp
 delete mode 100644 cfgs/efficiency_table-hybrid.gp
 delete mode 100644 cfgs/efficiency_table.gp
 delete mode 100644 cfgs/flushing-cycles.cfg
 delete mode 100644 cfgs/flushing-inst.cfg
 delete mode 100644 cfgs/flushing.cfg
 delete mode 100644 cfgs/instructions.cfg
 delete mode 100644 cfgs/io-call-cycles.cfg
 delete mode 100644 cfgs/io-call-instructions.cfg
 delete mode 100644 cfgs/io-call-reverse.cfg
 delete mode 100644 cfgs/modelfactors-all.gp
 delete mode 100644 cfgs/modelfactors-comm.gp
 delete mode 100644 cfgs/modelfactors-hybrid.gp
 delete mode 100644 cfgs/modelfactors-mpi-hybrid.gp
 delete mode 100644 cfgs/modelfactors-onlydata.gp
 delete mode 100644 cfgs/modelfactors-scale.gp
 delete mode 100644 cfgs/mpi-call-outside.cfg
 delete mode 100644 cfgs/mpi-io-cycles.cfg
 delete mode 100644 cfgs/mpi-io-instructions.cfg
 delete mode 100644 cfgs/mpi-io-reverse.cfg
 delete mode 100644 cfgs/mpi-io.cfg
 delete mode 100644 cfgs/mpi-master-thread.cfg
 delete mode 100644 cfgs/runtime.cfg
 delete mode 100644 cfgs/runtime_app.cfg
 delete mode 100644 cfgs/time_computing.cfg
 delete mode 100644 cfgs/timings.cfg
 delete mode 100644 hybridmetrics.py
 delete mode 100755 modelfactors.py
 delete mode 100644 plots.py
 delete mode 100644 rawdata.py
 delete mode 100644 simplemetrics.py
 delete mode 100644 tracemetadata.py
 delete mode 100644 utils.py

diff --git a/INSTALL.md b/INSTALL.md
deleted file mode 100644
index 5fedce4..0000000
--- a/INSTALL.md
+++ /dev/null
@@ -1,28 +0,0 @@
-# Installation
-
-There is no installation required. Just copy the content of this folder to your
-preferred location and add the directory to the PATH environment variable.
-
-## Prerequisites
-
-Basicanalysis requires Python 3 and relies on 
-*paramedir* and *Dimemas* being installed and available
-through the PATH environment variable.
-
-* *paramedir* available at https://tools.bsc.es/paraver
-* *Dimemas* available at https://tools.bsc.es/dimemas
-
-If not already done, install both tools and add them to the PATH environment
-variable with:
-
-```
-export PATH=<paraver-install-dir>/bin:$PATH
-export PARAVER_HOME=<paraver-install-dir>
-export PATH=<dimemas-install-dir>/bin:$PATH
-export DIMEMAS_HOME=<dimemas-install-dir>
-
-```
-
-Additionally, plotting relies on the according SciPy(>= 0.17.0),
-NumPy, pandas, searborn and matplotlib (>= 3.x) modules for Python 3.
-Furthermore, the gnuplot output requires gnuplot version 5.0 or higher.
diff --git a/TODO.md b/TODO.md
deleted file mode 100644
index b8b4b81..0000000
--- a/TODO.md
+++ /dev/null
@@ -1,14 +0,0 @@
-# Open Issues and Future Features
-
-* Add some sanity checks:
-  * Test if simulated time is less or equal to original time to detect Dimemas errors.
-  * Correctly track return values of external calls and handle errors.
-
-* Add support for compressed Paraver traces.
-
-* Add basic threading support to run some analyses in parallel.
-
-* Add support PyCompSs
-  * Encapsulate main routines in functions
-  * Provide stable switches for systems without PyCompSs
-
diff --git a/cfgs/.directory b/cfgs/.directory
deleted file mode 100644
index 5ff3922..0000000
--- a/cfgs/.directory
+++ /dev/null
@@ -1,4 +0,0 @@
-[Dolphin]
-Timestamp=2019,6,19,17,11,21
-Version=4
-ViewMode=1
diff --git a/cfgs/2dh_BurstEfficiency.cfg b/cfgs/2dh_BurstEfficiency.cfg
deleted file mode 100644
index 9429c78..0000000
--- a/cfgs/2dh_BurstEfficiency.cfg
+++ /dev/null
@@ -1,221 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 5
-ConfigFile.BeginDescription
-ConfigFile.EndDescription
-
-################################################################################
-< NEW DISPLAYING WINDOW Burst Region duration.c1.c1 >
-################################################################################
-window_name Burst Region duration.c1.c1
-window_type single
-window_id 1
-window_position_x 484
-window_position_y 126
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 39435569.853000000119
-window_minimum_y 1.377000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI ellapsed time In burst Region.c3.c1 >
-################################################################################
-window_name MPI ellapsed time In burst Region.c3.c1
-window_type single
-window_id 2
-window_position_x 502
-window_position_y 144
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 39435569.853000000119
-window_minimum_y 1.377000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Div}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module compose_thread Div { 1, { 1 1000.000000000000 } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-################################################################################
-< NEW DISPLAYING WINDOW Computing time in Region.c1 >
-################################################################################
-window_name Computing time in Region.c1
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation substract
-window_identifiers 1 2
-window_position_x 538
-window_position_y 180
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 39435569.853000000119
-window_minimum_y 1.377000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 0
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-################################################################################
-< NEW DISPLAYING WINDOW Burst Region duration.c2 >
-################################################################################
-window_name Burst Region duration.c2
-window_type single
-window_id 4
-window_position_x 556
-window_position_y 198
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 39435569.853000000119
-window_minimum_y 1.377000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-################################################################################
-< NEW DISPLAYING WINDOW Burst efficiency >
-################################################################################
-window_name Burst efficiency
-window_type composed
-window_id 5
-window_factors 1.000000000000 1.000000000000
-window_operation divide
-window_identifiers 3 4
-window_position_x 475
-window_position_y 145
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 1.100000000000
-window_minimum_y 0.000000004381
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 3
-window_drawmode_rows 3
-window_pixel_size 1
-window_labels_to_draw 0
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: 2DH - efficiency
-Analyzer2D.X: 130
-Analyzer2D.Y: 233
-Analyzer2D.Width: 365
-Analyzer2D.Height: 218
-Analyzer2D.ControlWindow: 5
-Analyzer2D.DataWindow: 5
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Average value
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Enabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1.000000000000
-Analyzer2D.Delta: 2.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 0.142980245071
-Analyzer2D.MaximumGradient: 0.184636349192
-Analyzer2D.PixelSize: 1
-Analyzer2D.CodeColor: False
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/barrier-syncr-time.cfg b/cfgs/barrier-syncr-time.cfg
deleted file mode 100644
index ee7b63d..0000000
--- a/cfgs/barrier-syncr-time.cfg
+++ /dev/null
@@ -1,80 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call.SerAndTransfer >
-################################################################################
-window_name MPI call.SerAndTransfer
-window_type single
-window_id 1
-window_position_x 3024
-window_position_y 486
-window_width 729
-window_height 320
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 70.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max true
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 2 50000001 50000002
-window_filter_module evt_type_label 2 "MPI Point-to-point" "MPI Collective Comm"
-window_filter_module evt_value 3 5.000000000000 6.000000000000 8.000000000000
-window_filter_module evt_value_label 3 "MPI_Wait" "MPI_Waitall" "MPI_Barrier"
-window_synchronize 1
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: MPI-Ser-Transfer
-Analyzer2D.X: 2810
-Analyzer2D.Y: 48
-Analyzer2D.Width: 868
-Analyzer2D.Height: 491
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: True
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: 3.000000000000
-Analyzer2D.Maximum: 10.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 52.305000000000
-Analyzer2D.MaximumGradient: 76291.281000000003
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/burst_duration.cfg b/cfgs/burst_duration.cfg
deleted file mode 100644
index 6958790..0000000
--- a/cfgs/burst_duration.cfg
+++ /dev/null
@@ -1,77 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW burst_duration.c1 >
-################################################################################
-window_name burst_duration.c1
-window_type single
-window_id 1
-window_position_x 596
-window_position_y 238
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 39435569.853000000119
-window_minimum_y 1.377000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: burst_duration
-Analyzer2D.X: 2297
-Analyzer2D.Y: 30
-Analyzer2D.Width: 391
-Analyzer2D.Height: 472
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 18.918000000000
-Analyzer2D.Maximum: 191006.618399999978
-Analyzer2D.Delta: 1000000000000000.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 952444.935999999987
-Analyzer2D.MaximumGradient: 959765.031999999890
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/burst_useful.cfg b/cfgs/burst_useful.cfg
deleted file mode 100644
index ac54618..0000000
--- a/cfgs/burst_useful.cfg
+++ /dev/null
@@ -1,150 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW burst_duration >
-################################################################################
-window_name burst_duration
-window_type single
-window_id 1
-window_position_x 567
-window_position_y 209
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 57174.218999999997
-window_minimum_y 24.956000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-################################################################################
-< NEW DISPLAYING WINDOW burst_MPI_ellapsed_time >
-################################################################################
-window_name burst_MPI_ellapsed_time
-window_type single
-window_id 2
-window_position_x 567
-window_position_y 209
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 12582.013999999999
-window_minimum_y 21.416000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Div}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module compose_thread Div { 1, { 1 1000.000000000000 } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-################################################################################
-< NEW DISPLAYING WINDOW useful_burst >
-################################################################################
-window_name useful_burst
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation substract
-window_identifiers 1 2
-window_position_x 1960
-window_position_y 174
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 57174.218999999997
-window_minimum_y -4162.623000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 0
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: useful_burst
-Analyzer2D.X: 2327
-Analyzer2D.Y: 31
-Analyzer2D.Width: 841
-Analyzer2D.Height: 365
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Vertical
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: -5122.957000000000
-Analyzer2D.Maximum: 142551.129350000003
-Analyzer2D.Delta: 738.370431750000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: -5122.957000000000
-Analyzer2D.MaximumGradient: 16572593.654999990016
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/cycles.cfg b/cfgs/cycles.cfg
deleted file mode 100644
index 7d2091e..0000000
--- a/cfgs/cycles.cfg
+++ /dev/null
@@ -1,141 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW cycles.c1.c1 >
-################################################################################
-window_name cycles.c1.c1
-window_type single
-window_id 1
-window_position_x 300
-window_position_y 23
-window_width 600
-window_height 114
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 194620048057.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000059
-
-################################################################################
-< NEW DISPLAYING WINDOW Useful.c1.c1 >
-################################################################################
-window_name Useful.c1.c1
-window_type single
-window_id 2
-window_position_x 323
-window_position_y 46
-window_width 600
-window_height 134
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered true
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 1.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Useful}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, =}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, All}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-################################################################################
-< NEW DISPLAYING WINDOW Useful Cycles Timeline >
-################################################################################
-window_name Useful Cycles Timeline
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation product
-window_identifiers 1 2
-window_position_x 391
-window_position_y 146
-window_width 767
-window_height 314
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 11047386945.000000000000
-window_minimum_y 5433.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: cycles
-Analyzer2D.X: 414
-Analyzer2D.Y: 54
-Analyzer2D.Width: 556
-Analyzer2D.Height: 764
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1000000000000000000.000000000000
-Analyzer2D.Delta: 1000000000000000000.000000000000
-Analyzer2D.ComputeGradient: False
-Analyzer2D.MinimumGradient: 0
-Analyzer2D.MaximumGradient: 999999999999999999
-Analyzer2D.PixelSize: 1
-Analyzer2D.CodeColor: False
-
diff --git a/cfgs/dimemas.collectives b/cfgs/dimemas.collectives
deleted file mode 100644
index 3b86752..0000000
--- a/cfgs/dimemas.collectives
+++ /dev/null
@@ -1,14 +0,0 @@
-Machine globalop: 0 0 LOG MAX 0 MAX 
-Machine globalop: 0 1 LOG MAX 0 MAX 
-Machine globalop: 0 2 LOG MAX 0 MAX 
-Machine globalop: 0 3 LOG MAX 0 MAX 
-Machine globalop: 0 4 LOG MAX 0 MAX 
-Machine globalop: 0 5 LOG MAX 0 MAX 
-Machine globalop: 0 6 LOG MAX 0 MAX 
-Machine globalop: 0 7 LOG MAX 0 MAX 
-Machine globalop: 0 8 LIN 2MAX LIN 2MAX 
-Machine globalop: 0 9 LOG MAX 0 MAX 
-Machine globalop: 0 10 LOG 2MAX 0 MAX 
-Machine globalop: 0 11 LOG MAX 0 MAX 
-Machine globalop: 0 12 LOG MAX 0 MAX 
-Machine globalop: 0 13 LOG MAX 0 MAX 
diff --git a/cfgs/dimemas_ideal.cfg b/cfgs/dimemas_ideal.cfg
deleted file mode 100644
index d0f46f0..0000000
--- a/cfgs/dimemas_ideal.cfg
+++ /dev/null
@@ -1,159 +0,0 @@
-#DIMEMAS_CONFIGURATION
-
-/*******************************************************************************
- * RECORDS DEFINITION - NOTES TO MANUAL EDIT OF THIS FILE
- *******************************************************************************
- *
- * The records here described follow the SDDF file structure. Each field must be
- * sepparated by commas in the actual records.
- *
- * 'int' and 'double' values are expresed as is. 'char[]' values must be always
- * wrapped by quotes. 'double' and 'int' arrays must be in the following format:
- *
- * [n] { value_1, value_2, ..., value_n }
- *
- * Where 'n' is the number of elements in the array
- *
- *******************************************************************************
-
- "wide area network information" {
-  1: char[] "name of the wide area network simulated"
-  2: int    "number of machines in wan"
-  3: int    "number of dedicated connections between machines in the simulated"
-            "system"
-  4: int    "function that models influence of traffic in the non dedicated"
-            "network."
-            "options: 1 EXPONENTIAl, 2 LOGARITHMIC, 3 LINEAR, 4 CONSTANT"
-  5: double "maximal value of traffic in the network"
-  6: double "external net bandwidth (MBps)"
-  7: int    "external network collective communications model"
-            "options: 1 CONSTANT, 2 LINEAR, 3 LOGARITHMIC"
-};;
-
-"environment information" {
-  1: char[] "machine name"
-  2: int    "machine ID";
-  3: char[] "architecture used to instrument"
-  4: int    "number of nodes on virtual machine"
-  5: double "data tranfer rate between nodes (MBps)"
-            "0 means instantaneous communication"
-  6: int    "maximun number of messages on network"
-            "0 means no limit"
-            "1 means bus contention"
-  7: int    "internal network collective communications model"
-            "options: 1 CONSTANT, 2 LINEAR, 3 LOGARITHMIC"
-};;
-
-
-"node information" {
-  1: int     "machine ID"
-  2: char[]  "architecture node name"
-  3: int     "number of processors within node"
-  4: double  "relative processor speed (divisive factor)"
-  5: double  "latency time (s) of intra-node communications model"
-  6: double  "bandwidth (MBps) of intra-node communications model"
-             "0 means instantaneous communication"
-  7: int     "maximum number of concurrent messages of intra-node"
-             "communications model:"
-             "0 means no limit"
-             "1 means bus contention"
-  8: int     "input links of intra-node communications model"
-  9: int     "output links of intra-node communications model"
-  10: double "latency time (s) of inter-node communications model"
-  11: int    "input links of inter-node communications model"
-  12: int    "input links of intra-node communications model"
-  13: double "latency time (s) of inter-machines (WAN) communications model"
-};;
-
-"multi node information" {
-  1: int     "machine ID"
-  2: int     "number of nodes with same configuration"
-  3: char[]  "architecture node name"
-  4: int     "number of processors within node"
-  5: double  "processor speed ratio wrt. original execution (divisive factor)"
-             "0 means instantaneous | negative value means fixed duration in s."
-  6: double  "latency time (s) of intra-node communications model"
-  7: double  "bandwidth (MBps) of intra-node communications model"
-             "0 means instantaneous communication"
-  8: int     "maximum number of concurrent messages of intra-node"
-             "communications model: "
-             "0 means no limit"
-             "1 means bus contention"
-  9: int     "input links of intra-node communications model"
-  10: int    "output links of intra-node communications model"
-  11: double "latency time (s) of inter-node communications model"
-  12: int    "input links of inter-node communications model"
-  13: int    "input links of intra-node communications model"
-  14: double "latency time (s) of inter-machines (WAN) communications model"
-};;
-
-"mapping information" {
-  1: char[] "application tracefile name"
-  2: int    "number of tasks in application"
-  3: int[]  "list of nodes where each application tasks is mapped"
-};;
-
-"predefined mapping information" {
-  1: char[] "application tracefile name" (OPTIONAL)
-  2: char[] "predefined map identifier"
-            "options: FILL_NODES | <int> TASKS_PER_NODE | INTERLEAVED"
-}
-
-"configuration files" {
-  1: char[] "scheduler definition filename"
-  2: char[] "file system definition filename"
-  3: char[] "communications fine tuning configuration filename"
-  4: char[] "sensitivity configuration filename"
-};;
-
-"modules information" {
-  1: int    "module type"
-  2: int    "module value"
-  3: double "module speed ration wrt. original execution (divisive factor)"
-            "0 means instantaneous | negative value means fixed duration in s."
-};;
-
-"file system parameters" {
-  1: double "disk latency"
-  2: double "disk bandwidth";
-  3: double "block size";
-  4: int    "concurrent requests";
-  5: double "hit ratio";
-};;
-
-"dedicated connection information" {
-  1:  int    "connection ID"
-  2:  int    "source machine ID"
-  3:  int    "destination machine ID"
-  4:  double "bandwidth of the connection (MBps)"
-  5:  int[]  "list of tags that will use the connection"
-  6:  int    "size of first message (bytes) to apply the comparision to use the"
-             "connection"
-  7:  char[] "size condition that should meet messages to use the connection"
-             "it can be <, =, > and (referent to first message size)"
-  8:  char[]  "operation. options: & AND, | OR"
-  9:  int    "size of second condition that should meet messages to use the"
-             "connection"
-  10: char[] "size condition that should meet messages to use the connection"
-             "it can be <, =, > and its is referent to second message size"
-  11: int[]  "list of communicators of coll. Operations that can use the"
-             "connection"
-  12: double "latency of dedicated connection (s)"
-  13: double "latency due to distance (s)"
-};;
-
-*******************************************************************************/
-
-
-"wide area network information" {"", 1, 0, 4, 0.0, 0.0, 1};;
-
-"environment information" {"", 0, "", REPLACE_BY_NTASKS, 0.0, 0, 1};;
-
-"multi node information" {0, REPLACE_BY_NTASKS, "", REPLACE_BY_CPUS_PER_NODE, 1.0, 0.0, 0.0, 0, 1, 0, 0.0, 1, 1, 0.0};;
-
-"predefined mapping information" {"1 TASKS_PER_NODE"};;
-
-"configuration files" {"", "", "REPLACE_BY_COLLECTIVES_PATH", ""};;
-
-"file system parameters" {0.0, 0.0, 8.0, 0, 1.0};;
-
diff --git a/cfgs/efficiency_table-global.gp b/cfgs/efficiency_table-global.gp
deleted file mode 100644
index c7a5ef6..0000000
--- a/cfgs/efficiency_table-global.gp
+++ /dev/null
@@ -1,31 +0,0 @@
-#!/bin/gnuplot 
-set output "./efficiency_table-global.png"
-
-#Prepare the plot size
-
-#REPLACE_BY_SIZE
-
-set datafile separator ","
-
-set title ""
-unset key
-
-set format cb "%.0f%%"
-set cbrange[0:100]
-set tmargin 1
-
-
-set cbtics ('<50%%' 50, '60%%' 60, '70%%' 70, '80%%' 80, "90%%" 90, "100%%" 100)
-
-set palette defined (0.00 "#000000", 0.01 "#FF0000", 0.60 "#E67C73", 0.75 "#F9950A", 0.85 "#AADC32", 0.90 "#5CC863", 1.00 "#57BB8A")  
-
-
-set xtics offset 0,15
-set ytics offset -27,0 left
-set yrange [] reverse
-
-plot \
-  'efficiency_table-global.csv' \
-    matrix rowheaders columnheaders using 1:2:3 with image, \
-  'efficiency_table-global.csv' \
-    matrix rowheaders columnheaders using 1:2:(sprintf("%.2f",$3) ) with labels
diff --git a/cfgs/efficiency_table-hybrid.gp b/cfgs/efficiency_table-hybrid.gp
deleted file mode 100644
index 0e726cb..0000000
--- a/cfgs/efficiency_table-hybrid.gp
+++ /dev/null
@@ -1,30 +0,0 @@
-#!/bin/gnuplot 
-set output "./efficiency_table-hybrid.png"
-
-#Prepare the plot size
-
-#REPLACE_BY_SIZE
-
-set datafile separator ","
-
-set title ""
-unset key
-
-set format cb "%.0f%%"
-set cbrange[0:100]
-set tmargin 1
-
-
-set cbtics ('<50%%' 50, '60%%' 60, '70%%' 70, '80%%' 80, "90%%" 90, "100%%" 100)
-
-set palette defined (0.00 "#000000", 0.01 "#FF0000", 0.60 "#E67C73", 0.75 "#F9950A", 0.85 "#AADC32", 0.90 "#5CC863", 1.00 "#57BB8A")  
-
-set xtics offset 0,15
-set ytics offset -37,0 left
-set yrange [] reverse
-
-plot \
-  'efficiency_table-hybrid.csv' \
-    matrix rowheaders columnheaders using 1:2:3 with image, \
-  'efficiency_table-hybrid.csv' \
-    matrix rowheaders columnheaders using 1:2:(sprintf("%.2f",$3) ) with labels
diff --git a/cfgs/efficiency_table.gp b/cfgs/efficiency_table.gp
deleted file mode 100644
index cda44e1..0000000
--- a/cfgs/efficiency_table.gp
+++ /dev/null
@@ -1,31 +0,0 @@
-#!/bin/gnuplot 
-set output "./efficiency_table.png"
-
-#Prepare the plot size
-
-#REPLACE_BY_SIZE
-
-set datafile separator ","
-
-set title ""
-unset key
-
-set format cb "%.0f%%"
-set cbrange[0:100]
-set tmargin 1
-
-
-set cbtics ('<50%%' 50, '60%%' 60, '70%%' 70, '80%%' 80, "90%%" 90, "100%%" 100)
-
-set palette defined (0.00 "#000000", 0.01 "#FF0000", 0.60 "#E67C73", 0.75 "#F9950A", 0.85 "#AADC32", 0.90 "#5CC863", 1.00 "#57BB8A")  
-
-
-set xtics offset 0,15
-set ytics offset -27,0 left
-set yrange [] reverse
-
-plot \
-  'efficiency_table.csv' \
-    matrix rowheaders columnheaders using 1:2:3 with image, \
-  'efficiency_table.csv' \
-    matrix rowheaders columnheaders using 1:2:(sprintf("%.2f",$3) ) with labels
diff --git a/cfgs/flushing-cycles.cfg b/cfgs/flushing-cycles.cfg
deleted file mode 100644
index dcd59fe..0000000
--- a/cfgs/flushing-cycles.cfg
+++ /dev/null
@@ -1,148 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW Flushing.c1.c1 >
-################################################################################
-window_name Flushing.c1.c1
-window_type single
-window_id 1
-window_position_x 442
-window_position_y 116
-window_width 600
-window_height 115
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 34.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
-window_filter_module evt_type 1 40000003
-window_filter_module evt_type_label 1 "Flushing Traces"
-
-################################################################################
-< NEW DISPLAYING WINDOW cycles.c1 >
-################################################################################
-window_name cycles.c1
-window_type single
-window_id 2
-window_position_x 417
-window_position_y 404
-window_width 600
-window_height 114
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 194620048057.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000059
-window_filter_module evt_type_label 1 "PAPI_TOT_CYC [Total cycles]"
-
-################################################################################
-< NEW DISPLAYING WINDOW flushing_cycles >
-################################################################################
-window_name flushing_cycles
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation product
-window_identifiers 1 2
-window_position_x 2357
-window_position_y 217
-window_width 600
-window_height 115
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 79325.000000000000
-window_minimum_y 48287.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: flushing_cycles_hist
-Analyzer2D.X: 2597
-Analyzer2D.Y: 55
-Analyzer2D.Width: 436
-Analyzer2D.Height: 587
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1000000000000000000.000000000000
-Analyzer2D.Delta: 1000000000000000000.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 48287.000000000000
-Analyzer2D.MaximumGradient: 79325.000000000000
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/flushing-inst.cfg b/cfgs/flushing-inst.cfg
deleted file mode 100644
index 767e690..0000000
--- a/cfgs/flushing-inst.cfg
+++ /dev/null
@@ -1,148 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW Flushing.c1 >
-################################################################################
-window_name Flushing.c1
-window_type single
-window_id 1
-window_position_x 355
-window_position_y 29
-window_width 600
-window_height 115
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 34.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
-window_filter_module evt_type 1 40000003
-window_filter_module evt_type_label 1 "Flushing Traces"
-
-################################################################################
-< NEW DISPLAYING WINDOW Instructions.c1.c2.c1 >
-################################################################################
-window_name Instructions.c1.c2.c1
-window_type single
-window_id 2
-window_position_x 384
-window_position_y 58
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 206968292.000000000000
-window_minimum_y 3314.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000050
-window_filter_module evt_type_label 1 "PAPI_TOT_INS [Instr completed]"
-
-################################################################################
-< NEW DISPLAYING WINDOW flushing_inst >
-################################################################################
-window_name flushing_inst
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation product
-window_identifiers 1 2
-window_position_x 2364
-window_position_y 128
-window_width 600
-window_height 115
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 17421.000000000000
-window_minimum_y 17121.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: flushing_inst_hist
-Analyzer2D.X: 2597
-Analyzer2D.Y: 55
-Analyzer2D.Width: 436
-Analyzer2D.Height: 587
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1000000000000000000.000000000000
-Analyzer2D.Delta: 1000000000000000000.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 17121.000000000000
-Analyzer2D.MaximumGradient: 17421.000000000000
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/flushing.cfg b/cfgs/flushing.cfg
deleted file mode 100644
index 6c7e258..0000000
--- a/cfgs/flushing.cfg
+++ /dev/null
@@ -1,76 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW Flushing >
-################################################################################
-window_name Flushing
-window_type single
-window_id 1
-window_position_x 2529
-window_position_y 349
-window_width 600
-window_height 115
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 34.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 72, { All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 40000003
-window_filter_module evt_type_label 1 "Flushing Traces"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: flushing
-Analyzer2D.X: 2717
-Analyzer2D.Y: 204
-Analyzer2D.Width: 617
-Analyzer2D.Height: 606
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: 1.000000000000
-Analyzer2D.Maximum: 1.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 18.053000000000
-Analyzer2D.MaximumGradient: 35.420000000000
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/instructions.cfg b/cfgs/instructions.cfg
deleted file mode 100644
index 777df0c..0000000
--- a/cfgs/instructions.cfg
+++ /dev/null
@@ -1,141 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW Instructions >
-################################################################################
-window_name Instructions
-window_type single
-window_id 1
-window_position_x 346
-window_position_y 41
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 18640295641.000000000000
-window_minimum_y 5257.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000050
-
-################################################################################
-< NEW DISPLAYING WINDOW Useful >
-################################################################################
-window_name Useful
-window_type single
-window_id 2
-window_position_x 369
-window_position_y 92
-window_width 600
-window_height 134
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered true
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 1.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Useful}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, =}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, All}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-################################################################################
-< NEW DISPLAYING WINDOW Useful Instructions Timeline >
-################################################################################
-window_name Useful Instructions Timeline
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation product
-window_identifiers 1 2
-window_position_x 406
-window_position_y 340
-window_width 767
-window_height 314
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 18640295641.000000000000
-window_minimum_y 5257.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: instructions
-Analyzer2D.X: 366
-Analyzer2D.Y: 24
-Analyzer2D.Width: 556
-Analyzer2D.Height: 764
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1000000000000000000.000000000000
-Analyzer2D.Delta: 1000000000000000000.000000000000
-Analyzer2D.ComputeGradient: False
-Analyzer2D.MinimumGradient: 0
-Analyzer2D.MaximumGradient: 999999999999999999
-Analyzer2D.PixelSize: 1
-Analyzer2D.CodeColor: False
-
diff --git a/cfgs/io-call-cycles.cfg b/cfgs/io-call-cycles.cfg
deleted file mode 100644
index 6140f79..0000000
--- a/cfgs/io-call-cycles.cfg
+++ /dev/null
@@ -1,148 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW I/O call.c1.c1 >
-################################################################################
-window_name I/O call.c1.c1
-window_type single
-window_id 1
-window_position_x 616
-window_position_y 290
-window_width 729
-window_height 154
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 13.000000000000
-window_minimum_y 1.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
-window_filter_module evt_type 1 40000004
-window_filter_module evt_type_label 1 "I/O calls"
-
-################################################################################
-< NEW DISPLAYING WINDOW cycles.c1.c1.c1 >
-################################################################################
-window_name cycles.c1.c1.c1
-window_type single
-window_id 2
-window_position_x 645
-window_position_y 319
-window_width 600
-window_height 114
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 194620048057.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000059
-window_filter_module evt_type_label 1 "PAPI_TOT_CYC [Total cycles]"
-
-################################################################################
-< NEW DISPLAYING WINDOW posixio_cycles >
-################################################################################
-window_name posixio_cycles
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation product
-window_identifiers 1 2
-window_position_x 2298
-window_position_y 141
-window_width 729
-window_height 154
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 72043816.000000000000
-window_minimum_y 3111.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: posixio_cycles_hist
-Analyzer2D.X: 2597
-Analyzer2D.Y: 55
-Analyzer2D.Width: 436
-Analyzer2D.Height: 587
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1000000000000000000.000000000000
-Analyzer2D.Delta: 1000000000000000000.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 6685313.000000000000
-Analyzer2D.MaximumGradient: 8988531.000000000000
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/io-call-instructions.cfg b/cfgs/io-call-instructions.cfg
deleted file mode 100644
index af8bc3b..0000000
--- a/cfgs/io-call-instructions.cfg
+++ /dev/null
@@ -1,148 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW I/O call.c1 >
-################################################################################
-window_name I/O call.c1
-window_type single
-window_id 1
-window_position_x 355
-window_position_y 29
-window_width 729
-window_height 154
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 13.000000000000
-window_minimum_y 1.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
-window_filter_module evt_type 1 40000004
-window_filter_module evt_type_label 1 "I/O calls"
-
-################################################################################
-< NEW DISPLAYING WINDOW Instructions.c1.c2 >
-################################################################################
-window_name Instructions.c1.c2
-window_type single
-window_id 2
-window_position_x 384
-window_position_y 58
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 206968292.000000000000
-window_minimum_y 3314.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000050
-window_filter_module evt_type_label 1 "PAPI_TOT_INS [Instr completed]"
-
-################################################################################
-< NEW DISPLAYING WINDOW posixio_inst >
-################################################################################
-window_name posixio_inst
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation product
-window_identifiers 1 2
-window_position_x 413
-window_position_y 87
-window_width 729
-window_height 154
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 3625596.000000000000
-window_minimum_y 3676.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: posixio_inst_hist
-Analyzer2D.X: 2597
-Analyzer2D.Y: 55
-Analyzer2D.Width: 436
-Analyzer2D.Height: 587
-Analyzer2D.ControlWindow: 3
-Analyzer2D.DataWindow: 3
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Sum bursts
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 1000000000000000000.000000000000
-Analyzer2D.Delta: 1000000000000000000.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 2247759.000000000000
-Analyzer2D.MaximumGradient: 2503143.000000000000
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/io-call-reverse.cfg b/cfgs/io-call-reverse.cfg
deleted file mode 100644
index 196ec98..0000000
--- a/cfgs/io-call-reverse.cfg
+++ /dev/null
@@ -1,76 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW I/O call >
-################################################################################
-window_name I/O call
-window_type single
-window_id 1
-window_position_x 2614
-window_position_y 238
-window_width 729
-window_height 154
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 18.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 40000004
-window_filter_module evt_type_label 1 "I/O calls"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: io-call
-Analyzer2D.X: 2971
-Analyzer2D.Y: 50
-Analyzer2D.Width: 646
-Analyzer2D.Height: 565
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Vertical
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: 1.000000000000
-Analyzer2D.Maximum: 13.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 453.192000000000
-Analyzer2D.MaximumGradient: 17291.650000000001
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/modelfactors-all.gp b/cfgs/modelfactors-all.gp
deleted file mode 100644
index e05e716..0000000
--- a/cfgs/modelfactors-all.gp
+++ /dev/null
@@ -1,36 +0,0 @@
-#Gnuplot template for the projection functions
-
-#Prepare the axes
-#REPLACE_BY_XRANGE
-set xlabel "Number of Processes"
-set logscale x
-#REPLACE_BY_YRANGE
-set ylabel "Efficiency"
-set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
-set grid ytics
-
-set style line 1 lt 7 dt 2 lw 1.5 lc rgb "#0E3D59"
-set style line 2 lt 7 dt 2 lw 1.5 lc rgb "#88A61B"
-set style line 3 lt 7 dt 2 lw 1.5 lc rgb "#F29F05"
-set style line 4 lt 7 dt 2 lw 1.5 lc rgb "#F25C05"
-set style line 5 lt 7 dt 2 lw 1.5 lc rgb "#D92525"
-
-set key left bottom Left reverse
-
-#REPLACE_BY_PARA_FUNCTION
-#REPLACE_BY_LOAD_FUNCTION
-#REPLACE_BY_COMM_FUNCTION
-#REPLACE_BY_COMP_FUNCTION
-#REPLACE_BY_GLOB_FUNCTION
-
-plot para(x) title "Parallel Efficiency" ls 1,\
-     load(x) title "Load Balance" ls 2,\
-     comm(x) title "Communication Efficiency" ls 3,\
-     comp(x) title "Computation Scalability" ls 4,\
-     glob(x) title "Global Efficiency" ls 5,\
-     '-' with points notitle ls 1,\
-     '-' with points notitle ls 2,\
-     '-' with points notitle ls 3,\
-     '-' with points notitle ls 4,\
-     '-' with points notitle ls 5
-
diff --git a/cfgs/modelfactors-comm.gp b/cfgs/modelfactors-comm.gp
deleted file mode 100644
index 6984035..0000000
--- a/cfgs/modelfactors-comm.gp
+++ /dev/null
@@ -1,26 +0,0 @@
-
-#Gnuplot template for the projection functions
-
-#REPLACE_BY_TRACE_NAMES
-#REPLACE_BY_XRANGE
-set xlabel "Number of Processes"
-#REPLACE_BY_XTICS_LABEL
-## set logscale x
-#REPLACE_BY_YRANGE
-set ylabel "Efficiency (%)"
-# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
-# set grid ytics
-
-set style line 1 lt 7 dt 2 lw 1.5 lc rgb "red"
-set style line 2 lt 7 dt 2 lw 1.5 lc rgb "green"
-set style line 3 lt 7 dt 2 lw 1.5 lc rgb "orange"
-set style line 4 lt 7 dt 2 lw 1.5 lc rgb "blue"
-set style line 5 lt 7 dt 2 lw 1.5 lc rgb "magenta"
-
-set key left bottom Left reverse
-
-
-plot '-' with linespoints title "Communication Efficiency" ls 1,\
-     '-' with linespoints title "Serialization Efficiency" ls 2,\
-     '-' with linespoints title "Transfer Efficiency" ls 3
-
diff --git a/cfgs/modelfactors-hybrid.gp b/cfgs/modelfactors-hybrid.gp
deleted file mode 100644
index 606ccd2..0000000
--- a/cfgs/modelfactors-hybrid.gp
+++ /dev/null
@@ -1,37 +0,0 @@
-
-#Gnuplot template for the projection functions
-
-#REPLACE_BY_TRACE_NAMES
-#REPLACE_BY_XRANGE
-set xlabel "Number of Processes"
-#REPLACE_BY_XTICS_LABEL
-## set logscale x
-#REPLACE_BY_YRANGE
-set ylabel "Efficiency (%)"
-# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
-# set grid ytics
-
-
-set style line 1 lt 8 dt 2 lw 2.0 lc rgb '#4B0082' # indigo
-
-set style line 2 lt 7 dt 2 lw 1.5 lc rgb "forest-green"
-set style line 3 lt 6 dt 2 lw 1.5 lc rgb '#00FF00' # lime
-set style line 4 lt 6 dt 2 lw 1.5 lc rgb '#008B8B' # darkcyan
-
-set style line 5 lt 5 dt 2 lw 1.5 lc rgb "red"
-set style line 6 lt 4 dt 2 lw 1.5 lc rgb "orange"
-set style line 7 lt 4 dt 2 lw 1.5 lc rgb "salmon"
-
-set key left bottom Left reverse
-
-
-
-plot '-' with linespoints title "Hybrid Efficiency" ls 1,\
-     '-' with linespoints title "MPI Parallel efficiency" ls 2,\
-     '-' with linespoints title "MPI Load balance" ls 3,\
-     '-' with linespoints title "MPI Communication efficiency" ls 4,\
-#REPLACE_BY_OMP_PAR_EFF
-#REPLACE_BY_OMP_LB
-#REPLACE_BY_OMP_COMM
-
-
diff --git a/cfgs/modelfactors-mpi-hybrid.gp b/cfgs/modelfactors-mpi-hybrid.gp
deleted file mode 100644
index 3e30589..0000000
--- a/cfgs/modelfactors-mpi-hybrid.gp
+++ /dev/null
@@ -1,32 +0,0 @@
-
-#Gnuplot template for the projection functions
-
-#REPLACE_BY_TRACE_NAMES
-#REPLACE_BY_XRANGE
-set xlabel "Number of Processes"
-#REPLACE_BY_XTICS_LABEL
-## set logscale x
-#REPLACE_BY_YRANGE
-set ylabel "Efficiency (%)"
-# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
-# set grid ytics
-
-set style line 1 lt 5 dt 2 lw 1.5 lc rgb '#1c1044' # dark blue
-
-set style line 2 lt 8 dt 2 lw 1.5 lc rgb "forest-green"
-set style line 3 lt 6 dt 2 lw 1.5 lc rgb '#00FF00' # lime
-set style line 4 lt 5 dt 2 lw 1.5 lc rgb '#008B8B' # darkcyan
-
-
-set style line 8 lt 4 dt 2 lw 1.5 lc rgb '#7CFC00' # lawngreen
-set style line 9 lt 4 dt 2 lw 1.5 lc rgb '#00FFFF' # cyan
-
-
-set key left bottom Left reverse
-
-
-plot '-' with linespoints title "MPI Parallel efficiency" ls 2,\
-     '-' with linespoints title "MPI Load balance" ls 3,\
-     '-' with linespoints title "MPI Communication efficiency" ls 4,\
-     '-' with linespoints title "Serialization Efficiency" ls 8,\
-     '-' with linespoints title "Transfer Efficiency" ls 9
diff --git a/cfgs/modelfactors-onlydata.gp b/cfgs/modelfactors-onlydata.gp
deleted file mode 100644
index 4d0ff06..0000000
--- a/cfgs/modelfactors-onlydata.gp
+++ /dev/null
@@ -1,31 +0,0 @@
-
-#Gnuplot template for the projection functions
-
-#REPLACE_BY_TRACE_NAMES
-#REPLACE_BY_XRANGE
-set xlabel "Number of Processes"
-#REPLACE_BY_XTICS_LABEL
-# set logscale x
-#REPLACE_BY_YRANGE
-## set yrange [0:]
-set ylabel "Efficiency (%)"
-
-# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
-# set grid ytics
-
-set style line 1 lt 8 dt 2 lw 2.0 lc rgb '#4B0082' # indigo
-set style line 2 lt 7 dt 2 lw 1.5 lc rgb "red"
-set style line 3 lt 7 dt 2 lw 1.5 lc rgb "green"
-
-set style line 4 lt 5 dt 5 lw 1.5 lc rgb "blue"
-set style line 5 lt 3 dt 1 lw 1.8 lc rgb "dark-grey"
-
-set key left bottom Left reverse
-
-
-plot '-' with linespoints title "Parallel Efficiency" ls 1,\
-     '-' with linespoints title "Load Balance" ls 2,\
-     '-' with linespoints title "Communication Efficiency" ls 3,\
-     '-' with linespoints title "Computation Scalability" ls 4,\
-     '-' with linespoints title "Global Efficiency" ls 5
-
diff --git a/cfgs/modelfactors-scale.gp b/cfgs/modelfactors-scale.gp
deleted file mode 100644
index febb708..0000000
--- a/cfgs/modelfactors-scale.gp
+++ /dev/null
@@ -1,27 +0,0 @@
-
-#Gnuplot template for the projection functions
-
-#REPLACE_BY_TRACE_NAMES
-#REPLACE_BY_XRANGE
-set xlabel "Number of Processes"
-#REPLACE_BY_XTICS_LABEL
-# set logscale x
-#REPLACE_BY_YRANGE
-set ylabel "Efficiency (%)"
-# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
-# set grid ytics
-
-set style line 1 lt 5 dt 2 lw 2.0 lc rgb "blue"
-set style line 2 lt 7 dt 2 lw 1.5 lc rgb "cyan"
-# set style line 2 lt 7 dt 2 lw 1.5 lc rgb '#6A5ACD' # slateblue
-set style line 3 lt 7 dt 2 lw 1.5 lc rgb '#4682B4' # steelblue
-set style line 4 lt 7 dt 2 lw 1.5 lc rgb '#8A2BE2' # blueviolet
-
-set key left bottom Left reverse
-
-
-plot '-' with linespoints title "Computation Scalability" ls 1,\
-     '-' with linespoints title "IPC Scalability" ls 2,\
-     '-' with linespoints title "Instruction Scalability" ls 3,\
-     '-' with linespoints title "Frequency Scalability" ls 4
-
diff --git a/cfgs/mpi-call-outside.cfg b/cfgs/mpi-call-outside.cfg
deleted file mode 100644
index d4e7613..0000000
--- a/cfgs/mpi-call-outside.cfg
+++ /dev/null
@@ -1,77 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call >
-################################################################################
-window_name MPI call
-window_type single
-window_id 1
-window_position_x 2753
-window_position_y 151
-window_width 856
-window_height 303
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 124.000000000000
-window_minimum_y 3.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, [x,y]}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 2 50000001 50000005
-window_filter_module evt_type_label 2 "MPI Point-to-point" "Unknown"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: MPI call profile
-Analyzer2D.X: 2262
-Analyzer2D.Y: 247
-Analyzer2D.Width: 1381
-Analyzer2D.Height: 658
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
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diff --git a/cfgs/mpi-io-cycles.cfg b/cfgs/mpi-io-cycles.cfg
deleted file mode 100644
index ed0a0a6..0000000
--- a/cfgs/mpi-io-cycles.cfg
+++ /dev/null
@@ -1,149 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW cycles.c1.c1 >
-################################################################################
-window_name cycles.c1.c1
-window_type single
-window_id 1
-window_position_x 529
-window_position_y 203
-window_width 600
-window_height 114
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 194620048057.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
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-window_filter_module evt_type 1 42000059
-window_filter_module evt_type_label 1 "PAPI_TOT_CYC [Total cycles]"
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call.c1.c1 >
-################################################################################
-window_name MPI call.c1.c1
-window_type single
-window_id 2
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-window_position_y 308
-window_width 642
-window_height 114
-window_comm_lines_enabled false
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-window_noncolor_mode true
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-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
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-window_minimum_y 1.000000000000
-window_compute_y_max false
-window_level thread
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-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 1 50000005
-window_filter_module evt_type_label 1 "MPI I/O"
-
-################################################################################
-< NEW DISPLAYING WINDOW mpiio_cycles >
-################################################################################
-window_name mpiio_cycles
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-window_operation product
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-window_comm_lines_enabled true
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-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 194620048057.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
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-window_object appl { 1, { All } }
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-window_open false
-window_drawmode draw_random
-window_drawmode_rows draw_random
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-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
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-
-< NEW ANALYZER2D >
-Analyzer2D.Name: mpiio_cycles_hist
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-Analyzer2D.SemanticColor: False
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-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/mpi-io-instructions.cfg b/cfgs/mpi-io-instructions.cfg
deleted file mode 100644
index e683b74..0000000
--- a/cfgs/mpi-io-instructions.cfg
+++ /dev/null
@@ -1,149 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW Instructions.c1 >
-################################################################################
-window_name Instructions.c1
-window_type single
-window_id 1
-window_position_x 413
-window_position_y 87
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 206968292.000000000000
-window_minimum_y 3314.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
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-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 42000050
-window_filter_module evt_type_label 1 "PAPI_TOT_INS [Instr completed]"
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI-io-sign.c1 >
-################################################################################
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-window_comm_fromto true
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-window_units Microseconds
-window_maximum_y 1.000000000000
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-window_compute_y_max false
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-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
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-window_filter_module evt_type 1 50000005
-window_filter_module evt_type_label 1 "MPI I/O"
-
-################################################################################
-< NEW DISPLAYING WINDOW mpiio_inst >
-################################################################################
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-
-< NEW ANALYZER2D >
-Analyzer2D.Name: mpiio_inst_hist_2
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-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
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-
diff --git a/cfgs/mpi-io-reverse.cfg b/cfgs/mpi-io-reverse.cfg
deleted file mode 100644
index 143be0d..0000000
--- a/cfgs/mpi-io-reverse.cfg
+++ /dev/null
@@ -1,77 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call >
-################################################################################
-window_name MPI call
-window_type single
-window_id 1
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-window_flags_enabled false
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-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 150.000000000000
-window_minimum_y 3.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
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-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 1 50000005
-window_filter_module evt_type_label 1 "MPI I/O"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: MPI-IO
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-Analyzer2D.HorizVert: Vertical
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-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
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-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/mpi-io.cfg b/cfgs/mpi-io.cfg
deleted file mode 100644
index 1f683ac..0000000
--- a/cfgs/mpi-io.cfg
+++ /dev/null
@@ -1,77 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call >
-################################################################################
-window_name MPI call
-window_type single
-window_id 1
-window_position_x 2360
-window_position_y 274
-window_width 642
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 150.000000000000
-window_minimum_y 3.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 1 50000005
-window_filter_module evt_type_label 1 "MPI I/O"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: MPI-IO
-Analyzer2D.X: 2862
-Analyzer2D.Y: 40
-Analyzer2D.Width: 667
-Analyzer2D.Height: 483
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: True
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: 141.000000000000
-Analyzer2D.Maximum: 150.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 225.865000000000
-Analyzer2D.MaximumGradient: 698578.567999999970
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/mpi-master-thread.cfg b/cfgs/mpi-master-thread.cfg
deleted file mode 100644
index a130f31..0000000
--- a/cfgs/mpi-master-thread.cfg
+++ /dev/null
@@ -1,79 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call >
-################################################################################
-window_name MPI call
-window_type single
-window_id 1
-window_position_x 2214
-window_position_y 148
-window_width 756
-window_height 390
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 70.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-#REPLACE_BY_APP_FILTER
-#REPLACE_BY_TASKS_FILTER
-#REPLACE_BY_THREADS_FILTER
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, [x,y]}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 2 50000001 50000005
-window_filter_module evt_type_label 2 "MPI Point-to-point" "Unknown"
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: MPI call profile
-Analyzer2D.X: 807
-Analyzer2D.Y: 207
-Analyzer2D.Width: 881
-Analyzer2D.Height: 582
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: True
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: True
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 200.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 11.456000000000
-Analyzer2D.MaximumGradient: 11868747.607000000775
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/runtime.cfg b/cfgs/runtime.cfg
deleted file mode 100644
index 5438cda..0000000
--- a/cfgs/runtime.cfg
+++ /dev/null
@@ -1,72 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI call >
-################################################################################
-window_name MPI call
-window_type single
-window_id 1
-window_position_x 377
-window_position_y 288
-window_width 600
-window_height 114
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 70.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, [x,y]}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
-window_filter_module evt_type 2 50000001 50000005
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: runtime
-Analyzer2D.X: 487
-Analyzer2D.Y: 156
-Analyzer2D.Width: 1271
-Analyzer2D.Height: 616
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: True
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: True
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: False
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 200.000000000000
-Analyzer2D.Delta: 200.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 55413948.358000002801
-Analyzer2D.MaximumGradient: 55413948.358000002801
-Analyzer2D.PixelSize: 1
-Analyzer2D.CodeColor: False
-
diff --git a/cfgs/runtime_app.cfg b/cfgs/runtime_app.cfg
deleted file mode 100644
index 791859f..0000000
--- a/cfgs/runtime_app.cfg
+++ /dev/null
@@ -1,74 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW runtimeapp >
-################################################################################
-window_name runtimeapp
-window_type single
-window_id 1
-window_position_x 2457
-window_position_y 507
-window_width 581
-window_height 118
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered false
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 0.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max true
-window_level appl
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { 1 } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, None}, {evt_value, None} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: runtimeapp
-Analyzer2D.X: 2513
-Analyzer2D.Y: 133
-Analyzer2D.Width: 257
-Analyzer2D.Height: 251
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: False
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: 0.000000000000
-Analyzer2D.Maximum: 0.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 5232000.069000000134
-Analyzer2D.MaximumGradient: 5232000.069000000134
-Analyzer2D.DrawModeObjects: draw_maximum
-Analyzer2D.DrawModeColumns: draw_maximum
-Analyzer2D.PixelSize: 1
-Analyzer2D.ColorMode: window_in_gradient_mode
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/cfgs/time_computing.cfg b/cfgs/time_computing.cfg
deleted file mode 100644
index 4bb17ad..0000000
--- a/cfgs/time_computing.cfg
+++ /dev/null
@@ -1,114 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 3
-
-
-################################################################################
-< NEW DISPLAYING WINDOW interval from states.c3 >
-################################################################################
-window_name interval from states.c3
-window_type single
-window_id 1
-window_position_x 377
-window_position_y 29
-window_width 600
-window_height 134
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered true
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Nanoseconds
-window_maximum_y 325782.880999999994
-window_minimum_y 28.247000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 0.276616926766
-window_end_time_relative 0.276616926766
-window_object appl { 1, { All } }
-window_begin_time_relative 0.261615159840
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, State Record Dur.}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, None}, {to_obj, None}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, None}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_semantic_module thread State Record Dur. { 1, { 2 0.000000000000 1.000000000000 } }
-
-################################################################################
-< NEW DISPLAYING WINDOW MPI elapsed time (ns).c1 >
-################################################################################
-window_name MPI elapsed time (ns).c1
-window_type single
-window_id 2
-window_position_x 406
-window_position_y 58
-window_width 600
-window_height 134
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_logical_filtered true
-window_physical_filtered true
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Nanoseconds
-window_maximum_y 34405654.000000000000
-window_minimum_y 28247.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 0.276616926766
-window_end_time_relative 0.276616926766
-window_object appl { 1, { All } }
-window_begin_time_relative 0.261615159840
-window_open false
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, None}, {to_obj, None}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-window_filter_module evt_type 1 54000006
-window_filter_module evt_type_label 1 "Elapsed time in MPI"
-
-################################################################################
-< NEW DISPLAYING WINDOW time outside MPI >
-################################################################################
-window_name time outside MPI
-window_type composed
-window_id 3
-window_factors 1.000000000000 1.000000000000
-window_operation substract
-window_identifiers 1 2
-window_position_x 367
-window_position_y 385
-window_width 600
-window_height 134
-window_comm_lines_enabled false
-window_flags_enabled false
-window_noncolor_mode true
-window_color_mode window_in_null_gradient_mode
-window_units Microseconds
-window_maximum_y 472609042.000000000000
-window_minimum_y 2905.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open true
-window_drawmode draw_maximum
-window_drawmode_rows draw_maximum
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
diff --git a/cfgs/timings.cfg b/cfgs/timings.cfg
deleted file mode 100644
index d2061ef..0000000
--- a/cfgs/timings.cfg
+++ /dev/null
@@ -1,72 +0,0 @@
-#ParaverCFG
-ConfigFile.Version: 3.4
-ConfigFile.NumWindows: 1
-
-
-################################################################################
-< NEW DISPLAYING WINDOW States >
-################################################################################
-window_name States
-window_type single
-window_id 1
-window_position_x 393
-window_position_y 88
-window_width 767
-window_height 314
-window_comm_lines_enabled true
-window_flags_enabled false
-window_noncolor_mode true
-window_logical_filtered true
-window_physical_filtered false
-window_comm_fromto true
-window_comm_tagsize true
-window_comm_typeval true
-window_units Microseconds
-window_maximum_y 18.000000000000
-window_minimum_y 0.000000000000
-window_compute_y_max false
-window_level thread
-window_scale_relative 1.000000000000
-window_end_time_relative 1.000000000000
-window_object appl { 1, { All } }
-window_begin_time_relative 0.000000000000
-window_open false
-window_drawmode 1
-window_drawmode_rows 1
-window_pixel_size 1
-window_labels_to_draw 1
-window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, State As Is}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, All}, {evt_value, All} } }
-window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
-
-< NEW ANALYZER2D >
-Analyzer2D.Name: States Histogram
-Analyzer2D.X: 396
-Analyzer2D.Y: 433
-Analyzer2D.Width: 600
-Analyzer2D.Height: 300
-Analyzer2D.ControlWindow: 1
-Analyzer2D.DataWindow: 1
-Analyzer2D.Accumulator: Semantic
-Analyzer2D.Statistic: Time
-Analyzer2D.CalculateAll: True
-Analyzer2D.HideCols: True
-Analyzer2D.HorizVert: Horizontal
-Analyzer2D.Color: True
-Analyzer2D.SemanticColor: False
-Analyzer2D.Zoom: Disabled
-Analyzer2D.SortCols: False
-Analyzer2D.SortCriteria: Average
-Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
-Analyzer2D.AnalysisLimits: Alltrace
-Analyzer2D.ComputeYScale: True
-Analyzer2D.Minimum: 1.000000000000
-Analyzer2D.Maximum: 18.000000000000
-Analyzer2D.Delta: 1.000000000000
-Analyzer2D.ComputeGradient: True
-Analyzer2D.MinimumGradient: 273554.000000000000
-Analyzer2D.MaximumGradient: 9395816375.000000000000
-Analyzer2D.PixelSize: 1
-Analyzer2D.CodeColor: False
-Analyzer2D.ShowOnlyTotals: False
-Analyzer2D.ShortHeaderLabels: True
-
diff --git a/hybridmetrics.py b/hybridmetrics.py
deleted file mode 100644
index 4cc6abb..0000000
--- a/hybridmetrics.py
+++ /dev/null
@@ -1,1496 +0,0 @@
-#!/usr/bin/env python3
-
-"""Functions to compute the model metrics."""
-
-from __future__ import print_function, division
-import sys
-
-
-from rawdata import *
-from collections import OrderedDict
-
-# error import variables
-error_import_pandas = False
-error_import_seaborn = False
-error_import_matplotlib = False
-error_import_numpy = False
-
-try:
-    import numpy as np
-except ImportError:
-    error_import_numpy = True
-
-
-try:
-    import pandas as pd
-except ImportError:
-    error_import_pandas = True
-
-try:
-    import seaborn as sns
-except ImportError:
-    error_import_seaborn = True
-
-
-try:
-    import matplotlib.pyplot as plt
-except ImportError:
-    error_import_matplotlib = True
-    
-
-
-# Contains all model factor entries with a printable name.
-# This is used to generate and print all model factors, so, if an entry is added,
-# it should be added here, too.
-
-other_metrics_doc = OrderedDict([('elapsed_time', 'Elapsed time (sec)'),
-                               ('efficiency', 'Efficiency'),
-                               ('speedup', 'Speedup'),
-                               ('ipc', 'Average IPC'),
-                               ('freq', 'Average frequency (GHz)'),
-                               ('flushing', 'Flushing (%)'),
-                               ('io_mpiio', 'MPI I/O (%)'),
-                               ('io_posix', 'POSIX I/O (%)'),
-                               ('io_eff', 'I/O Efficiency (%)')])
-
-mod_factors_doc = OrderedDict([('global_eff', 'Global efficiency'),
-                               ('parallel_eff', '-- Parallel efficiency'),
-                               ('load_balance', '   -- Load balance'),
-                               ('comm_eff', '   -- Communication efficiency'),
-                               ('comp_scale', '-- Computation scalability'),
-                               ('ipc_scale', '   -- IPC scalability'),
-                               ('inst_scale', '   -- Instruction scalability'),
-                               ('freq_scale', '   -- Frequency scalability')])
-
-mod_factors_scale_plus_io_doc = OrderedDict([('comp_scale', '-- Computation scalability + I/O'),
-                               ('ipc_scale', '   -- IPC scalability'),
-                               ('inst_scale', '   -- Instruction scalability'),
-                               ('freq_scale', '   -- Frequency scalability')])
-
-mod_hybrid_factors_doc = OrderedDict([
-                               ('hybrid_eff', '-- Hybrid Parallel efficiency'),
-                               ('mpi_parallel_eff', '   -- MPI Parallel efficiency'),
-                               ('mpi_load_balance', '      -- MPI Load balance'),
-                               ('mpi_comm_eff', '      -- MPI Communication efficiency'),
-                               ('serial_eff', '         -- Serialization efficiency'),
-                               ('transfer_eff', '         -- Transfer efficiency'),
-                               ('omp_parallel_eff', '   -- OMP Parallel efficiency'),
-                               ('omp_load_balance', '      -- OMP Load balance'),
-                               ('omp_comm_eff', '      -- OMP Communication efficiency')])
-
-
-def create_mod_factors(trace_list):
-    """Creates 2D dictionary of the model factors and initializes with an empty
-    string. The mod_factors dictionary has the format: [mod factor key][trace].
-    """
-    global mod_factors_doc
-    mod_factors = {}
-    for key in mod_factors_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        mod_factors[key] = trace_dict
-
-    return mod_factors
-
-
-def create_mod_factors_scale_io(trace_list):
-    """Creates 2D dictionary of the model factors and initializes with an empty
-    string. The mod_factors dictionary has the format: [mod factor key][trace].
-    """
-    global mod_factors_scale_plus_io_doc
-    mod_factors_scale_plus_io = {}
-    for key in mod_factors_scale_plus_io_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        mod_factors_scale_plus_io[key] = trace_dict
-
-    return mod_factors_scale_plus_io
-
-
-def create_hybrid_mod_factors(trace_list):
-    """Creates 2D dictionary of the hybrid model factors and initializes with an empty
-    string. The hybrid_factors dictionary has the format: [mod factor key][trace].
-    """
-    global mod_hybrid_factors_doc
-    hybrid_factors = {}
-    for key in mod_hybrid_factors_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        hybrid_factors[key] = trace_dict
-
-    return hybrid_factors
-
-
-def create_other_metrics(trace_list):
-    """Creates 2D dictionary of the other metrics and initializes with an empty
-    string. The other_metrics dictionary has the format: [mod factor key][trace].
-    """
-    global other_metrics_doc
-    other_metrics = {}
-    for key in other_metrics_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        other_metrics[key] = trace_dict
-
-    return other_metrics
-
-
-def get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args):
-    """Guess the scaling type (weak/strong) based on the useful instructions.
-    Computes the normalized instruction ratio for all measurements, whereas the
-    normalized instruction ratio is (instructions ratio / process ratio) with
-    the smallest run as reference. For exact weak scaling the normalized ratio
-    should be exactly 1 and for exact strong scaling it should be close to zero
-    with an upper bound of 0.5. The eps value defines the threshold to be
-    considered weak scaling and should give enough buffer to safely handle
-    non-ideal scaling.
-    """
-    eps = 0.9
-    normalized_inst_ratio = 0
-
-    # Check if there is only one trace.
-    if len(trace_list) == 1:
-        return 'strong'
-
-    for trace in trace_list:
-        try:  # except NaN
-            inst_ratio = float(raw_data['useful_ins'][trace]) / float(raw_data['useful_ins'][trace_list[0]])
-        except:
-            inst_ratio = 0.0
-        try:  # except NaN
-            proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
-        except:
-            proc_ratio = 'NaN'
-
-        normalized_inst_ratio += inst_ratio / proc_ratio
-
-    # Get the average inst increase. Ignore ratio of first trace 1.0)
-    normalized_inst_ratio = (normalized_inst_ratio - 1) / (len(trace_list) - 1)
-
-    scaling_computed = ''
-
-    if normalized_inst_ratio > eps:
-        scaling_computed = 'weak'
-    else:
-        scaling_computed = 'strong'
-
-    if cmdl_args.scaling == 'auto':
-        if cmdl_args.debug:
-            print('==DEBUG== Detected ' + scaling_computed + ' scaling.')
-            print('')
-        return scaling_computed
-
-    if cmdl_args.scaling == 'weak':
-        if scaling_computed == 'strong':
-            print('==Warning== Scaling set to weak scaling but detected strong scaling.')
-            print('')
-        return 'weak'
-
-    if cmdl_args.scaling == 'strong':
-        if scaling_computed == 'weak':
-            print('==Warning== Scaling set to strong scaling but detected weak scaling.')
-            print('')
-        return 'strong'
-
-    print('==Error== reached undefined control flow state.')
-    sys.exit(1)
-
-
-def compute_model_factors(raw_data, trace_list, trace_processes, trace_mode, list_mpi_procs_count, cmdl_args):
-    """Computes the model factors from the gathered raw data and returns the
-    according dictionary of model factors."""
-    mod_factors = create_mod_factors(trace_list)
-    hybrid_factors = create_hybrid_mod_factors(trace_list)
-    other_metrics = create_other_metrics(trace_list)
-    mod_factors_scale_plus_io = create_mod_factors_scale_io(trace_list)
-
-    # Guess the weak or strong scaling
-    scaling = get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args)
-
-    # Loop over all traces
-    for trace in trace_list:
-
-        proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
-        total_procs = trace_processes[trace]
-
-        # Flushing measurements
-        try:  # except NaN
-            other_metrics['flushing'][trace] = float(raw_data['flushing_tot'][trace]) \
-                                                     / (raw_data['runtime'][trace] * total_procs) * 100.0
-        except:
-            other_metrics['flushing'][trace] = 0.0
-
-        # I/O measurements
-        try:  # except NaN
-            other_metrics['io_mpiio'][trace] = float(raw_data['mpiio_tot'][trace]) \
-                                               / (raw_data['runtime'][trace] * total_procs) * 100.0
-        except:
-            other_metrics['io_mpiio'][trace] = 0.0
-
-        try:  # except NaN
-            other_metrics['io_posix'][trace] = float(raw_data['io_tot'][trace]) \
-                                               / (raw_data['runtime'][trace] * total_procs) * 100.0
-        except:
-            other_metrics['io_posix'][trace] = 0.0
-        try:  # except NaN
-            io_total = float(raw_data['mpiio_tot'][trace] + raw_data['flushing_tot'][trace]
-                             + raw_data['io_tot'][trace])
-            other_metrics['io_eff'][trace] = float(raw_data['useful_tot'][trace]) \
-                                             / (raw_data['useful_tot'][trace] + io_total) * 100.0
-        except:
-            other_metrics['io_eff'][trace] = 0.0
-
-        # Basic efficiency factors
-        try:  # except NaN
-            if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
-                print("Hello, I pass for this conditional", trace)
-                mod_factors['load_balance'][trace] = float(raw_data['useful_plus_io_avg'][trace]) \
-                                                     / float(raw_data['useful_plus_io_max'][trace]) * 100.0
-            else:
-                mod_factors['load_balance'][trace] = float(raw_data['useful_avg'][trace]) \
-                                                 / float(raw_data['useful_max'][trace]) * 100.0
-        except:
-            mod_factors['load_balance'][trace] = 'NaN'
-
-        try:  # except NaN
-            if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
-                mod_factors['comm_eff'][trace] = float(raw_data['useful_plus_io_max'][trace] \
-                                                 / raw_data['runtime'][trace] * 100.0)
-            else:
-                mod_factors['comm_eff'][trace] = float(raw_data['useful_max'][trace] \
-                                                     / raw_data['runtime'][trace] * 100.0)
-        except:
-            mod_factors['comm_eff'][trace] = 'NaN'
-
-        try:  # except NaN
-            if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
-                mod_factors['parallel_eff'][trace] = float(raw_data['useful_plus_io_avg'][trace]) \
-                                                     / float(raw_data['runtime'][trace]) * 100.0
-            else:
-                mod_factors['parallel_eff'][trace] = float(mod_factors['load_balance'][trace]) \
-                                                     * float(mod_factors['comm_eff'][trace]) / 100.0
-        except:
-            mod_factors['parallel_eff'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if scaling == 'strong':
-                    mod_factors['comp_scale'][trace] = float(raw_data['useful_tot'][trace_list[0]]) \
-                                                   / float(raw_data['useful_tot'][trace]) * 100.0
-                else:
-                    mod_factors['comp_scale'][trace] = float(raw_data['useful_tot'][trace_list[0]]) \
-                                                   / float(raw_data['useful_tot'][trace]) * proc_ratio * 100.0
-            else:
-                mod_factors['comp_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['comp_scale'][trace] = 'NaN'
-
-        # Computation Scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    io_serial_0 = float(raw_data['io_tot'][trace_list[0]] + raw_data['flushing_tot'][trace_list[0]])
-                    io_serial_n = float(raw_data['io_tot'][trace] + raw_data['flushing_tot'][trace])
-                    if scaling == 'strong':
-                        mod_factors_scale_plus_io['comp_scale'][trace] = float((raw_data['useful_tot'][trace_list[0]]
-                                                                      + io_serial_0) / (raw_data['useful_tot'][trace]
-                                                                                        + io_serial_n) * 100.0)
-                    else:
-                        mod_factors_scale_plus_io['comp_scale'][trace] = (float(raw_data['useful_tot'][trace_list[0]])
-                                                                          + io_serial_0) \
-                                                                     / (float(raw_data['useful_tot'][trace])
-                                                                        + io_serial_n) * proc_ratio * 100.0
-                else:
-                    mod_factors_scale_plus_io['comp_scale'][trace] = float(mod_factors['comp_scale'][trace])
-            else:
-                mod_factors_scale_plus_io['comp_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['comp_scale'][trace] = 'NaN'
-
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                mod_factors['global_eff'][trace] = float(mod_factors['parallel_eff'][trace]) \
-                                                   * float(mod_factors['comp_scale'][trace]) / 100.0
-            else:
-                mod_factors['global_eff'][trace] = float(mod_factors['parallel_eff'][trace]) * 100.0 / 100.0
-        except:
-            mod_factors['global_eff'][trace] = 'NaN'
-
-        # Hybrid metrics calculation
-        # ------->  MPI metrics
-        try:  # except NaN
-            hybrid_factors['mpi_load_balance'][trace] = float(raw_data['outsidempi_avg'][trace]) \
-                                                        / float(raw_data['outsidempi_max'][trace]) * 100.0
-        except:
-            hybrid_factors['mpi_load_balance'][trace] = 'NaN'
-
-        try:  # except NaN
-            hybrid_factors['mpi_comm_eff'][trace] = float(raw_data['outsidempi_max'][trace]) \
-                                                    / float(raw_data['runtime'][trace]) * 100.0
-        except:
-            hybrid_factors['mpi_comm_eff'][trace] = 'NaN'
-
-        # ------------> BEGIN MPI communication sub-metrics
-        try:  # except NaN
-            hybrid_factors['serial_eff'][trace] = float(raw_data['outsidempi_dim'][trace]) \
-                                               / float(raw_data['runtime_dim'][trace]) * 100.0
-            if hybrid_factors['serial_eff'][trace] > 100.0:
-                hybrid_factors['serial_eff'][trace] = 'Warning!'
-        except:
-            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-                hybrid_factors['serial_eff'][trace] = 'NaN'
-            else:
-                hybrid_factors['serial_eff'][trace] = 'Non-Avail'
-
-        try:  # except NaN
-            if hybrid_factors['serial_eff'][trace] != 'Warning!':
-                hybrid_factors['transfer_eff'][trace] = float(hybrid_factors['mpi_comm_eff'][trace]) \
-                                                        / float(hybrid_factors['serial_eff'][trace]) * 100.0
-            else:
-                hybrid_factors['transfer_eff'][trace] = float(raw_data['runtime_dim'][trace]) \
-                                                        / float(raw_data['runtime'][trace]) * 100.0
-            if hybrid_factors['transfer_eff'][trace] > 100.0:
-                hybrid_factors['transfer_eff'][trace] = 'Warning!'
-        except:
-            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-                hybrid_factors['transfer_eff'][trace] = 'NaN'
-            else:
-                hybrid_factors['transfer_eff'][trace] = 'Non-Avail'
-        # --------------> END MPI communication sub-metrics
-        try:  # except NaN
-            if raw_data['outsidempi_tot'][trace] == raw_data['outsidempi_tot_diff'][trace]:
-                hybrid_factors['mpi_parallel_eff'][trace] = float(raw_data['outsidempi_tot'][trace] /
-                                                                  (raw_data['runtime'][trace]
-                                                                   * list_mpi_procs_count[trace]) * 100.0)
-            else:
-                hybrid_factors['mpi_parallel_eff'][trace] = float(raw_data['outsidempi_tot_diff'][trace]
-                                                                  / (raw_data['runtime'][trace]
-                                                                     * trace_processes[trace]) * 100.0)
-        except:
-            hybrid_factors['mpi_parallel_eff'][trace] = 'NaN'
-
-        # ------->  Metrics for the second parallel paradigm
-        try:  # except NaN
-            hybrid_factors['omp_comm_eff'][trace] = float(mod_factors['comm_eff'][trace]) \
-                                                     / float(hybrid_factors['mpi_comm_eff'][trace]) * 100.0
-        except:
-            hybrid_factors['omp_comm_eff'][trace] = 'NaN'
-
-        try:  # except NaN
-            hybrid_factors['omp_load_balance'][trace] = float(mod_factors['load_balance'][trace]) \
-                                                 / float(hybrid_factors['mpi_load_balance'][trace]) * 100.0
-        except:
-            hybrid_factors['omp_load_balance'][trace] = 'NaN'
-
-        try:  # except NaN
-            hybrid_factors['omp_parallel_eff'][trace] = float(mod_factors['parallel_eff'][trace]) \
-                                                     / float(hybrid_factors['mpi_parallel_eff'][trace]) * 100.0
-        except:
-            hybrid_factors['omp_parallel_eff'][trace] = 'NaN'
-
-        # ------->  Global Hybrid Metric
-        try:  # except NaN
-            hybrid_factors['hybrid_eff'][trace] = float(hybrid_factors['mpi_parallel_eff'][trace]) \
-                                               * float(hybrid_factors['omp_parallel_eff'][trace]) / 100.0
-        except:
-            hybrid_factors['hybrid_eff'][trace] = 'NaN'
-
-        # Basic scalability factors
-        try:  # except NaN
-            other_metrics['ipc'][trace] = float(raw_data['useful_ins'][trace]) \
-                                        / float(raw_data['useful_cyc'][trace])
-        except:
-            other_metrics['ipc'][trace] = 'NaN'
-        try:  # except NaN
-            if len(trace_list) > 1:
-                mod_factors['ipc_scale'][trace] = float(other_metrics['ipc'][trace]) \
-                                              / float(other_metrics['ipc'][trace_list[0]]) * 100.0
-            else:
-                mod_factors['ipc_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['ipc_scale'][trace] = 'NaN'
-
-        # IPC scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    ipc_serial_io_0 = (raw_data['useful_ins'][trace_list[0]] + raw_data['io_ins'][trace_list[0]]
-                                       + raw_data['flushing_ins'][trace_list[0]]) \
-                                      / (raw_data['useful_cyc'][trace_list[0]] + raw_data['io_cyc'][trace_list[0]]
-                                         + raw_data['flushing_cyc'][trace_list[0]])
-
-                    ipc_serial_io_n = (raw_data['useful_ins'][trace] + raw_data['io_ins'][trace]
-                                       + raw_data['flushing_ins'][trace])\
-                                      / (raw_data['useful_cyc'][trace] + raw_data['io_cyc'][trace]
-                                         + raw_data['flushing_cyc'][trace])
-                    mod_factors_scale_plus_io['ipc_scale'][trace] = float(ipc_serial_io_n / ipc_serial_io_0 * 100.0)
-                else:
-                    mod_factors_scale_plus_io['ipc_scale'][trace] = float(mod_factors['ipc_scale'][trace])
-            else:
-                mod_factors_scale_plus_io['ipc_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['ipc_scale'][trace] = 'NaN'
-
-        try:  # except NaN
-            other_metrics['freq'][trace] = float(raw_data['useful_cyc'][trace]) \
-                                           / float(raw_data['useful_tot'][trace]) / 1000
-        except:
-            other_metrics['freq'][trace] = 'NaN'
-        try:  # except NaN
-            if len(trace_list) > 1:
-                mod_factors['freq_scale'][trace] = float(other_metrics['freq'][trace]) \
-                                               / float(other_metrics['freq'][trace_list[0]]) * 100.0
-            else:
-                mod_factors['freq_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['freq_scale'][trace] = 'NaN'
-
-        # freq scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    freq_serial_io_0 = (float(raw_data['useful_cyc'][trace_list[0]])
-                                        + float(raw_data['io_cyc'][trace_list[0]])
-                                        + float(raw_data['flushing_cyc'][trace_list[0]]))\
-                                       / (raw_data['useful_tot'][trace_list[0]]
-                                          + float(raw_data['io_tot'][trace_list[0]])
-                                          + float(raw_data['flushing_tot'][trace_list[0]])) / 1000
-
-                    freq_serial_io_n = (float(raw_data['useful_cyc'][trace])
-                                              + float(raw_data['io_cyc'][trace])
-                                              + float(raw_data['flushing_cyc'][trace]))\
-                                       / (float(raw_data['useful_tot'][trace])
-                                          + float(raw_data['io_tot'][trace])
-                                          + float(raw_data['flushing_tot'][trace])) / 1000
-                    mod_factors_scale_plus_io['freq_scale'][trace] = float(freq_serial_io_n / freq_serial_io_0 * 100.0)
-                else:
-                    mod_factors_scale_plus_io['freq_scale'][trace] = float(mod_factors['freq_scale'][trace])
-            else:
-                mod_factors_scale_plus_io['freq_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['freq_scale'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if scaling == 'strong':
-                    mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]])\
-                                                       / float(raw_data['useful_ins'][trace]) * 100.0
-                else:
-                    mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]]) \
-                                                   / float(raw_data['useful_ins'][trace]) * proc_ratio * 100.0
-            else:
-                mod_factors['inst_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['inst_scale'][trace] = 'NaN'
-
-        # ins scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    useful_ins_plus_io_0 = float(raw_data['useful_ins'][trace_list[0]]) \
-                                       + float(raw_data['io_ins'][trace_list[0]]) \
-                                       + float(raw_data['flushing_ins'][trace_list[0]])
-                    useful_ins_plus_io_n = float(raw_data['useful_ins'][trace]) \
-                                       + float(raw_data['io_ins'][trace]) \
-                                       + float(raw_data['flushing_ins'][trace])
-                    if scaling == 'strong':
-                        mod_factors_scale_plus_io['inst_scale'][trace] = float(useful_ins_plus_io_0) \
-                                                                 / float(useful_ins_plus_io_n) * 100.0
-                    else:
-                        mod_factors_scale_plus_io['inst_scale'][trace] = float(useful_ins_plus_io_0) \
-                                                                         / float(useful_ins_plus_io_n)\
-                                                                         * proc_ratio * 100.0
-                else:
-                    mod_factors_scale_plus_io['inst_scale'][trace] = float(mod_factors['inst_scale'][trace])
-            else:
-                mod_factors_scale_plus_io['inst_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['inst_scale'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if scaling == 'strong':
-                    other_metrics['speedup'][trace] = float(raw_data['runtime'][trace_list[0]]
-                                                            / raw_data['runtime'][trace])
-                else:
-                    other_metrics['speedup'][trace] = float(raw_data['runtime'][trace_list[0]]
-                                                            / raw_data['runtime'][trace] * proc_ratio)
-            else:
-                other_metrics['speedup'][trace] = 'Non-Avail'
-        except:
-            other_metrics['speedup'][trace] = 'NaN'
-
-        try:  # except NaN
-            other_metrics['elapsed_time'][trace] = float(raw_data['runtime'][trace] * 0.000001)
-        except:
-            other_metrics['elapsed_time'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                #other_metrics['efficiency'][trace] = other_metrics['speedup'][trace] / proc_ratio
-                if scaling == 'strong':
-                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
-                                                        / (raw_data['runtime'][trace] * proc_ratio)
-                else:
-                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
-                                                        / raw_data['runtime'][trace]
-            else:
-                other_metrics['efficiency'][trace] = 'Non-Avail'
-        except:
-            other_metrics['efficiency'][trace] = 'NaN'
-
-    return mod_factors, mod_factors_scale_plus_io, hybrid_factors, other_metrics
-
-
-def print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, hybrid_factors, trace_list,
-                            trace_processes, trace_tasks, trace_threads,trace_mode):
-    """Prints the model factors table in human readable form on stdout."""
-    global mod_factors_doc, mod_hybrid_factors_doc
-
-    warning_io = []
-    warning_flush = []
-    warning_flush_wrong = []
-    warning_simulation = []
-    for trace in trace_list:
-        if 10.0 <= other_metrics['flushing'][trace] < 15.0:
-            warning_flush.append(1)
-        elif other_metrics['flushing'][trace] >= 15.0:
-            warning_flush_wrong.append(1)
-        if other_metrics['io_posix'][trace] >= 5.0:
-            warning_io.append(1)
-        if hybrid_factors['serial_eff'][trace] == "Warning!" \
-                or hybrid_factors['serial_eff'][trace] == "Warning!":
-            warning_simulation.append(1)
-
-    if len(warning_flush_wrong) > 0:
-        print("WARNING! Flushing in a trace is too high. Disabling standard output metrics...")
-        print("         Flushing is an overhead due to the tracer, please review your trace.")
-        print('')
-        return
-
-    # Update the hybrid parallelism mode
-    trace_mode_doc = trace_mode[trace_list[0]]
-    if trace_mode_doc[0:len("Detailed+MPI+")] == "Detailed+MPI+":
-        mod_hybrid_factors_doc['omp_parallel_eff'] = "   -- " + \
-                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Parallel efficiency"
-        mod_hybrid_factors_doc['omp_load_balance'] = "      -- " + \
-                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Load Balance"
-        mod_hybrid_factors_doc['omp_comm_eff'] = "      -- " + \
-                                                 trace_mode_doc[len("Detailed+MPI+"):] + " Communication efficiency"
-    
-    # print('')
-    print('\n Overview of the Efficiency metrics:')
-
-    longest_name = len(sorted(mod_hybrid_factors_doc.values(), key=len)[-1])
-
-    line = ''.rjust(longest_name)
-    if len(trace_list) == 1:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[0]]
-    else:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[len(trace_list)-1]]
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # BEGIN To adjust header to big number of processes
-    procs_header = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if limit_min == limit_max and same_procs and len(trace_list) > 1:
-            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
-        else:
-            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
-        if s_xtics in procs_header:
-            s_xtics += '[' + str(index + 1) + ']'
-        procs_header.append(s_xtics)
-
-    max_len_header = 0
-    for proc_h in procs_header:
-        if max_len_header < len(proc_h):
-            max_len_header = len(proc_h)
-
-    value_to_adjust = 10
-    if max_len_header > value_to_adjust:
-        value_to_adjust = max_len_header + 1
-    # END To adjust header to big number of processes
-
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        line += ' | '
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if limit_min == limit_max and same_procs and len(trace_list) > 1:
-            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
-        else:
-            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
-        if s_xtics in label_xtics:
-            s_xtics += '[' + str(index + 1) + ']'
-        label_xtics.append(s_xtics)
-        line += s_xtics.rjust(value_to_adjust)
-
-    print(''.ljust(len(line), '='))
-    print(line)
-    line_procs_factors = line
-
-    print(''.ljust(len(line), '='))
-
-    for mod_key in mod_factors_doc:
-        line = mod_factors_doc[mod_key].ljust(longest_name)
-        for trace in trace_list:
-            line += ' | '
-            try:  # except NaN
-                line += ('{0:.2f}%'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
-            except ValueError:
-                line += ('{}'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
-        print(line)
-
-    io_metrics = []
-    io_metrics.append(0)
-    for mod_key in mod_factors_scale_plus_io_doc:
-        for trace in trace_list:
-            if mod_factors_scale_plus_io[mod_key][trace] != 0:
-                io_metrics.append(1)
-
-    if (len(warning_flush) >= 1 or len(warning_io) >= 1) and len(trace_list) > 1:
-        print(''.ljust(len(line_procs_factors), '-'))
-        for mod_key in mod_factors_scale_plus_io_doc:
-            line = mod_factors_scale_plus_io_doc[mod_key].ljust(longest_name)
-            for trace in trace_list:
-                line += ' | '
-                try:  # except NaN
-                    line += ('{0:.2f}%'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
-                except ValueError:
-                    line += ('{}'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
-            print(line)
-        print(''.ljust(len(line_procs_factors), '='))
-    else:
-        print(''.ljust(len(line_procs_factors), '-'))
-        
-    for mod_key in mod_hybrid_factors_doc:
-        line = mod_hybrid_factors_doc[mod_key].ljust(longest_name)
-        for trace in trace_list:
-            line += ' | '
-            try:  # except NaN
-                if str(hybrid_factors[mod_key][trace]) != 'nan':
-                    line += ('{0:.2f}%'.format(hybrid_factors[mod_key][trace])).rjust(value_to_adjust)
-                elif str(hybrid_factors[mod_key][trace]) == 'nan':
-                    line += ('{}'.format('NaN')).rjust(value_to_adjust)
-                else:
-                    line += ('{}'.format(hybrid_factors[mod_key][trace])).rjust(value_to_adjust)
-            except ValueError:
-                line += ('{}'.format(hybrid_factors[mod_key][trace])).rjust(value_to_adjust)
-        print(line)
-
-    print(''.ljust(len(line_procs_factors), '='))
-    if len(warning_simulation) > 0:
-        print("===> Warning! Metrics obtained from simulated traces exceed 100%. "
-              "Please review original and simulated traces.")
-    print('')
-
-
-def print_other_metrics_table(other_metrics, trace_list, trace_processes, trace_tasks, trace_threads):
-    """Prints the other metrics table in human readable form on stdout."""
-    global other_metrics_doc
-
-    print('Overview of the Efficiency, Speedup, IPC and Frequency:')
-
-    longest_name = len(sorted(other_metrics_doc.values(), key=len)[-1])
-
-    line = ''.rjust(longest_name)
-    if len(trace_list) == 1:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[0]]
-    else:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[len(trace_list)-1]]
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # BEGIN To adjust header to big number of processes
-    procs_header = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if limit_min == limit_max and same_procs and len(trace_list) > 1:
-            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
-        else:
-            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
-        if s_xtics in procs_header:
-            s_xtics += '[' + str(index + 1) + ']'
-        procs_header.append(s_xtics)
-
-    max_len_header = 0
-    for proc_h in procs_header:
-        if max_len_header < len(proc_h):
-            max_len_header = len(proc_h)
-
-    value_to_adjust = 10
-    if max_len_header > value_to_adjust:
-        value_to_adjust = max_len_header + 1
-    # END To adjust header to big number of processes
-
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        line += ' | '
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if limit_min == limit_max and same_procs and len(trace_list) > 1:
-            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
-        else:
-            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
-        if s_xtics in label_xtics:
-            s_xtics += '[' + str(index + 1) + ']'
-        label_xtics.append(s_xtics)
-        line += s_xtics.rjust(value_to_adjust)
-
-    print(''.ljust(len(line), '-'))
-    print(line)
-    line_head = line
-    print(''.ljust(len(line), '-'))
-
-    for mod_key in other_metrics_doc:
-        line = other_metrics_doc[mod_key].ljust(longest_name)
-        if len(trace_list) > 1:
-            if mod_key in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                print(line)
-        else:
-            if mod_key in ['ipc', 'freq', 'elapsed_time']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                print(line)
-    print(''.ljust(len(line_head), '-'))
-    # print('')
-
-    warning_io = []
-    warning_flush = []
-    for trace in trace_list:
-        if other_metrics['flushing'][trace] >= 10.0:
-            warning_flush.append(1)
-        if other_metrics['io_mpiio'][trace] >= 5.0 or other_metrics['io_posix'][trace] >= 5.0:
-            warning_io.append(1)
-
-    for mod_key in other_metrics_doc:
-        line = other_metrics_doc[mod_key].ljust(longest_name)
-        # Print empty line to separate values
-        if mod_key in ['freq'] and len(warning_flush) > 0:
-            print('')
-            print("Overview of tracer\'s flushing weight:")
-            print(''.ljust(len(line_head), '-'))
-
-        if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency']:
-            if mod_key in ['flushing']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                if len(warning_flush) > 0:
-                    print(line)
-                    print(''.ljust(len(line_head), '-'))
-            elif mod_key in ['io_mpiio','io_posix','io_eff']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                if len(warning_io) > 0:
-                    print(line)
-
-        # Print headers I/O
-        if mod_key in ['flushing'] and len(warning_io) > 0:
-            print(''.ljust(len(line), ' '))
-            print('Overview of File I/O weight:')
-            print(''.ljust(len(line), '-'))
-        if mod_key in ['io_eff'] and len(warning_io) > 0:
-            print(''.ljust(len(line), '-'))
-            # print('')
-
-    if len(warning_flush) > 0:
-        message_warning_flush = "WARNING! %Flushing is high and affects computation of efficiency metrics."
-    else:
-        message_warning_flush = ""
-    if len(warning_io) > 0:
-        message_warning_io = "WARNING! % File I/O is high and affects computation of efficiency metrics."
-    else:
-        message_warning_io = ""
-    print(message_warning_flush+message_warning_io)
-    # print('')
-
-
-def print_efficiency_table(mod_factors, hybrid_factors, trace_list, trace_processes, trace_tasks, trace_threads):
-    """Prints the model factors table in human readable form on stdout."""
-    global mod_factors_doc, mod_hybrid_factors_doc
-
-    delimiter = ','
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    if len(trace_list) == 1:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[0]]
-    else:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[len(trace_list) - 1]]
-
-    file_path = os.path.join(os.getcwd(), 'efficiency_table-global.csv')
-    with open(file_path, 'w') as output:
-        line = '\"Number of processes\"'
-
-        label_xtics = []
-        for index, trace in enumerate(trace_list):
-            line += delimiter
-            tasks = trace_tasks[trace]
-            threads = trace_threads[trace]
-            if limit_min == limit_max and same_procs and len(trace_list) > 1:
-                s_xtics = (str(trace_processes[trace]) + '[' + str(index + 1) + ']')
-            else:
-                s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
-            if s_xtics in label_xtics:
-                s_xtics += '[' + str(index + 1) + ']'
-            label_xtics.append(s_xtics)
-            line += s_xtics
-
-        output.write(line + '\n')
-
-        for mod_key in mod_factors_doc:
-            if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency', 'flushing', 'io_mpiio', 'io_posix']:
-                if mod_key in ['parallel_eff', 'comp_scale']:
-                    line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
-                elif mod_key in ['load_balance', 'comm_eff','ipc_scale', 'inst_scale','freq_scale']:
-                    line = "\"" + mod_factors_doc[mod_key].replace('     ', '', 2) + "\""
-                else:
-                    line = "\"" + mod_factors_doc[mod_key] + "\""
-                for trace in trace_list:
-                    line += delimiter
-                    try:  # except NaN
-                        if mod_factors[mod_key][trace] == "Non-Avail" or mod_factors[mod_key][trace] == "Warning!":
-                            line += '0.00'
-                        else:
-                            line += '{0:.2f}'.format(mod_factors[mod_key][trace])
-                    except ValueError:
-                        line += '{}'.format(mod_factors[mod_key][trace])
-                output.write(line + '\n')
-
-        # Create Gnuplot file for efficiency plot
-        gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'efficiency_table-global.gp')
-        content = []
-
-        with open(gp_template) as f:
-            content = f.readlines()
-
-        limit_procs = 500 + len(trace_list) * 65
-        ## print(limit_procs)
-
-        # Replace xrange
-        content = [line.replace('#REPLACE_BY_SIZE', ''.join(['set terminal pngcairo enhanced dashed crop size ',
-                                                             str(limit_procs), ',460 font "Latin Modern Roman,14"']))
-                   for line in content]
-
-        file_path = os.path.join(os.getcwd(), 'efficiency_table_global.gp')
-        with open(file_path, 'w') as f:
-            f.writelines(content)
-        # print('======== Plot (gnuplot File): EFFICIENCY Table ========')
-        if len(trace_list) > 1:
-            print('Global Efficiency Table written to ' + file_path[:len(file_path) - 3] + '.gp')
-        # print('')
-
-    delimiter = ','
-    file_path = os.path.join(os.getcwd(), 'efficiency_table-hybrid.csv')
-    with open(file_path, 'w') as output:
-        line = '\"Number of processes\"'
-        label_xtics = []
-        for index, trace in enumerate(trace_list):
-            line += delimiter
-            tasks = trace_tasks[trace]
-            threads = trace_threads[trace]
-            if limit_min == limit_max and same_procs and len(trace_list) > 1:
-                s_xtics = (str(trace_processes[trace]) + '[' + str(index + 1) + ']')
-            else:
-                s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
-            if s_xtics in label_xtics:
-                s_xtics += '[' + str(index + 1) + ']'
-            label_xtics.append(s_xtics)
-            line += s_xtics
-        output.write(line + '\n')
-
-        for mod_key in mod_hybrid_factors_doc:
-            if mod_key in ['mpi_parallel_eff', 'omp_parallel_eff']:
-                line = "\"" + mod_hybrid_factors_doc[mod_key].replace('     ', '', 2) + "\""
-            elif mod_key in ['mpi_load_balance', 'mpi_comm_eff','omp_load_balance', 'omp_comm_eff']:
-                line = "\"" + mod_hybrid_factors_doc[mod_key].replace('       ', '', 2) + "\""
-            elif mod_key in ['serial_eff', 'transfer_eff']:
-                line = "\"" + mod_hybrid_factors_doc[mod_key].replace('         ', '          ', 2) + "\""
-            else:
-                line = "\"" + mod_hybrid_factors_doc[mod_key] + "\""
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    if hybrid_factors[mod_key][trace] == "Non-Avail" or hybrid_factors[mod_key][trace] == "Warning!":
-                        line += '0.00'
-                    else:
-                        line += '{0:.2f}'.format(hybrid_factors[mod_key][trace])
-                except ValueError:
-                    line += '{}'.format(hybrid_factors[mod_key][trace])
-            output.write(line + '\n')
-
-        # Create Gnuplot file for efficiency plot
-        gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'efficiency_table-hybrid.gp')
-        content = []
-
-        with open(gp_template) as f:
-            content = f.readlines()
-
-        limit_procs = 510 + len(trace_list) * 80
-
-        # Replace xrange
-        content = [line.replace('#REPLACE_BY_SIZE', ''.join(['set terminal pngcairo enhanced dashed crop size ',
-                                                             str(limit_procs), ',460 font "Latin Modern Roman,14"']))
-                   for line in content]
-
-        file_path = os.path.join(os.getcwd(), 'efficiency_table-hybrid.gp')
-        with open(file_path, 'w') as f:
-            f.writelines(content)
-        # print('======== Plot (gnuplot File): EFFICIENCY Table ========')
-        if len(trace_list) > 1:
-            print('Hybrid Efficiency Table written to ' + file_path[:len(file_path) - 3] + '.gp')
-        #print('')
-
-
-def print_mod_factors_csv(mod_factors, hybrid_factors, trace_list, trace_processes):
-    """Prints the model factors table in a csv file."""
-    global mod_factors_doc, mod_hybrid_factors_doc
-
-    delimiter = ';'
-    # File is stored in the trace directory
-    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
-    # File is stored in the execution directory
-    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
-
-    with open(file_path, 'w') as output:
-        line = "\"Number of processes\""
-        for trace in trace_list:
-            line += delimiter
-            line += str(trace_processes[trace])
-        output.write(line + '\n')
-
-        for mod_key in mod_factors_doc:
-            line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    line += '{0:.6f}'.format(mod_factors[mod_key][trace])
-                except ValueError:
-                    line += '{}'.format(mod_factors[mod_key][trace])
-            output.write(line + '\n')
-
-        for mod_key in mod_hybrid_factors_doc:
-            line = "\"" + mod_hybrid_factors_doc[mod_key].replace('  ', '', 2) + "\""
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    line += '{0:.6f}'.format(hybrid_factors[mod_key][trace])
-                except ValueError:
-                    line += '{}'.format(hybrid_factors[mod_key][trace])
-            output.write(line + '\n')
-
-        output.write('#\n')
-
-    print('======== Output Files: Metrics and Plots  ========')
-    print('Model factors written to ' + file_path)
-
-
-def print_other_metrics_csv(other_metrics, trace_list, trace_processes):
-    """Prints the model factors table in a csv file."""
-    global other_metrics_doc
-
-    delimiter = ';'
-    # File is stored in the trace directory
-    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
-    # File is stored in the execution directory
-    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
-
-    with open(file_path, 'w') as output:
-        line = 'Number of processes'
-        for trace in trace_list:
-            line += delimiter
-            line += str(trace_processes[trace])
-        output.write(line + '\n')
-
-        for mod_key in other_metrics_doc:
-            line = other_metrics_doc[mod_key].replace('  ', '', 2)
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    line += '{0:.6f}'.format(other_metrics[mod_key][trace])
-                except ValueError:
-                    line += '{}'.format(other_metrics[mod_key][trace])
-            output.write(line + '\n')
-
-        output.write('#\n')
-
-    print('')
-    print('======== Output File: Other Metrics ========')
-    print('Speedup, IPC, Frequency, I/O and Flushing written to ' + file_path)
-
-
-def plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
-    # Plotting using python
-    # For plotting using python, read the csv file
-
-    file_path = os.path.join(os.getcwd(), 'efficiency_table-hybrid.csv')
-    df = pd.read_csv(file_path)
-    metrics = df['Number of processes'].tolist()
-
-    traces_procs = list(df.keys())[1:]
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list)-1]])
-
-    limit_min = trace_processes[trace_list[0]]
-
-    # To xticks label
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if int(limit) == int(limit_min) and same_procs:
-            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
-        else:
-            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
-        if s_xtics in label_xtics:
-            s_xtics += '[' + str(index + 1) + ']'
-        label_xtics.append(s_xtics)
-    ##### End xticks
-
-    # BEGIN To adjust header to big number of processes
-    max_len_header = 7
-    for labelx in label_xtics:
-        if len(labelx) > max_len_header:
-            max_len_header = len(labelx)
-
-    # END To adjust header to big number of processes
-
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if float(value) == 0.0:
-                list_temp.append(np.nan)
-            else:
-                list_temp.append(float(value))
-        # print(list_temp)
-        list_data.append(list_temp)
-
-    list_np = np.array(list_data)
-
-    idx = metrics
-    cols = label_xtics
-    # cols = traces_procs
-    df = pd.DataFrame(list_np, index=idx, columns=cols)
-
-    # min for 1 trace is x=3 for the (x,y) in figsize
-    size_figure_y = len(idx) * 0.40
-    size_figure_x = len(cols) * 0.14 * max_len_header
-    plt.figure(figsize=(size_figure_x, size_figure_y))
-
-    ax = sns.heatmap(df, cmap='RdYlGn', linewidths=0.05, annot=True, vmin=0, vmax=100, center=75, \
-                     fmt='.2f', annot_kws={"size": 10}, cbar_kws={'label': 'Percentage(%)'})
-    ## to align ylabels to left
-    plt.yticks(rotation=0, ha='left')
-
-    ax.xaxis.tick_top()
-    # to adjust metrics
-    len_pad = 0
-    for metric in metrics:
-        if len(metric) > len_pad:
-            len_pad = len(metric)
-
-    ax.yaxis.set_tick_params(pad=len_pad + 164)
-
-    plt.savefig('efficiency_table-hybrid-matplot.png', bbox_inches='tight')
-
-    # General Metrics plot
-
-    file_path = os.path.join(os.getcwd(), 'efficiency_table-global.csv')
-    df = pd.read_csv(file_path)
-    metrics = df['Number of processes'].tolist()
-
-    traces_procs = list(df.keys())[1:]
-
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if float(value) == 0.0:
-                list_temp.append(np.nan)
-            else:
-                list_temp.append(float(value))
-        # print(list_temp)
-        list_data.append(list_temp)
-
-    list_np = np.array(list_data)
-
-    idx = metrics
-    cols = label_xtics
-    # cols = traces_procs
-    df = pd.DataFrame(list_np, index=idx, columns=cols)
-
-    # min for 1 traces is x=3 for the (x,y) in figsize
-    size_figure_y = len(idx) * 0.40
-    size_figure_x = len(cols) * 0.14 * max_len_header
-    plt.figure(figsize=(size_figure_x, size_figure_y))
-
-    ax = sns.heatmap(df, cmap='RdYlGn', linewidths=0.05, annot=True, vmin=0, vmax=100, center=75, \
-                     fmt='.2f', annot_kws={"size": 10}, cbar_kws={'label': 'Percentage(%)'})
-    ## to align ylabels to left
-    plt.yticks(rotation=0, ha='left')
-    ax.xaxis.tick_top()
-    # to adjust metrics
-    len_pad = 0
-    for metric in metrics:
-        if len(metric) > len_pad:
-            len_pad = len(metric)
-
-    ax.yaxis.set_tick_params(pad=len_pad + 140)
-
-    plt.savefig('efficiency_table-global-matplot.png', bbox_inches='tight')
-
-
-def plots_modelfactors_matplot(trace_list, trace_processes,trace_tasks, trace_threads, cmdl_args):
-    # Plotting using python
-    # For plotting using python, read the csv file
-    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
-    df = pd.read_csv(file_path, sep=';')
-
-    traces_procs = list(df.keys())[1:]
-
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if value != 'Non-Avail' and value != 'Warning!':
-                list_temp.append(float(value))
-            elif value == 'Non-Avail' or value == 'Warning!':
-                list_temp.append('NaN')
-        # print(list_temp)
-        list_data.append(list_temp)
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list)-1]])
-
-    limit_min = trace_processes[trace_list[0]]
-
-    # To xticks label
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if int(limit) == int(limit_min) and same_procs:
-            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
-        else:
-            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
-        if s_xtics in label_xtics:
-            s_xtics += '[' + str(index + 1) + ']'
-        label_xtics.append(s_xtics)
-
-    ## Global Metrics
-    plt.figure()
-    max_global = max([max(list_data[0]), max(list_data[1]), max(list_data[2]),
-                      max(list_data[3]), max(list_data[4])])
-    plt.plot(traces_procs, list_data[0], 'o-', color='black', label='Global Efficiency')
-    plt.plot(traces_procs, list_data[1], 's--', color='magenta', label='Parallel Efficiency')
-    plt.plot(traces_procs, list_data[2], '*:', color='red', label='Load Balance')
-    plt.plot(traces_procs, list_data[3], 'x-.', color='green', label='Communication efficiency')
-    plt.plot(traces_procs, list_data[4], 'v--', color='blue', label='Computation scalability')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency (%)")
-    plt.xticks(tuple(traces_procs), tuple(label_xtics))
-    # print(max_global)
-    if float(max_global) < 100:
-        max_global = 100
-
-    plt.ylim(0, max_global+5)
-    plt.legend()
-    plt.savefig('modelfactors-global-matplot.png', bbox_inches='tight')
-
-    ## Scale Metrics
-    plt.figure()
-    max_scale = max([max(list_data[4]), max(list_data[5]), max(list_data[6]), max(list_data[7])])
-    plt.plot(traces_procs, list_data[4], 'v-', color='blue', markerfacecolor='blue', label='Computation scalability')
-    plt.plot(traces_procs, list_data[5], 'v--', color='skyblue', label='IPC scalability')
-    plt.plot(traces_procs, list_data[6], 'v:', color='gray', label='Instruction scalability')
-    plt.plot(traces_procs, list_data[7], 'v-.', color='darkviolet', label='Frequency scalability')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency (%)")
-    plt.xticks(tuple(traces_procs), tuple(label_xtics))
-    if float(max_scale) < 100:
-        max_scale = 100
-
-    plt.ylim(0, max_scale+5)
-    plt.legend()
-    plt.savefig('modelfactors-scale-matplot.png', bbox_inches='tight')
-
-    ## Hybrid Metrics
-
-    plt.figure()
-    max_hybrid = max([max(list_data[8]), max(list_data[9]), max(list_data[10]), max(list_data[11]),
-                     max(list_data[14]), max(list_data[15]), max(list_data[16])])
-    plt.plot(traces_procs, list_data[8], 's-', color='purple', label='Hybrid Parallel efficiency')
-    plt.plot(traces_procs, list_data[9], 'o--', color='green', label='MPI Parallel efficiency')
-    plt.plot(traces_procs, list_data[10], 'x-.', color='lime', label='MPI Load balance')
-    plt.plot(traces_procs, list_data[11], '*:', color='lightseagreen', label='MPI Communication efficiency')
-    plt.plot(traces_procs, list_data[14], 'h--', color='red', label='OpenMP Parallel efficiency')
-    plt.plot(traces_procs, list_data[15], 'v-.', color='orange', label='OpenMP Load Balance')
-    plt.plot(traces_procs, list_data[16], 'X:', color='salmon', label='OpenMP Communication efficiency')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency (%)")
-    plt.xticks(tuple(traces_procs), tuple(label_xtics))
-    if float(max_hybrid) < 100:
-        max_hybrid = 100
-
-    plt.ylim(0, max_hybrid+5)
-    plt.legend()
-    plt.savefig('modelfactors-hybrid-matplot.png', bbox_inches='tight')
-
-    ## MPI Metrics
-    plt.figure()
-    if max(list_data[12]) != 'NaN' and max(list_data[13]) != 'NaN':
-        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11]),
-                       max(list_data[12]), max(list_data[13])])
-        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
-        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
-        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
-        plt.plot(traces_procs, list_data[12], linestyle=(0, (3, 10, 1, 10)), marker='s', color='gold',
-                 label='Serialization efficiency')
-        plt.plot(traces_procs, list_data[13], linestyle=(0, (3, 5, 1, 5)), marker='x', color='tomato', label='Transfer efficiency')
-    elif max(list_data[12]) == 'NaN' and max(list_data[13]) == 'NaN':
-        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11])])
-        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
-        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
-        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
-    elif max(list_data[12]) != 'NaN' and max(list_data[13]) == 'NaN':
-        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11]),
-                       max(list_data[12])])
-        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
-        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
-        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
-        plt.plot(traces_procs, list_data[12], linestyle=(0, (3, 10, 1, 10)), marker='s', color='gold', label='Serialization efficiency')
-    else:
-        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11]),max(list_data[13])])
-        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
-        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
-        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
-        plt.plot(traces_procs, list_data[13], linestyle=(0, (3, 5, 1, 5)), marker='x', color='tomato', label='Transfer efficiency')
-
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency (%)")
-    plt.xticks(tuple(traces_procs), tuple(label_xtics))
-    if float(max_mpi) < 100:
-        max_mpi = 100
-
-    plt.ylim(0, max_mpi+5)
-    plt.legend()
-    plt.savefig('modelfactors-mpi-matplot.png', bbox_inches='tight')
-
-
-def plots_speedup_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
-    # Plotting using python
-    # For plotting using python, read the csv file
-    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
-    df = pd.read_csv(file_path, sep=';')
-
-    traces_procs = list(df.keys())[1:]
-
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if value != 'Non-Avail':
-                list_temp.append(float(value))
-            elif value == 'Non-Avail':
-                list_temp.append('NaN')
-        # print(list_temp)
-        list_data.append(list_temp)
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list) - 1]])
-
-    limit_min = trace_processes[trace_list[0]]
-
-    # proc_ratio to ideal speedup
-    proc_ratio = []
-    for index, trace in enumerate(trace_list):
-        proc_ratio.append(trace_processes[trace]/trace_processes[trace_list[0]])
-    # print(proc_ratio)
-
-    # To xticks label
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if int(limit) == int(limit_min) and same_procs:
-            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
-        elif int(limit) == int(limit_min) and not same_procs:
-            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' \
-                          + str(threads) + ')'
-        else:
-            s_xtics = str(trace_processes[trace])
-        label_xtics.append(s_xtics)
-
-    int_traces_procs = []
-    prev_procs = int(float(traces_procs[0]))
-    int_traces_procs.append(int(float(traces_procs[0])))
-    count_rep = 0
-    for procs in traces_procs[1:]:
-        if prev_procs == int(float(procs)):
-            count_rep += 1
-            int_traces_procs.append(int(float(procs))+ (2*count_rep))
-            prev_procs = int(float(procs))
-        else:
-            int_traces_procs.append(int(float(procs)))
-            prev_procs = int(float(procs))
-            count_rep = 0
-
-    ### Plot: Global Metrics
-    plt.figure()
-    for x, y in zip(int_traces_procs, list_data[2]):
-        label = "{:.2f}".format(y)
-        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
-
-    plt.plot(int_traces_procs, list_data[2], 'o-', color='blue', label='measured')
-    plt.plot(int_traces_procs, proc_ratio, 'o-', color='black', label='ideal')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("SpeedUp")
-    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
-    #plt.yscale('log')
-    plt.legend()
-    #plt.xlim(0, )
-    plt.ylim(0, )
-    plt.savefig('speedup-matplot.png', bbox_inches='tight')
-
-    ### Plot: Efficiency
-    # print(list_data)
-    plt.figure()
-    for x, y in zip(int_traces_procs, list_data[1]):
-        label = "{:.2f}".format(y)
-        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
-
-    plt.plot(int_traces_procs, list_data[1], 'o-', color='blue', label='measured')
-    plt.axhline(y=1, color='black', linestyle='-', label='ideal')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency")
-    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
-    # plt.yscale('log')
-    max_y = max(list_data[1])
-    if max_y < 1.1:
-        max_y = 1.0
-    #plt.xlim(0, )
-    plt.ylim(0,max_y+0.1)
-    plt.legend()
-    plt.savefig('efficiency-matplot.png', bbox_inches='tight')
\ No newline at end of file
diff --git a/modelfactors.py b/modelfactors.py
deleted file mode 100755
index 4eb5c6b..0000000
--- a/modelfactors.py
+++ /dev/null
@@ -1,192 +0,0 @@
-#!/usr/bin/env python3
-
-"""modelfactors.py Generates performance metrics from a set of Paraver traces."""
-
-from __future__ import print_function, division
-import subprocess
-import plots
-from utils import parse_arguments, check_installation
-from tracemetadata import get_traces_from_args
-from rawdata import gather_raw_data, print_raw_data_table, print_raw_data_csv
-from simplemetrics import compute_model_factors, print_mod_factors_csv, print_efficiency_table, \
-    print_mod_factors_table, read_mod_factors_csv, print_other_metrics_table, \
-    print_other_metrics_csv, plots_efficiency_table_matplot, plots_modelfactors_matplot, plots_speedup_matplot
-
-import hybridmetrics
-
-# error import variables
-error_import_pandas = False
-error_import_seaborn = False
-error_import_matplotlib = False
-error_import_scipy = False
-error_import_numpy = False
-
-try:
-    import pandas as pd
-except ImportError:
-    error_import_pandas = True
-
-try:
-    import seaborn as sns
-except ImportError:
-    error_import_seaborn = True
-
-try:
-    import matplotlib
-    matplotlib.use('pdf')
-    import matplotlib.pyplot as plt00
-except ImportError:
-    error_import_matplotlib = True
-
-try:
-    import scipy.optimize
-except ImportError:
-    error_import_scipy = True
-
-
-try:
-    import numpy
-except ImportError:
-    error_import_numpy = True
-
-
-__author__ = "Sandra Mendez"
-__copyright__ = "Copyright 2019, Barcelona Supercomputing Center (BSC)"
-__version_major__ = 0
-__version_minor__ = 3
-__version_micro__ = 7
-__version__ = str(__version_major__) + "." + str(__version_minor__) + "." + str(__version_micro__)
-
-
-if __name__ == "__main__":
-    """Main control flow.
-    Currently the script only accepts one parameter, which is a list of traces
-    that are processed. This can be a regex with wild cards and only valid trace
-    files are kept at the end.
-    """
-    # Parse command line arguments
-    cmdl_args = parse_arguments()
-
-    # Check if paramedir and Dimemas are in the path
-    check_installation(cmdl_args)
-
-    # Process the trace list
-    trace_list, trace_processes, trace_tasks, trace_threads, trace_task_per_node, trace_mode = \
-        get_traces_from_args(cmdl_args)
-
-    # To validate the metric type
-    trace_metrics = 0
-    # print(trace_mode)
-    for trace in trace_list:
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace][:15] == 'Detailed+OpenMP' \
-                or trace_mode[trace][:17] == 'Detailed+Pthreads' or trace_mode[trace][:13] == 'Detailed+CUDA' \
-                or trace_mode[trace][:14] == 'Detailed+OmpSs' or trace_mode[trace][:15] == 'Detailed+OpenCL' \
-                or trace_mode[trace] == 'Detailed' or trace_mode[trace][:5] == 'Burst':
-            trace_metrics += 1
-
-    # Analyze the traces and gather the raw input data
-    raw_data, list_mpi_procs_count = gather_raw_data(trace_list, trace_processes, trace_task_per_node,
-                                                     trace_mode, cmdl_args)
-    print_raw_data_csv(raw_data, trace_list, trace_processes)
-
-    # Compute the model factors and print them
-
-    if cmdl_args.metrics == 'hybrid' and trace_metrics == 0:
-        mod_factors, mod_factors_scale_plus_io, hybrid_factors, other_metrics = \
-                hybridmetrics.compute_model_factors(raw_data, trace_list, trace_processes,
-                                                    trace_mode, list_mpi_procs_count, cmdl_args)
-        hybridmetrics.print_other_metrics_table(other_metrics, trace_list, trace_processes, trace_tasks, trace_threads)
-        hybridmetrics.print_other_metrics_csv(other_metrics, trace_list, trace_processes)
-        hybridmetrics.print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, hybrid_factors,
-                                              trace_list, trace_processes, trace_tasks, trace_threads, trace_mode)
-        hybridmetrics.print_mod_factors_csv(mod_factors, hybrid_factors, trace_list, trace_processes)
-        hybridmetrics.print_efficiency_table(mod_factors, hybrid_factors, trace_list, trace_processes, trace_tasks,
-                                             trace_threads)
-        # Plotting efficiency table with matplotlib
-        error_plot_table = False
-        if error_import_numpy or error_import_pandas or error_import_matplotlib or error_import_seaborn:
-            print('Numpy/Pandas/Matplotlib/Seaborn modules not available. '
-                  'Skipping efficiency table plotting with python.')
-            if len(trace_list) > 1:
-                out_ver_gnuplot = subprocess.check_output(["gnuplot", "--version"])
-                if 'gnuplot 5.' not in str(out_ver_gnuplot):
-                    print('It requires gnuplot version 5.0 or higher. '
-                          'Skipping efficiency table and lineal plotting with gnuplot.')
-                else:
-                    try:
-                        output_gnuplot_g = subprocess.check_output(["gnuplot", "efficiency_table_global.gp"])
-                        output_gnuplot_h = subprocess.check_output(["gnuplot", "efficiency_table-hybrid.gp"])
-                    except:
-                        print(output_gnuplot_g)
-                        print(output_gnuplot_h)
-            error_plot_table = True
-
-        if not error_plot_table:
-            hybridmetrics.plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks,
-                                                         trace_threads, cmdl_args)
-            if len(trace_list) > 1:
-                hybridmetrics.plots_modelfactors_matplot(trace_list, trace_processes, trace_tasks,
-                                                         trace_threads, cmdl_args)
-                hybridmetrics.plots_speedup_matplot(trace_list, trace_processes, trace_tasks,
-                                                    trace_threads, cmdl_args)
-
-        # Plotting if SciPy and NumPy are installed.
-        error_plot_lineal = False
-        if error_import_numpy or error_import_scipy:
-            print('Scipy/NumPy module not available. Skipping lineal plotting.')
-            error_plot_lineal = True
-
-        if not error_plot_lineal:
-            if len(trace_list) > 1:
-                plots.plot_hybrid_metrics(mod_factors, hybrid_factors, trace_list, trace_processes,
-                                          trace_tasks, trace_threads, trace_mode, cmdl_args)
-
-        if len(trace_list) == 1:
-            subprocess.check_output(["rm", "efficiency_table_global.gp"])
-            subprocess.check_output(["rm", "efficiency_table-hybrid.gp"])
-
-    elif cmdl_args.metrics == 'simple' or trace_metrics > 0:
-        mod_factors, mod_factors_scale_plus_io, other_metrics = compute_model_factors(raw_data, trace_list,
-                                                                                      trace_processes, trace_mode,
-                                                                                      list_mpi_procs_count, cmdl_args)
-        print_other_metrics_table(other_metrics, trace_list, trace_processes)
-        print_other_metrics_csv(other_metrics, trace_list, trace_processes)
-        print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, trace_list, trace_processes)
-        print_mod_factors_csv(mod_factors, trace_list, trace_processes)
-        print_efficiency_table(mod_factors, trace_list, trace_processes)
-
-        # Plotting efficiency table with matplotlib
-        error_plot_table = False
-        if error_import_numpy or error_import_pandas or error_import_matplotlib or error_import_seaborn:
-            print('Numpy/Pandas/Matplotlib/Seaborn modules not available. '
-                  'Skipping efficiency table plotting with python.')
-            if len(trace_list) > 1:
-                out_ver_gnuplot = subprocess.check_output(["gnuplot", "--version"])
-                if 'gnuplot 5.' not in str(out_ver_gnuplot):
-                    print('It requires gnuplot version 5.0 or higher. '
-                          'Skipping efficiency table and lineal plotting with gnuplot.')
-                else:
-                    try:
-                        output_gnuplot = subprocess.check_output(["gnuplot", "efficiency_table.gp"])
-                    except:
-                        print(output_gnuplot)
-            error_plot_table = True
-
-        if not error_plot_table:
-            plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args)
-            if len(trace_list) > 1:
-                plots_modelfactors_matplot(trace_list, trace_mode, trace_processes, trace_tasks, trace_threads,
-                                           cmdl_args)
-
-        # Plotting if SciPy and NumPy are installed.
-        error_plot_lineal = False
-        if error_import_numpy or error_import_scipy:
-            print('Scipy/NumPy module not available. Skipping lineal plotting.')
-            error_plot_lineal = True
-        # sys.exit(1)
-        if not error_plot_lineal:
-            if len(trace_list) > 1:
-                plots.plot_simple_metrics(mod_factors, trace_list, trace_processes, trace_mode, cmdl_args)
-                plots_speedup_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args)
-        if len(trace_list) == 1:
-            subprocess.check_output(["rm", "efficiency_table.gp"])
diff --git a/plots.py b/plots.py
deleted file mode 100644
index 0e28cf1..0000000
--- a/plots.py
+++ /dev/null
@@ -1,738 +0,0 @@
-#!/usr/bin/env python3
-
-"""Functions to plots efficiencies metrics"""
-
-from __future__ import print_function, division
-import os
-from collections import OrderedDict
-
-# error import variables
-error_import_scipy = False
-error_import_numpy = False
-
-try:
-    import scipy.optimize
-except ImportError:
-    error_import_scipy = True
-    # print('==ERROR== Could not import SciPy. Please make sure to install a current version.')
-
-try:
-    import numpy
-except ImportError:
-    error_import_numpy = True
-    # print('==ERROR== Could not import NumPy. Please make sure to install a current version.')
-
-
-mod_hybrid_factors_doc = OrderedDict([
-                               ('hybrid_eff', '-- Hybrid Parallel efficiency'),
-                               ('mpi_parallel_eff', '   -- MPI Parallel efficiency'),
-                               ('mpi_load_balance', '      -- MPI Load balance'),
-                               ('mpi_comm_eff', '      -- MPI Communication efficiency'),
-                               ('serial_eff', '         -- Serialization efficiency'),
-                               ('transfer_eff', '         -- Transfer efficiency'),
-                               ('omp_parallel_eff', '   -- OMP Parallel efficiency'),
-                               ('omp_load_balance', '      -- OMP Load balance'),
-                               ('omp_comm_eff', '      -- OMP Communication efficiency')])
-
-
-def plot_hybrid_metrics(mod_factors, hybrid_factors, trace_list, trace_processes, trace_tasks, trace_threads, trace_mode, cmdl_args):
-    """Computes the projection from the gathered model factors and returns the
-    according dictionary of fitted prediction functions."""
-
-    global mod_hybrid_factors_doc
-
-    # Update the hybrid parallelism mode
-    trace_mode_doc = trace_mode[trace_list[0]]
-    if trace_mode_doc[0:len("Detailed+MPI+")] == "Detailed+MPI+":
-        mod_hybrid_factors_doc['omp_parallel_eff'] = "   -- " + \
-                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Parallel efficiency"
-        mod_hybrid_factors_doc['omp_load_balance'] = "      -- " + \
-                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Load Balance"
-        mod_hybrid_factors_doc['omp_comm_eff'] = "      -- " + \
-                                                 trace_mode_doc[len("Detailed+MPI+"):] + " Communication efficiency"
-
-    if cmdl_args.debug:
-        print('==DEBUG== Computing projection of model factors.')
-
-    number_traces = len(trace_list)
-    x_proc = numpy.zeros(number_traces)
-    y_para = numpy.zeros(number_traces)
-    y_load = numpy.zeros(number_traces)
-    y_comm = numpy.zeros(number_traces)
-    y_comp = numpy.zeros(number_traces)
-    y_glob = numpy.zeros(number_traces)
-    y_ipc_scale = numpy.zeros(number_traces)
-    y_inst_scale = numpy.zeros(number_traces)
-    y_freq_scale = numpy.zeros(number_traces)
-    y_hybrid_par = numpy.zeros(number_traces)
-    y_mpi_par = numpy.zeros(number_traces)
-    y_mpi_load = numpy.zeros(number_traces)
-    y_mpi_comm = numpy.zeros(number_traces)
-    y_comm_serial = numpy.zeros(number_traces)
-    y_comm_transfer = numpy.zeros(number_traces)
-    y_omp_par = numpy.zeros(number_traces)
-    y_omp_load = numpy.zeros(number_traces)
-    y_omp_comm = numpy.zeros(number_traces)
-
-    #Convert dictionaries to NumPy arrays
-    for index, trace in enumerate(trace_list):
-        x_proc[index] = trace_processes[trace]
-        y_para[index] = mod_factors['parallel_eff'][trace]
-        y_load[index] = mod_factors['load_balance'][trace]
-        y_comm[index] = mod_factors['comm_eff'][trace]
-        y_comp[index] = mod_factors['comp_scale'][trace]
-        y_glob[index] = mod_factors['global_eff'][trace]
-        y_ipc_scale[index] = mod_factors['ipc_scale'][trace]
-        y_inst_scale[index] = mod_factors['inst_scale'][trace]
-        y_freq_scale[index] = mod_factors['freq_scale'][trace]
-        y_hybrid_par[index] = hybrid_factors['hybrid_eff'][trace]
-        y_mpi_par[index] = hybrid_factors['mpi_parallel_eff'][trace]
-        y_mpi_load[index] = hybrid_factors['mpi_load_balance'][trace]
-        y_mpi_comm[index] = hybrid_factors['mpi_comm_eff'][trace]
-        if trace_mode[trace] == 'Detailed+MPI' \
-                or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            if hybrid_factors['serial_eff'][trace] != 'Non-Avail' and hybrid_factors['serial_eff'][trace] != 'Warning!':
-                y_comm_serial[index] = hybrid_factors['serial_eff'][trace]
-            else:
-                y_comm_serial[index] = 0.0
-            if hybrid_factors['transfer_eff'][trace] != 'Non-Avail' \
-                    and hybrid_factors['transfer_eff'][trace] != 'Warning!':
-                y_comm_transfer[index] = hybrid_factors['transfer_eff'][trace]
-            else:
-                y_comm_transfer[index] = 0.0
-        else:
-            y_comm_serial[index] = 0.0
-            y_comm_transfer[index] = 0.0
-        y_omp_par[index] = hybrid_factors['omp_parallel_eff'][trace]
-        y_omp_load[index] = hybrid_factors['omp_load_balance'][trace]
-        y_omp_comm[index] = hybrid_factors['omp_comm_eff'][trace]
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list)-1]])
-
-    limit_min = str(int(x_proc[0]))
-    # limit_min = str(0)
-    # To extract the trace name to show in the plots
-    title_string = ""
-    for index, trace in enumerate(trace_list):
-        folder_trace_name = trace.split('/')
-        trace_name_to_show = folder_trace_name[len(folder_trace_name) - 1]
-        title_string += '(' + str(index+1) + ') ' + trace_name_to_show + "\\" + 'n'
-
-    title_string += '"' + " noenhanced"
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Create Gnuplot file for main plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-onlydata.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    # Replace xrange
-    if int(limit) == int(limit_min):
-        limit_plot = int(limit_min) + 5 * (len(trace_list) - 1)
-    else:
-        limit_plot = int(limit)
-
-    # To xticks label
-    label_xtics = 'set xtics ('
-    glabel_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
-        if int(limit) == int(limit_min) and same_procs:
-            proc_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')' \
-                         + '[' + str(index + 1) + ']'
-            real_procs = str(trace_processes[trace] + index * 5)
-        elif int(limit) == int(limit_min) and not same_procs:
-            proc_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
-            real_procs = str(trace_processes[trace] + index * 5)
-            if s_xtics in glabel_xtics:
-                proc_xtics += '[' + str(index + 1) + ']'
-            glabel_xtics.append(s_xtics)
-        else:
-            proc_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
-            real_procs = str(trace_processes[trace])
-            if s_xtics in glabel_xtics:
-                proc_xtics += '[' + str(index + 1) + ']'
-            glabel_xtics.append(s_xtics)
-
-        label_xtics += '"' + proc_xtics + '" ' + real_procs + ', '
-
-    content = [line.replace('#REPLACE_BY_XRANGE', ''
-                            .join(['set xrange [', str(limit_min), ':', str(limit_plot), ']'])) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2] + ') '])) for
-               line in content]
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-
-    max_global = max([max(y_para), max(y_load), max(y_comm), max(y_comp), max(y_glob)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_global+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    # Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index] + index * 5), str(y_para[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_para[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index] + index * 5), str(y_load[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_load[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index] + index * 5), str(y_comm[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comm[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index] + index * 5), str(y_comp[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index] + index * 5), str(y_glob[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_glob[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    # print('========= Plot (gnuplot File): EFFICIENCY METRICS ==========')
-    print('Efficiency metrics plot written to ' + file_path)
-    # print('')
-
-    # Create Gnuplot file for scalability plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-scale.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    # Replace xrange
-    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
-               line in content]
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-
-    max_comp = max([max(y_comp), max(y_ipc_scale), max(y_inst_scale), max(y_freq_scale)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_comp+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors-scale.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    # Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_comp[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_ipc_scale[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_ipc_scale[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_inst_scale[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_inst_scale[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_freq_scale[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_freq_scale[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    # print('========  Plot (gnuplot File): SCALABILITY METRICS ========')
-    print('Scalability metrics plot written to ' + file_path)
-
-    # Create Gnuplot file for hybrid metrics plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-hybrid.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    # Replace xrange
-    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
-               line in content]
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-
-    string_omp ="      '-' with linespoints title "  + '"' + (mod_hybrid_factors_doc['omp_parallel_eff'])[5:] + '"' + " ls 5,\\"
-    content = [line.replace('#REPLACE_BY_OMP_PAR_EFF', ''.join([string_omp])) for line in content]
-
-    string_omp = "      '-' with linespoints title " + '"' + (mod_hybrid_factors_doc['omp_load_balance'])[9:] + '"' + " ls 6,\\"
-    content = [line.replace('#REPLACE_BY_OMP_LB', ''.join([string_omp])) for line in content]
-    
-    string_omp = "      '-' with linespoints title " + '"' + (mod_hybrid_factors_doc['omp_comm_eff'])[9:] + '"' + " ls 7"
-    content = [line.replace('#REPLACE_BY_OMP_COMM', ''.join([string_omp])) for line in content]
-
-    max_hybrid = max([max(y_hybrid_par), max(y_mpi_par), max(y_mpi_comm), max(y_mpi_load),
-                      max(y_omp_par), max(y_omp_comm), max(y_omp_load)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_hybrid+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors-hybrid.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    # Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_hybrid_par[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_hybrid_par[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_par[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_mpi_par[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_load[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_mpi_load[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_comm[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_mpi_comm[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_omp_par[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_omp_par[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_omp_load[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_omp_load[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_omp_comm[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_omp_comm[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    print('Hybrid metrics plot written to ' + file_path)
-
-    # Create Gnuplot file for MPI hybrid metrics plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-mpi-hybrid.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    # Replace xrange
-    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
-               line in content]
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-
-    max_mpi = max([max(y_mpi_par), max(y_mpi_comm), max(y_mpi_load),
-                      max(y_comm_serial), max(y_comm_transfer)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_mpi+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors-mpi-hybrid.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    # Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_par[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_mpi_par[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_load[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_mpi_load[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_comm[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_mpi_comm[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-        
-        for index in range(0, number_traces):
-            if str(y_comm_serial[index]) != 0.0:
-                if int(limit) == int(limit_min):
-                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_serial[index]), '\n'])
-                else:
-                    line = ' '.join([str(x_proc[index]), str(y_comm_serial[index]), '\n'])
-                f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if str(y_comm_transfer[index]) != 0.0:
-                if int(limit) == int(limit_min):
-                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_transfer[index]), '\n'])
-                else:
-                    line = ' '.join([str(x_proc[index]), str(y_comm_transfer[index]), '\n'])
-                f.write(line)
-        f.write('e\n')
-
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    print('MPI hybrid metrics plot written to ' + file_path)
-
-
-def plot_simple_metrics(mod_factors, trace_list, trace_processes, trace_mode, cmdl_args):
-    """Computes the projection from the gathered model factors and returns the
-    according dictionary of fitted prediction functions."""
-
-    if cmdl_args.debug:
-        print('==DEBUG== Computing projection of model factors.')
-
-    number_traces = len(trace_list)
-    x_proc = numpy.zeros(number_traces)
-    y_para = numpy.zeros(number_traces)
-    y_load = numpy.zeros(number_traces)
-    y_comm = numpy.zeros(number_traces)
-    y_comp = numpy.zeros(number_traces)
-    y_glob = numpy.zeros(number_traces)
-    y_comm_serial = numpy.zeros(number_traces)
-    y_comm_transfer = numpy.zeros(number_traces)
-    y_ipc_scale = numpy.zeros(number_traces)
-    y_inst_scale = numpy.zeros(number_traces)
-    y_freq_scale = numpy.zeros(number_traces)
-
-    #Convert dictionaries to NumPy arrays
-    for index, trace in enumerate(trace_list):
-        x_proc[index] = trace_processes[trace]
-        y_para[index] = mod_factors['parallel_eff'][trace]
-        y_load[index] = mod_factors['load_balance'][trace]
-        y_comm[index] = mod_factors['comm_eff'][trace]
-        y_comp[index] = mod_factors['comp_scale'][trace]
-        y_glob[index] = mod_factors['global_eff'][trace]
-        if trace_mode[trace][:5] != 'Burst':
-            y_ipc_scale[index] = mod_factors['ipc_scale'][trace]
-            y_inst_scale[index] = mod_factors['inst_scale'][trace]
-            y_freq_scale[index] = mod_factors['freq_scale'][trace]
-        else:
-            y_ipc_scale[index] = 0.0
-            y_inst_scale[index] = 0.0
-            y_freq_scale[index] = 0.0
-        if trace_mode[trace] == 'Detailed+MPI':
-            if mod_factors['serial_eff'][trace] != 'Warning!':
-                y_comm_serial[index] = mod_factors['serial_eff'][trace]
-            else:
-                y_comm_serial[index] = 0.0
-            if mod_factors['transfer_eff'][trace] != 'Warning!':
-                y_comm_transfer[index] = mod_factors['transfer_eff'][trace]
-            else:
-                y_comm_transfer[index] = 0.0
-        else:
-            y_comm_serial[index] = 0.0
-            y_comm_transfer[index] = 0.0
-
-    #Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list) - 1]])
-
-    limit_min = str(int(x_proc[0]))
-    # limit_min = str(0)
-    # To extract the trace name to show in the plots
-    title_string = ""
-    for index, trace in enumerate(trace_list):
-        folder_trace_name = trace.split('/')
-        trace_name_to_show = folder_trace_name[len(folder_trace_name) - 1]
-        title_string += '(' + str(index+1) + ') ' + trace_name_to_show + "\\" + 'n'
-    title_string += '"' + " noenhanced"
-
-    #Create Gnuplot file for main plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-onlydata.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    #Replace xrange
-    if int(limit) == int(limit_min):
-        limit_plot = int(limit_min) + 5 * (len(trace_list) - 1 )
-    else:
-        limit_plot = int(limit)
-
-    # To xticks label
-    label_xtics = 'set xtics ('
-    for index, trace in enumerate(trace_list):
-
-        if int(limit) == int(limit_min):
-            label_xtics += '"' + str(trace_processes[trace]) + '[' + str(index + 1) + ']' + '" ' \
-                           + str(trace_processes[trace] + index * 5) + ', '
-        else:
-            label_xtics += '"' + str(trace_processes[trace]) + '" ' + str(trace_processes[trace]) + ', '
-
-    content = [line.replace('#REPLACE_BY_XRANGE', ''
-                            .join(['set xrange [',limit_min,':', str(limit_plot),']'])) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2] + ') '])) for
-               line in content]
-
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-
-    max_global = max([max(y_para), max(y_load), max(y_comm), max(y_comp), max(y_glob)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_global+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    #Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_para[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_para[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_load[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_load[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_comm[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comm[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_comp[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_glob[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_glob[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    # print('========= Plot (gnuplot File): EFFICIENCY METRICS ==========')
-    print('Efficiency metrics plot written to ' + file_path)
-    # print('')
-
-    # Create Gnuplot file for communication plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-comm.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    # Replace xrange
-    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
-               line in content]
-
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-
-    max_comm = max([max(y_comm), max(y_comm_serial), max(y_comm_transfer)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_comm+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors-comm.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    # Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_comm[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comm[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if str(y_comm_serial[index]) != 0.0:
-                if int(limit) == int(limit_min):
-                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_serial[index]), '\n'])
-                else:
-                    line = ' '.join([str(x_proc[index]), str(y_comm_serial[index]), '\n'])
-                f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if str(y_comm_transfer[index]) != 0.0:
-                if int(limit) == int(limit_min):
-                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_transfer[index]), '\n'])
-                else:
-                    line = ' '.join([str(x_proc[index]), str(y_comm_transfer[index]), '\n'])
-                f.write(line)
-        f.write('e\n')
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    # print('======= Plot (gnuplot File): COMMUNICATION METRICS ========')
-    print('Communication Efficiency plot written to ' + file_path)
-    # print('')
-
-    # Create Gnuplot file for scalability plot
-    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-scale.gp')
-    content = []
-    with open(gp_template) as f:
-        content = f.readlines()
-
-    # Replace xrange
-    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
-    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
-               line in content]
-    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
-               content]
-    max_comp = max([max(y_comp), max(y_ipc_scale), max(y_inst_scale), max(y_freq_scale)])
-    content = [line.replace('#REPLACE_BY_YRANGE', ''
-                            .join(['set yrange [0:', str(max_comp+5), ']'])) for line in content]
-
-    file_path = os.path.join(os.getcwd(), 'modelfactors-scale.gp')
-    with open(file_path, 'w') as f:
-        f.writelines(content)
-
-    # Add data points to gnuplot file
-    with open(file_path, 'a') as f:
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_comp[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_ipc_scale[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_ipc_scale[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_inst_scale[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_inst_scale[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        for index in range(0, number_traces):
-            if int(limit) == int(limit_min):
-                line = ' '.join([str(x_proc[index]+index*5), str(y_freq_scale[index]), '\n'])
-            else:
-                line = ' '.join([str(x_proc[index]), str(y_freq_scale[index]), '\n'])
-            f.write(line)
-        f.write('e\n')
-
-        f.write('\n')
-        f.write('pause -1\n')
-
-    # print('========  Plot (gnuplot File): SCALABILITY METRICS ========')
-    print('Scalability metrics plot written to ' + file_path)
\ No newline at end of file
diff --git a/rawdata.py b/rawdata.py
deleted file mode 100644
index edbdf4d..0000000
--- a/rawdata.py
+++ /dev/null
@@ -1,857 +0,0 @@
-#!/usr/bin/env python3
-
-"""Functions to extract rawdata from each trace."""
-
-from __future__ import print_function, division
-import os
-import time
-import math
-import gzip
-import shutil
-from collections import OrderedDict
-from tracemetadata import human_readable
-from utils import run_command, move_files,remove_files, create_temp_folder
-
-
-# Contains all raw data entries with a printable name.
-# This is used to generate and print all raw data, so, if an entry is added, it
-# should be added here, too.
-raw_data_doc = OrderedDict([('runtime', 'Runtime (us)'),
-                            ('runtime_dim', 'Runtime (ideal)'),
-                            ('useful_avg', 'Useful duration (average)'),
-                            ('useful_max', 'Useful duration (maximum)'),
-                            ('useful_tot', 'Useful duration (total)'),
-                            ('useful_dim', 'Useful duration (ideal, max)'),
-                            ('useful_ins', 'Useful instructions (total)'),
-                            ('useful_cyc', 'Useful cycles (total)'),
-                            ('outsidempi_avg', 'Outside MPI duration (average)'),
-                            ('outsidempi_max', 'Outside MPI duration (maximum)'),
-                            ('outsidempi_dim', 'Outside MPI duration (ideal,maximum)'),
-                            ('outsidempi_tot', 'Outside MPI duration (total)'),
-                            ('mpicomm_tot', 'Communication MPI duration (total)'),
-                            ('outsidempi_tot_diff', 'Outside MPI duration rescaled (total*threads)'),
-                            ('flushing_avg', 'Flushing duration (average)'),
-                            ('flushing_max', 'Flushing duration (maximum)'),
-                            ('flushing_tot', 'Flushing duration (total)'),
-                            ('flushing_cyc', 'Flushing cycles (total)'),
-                            ('flushing_ins', 'Flushing instructions (total)'),
-                            ('io_tot', 'Posix I/O duration (total)'),
-                            ('io_max', 'Posix I/O duration (maximum)'),
-                            ('io_avg', 'Posix I/O duration (avg)'),
-                            ('io_std', 'Posix I/O duration (std)'),
-                            ('io_cyc', 'Posix I/O cycles (total)'),
-                            ('io_ins', 'Posix I/O instructions (total)'),
-                            ('useful_plus_io_avg', 'Serial I/O plus useful duration (avg)'),
-                            ('useful_plus_io_max', 'Serial I/O plus useful duration (max)'),
-                            ('io_state_tot', 'state I/O duration (total)'),
-                            ('io_state_avg', 'state I/O duration (avg)'),
-                            ('io_state_max', 'state I/O duration (maximum)'),
-                            ('mpiio_tot', 'MPI I/O duration (total)'),
-                            ('mpiio_max', 'MPI I/O duration (maximum)'),
-                            ('mpiio_avg', 'MPI I/O duration (avg)'),
-                            ('mpiio_std', 'MPI I/O duration (std)'),
-                            ('mpiio_cyc', 'MPI I/O cycles (total)'),
-                            ('mpiio_ins', 'MPI I/O instructions (total)'),
-                            ('burst_useful_tot', 'Burst Useful (total)'),
-                            ('burst_useful_max', 'Burst Useful (max)'),
-                            ('burst_useful_avg', 'Burst Useful (avg)')])
-
-
-def create_raw_data(trace_list):
-    """Creates 2D dictionary of the raw input data and initializes with zero.
-    The raw_data dictionary has the format: [raw data key][trace].
-    """
-    global raw_data_doc
-    raw_data = {}
-    for key in raw_data_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-
-        raw_data[key] = trace_dict
-
-    return raw_data
-
-
-def gather_raw_data(trace_list, trace_processes, trace_task_per_node, trace_mode, cmdl_args):
-    """Gathers all raw data needed to generate the model factors. Return raw
-    data in a 2D dictionary <data type><list of values for each trace>"""
-    raw_data = create_raw_data(trace_list)
-    global list_mpi_procs_count
-    list_mpi_procs_count = dict()
-
-    cfgs = {}
-    cfgs['root_dir'] = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs')
-    cfgs['timings'] = os.path.join(cfgs['root_dir'], 'timings.cfg')
-    cfgs['runtime'] = os.path.join(cfgs['root_dir'], 'runtime_app.cfg')
-    cfgs['cycles'] = os.path.join(cfgs['root_dir'], 'cycles.cfg')
-    cfgs['instructions'] = os.path.join(cfgs['root_dir'], 'instructions.cfg')
-    cfgs['flushing'] = os.path.join(cfgs['root_dir'], 'flushing.cfg')
-    cfgs['mpi_io'] = os.path.join(cfgs['root_dir'], 'mpi-io-reverse.cfg')
-    cfgs['outside_mpi'] = os.path.join(cfgs['root_dir'], 'mpi-call-outside.cfg')
-    cfgs['io_call'] = os.path.join(cfgs['root_dir'], 'io-call-reverse.cfg')
-    cfgs['io_cycles'] = os.path.join(cfgs['root_dir'], 'io-call-cycles.cfg')
-    cfgs['io_inst'] = os.path.join(cfgs['root_dir'], 'io-call-instructions.cfg')
-    cfgs['mpiio_cycles'] = os.path.join(cfgs['root_dir'], 'mpi-io-cycles.cfg')
-    cfgs['mpiio_inst'] = os.path.join(cfgs['root_dir'], 'mpi-io-instructions.cfg')
-    cfgs['flushing_cycles'] = os.path.join(cfgs['root_dir'], 'flushing-cycles.cfg')
-    cfgs['flushing_inst'] = os.path.join(cfgs['root_dir'], 'flushing-inst.cfg')
-    cfgs['burst_useful'] = os.path.join(cfgs['root_dir'], 'burst_useful.cfg')
-
-    # Main loop over all traces
-    # This can be parallelized: the loop iterations have no dependencies
-    path_dest = create_temp_folder('scratch_out_basicanalysis', cmdl_args)
-
-    for trace in trace_list:
-        time_tot = time.time()
-        if trace[-7:] == ".prv.gz":
-            trace_name_control = trace[:-7]
-            trace_name = trace[:-7] + '_' + str(trace_processes[trace]) + 'P'
-        elif trace[-4:] == ".prv":
-            trace_name_control = trace[:-4]
-            trace_name = trace[:-4] + '_' + str(trace_processes[trace]) + 'P'
-
-        line = 'Analyzing ' + os.path.basename(trace)
-        line += ' (' + str(trace_processes[trace]) + ' processes'
-        line += ', ' + str(trace_task_per_node[trace]) + ' tasks per node'
-        line += ', ' + str(trace_mode[trace]) + ' mode'
-        line += ', ' + human_readable(os.path.getsize(trace)) + ')'
-        print(line)
-
-        # Create simulated ideal trace with Dimemas
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            time_dim = time.time()
-            trace_sim = create_ideal_trace(trace, trace_processes[trace], trace_task_per_node[trace], cmdl_args)
-            trace_name_sim = trace_sim[:-4]
-            # print(trace_sim)
-            time_dim = time.time() - time_dim
-            if not trace_sim == '':
-                print('Successfully created simulated trace with Dimemas in {0:.1f} seconds.'.format(time_dim))
-            else:
-                print('Failed to create simulated trace with Dimemas.')
-
-        # Run paramedir for the original and simulated trace
-        time_pmd = time.time()
-        cmd_normal = ['paramedir', trace]
-
-        cmd_normal.extend([cfgs['timings'], trace_name + '.timings.stats'])
-        cmd_normal.extend([cfgs['runtime'], trace_name + '.runtime.stats'])
-        cmd_normal.extend([cfgs['cycles'], trace_name + '.cycles.stats'])
-        cmd_normal.extend([cfgs['instructions'], trace_name + '.instructions.stats'])
-        cmd_normal.extend([cfgs['flushing'], trace_name + '.flushing.stats'])
-        cmd_normal.extend([cfgs['io_call'], trace_name + '.posixio_call.stats'])
-        cmd_normal.extend([cfgs['io_cycles'], trace_name + '.posixio-cycles.stats'])
-        cmd_normal.extend([cfgs['io_inst'], trace_name + '.posixio-inst.stats'])
-        cmd_normal.extend([cfgs['flushing_cycles'], trace_name + '.flushing-cycles.stats'])
-        cmd_normal.extend([cfgs['flushing_inst'], trace_name + '.flushing-inst.stats'])
-
-        if trace_mode[trace][:12] == 'Detailed+MPI':
-            cmd_normal.extend([cfgs['mpi_io'], trace_name + '.mpi_io.stats'])
-            cmd_normal.extend([cfgs['outside_mpi'], trace_name + '.outside_mpi.stats'])
-            cmd_normal.extend([cfgs['mpiio_cycles'], trace_name + '.mpiio-cycles.stats'])
-            cmd_normal.extend([cfgs['mpiio_inst'], trace_name + '.mpiio-inst.stats'])
-
-        if trace_mode[trace][:9] == 'Burst+MPI':
-            cmd_normal.extend([cfgs['burst_useful'], trace_name + '.burst_useful.stats'])
-
-        run_command(cmd_normal, cmdl_args)
-
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            cmd_ideal = ['paramedir', trace_sim]
-            cmd_ideal.extend([cfgs['timings'], trace_name_sim + '.timings.stats'])
-            cmd_ideal.extend([cfgs['runtime'], trace_name_sim + '.runtime.stats'])
-            cmd_ideal.extend([cfgs['outside_mpi'], trace_name_sim + '.outside_mpi.stats'])
-
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            if not trace_sim == '':
-                # print(cmd_ideal)
-                run_command(cmd_ideal, cmdl_args)
-
-        time_pmd = time.time() - time_pmd
-
-        error_timing = 0
-        error_counters = 0
-        error_ideal = 0
-
-        # Check if all files are created
-        if not os.path.exists(trace_name + '.timings.stats') or \
-                not os.path.exists(trace_name + '.runtime.stats'):
-            print('==ERROR== Failed to compute timing information with paramedir.')
-            error_timing = 1
-
-        if not os.path.exists(trace_name + '.outside_mpi.stats') and trace_mode[trace][:5] != 'Burst' \
-                and 'MPI' in trace_mode[trace]:
-            print('==ERROR== Failed to compute outside MPI timing information with paramedir.')
-            error_timing = 1
-
-        if not os.path.exists(trace_name + '.cycles.stats') or \
-                not os.path.exists(trace_name + '.instructions.stats'):
-            print('==ERROR== Failed to compute counter information with paramedir.')
-            error_counters = 1
-
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            if not os.path.exists(trace_name_sim + '.timings.stats') or \
-                   not os.path.exists(trace_name_sim + '.runtime.stats') or \
-                   not os.path.exists(trace_name_sim + '.outside_mpi.stats'):
-                print('==ERROR== Failed to compute simulated timing information with paramedir.')
-                error_ideal = 1
-                trace_sim = ''
-
-        if error_timing or error_counters or error_ideal:
-            print('Failed to analyze trace with paramedir')
-        else:
-            print('Successfully analyzed trace with paramedir in {0:.1f} seconds.'.format(time_pmd))
-
-        # Parse the paramedir output files
-        time_prs = time.time()
-
-        # Get total, average, and maximum useful duration
-        if os.path.exists(trace_name + '.timings.stats'):
-            content = []
-            with open(trace_name + '.timings.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['useful_tot'][trace] = float(line.split()[1])
-                    if line.split()[0] == 'Average':
-                        raw_data['useful_avg'][trace] = float(line.split()[1])
-                    if line.split()[0] == 'Maximum':
-                        raw_data['useful_max'][trace] = float(line.split()[1])
-        else:
-            raw_data['useful_tot'][trace] = 'NaN'
-            raw_data['useful_avg'][trace] = 'NaN'
-            raw_data['useful_max'][trace] = 'NaN'
-        f.close()
-
-        # Get total File IO, average IO, and maximum IO duration
-        dict_trace_posixio = {}
-        if os.path.exists(trace_name + '.posixio_call.stats'):
-            content = []
-            with open(trace_name + '.posixio_call.stats') as f:
-                content = f.readlines()
-
-                for line in content:
-                    
-                    for field in line.split("\n"):
-                        line_list = field.split("\t")
-                        if "Total" in field.split("\t"):
-                            count_procs = len(line_list[1:])
-                            list_io_tot = [float(iotime) for iotime in line_list[1:count_procs]]
-                            dict_trace_posixio[trace] = list_io_tot
-                            raw_data['io_tot'][trace] = sum(list_io_tot)
-                        elif "Average" in field.split("\t"):
-                            if count_procs != 0:
-                                raw_data['io_avg'][trace] = float(sum(list_io_tot)/count_procs)
-                                raw_data['io_std'][trace] = math.sqrt(sum([(number - raw_data['io_avg'][trace]) ** 2
-                                                                           for number in list_io_tot])
-                                                                      / (len(list_io_tot) - 1))
-                            else:
-                                raw_data['io_avg'][trace] = 0.0
-                                raw_data['io_std'][trace] = 0.0
-                        elif "Maximum" in field.split("\t"):
-                            raw_data['io_max'][trace] = max(list_io_tot)
-        else:
-            raw_data['io_tot'][trace] = 0.0
-            raw_data['io_avg'][trace] = 0.0
-            raw_data['io_max'][trace] = 0.0
-            raw_data['io_std'][trace] = 0.0
-        f.close()
-
-        # Get total MPI IO, average IO, and maximum IO duration for MPI-IO
-        dict_trace_mpiio={}
-        if os.path.exists(trace_name + '.mpi_io.stats') and trace_mode[trace][:12] == 'Detailed+MPI':
-            content = []
-            with open(trace_name + '.mpi_io.stats') as f:
-                content = f.readlines()
-
-                for line in content:
-                    for field in line.split("\n"):
-                        line_list = field.split("\t")
-                        if "Total" in field.split("\t"):
-                            count_procs = len(line_list[1:])
-                            list_mpiio_tot = [float(iotime) for iotime in line_list[1:count_procs]]
-                            dict_trace_mpiio[trace] = list_mpiio_tot
-                            # print(list_mpiio_tot)
-                            raw_data['mpiio_tot'][trace] = sum(list_mpiio_tot)
-                        elif "Average" in field.split("\t"):
-                            if count_procs != 0:
-                                raw_data['mpiio_avg'][trace] = sum(list_mpiio_tot)/count_procs
-                                raw_data['mpiio_std'][trace] = math.sqrt(sum([(number - raw_data['mpiio_avg'][trace]) ** 2
-                                                                          for number in list_mpiio_tot])
-                                                                     /(len(list_mpiio_tot) - 1))
-                            else:
-                                raw_data['mpiio_avg'][trace] = 0.0
-                                raw_data['mpiio_std'][trace] = 0.0
-                        elif "Maximum" in field.split("\t"):
-                            raw_data['mpiio_max'][trace] = max(list_mpiio_tot)
-        else:
-            raw_data['mpiio_tot'][trace] = 0.0
-            raw_data['mpiio_avg'][trace] = 0.0
-            raw_data['mpiio_max'][trace] = 0.0
-            raw_data['mpiio_std'][trace] = 0.0
-        f.close()
-
-        # Get total State IO, average IO, and maximum IO duration
-        #print(dict_trace_mpiio)
-        if os.path.exists(trace_name + '.timings.stats'):
-            content = []
-            # io_index = " "
-            with open(trace_name + '.timings.stats') as f:
-                content = f.readlines()
-                useful_plus_io = []
-                useful_comp = []
-                io_time = []
-                count_line = 1
-                for line in content:
-                    for field in line.split("\n"):
-                        line_list = field.split("\t")
-                        # print(line_list)
-                        if count_line == 1:
-                            try:
-                                if os.path.exists(trace_name_control + '.pcf'):
-                                    io_index = line_list.index("I/O")
-                                else:
-                                    io_index = line_list.index('Unknown state 12')
-                            except:
-                                io_index = " "
-                        elif io_index != " ":
-                            if "Total" in field.split("\t"):
-                                raw_data['io_state_tot'][trace] = float(line_list[io_index])
-                            elif "Average" in field.split("\t"):
-                                raw_data['io_state_avg'][trace] = float(line_list[io_index])
-                            elif "Maximum" in field.split("\t"):
-                                raw_data['io_state_max'][trace] = float(line_list[io_index])
-                            elif "Minimum" not in line_list and "StDev" not in line_list \
-                                    and "Avg/Max" not in line_list and len(line_list) > 1:
-                                posixio_index = len(useful_plus_io)
-                                # print(dict_trace_posixio[trace][posixio_index])
-                                if len(dict_trace_posixio) != 0:
-                                    sum_aux = float(line_list[1]) + float(dict_trace_posixio[trace][posixio_index])
-                                else:
-                                    sum_aux = float(line_list[1])
-
-                                useful_plus_io.append(float(sum_aux))
-                                useful_comp.append(float(line_list[1]))
-                                io_time.append(float(line_list[io_index]))
-                        count_line += 1
-                if io_index != " ":
-                    if len(useful_plus_io) != 0:
-                        useful_io_avg = float(sum(useful_plus_io) / len(useful_plus_io))
-                    else:
-                        useful_io_avg = 0.0
-                    # print(len(useful_plus_io))
-                    # mpiio is not included in useful + IO
-                    raw_data['useful_plus_io_avg'][trace] = float(useful_io_avg)
-                    raw_data['useful_plus_io_max'][trace] = float(max(useful_plus_io))
-                else:
-                    raw_data['useful_plus_io_avg'][trace] = 0.0
-                    raw_data['useful_plus_io_max'][trace] = 0.0
-                    raw_data['io_state_tot'][trace] = 0.0
-                    raw_data['io_state_avg'][trace] = 0.0
-                    raw_data['io_state_max'][trace] = 0.0
-        else:
-            raw_data['useful_plus_io_avg'][trace] = 'NaN'
-            raw_data['useful_plus_io_max'][trace] = 'NaN'
-            raw_data['io_state_tot'][trace] = 'NaN'
-            raw_data['io_state_avg'][trace] = 'NaN'
-            raw_data['io_state_max'][trace] = 'NaN'
-        f.close()
-
-
-        # Get runtime
-        if os.path.exists(trace_name + '.runtime.stats'):
-            content = []
-            with open(trace_name + '.runtime.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Average':
-                        raw_data['runtime'][trace] = float(line.split()[1])
-        else:
-            raw_data['runtime'][trace] = 'NaN'
-
-        # Get total, average, and maximum outside MPI
-        # list_mpi_procs_count = []
-        if os.path.exists(trace_name + '.outside_mpi.stats') and trace_mode[trace][:12] == 'Detailed+MPI':
-            content = []
-            with open(trace_name + '.outside_mpi.stats') as f:
-                content = f.readlines()
-                list_outside_mpi = []
-
-                list_thread_outside_mpi = []
-                init_count_thread = False
-                count_threads = 1
-                for line1 in content[1:(len(content) - 8)]:
-                    line = line1.split("\t")
-                    # print(line)
-                    if line:
-                        if line[0] != 'Total' and line[0] != 'Average' \
-                                and line[0] != 'Maximum' and line[0] != 'StDev' \
-                                and line[0] != 'Avg/Max':
-                            # To extract the count of MPI tasks
-                            if float(line[1]) != raw_data['runtime'][trace]:
-                                list_outside_mpi.append(float(line[1]))
-                                # To extract the count of threads per MPI task
-                                if len(list_outside_mpi) > 1:
-                                    list_thread_outside_mpi.append(count_threads)
-                                    count_threads = 1
-                            else:
-                                if len(list_outside_mpi) == 1 and not init_count_thread:
-                                    count_threads = 2
-                                    init_count_thread = True
-                                else:
-                                    count_threads += 1
-
-                list_thread_outside_mpi.append(count_threads)
-
-                count = 0
-                equal_threads = True
-                # Evaluate if the count of threads per MPI task are equal
-                while count < (len(list_thread_outside_mpi) - 1) and equal_threads:
-                    if list_thread_outside_mpi[count] != list_thread_outside_mpi[count+1]:
-                        equal_threads = False
-                    count += 1
-                rescaled_outside_mpi = []
-                # This is need to calculate the MPI_Par_Eff with the right #MPI_tasks and #threads
-                if not equal_threads:
-                    # print("\n===== Different number of threads per mpi task \n")
-                    rescaled_outside_mpi.append(list_outside_mpi[0] * (list_thread_outside_mpi[0]))
-                    # This is the sum of the outsidempi by the threads
-                    sum_outside_mpi_threads = list_thread_outside_mpi[0]
-
-                    for i in range(1,len(list_outside_mpi)):
-                        rescaled_outside_mpi.append(list_outside_mpi[i] * (list_thread_outside_mpi[i]))
-                        sum_outside_mpi_threads += list_thread_outside_mpi[i]
-                    raw_data['outsidempi_tot_diff'][trace] = sum(rescaled_outside_mpi)
-                    raw_data['outsidempi_tot'][trace] = sum(list_outside_mpi)
-                    # Only the average is updated with the rescaled outsidempi
-                    if sum(list_thread_outside_mpi) != 0:
-                        raw_data['outsidempi_avg'][trace] = sum(rescaled_outside_mpi) / sum(list_thread_outside_mpi)
-                    else:
-                        raw_data['outsidempi_avg'][trace] = 'NaN'
-                    # Maximum outsidempi is the same, although the count of threads is different
-                    # because it waits that the MPI task has the max outsidempi.
-                    raw_data['outsidempi_max'][trace] = max(list_outside_mpi)
-                else:
-                    # print("\n===== Equal number of threads per mpi task \n")
-                    raw_data['outsidempi_tot_diff'][trace] = sum(list_outside_mpi)
-                    list_mpi_procs_count[trace] = len(list_outside_mpi)
-                    raw_data['outsidempi_tot'][trace] = sum(list_outside_mpi)
-                    if len(list_outside_mpi) != 0:
-                        raw_data['outsidempi_avg'][trace] = sum(list_outside_mpi) / len(list_outside_mpi)
-                    else:
-                        raw_data['outsidempi_avg'][trace] = 'NaN'
-                    raw_data['outsidempi_max'][trace] = max(list_outside_mpi)
-                for line2 in content[(len(content) - 7):]:
-                    line_aux = line2.split("\t")
-
-                    if line_aux[0] == 'Total':
-                        #print(line_aux)
-                        count_mpiop = len(line_aux[1:])
-                        list_mpi_tot = [float(mpitime) for mpitime in line_aux[2:count_mpiop]]
-                        #print(list_mpi_tot)
-                raw_data['mpicomm_tot'][trace] = sum(list_mpi_tot)
-        else:
-            raw_data['outsidempi_tot'][trace] = 'NaN'
-            raw_data['outsidempi_avg'][trace] = 'NaN'
-            raw_data['outsidempi_max'][trace] = 'NaN'
-            raw_data['mpicomm_tot'][trace] = 'NaN'
-        f.close()
-        # Get total, average, and maximum flushing duration
-        if os.path.exists(trace_name + '.flushing.stats'):
-            content = []
-            with open(trace_name + '.flushing.stats') as f:
-                content = f.readlines()
-                flushing_exist = ('\tBegin\t\n' in content) or ('\tvalue 1\t\n' in content)
-
-            if flushing_exist:
-                for line in content:
-                    if line.split():
-                        if line.split()[0] == 'Total':
-                            raw_data['flushing_tot'][trace] = float(line.split()[1])
-                        if line.split()[0] == 'Average':
-                            raw_data['flushing_avg'][trace] = float(line.split()[1])
-                        if line.split()[0] == 'Maximum':
-                            raw_data['flushing_max'][trace] = float(line.split()[1])
-            else:
-                raw_data['flushing_tot'][trace] = 0.0
-                raw_data['flushing_avg'][trace] = 0.0
-                raw_data['flushing_max'][trace] = 0.0
-        else:
-            raw_data['flushing_tot'][trace] = 0.0
-            raw_data['flushing_avg'][trace] = 0.0
-            raw_data['flushing_max'][trace] = 0.0
-
-        # Get total flushing cycles
-        if os.path.exists(trace_name + '.flushing-cycles.stats'):
-            content = []
-            with open(trace_name + '.flushing-cycles.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['flushing_cyc'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['flushing_cyc'][trace] = 0.0
-
-        # Get total flushing instructions
-        if os.path.exists(trace_name + '.flushing-inst.stats'):
-            content = []
-            with open(trace_name + '.flushing-inst.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['flushing_ins'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['flushing_ins'][trace] = 0.0
-
-        # Get total posixio cycles
-        if os.path.exists(trace_name + '.posixio-cycles.stats'):
-            content = []
-            with open(trace_name + '.posixio-cycles.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['io_cyc'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['io_cyc'][trace] = 0.0
-
-        # Get total posixio instructions
-        if os.path.exists(trace_name + '.posixio-inst.stats'):
-            content = []
-            with open(trace_name + '.posixio-inst.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['io_ins'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['io_ins'][trace] = 0.0
-
-        # Get total mpiio instructions
-        if os.path.exists(trace_name + '.mpiio-cycles.stats') \
-                and trace_mode[trace][:12] == 'Detailed+MPI':
-            content = []
-            with open(trace_name + '.mpiio-cycles.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['mpiio_cyc'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['mpiio_cyc'][trace] = 0.0
-
-        # Get total mpiio instructions
-        if os.path.exists(trace_name + '.mpiio-inst.stats') \
-                and trace_mode[trace][:12] == 'Detailed+MPI':
-            content = []
-            with open(trace_name + '.mpiio-inst.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['mpiio_ins'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['mpiio_ins'][trace] = 0.0
-
-        # Get useful cycles
-        if os.path.exists(trace_name + '.cycles.stats'):
-            content = []
-            with open(trace_name + '.cycles.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['useful_cyc'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['useful_cyc'][trace] = 'NaN'
-
-        # Get useful instructions
-        if os.path.exists(trace_name + '.instructions.stats'):
-            content = []
-            with open(trace_name + '.instructions.stats') as f:
-                content = f.readlines()
-
-            for line in content:
-                if line.split():
-                    if line.split()[0] == 'Total':
-                        raw_data['useful_ins'][trace] = int(float(line.split()[1]))
-        else:
-            raw_data['useful_ins'][trace] = 'NaN'
-
-        # Get Efficiencies for BurstMode
-        if trace_mode[trace] == 'Burst+MPI':
-            # Get total, maximum and avg from burst useful
-            if os.path.exists(trace_name + '.burst_useful.stats'):
-                content = []
-                list_burst_tot = []
-                with open(trace_name + '.burst_useful.stats') as f:
-                    content = f.readlines()
-                for line in content:
-                    for field in line.split("\n"):
-                        line_list = field.split("\t")
-                        if "Total" in field.split("\t"):
-                            count_procs = len(line_list[1:])
-                            list_burst_tot = [float(burst_time) for burst_time in line_list[1:count_procs]]
-
-                raw_data['burst_useful_tot'][trace] = sum(list_burst_tot)
-                raw_data['burst_useful_avg'][trace] = sum(list_burst_tot)/len(list_burst_tot)
-                raw_data['burst_useful_max'][trace] = max(list_burst_tot)
-
-            else:
-                raw_data['burst_useful_avg'][trace] = 'NaN'
-                raw_data['burst_useful_max'][trace] = 'NaN'
-                raw_data['burst_useful_tot'][trace] = 'NaN'
-        else:
-            raw_data['burst_useful_avg'][trace] = 0.0
-            raw_data['burst_useful_max'][trace] = 0.0
-            raw_data['burst_useful_tot'][trace] = 0.0
-
-        # Get timing for SIMULATED traces
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            # Get maximum useful duration for simulated trace
-            if os.path.exists(trace_name_sim + '.timings.stats'):
-                content = []
-                with open(trace_name_sim + '.timings.stats') as f:
-                    content = f.readlines()
-
-                for line in content:
-                    if line.split():
-                        if line.split()[0] == 'Maximum':
-                            raw_data['useful_dim'][trace] = float(line.split()[1])
-            else:
-                raw_data['useful_dim'][trace] = 'NaN'
-
-            # Get runtime for simulated trace
-            if os.path.exists(trace_name_sim + '.runtime.stats'):
-                content = []
-                with open(trace_name_sim + '.runtime.stats') as f:
-                    content = f.readlines()
-
-                for line in content:
-                    if line.split():
-                        if line.split()[0] == 'Average':
-                            raw_data['runtime_dim'][trace] = float(line.split()[1])
-            else:
-                raw_data['runtime_dim'][trace] = 'NaN'
-
-            # Get outsideMPI max for simulated trace
-            if os.path.exists(trace_name_sim + '.outside_mpi.stats'):
-                    with open(trace_name_sim + '.outside_mpi.stats') as f:
-                        content = f.readlines()
-                        list_outside_mpi = []
-                        list_thread_outside_mpi = []
-                        init_count_thread = False
-                        count_threads = 1
-                        for line1 in content[1:(len(content) - 8)]:
-                            line = line1.split("\t")
-                        # print(line)
-                            if line:
-                                if line[0] != 'Total' and line[0] != 'Average' \
-                                           and line[0] != 'Maximum' and line[0] != 'StDev' \
-                                           and line[0] != 'Avg/Max':
-                                    # To extract the count of MPI tasks
-                                    if float(line[1]) != raw_data['runtime_dim'][trace]:
-                                        list_outside_mpi.append(float(line[1]))
-                                        # To extract the count of threads per MPI task
-                                        if len(list_outside_mpi) > 1:
-                                           list_thread_outside_mpi.append(count_threads)
-                                        count_threads = 1
-                                    else:
-                                        if len(list_outside_mpi) == 1 and not init_count_thread:
-                                            count_threads = 2
-                                            init_count_thread = True
-                                        else:
-                                            count_threads += 1
-
-                                    if line[0] == "THREAD 1.1.1":
-                                        max_time_outside_mpi = float(line[1])
-
-                        list_thread_outside_mpi.append(count_threads)
-                        if len(list_outside_mpi) != 0:
-                            raw_data['outsidempi_dim'][trace] = max(list_outside_mpi)
-                        else:
-                            raw_data['outsidempi_dim'][trace] = max_time_outside_mpi
-            else:
-                raw_data['outsidempi_dim'][trace] = 0.0
-        else:
-            raw_data['useful_dim'][trace] = 'Non-Avail'
-            raw_data['runtime_dim'][trace] = 'Non-Avail'
-            raw_data['outsidempi_dim'][trace] = 'Non-Avail'
-
-        # Remove paramedir output files
-        move_files(trace_name + '.timings.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.runtime.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.cycles.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.instructions.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.flushing.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.posixio-cycles.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.posixio-inst.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.flushing-cycles.stats', path_dest, cmdl_args)
-        move_files(trace_name + '.flushing-inst.stats', path_dest, cmdl_args)
-
-        if trace_mode[trace][:12] == 'Detailed+MPI':
-            move_files(trace_name + '.mpi_io.stats', path_dest, cmdl_args)
-            move_files(trace_name + '.posixio_call.stats', path_dest, cmdl_args)
-            move_files(trace_name + '.outside_mpi.stats', path_dest, cmdl_args)
-            move_files(trace_name + '.mpiio-cycles.stats', path_dest, cmdl_args)
-            move_files(trace_name + '.mpiio-inst.stats', path_dest, cmdl_args)
-
-        if trace_mode[trace][:9] == 'Burst+MPI':
-            move_files(trace_name + '.2dh_BurstEff.stats', path_dest, cmdl_args)
-            move_files(trace_name + '.burst_useful.stats', path_dest, cmdl_args)
-
-        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-            move_files(trace_name_sim + '.timings.stats', path_dest, cmdl_args)
-            move_files(trace_name_sim + '.runtime.stats', path_dest, cmdl_args)
-            move_files(trace_name_sim + '.outside_mpi.stats', path_dest, cmdl_args)
-            move_files(trace_sim, path_dest, cmdl_args)
-            move_files(trace_sim[:-4] + '.pcf', path_dest, cmdl_args)
-            move_files(trace_sim[:-4] + '.row', path_dest, cmdl_args)
-            # To move simulation trace and ideal cfg
-            move_files(trace_sim[:-8] + '.dim', path_dest, cmdl_args)
-            remove_files(trace_sim[:-8] + '.row', cmdl_args)
-            remove_files(trace_sim[:-8] + '.pcf', cmdl_args)
-            move_files(trace_sim[:-8] + '.dimemas_ideal.cfg', path_dest, cmdl_args)
-            if trace[-7:] == ".prv.gz":
-                remove_files(trace_name_control + '.prv', cmdl_args)
-                # move_files(trace_name + '.prv', path_dest, cmdl_args)
-
-        time_prs = time.time() - time_prs
-
-        time_tot = time.time() - time_tot
-        print('Finished successfully in {0:.1f} seconds.'.format(time_tot))
-        print('')
-
-    return raw_data, list_mpi_procs_count
-
-
-def create_ideal_trace(trace, processes, task_per_node, cmdl_args):
-    """Runs prv2dim and dimemas with ideal configuration for given trace."""
-    if trace[-4:] == ".prv":
-        trace_dim = trace[:-4] + '_' + str(processes) + 'P' + '.dim'
-        trace_sim = trace[:-4] + '_' + str(processes) + 'P' + '.sim.prv'
-        trace_name = trace[:-4]
-        cmd = ['prv2dim', trace, trace_dim]
-    elif trace[-7:] == ".prv.gz":
-        with gzip.open(trace, 'rb') as f_in:
-            with open(trace[:-7] + '.prv', 'wb') as f_out:
-                shutil.copyfileobj(f_in, f_out)
-        trace_dim = trace[:-7] + '_' + str(processes) + 'P' + '.dim'
-        trace_sim = trace[:-7] + '_' + str(processes) + 'P' + '.sim.prv'
-        trace_name = trace[:-7]
-        trace_unzip = trace[:-3]
-        cmd = ['prv2dim', trace_unzip, trace_dim]
-
-    run_command(cmd, cmdl_args)
-
-    if os.path.isfile(trace_dim):
-        if cmdl_args.debug:
-            print('==DEBUG== Created file ' + trace_dim)
-    else:
-        print('==Error== ' + trace_dim + 'could not be creaeted.')
-        return
-
-    # Create Dimemas configuration
-    cfg_dir = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs')
-
-    content = []
-    with open(os.path.join(cfg_dir, 'dimemas_ideal.cfg')) as f:
-        content = f.readlines()
-
-    content = [line.replace('REPLACE_BY_CPUS_PER_NODE', str(task_per_node)) for line in content]
-    content = [line.replace('REPLACE_BY_NTASKS', str(processes)) for line in content]
-    content = [line.replace('REPLACE_BY_COLLECTIVES_PATH', os.path.join(cfg_dir, 'dimemas.collectives')) for line in
-               content]
-
-    with open(trace_name + '_' + str(processes) + 'P' + '.dimemas_ideal.cfg', 'w') as f:
-        f.writelines(content)
-
-    cmd = ['Dimemas', '-S', '32k', '--dim', trace_dim, '-p', trace_sim, trace_name + '_' + str(processes)
-           + 'P' + '.dimemas_ideal.cfg']
-    run_command(cmd, cmdl_args)
-
-    if os.path.isfile(trace_sim):
-        if cmdl_args.debug:
-            print('==DEBUG== Created file ' + trace_sim)
-        return trace_sim
-    else:
-        print('==Error== ' + trace_sim + ' could not be created.')
-        return ''
-
-
-def print_raw_data_table(raw_data, trace_list, trace_processes):
-    """Prints the raw data table in human readable form on stdout."""
-    global raw_data_doc
-
-    print('Overview of the collected raw data:')
-
-    longest_name = len(sorted(raw_data_doc.values(), key=len)[-1])
-
-    line = ''.rjust(longest_name)
-    for trace in trace_list:
-        line += ' | '
-        line += str(trace_processes[trace]).rjust(15)
-    print(''.ljust(len(line), '-'))
-    print(line)
-
-    print(''.ljust(len(line), '-'))
-    final_line_raw_data = ''.ljust(len(line), '-')
-
-    for data_key in raw_data_doc:
-        line = raw_data_doc[data_key].ljust(longest_name)
-        for trace in trace_list:
-            line += ' | '
-            if raw_data[data_key][trace] != "Non-Avail" and raw_data[data_key][trace] != 'NaN':
-                line += str(round((raw_data[data_key][trace]),2)).rjust(15)
-            else:
-                line += str(raw_data[data_key][trace]).rjust(15)
-        print(line)
-    print(final_line_raw_data)
-    print('')
-
-
-def print_raw_data_csv(raw_data, trace_list, trace_processes):
-    """Prints the model factors table in a csv file."""
-    global raw_data_doc
-
-    delimiter = ';'
-    # File is stored in the trace directory
-    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
-    # File is stored in the execution directory
-    file_path = os.path.join(os.getcwd(), 'rawdata.csv')
-
-    with open(file_path, 'w') as output:
-        line = 'Number of processes'
-        for trace in trace_list:
-            line += delimiter
-            line += str(trace_processes[trace])
-        output.write(line + '\n')
-
-        for raw_key in raw_data_doc:
-            line = '#' + raw_data_doc[raw_key]
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    line += '{0:.2f}'.format(raw_data[raw_key][trace])
-                except ValueError:
-                    line += '{}'.format(raw_data[raw_key][trace])
-            output.write(line + '\n')
-
-    print('======== Output Files: Traces raw data and intermediate data ========')
-    print('Raw data written to ' + file_path)
-    file_path_intermediate = os.path.join(os.getcwd(), 'scratch_out_basicanalysis')
-    print('Intermediate file written to ' + file_path_intermediate)
-    print('')
\ No newline at end of file
diff --git a/simplemetrics.py b/simplemetrics.py
deleted file mode 100644
index fcf0bf8..0000000
--- a/simplemetrics.py
+++ /dev/null
@@ -1,1249 +0,0 @@
-#!/usr/bin/env python3
-
-"""Functions to compute the model metrics."""
-
-from __future__ import print_function, division
-import sys
-
-from rawdata import *
-from collections import OrderedDict
-
-# error import variables
-error_import_pandas = False
-error_import_seaborn = False
-error_import_matplotlib = False
-error_import_numpy = False
-
-try:
-    import numpy as np
-except ImportError:
-    error_import_numpy = True
-
-
-try:
-    import pandas as pd
-except ImportError:
-    error_import_pandas = True
-
-try:
-    import seaborn as sns
-except ImportError:
-    error_import_seaborn = True
-
-
-try:
-    import matplotlib.pyplot as plt
-except ImportError:
-    error_import_matplotlib = True
-
-
-
-# Contains all model factor entries with a printable name.
-# This is used to generate and print all model factors, so, if an entry is added,
-# it should be added here, too.
-
-other_metrics_doc = OrderedDict([('elapsed_time', 'Elapsed time (sec)'),
-                               ('efficiency', 'Efficiency'),
-                               ('speedup', 'Speedup'),
-                               ('ipc', 'Average IPC'),
-                               ('freq', 'Average frequency (GHz)'),
-                               ('flushing', 'Flushing (%)'),
-                               ('io_mpiio', 'MPI I/O (%)'),
-                               ('io_posix', 'POSIX I/O (%)'),
-                               ('io_eff', 'I/O Efficiency (%)')])
-
-mod_factors_doc = OrderedDict([('global_eff', 'Global efficiency'),
-                               ('parallel_eff', '-- Parallel efficiency'),
-                               ('load_balance', '   -- Load balance'),
-                               ('comm_eff', '   -- Communication efficiency'),
-                               ('serial_eff', '      -- Serialization efficiency'),
-                               ('transfer_eff', '      -- Transfer efficiency'),
-                               ('comp_scale', '-- Computation scalability'),
-                               ('ipc_scale', '   -- IPC scalability'),
-                               ('inst_scale', '   -- Instruction scalability'),
-                               ('freq_scale', '   -- Frequency scalability')])
-
-mod_factors_scale_plus_io_doc = OrderedDict([('comp_scale', '-- Computation scalability + I/O'),
-                               ('ipc_scale', '   -- IPC scalability'),
-                               ('inst_scale', '   -- Instruction scalability'),
-                               ('freq_scale', '   -- Frequency scalability')])
-
-
-def create_mod_factors(trace_list):
-    """Creates 2D dictionary of the model factors and initializes with an empty
-    string. The mod_factors dictionary has the format: [mod factor key][trace].
-    """
-    global mod_factors_doc
-    mod_factors = {}
-    for key in mod_factors_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        mod_factors[key] = trace_dict
-
-    return mod_factors
-
-
-def create_mod_factors_scale_io(trace_list):
-    """Creates 2D dictionary of the model factors and initializes with an empty
-    string. The mod_factors dictionary has the format: [mod factor key][trace].
-    """
-    global mod_factors_scale_plus_io_doc
-    mod_factors_scale_plus_io = {}
-    for key in mod_factors_scale_plus_io_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        mod_factors_scale_plus_io[key] = trace_dict
-
-    return mod_factors_scale_plus_io
-
-
-def create_other_metrics(trace_list):
-    """Creates 2D dictionary of the model factors and initializes with an empty
-    string. The mod_factors dictionary has the format: [mod factor key][trace].
-    """
-    global other_metrics_doc
-    other_metrics = {}
-    for key in other_metrics_doc:
-        trace_dict = {}
-        for trace_name in trace_list:
-            trace_dict[trace_name] = 0.0
-        other_metrics[key] = trace_dict
-
-    return other_metrics
-
-
-def get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args):
-    """Guess the scaling type (weak/strong) based on the useful instructions.
-    Computes the normalized instruction ratio for all measurements, whereas the
-    normalized instruction ratio is (instructions ratio / process ratio) with
-    the smallest run as reference. For exact weak scaling the normalized ratio
-    should be exactly 1 and for exact strong scaling it should be close to zero
-    with an upper bound of 0.5. The eps value defines the threshold to be
-    considered weak scaling and should give enough buffer to safely handle
-    non-ideal scaling.
-    """
-    eps = 0.9
-    normalized_inst_ratio = 0
-
-    # Check if there is only one trace.
-    if len(trace_list) == 1:
-        return 'strong'
-
-    for trace in trace_list:
-        try:  # except NaN
-            inst_ratio = float(raw_data['useful_ins'][trace]) / float(raw_data['useful_ins'][trace_list[0]])
-        except:
-            inst_ratio = 0.0
-        try:  # except NaN
-            proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
-        except:
-            proc_ratio = 'NaN'
-           
-        normalized_inst_ratio += inst_ratio / proc_ratio
-
-    # Get the average inst increase. Ignore ratio of first trace 1.0)
-    normalized_inst_ratio = (normalized_inst_ratio - 1) / (len(trace_list) - 1)
-    
-    scaling_computed = ''
-
-    if normalized_inst_ratio > eps:
-        scaling_computed = 'weak'
-    else:
-        scaling_computed = 'strong'
-
-    if cmdl_args.scaling == 'auto':
-        if cmdl_args.debug:
-            print('==DEBUG== Detected ' + scaling_computed + ' scaling.')
-            print('')
-        return scaling_computed
-
-    if cmdl_args.scaling == 'weak':
-        if scaling_computed == 'strong':
-            print('==Warning== Scaling set to weak scaling but detected strong scaling.')
-            print('')
-        return 'weak'
-
-    if cmdl_args.scaling == 'strong':
-        if scaling_computed == 'weak':
-            print('==Warning== Scaling set to strong scaling but detected weak scaling.')
-            print('')
-        return 'strong'
-
-    print('==Error== reached undefined control flow state.')
-    sys.exit(1)
-
-
-def compute_model_factors(raw_data, trace_list, trace_processes, trace_mode, list_mpi_procs_count, cmdl_args):
-    """Computes the model factors from the gathered raw data and returns the
-    according dictionary of model factors."""
-    mod_factors = create_mod_factors(trace_list)
-    other_metrics = create_other_metrics(trace_list)
-    mod_factors_scale_plus_io = create_mod_factors_scale_io(trace_list)
-
-    # Guess the weak or strong scaling
-    scaling = get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args)
-
-    # Loop over all traces
-    for trace in trace_list:
-
-        proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
-
-        # Flushing measurements
-        try:  # except NaN
-            other_metrics['flushing'][trace] = raw_data['flushing_tot'][trace] \
-                                               / (raw_data['runtime'][trace] * trace_processes[trace]) * 100.0
-        except:
-            other_metrics['flushing'][trace] = 0.0
-
-        # I/O measurements
-        try:  # except NaN
-            other_metrics['io_mpiio'][trace] = raw_data['mpiio_tot'][trace] \
-                                               / (raw_data['runtime'][trace] * trace_processes[trace]) * 100.0
-        except:
-            other_metrics['io_mpiio'][trace] = 0.0
-
-        try:  # except NaN
-            other_metrics['io_posix'][trace] = raw_data['io_tot'][trace] \
-                                               / (raw_data['runtime'][trace] * trace_processes[trace]) * 100.0
-        except:
-            other_metrics['io_posix'][trace] = 0.0
-        try:  # except NaN
-            io_total = raw_data['mpiio_tot'][trace] + raw_data['flushing_tot'][trace] + raw_data['io_tot'][trace]
-            other_metrics['io_eff'][trace] = raw_data['useful_tot'][trace] \
-                                             / (raw_data['useful_tot'][trace] + io_total) * 100.0
-        except:
-            other_metrics['io_eff'][trace] = 0.0
-
-        # Basic efficiency factors
-        try:  # except NaN
-            if trace_mode[trace] == 'Burst+MPI':
-                mod_factors['load_balance'][trace] = float(raw_data['burst_useful_avg'][trace]) \
-                                                     / float(raw_data['burst_useful_max'][trace]) * 100.0
-            else:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
-                    mod_factors['load_balance'][trace] = raw_data['useful_plus_io_avg'][trace] \
-                                                     / raw_data['useful_plus_io_max'][trace] * 100.0
-                else:
-                    mod_factors['load_balance'][trace] = raw_data['useful_avg'][trace] \
-                                                 / raw_data['useful_max'][trace] * 100.0
-        except:
-            mod_factors['load_balance'][trace] = 'NaN'
-
-        try:  # except NaN
-            if trace_mode[trace] == 'Burst+MPI':
-                mod_factors['comm_eff'][trace] = float(raw_data['burst_useful_max'][trace]) \
-                                                 / raw_data['runtime'][trace] * 100.0
-            else:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
-                    mod_factors['comm_eff'][trace] = raw_data['useful_plus_io_max'][trace] \
-                                                 / raw_data['runtime'][trace] * 100.0
-                else:
-                    mod_factors['comm_eff'][trace] = raw_data['useful_max'][trace] \
-                                                     / raw_data['runtime'][trace] * 100.0
-        except:
-            mod_factors['comm_eff'][trace] = 'NaN'
-
-        try:  # except NaN
-            mod_factors['serial_eff'][trace] = float(raw_data['outsidempi_dim'][trace]) \
-                                               / float(raw_data['runtime_dim'][trace]) * 100.0
-            if mod_factors['serial_eff'][trace] > 100.0:
-                mod_factors['serial_eff'][trace] = 'Warning!'
-        except:
-            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-                mod_factors['serial_eff'][trace] = 'NaN'
-            else:
-                mod_factors['serial_eff'][trace] = 'Non-Avail'
-
-        try:  # except NaN
-            if mod_factors['serial_eff'][trace] != 'Warning!':
-                mod_factors['transfer_eff'][trace] = mod_factors['comm_eff'][trace] \
-                                                     / mod_factors['serial_eff'][trace] * 100.0
-            else:
-                mod_factors['transfer_eff'][trace] = float(raw_data['runtime_dim'][trace]) \
-                                                     / float(raw_data['runtime'][trace]) * 100.0
-
-            if mod_factors['transfer_eff'][trace] > 100.0:
-                mod_factors['transfer_eff'][trace] = 'Warning!'
-        except:
-            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
-                mod_factors['transfer_eff'][trace] = 'NaN'
-            else:
-                mod_factors['transfer_eff'][trace] = 'Non-Avail'
-
-        # Parallel Efficiency
-        try:  # except NaN
-            if trace_mode[trace] == 'Burst+MPI':
-                mod_factors['parallel_eff'][trace] = float(raw_data['burst_useful_avg'][trace]) \
-                                                     / float(raw_data['runtime'][trace]) * 100.0
-            else:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
-                    mod_factors['parallel_eff'][trace] = float(raw_data['useful_plus_io_avg'][trace]) \
-                                                     / float(raw_data['runtime'][trace]) * 100.0
-                else:
-                    mod_factors['parallel_eff'][trace] = mod_factors['load_balance'][trace] \
-                                                     * mod_factors['comm_eff'][trace] / 100.0
-        except:
-            mod_factors['parallel_eff'][trace] = 'NaN'
-
-        # Computation Scale only useful computation
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if trace_mode[trace] == 'Burst+MPI':
-                    if scaling == 'strong':
-                        mod_factors['comp_scale'][trace] = raw_data['burst_useful_tot'][trace_list[0]] \
-                                                   / raw_data['burst_useful_tot'][trace] * 100.0
-                    else:
-                        mod_factors['comp_scale'][trace] = raw_data['burst_useful_tot'][trace_list[0]] \
-                                                   / raw_data['burst_useful_tot'][trace] \
-                                                   * proc_ratio * 100.0
-                else:
-                    if scaling == 'strong':
-                        mod_factors['comp_scale'][trace] = raw_data['useful_tot'][trace_list[0]] \
-                                                   / raw_data['useful_tot'][trace] * 100.0
-                    else:
-                        mod_factors['comp_scale'][trace] = raw_data['useful_tot'][trace_list[0]] \
-                                                   / raw_data['useful_tot'][trace] \
-                                                   * proc_ratio * 100.0
-            else:
-                mod_factors['comp_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['comp_scale'][trace] = 'NaN'
-
-        # Computation Scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    io_serial_0 = raw_data['io_tot'][trace_list[0]] + raw_data['flushing_tot'][trace_list[0]]
-                    io_serial_n = raw_data['io_tot'][trace] + raw_data['flushing_tot'][trace]
-                    if scaling == 'strong':
-                        mod_factors_scale_plus_io['comp_scale'][trace] = (raw_data['useful_tot'][trace_list[0]]
-                                                                      + io_serial_0) / (raw_data['useful_tot'][trace]
-                                                                                        + io_serial_n) * 100.0
-                    else:
-                        mod_factors_scale_plus_io['comp_scale'][trace] = (raw_data['useful_tot'][trace_list[0]]
-                                                                      + io_serial_0) \
-                                                                     / (raw_data['useful_tot'][trace] + io_serial_n) \
-                                                                     * proc_ratio * 100.0
-                else:
-                    mod_factors_scale_plus_io['comp_scale'][trace] = mod_factors['comp_scale'][trace]
-            else:
-                mod_factors_scale_plus_io['comp_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['comp_scale'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                mod_factors['global_eff'][trace] = mod_factors['parallel_eff'][trace] \
-                                               * mod_factors['comp_scale'][trace] / 100.0
-            else:
-                mod_factors['global_eff'][trace] = mod_factors['parallel_eff'][trace] \
-                                                   * 100.0 / 100.0
-        except:
-            mod_factors['global_eff'][trace] = 'NaN'
-
-        # Basic scalability factors
-        try:  # except NaN
-            other_metrics['ipc'][trace] = float(raw_data['useful_ins'][trace]) \
-                                        / float(raw_data['useful_cyc'][trace])
-        except:
-            other_metrics['ipc'][trace] = 'NaN'
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if trace_mode[trace][:5] != 'Burst':
-                    mod_factors['ipc_scale'][trace] = other_metrics['ipc'][trace] \
-                                              / other_metrics['ipc'][trace_list[0]] * 100.0
-                else:
-                    mod_factors['ipc_scale'][trace] = 'Non-Avail'
-            else:
-                mod_factors['ipc_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['ipc_scale'][trace] = 'NaN'
-
-        # IPC scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    ipc_serial_io_0 = (raw_data['useful_ins'][trace_list[0]] + raw_data['io_ins'][trace_list[0]]
-                               + raw_data['flushing_ins'][trace_list[0]]) \
-                              / (raw_data['useful_cyc'][trace_list[0]] + raw_data['io_cyc'][trace_list[0]]
-                                 + raw_data['flushing_cyc'][trace_list[0]])
-
-                    ipc_serial_io_n = (raw_data['useful_ins'][trace] + raw_data['io_ins'][trace]
-                               + raw_data['flushing_ins'][trace]) \
-                              / (raw_data['useful_cyc'][trace] + raw_data['io_cyc'][trace]
-                                 + raw_data['flushing_cyc'][trace])
-                    mod_factors_scale_plus_io['ipc_scale'][trace] = ipc_serial_io_n / ipc_serial_io_0 * 100.0
-                else:
-                    mod_factors_scale_plus_io['ipc_scale'][trace] = 0.0
-            else:
-                mod_factors_scale_plus_io['ipc_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['ipc_scale'][trace] = mod_factors['ipc_scale'][trace]
-
-        try:  # except NaN
-            other_metrics['freq'][trace] = float(raw_data['useful_cyc'][trace]) \
-                                       / float(raw_data['useful_tot'][trace]) / 1000
-        except:
-            other_metrics['freq'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if trace_mode[trace][:5] != 'Burst':
-                    mod_factors['freq_scale'][trace] = other_metrics['freq'][trace] \
-                                               / other_metrics['freq'][trace_list[0]] * 100.0
-                else:
-                    mod_factors['freq_scale'][trace] = 'Non-Avail'
-            else:
-                mod_factors['freq_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['freq_scale'][trace] = 'NaN'
-            
-        # freq scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    freq_serial_io_0 = (float(raw_data['useful_cyc'][trace_list[0]])
-                                    + float(raw_data['io_cyc'][trace_list[0]])
-                                    + float(raw_data['flushing_cyc'][trace_list[0]])) \
-                                   / (float(raw_data['useful_tot'][trace_list[0]])
-                                      + float(raw_data['io_tot'][trace_list[0]])
-                                      + float(raw_data['flushing_tot'][trace_list[0]])) / 1000
-
-                    freq_serial_io_n = (float(raw_data['useful_cyc'][trace]) + float(raw_data['io_cyc'][trace])
-                                    + float(raw_data['flushing_cyc'][trace])) \
-                                   / (float(raw_data['useful_tot'][trace])
-                                      + float(raw_data['io_tot'][trace])
-                                      + float(raw_data['flushing_tot'][trace])) / 1000
-                    mod_factors_scale_plus_io['freq_scale'][trace] = freq_serial_io_n / freq_serial_io_0 * 100.0
-                else:
-                    mod_factors_scale_plus_io['freq_scale'][trace] = mod_factors['freq_scale'][trace]
-            else:
-                mod_factors_scale_plus_io['freq_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['freq_scale'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if trace_mode[trace][:5] != 'Burst':
-                    if scaling == 'strong':
-                        mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]]) \
-                                                   / float(raw_data['useful_ins'][trace]) * 100.0
-                    else:
-                        mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]]) \
-                                                   / float(raw_data['useful_ins'][trace]) \
-                                                       * proc_ratio * 100.0
-                else:
-                    mod_factors['inst_scale'][trace] = 'Non-Avail'
-            else:
-                mod_factors['inst_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors['inst_scale'][trace] = 'NaN'
-
-        # ins scale + Serial I/O
-        try:  # except NaN
-            if len(trace_list) > 1:
-                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
-                    useful_ins_plus_io_0 = float(raw_data['useful_ins'][trace_list[0]]) \
-                                       + float(raw_data['io_ins'][trace_list[0]]) \
-                                       + float(raw_data['flushing_ins'][trace_list[0]])
-                    useful_ins_plus_io_n = float(raw_data['useful_ins'][trace]) \
-                                       + float(raw_data['io_ins'][trace]) \
-                                       + float(raw_data['flushing_ins'][trace])
-                    if scaling == 'strong':
-                        mod_factors_scale_plus_io['inst_scale'][trace] = useful_ins_plus_io_0 \
-                                                                 / useful_ins_plus_io_n * 100.0
-                    else:
-                        mod_factors_scale_plus_io['inst_scale'][trace] = useful_ins_plus_io_0 / useful_ins_plus_io_n \
-                                                     * proc_ratio * 100.0
-                else:
-                    mod_factors_scale_plus_io['inst_scale'][trace] = mod_factors['inst_scale'][trace]
-            else:
-                mod_factors_scale_plus_io['inst_scale'][trace] = 'Non-Avail'
-        except:
-            mod_factors_scale_plus_io['inst_scale'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                other_metrics['speedup'][trace] = raw_data['runtime'][trace_list[0]] \
-                                                  / raw_data['runtime'][trace]
-                #if scaling == 'strong':
-                #    other_metrics['speedup'][trace] = raw_data['runtime'][trace_list[0]] \
-                #                                / raw_data['runtime'][trace]
-                #else:
-                #    other_metrics['speedup'][trace] = raw_data['runtime'][trace_list[0]] \
-                #                                      / raw_data['runtime'][trace] * proc_ratio
-            else:
-                other_metrics['speedup'][trace] = 'Non-Avail'
-        except:
-            other_metrics['speedup'][trace] = 'NaN'
-
-        try:  # except NaN
-            other_metrics['elapsed_time'][trace] = raw_data['runtime'][trace] * 0.000001
-        except:
-            other_metrics['elapsed_time'][trace] = 'NaN'
-
-        try:  # except NaN
-            if len(trace_list) > 1:
-                #other_metrics['efficiency'][trace] = other_metrics['speedup'][trace] / proc_ratio
-                if scaling == 'strong':
-                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
-                                                     / (raw_data['runtime'][trace] * proc_ratio)
-                else:
-                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
-                                                         / raw_data['runtime'][trace]
-            else:
-                other_metrics['efficiency'][trace] =  'Non-Avail'
-        except:
-            other_metrics['efficiency'][trace] = 'NaN'
-
-    return mod_factors, mod_factors_scale_plus_io, other_metrics
-
-
-def read_mod_factors_csv(cmdl_args):
-    """Reads the model factors table from a csv file."""
-    global mod_factors_doc
-
-    delimiter = ';'
-    file_path = cmdl_args.project
-
-    # Read csv to list of lines
-    if os.path.isfile(file_path) and file_path[-4:] == '.csv':
-        with open(file_path, 'r') as f:
-            lines = f.readlines()
-        lines = [line.rstrip('\n') for line in lines]
-    else:
-        print('==ERROR==', file_path, 'is not a valid csv file.')
-        sys.exit(1)
-
-    # Get the number of processes of the traces
-    processes = lines[0].split(delimiter)
-    processes.pop(0)
-
-    # Create artificial trace_list and trace_processes
-    trace_list = []
-    trace_processes = dict()
-    for process in processes:
-        trace_list.append(process)
-        trace_processes[process] = int(process)
-
-    # Create empty mod_factors handle
-    mod_factors = create_mod_factors(trace_list)
-
-    # Get mod_factor_doc keys
-    mod_factors_keys = list(mod_factors_doc.items())
-
-    # Iterate over the data lines
-    for index, line in enumerate(lines[1:len(mod_factors_keys) + 1]):
-        key = mod_factors_keys[index][0]
-        line = line.split(delimiter)
-        for index, trace in enumerate(trace_list):
-            mod_factors[key][trace] = float(line[index + 1])
-
-    if cmdl_args.debug:
-        print_mod_factors_table(mod_factors, trace_list, trace_processes)
-
-    return mod_factors, trace_list, trace_processes
-
-
-def print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, trace_list, trace_processes):
-    """Prints the model factors table in human readable form on stdout."""
-    global mod_factors_doc
-    global mod_factors_scale_plus_io_doc
-
-    warning_io = []
-    warning_flush = []
-    warning_flush_wrong = []
-    warning_simulation = []
-    for trace in trace_list:
-        if 10.0 <= other_metrics['flushing'][trace] < 15.0:
-            warning_flush.append(1)
-        elif other_metrics['flushing'][trace] >= 15.0:
-            warning_flush_wrong.append(1)
-        if other_metrics['io_posix'][trace] >= 5.0:
-            warning_io.append(1)
-        if mod_factors['serial_eff'][trace] == "Warning!" \
-                or mod_factors['transfer_eff'][trace] == "Warning!":
-            warning_simulation.append(1)
-    if len(warning_flush_wrong) > 0:
-        print("WARNING! Flushing in a trace is too high. Disabling standard output metrics...")
-        print("         Flushing is an overhead due to the tracer, please review your trace.")
-        print('')
-        return
-
-    print('Overview of the Efficiency metrics:')
-
-    longest_name = len(sorted(mod_factors_doc.values(), key=len)[-1])
-
-    line = ''.rjust(longest_name)
-
-    if len(trace_list) == 1:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[0]]
-    else:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[len(trace_list)-1]]
-
-    # BEGIN To adjust header to big number of processes
-    procs_header = []
-    for index, trace in enumerate(trace_list):
-        if limit_min == limit_max and len(trace_list) > 1:
-            procs_header.append(str(trace_processes[trace]) + '[' + str(index+1) + ']')
-        else:
-            procs_header.append(str(trace_processes[trace]))
-
-    max_len_header = 0
-    for proc_h in procs_header:
-        if max_len_header < len(proc_h):
-            max_len_header = len(proc_h)
-
-    value_to_adjust = 10
-    if max_len_header > value_to_adjust:
-        value_to_adjust = max_len_header + 1
-    # END To adjust header to big number of processes
-
-    for index, trace in enumerate(trace_list):
-        line += ' | '
-        if limit_min == limit_max and len(trace_list) > 1:
-            line += (str(trace_processes[trace]) + '[' + str(index+1) + ']').rjust(value_to_adjust)
-        else:
-            line += (str(trace_processes[trace])).rjust(value_to_adjust)
-
-    print(''.ljust(len(line), '='))
-    print(line)
-    line_procs_factors = line
-
-    print(''.ljust(len(line), '='))
-
-    for mod_key in mod_factors_doc:
-        line = mod_factors_doc[mod_key].ljust(longest_name)
-        for trace in trace_list:
-            line += ' | '
-            try:  # except NaN
-                line += ('{0:.2f}%'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
-            except ValueError:
-                line += ('{}'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
-        print(line)
-
-    # print('')
-
-    io_metrics = []
-    io_metrics.append(0)
-    for mod_key in mod_factors_scale_plus_io_doc:
-        for trace in trace_list:
-            if mod_factors_scale_plus_io[mod_key][trace] != 0:
-                io_metrics.append(1)
-
-    if (len(warning_flush) >= 1 or len(warning_io) >= 1) and len(trace_list) > 1:
-        print(''.ljust(len(line_procs_factors), '-'))
-        for mod_key in mod_factors_scale_plus_io_doc:
-            line = mod_factors_scale_plus_io_doc[mod_key].ljust(longest_name)
-            for trace in trace_list:
-                line += ' | '
-                try:  # except NaN
-                    line += ('{0:.2f}%'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
-                except ValueError:
-                    line += ('{}'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
-            print(line)
-
-    print(''.ljust(len(line_procs_factors), '='))
-
-    if len(warning_simulation) > 0:
-        print("===> Warning! Metrics obtained from simulated traces exceed 100%. "
-              "Please review original and simulated traces.")
-    print('')
-
-
-def print_other_metrics_table(other_metrics, trace_list, trace_processes):
-    """Prints the model factors table in human readable form on stdout."""
-    global other_metrics_doc
-
-    print('Overview of the Speedup, IPC and Frequency:')
-
-    longest_name = len(sorted(other_metrics_doc.values(), key=len)[-1])
-
-    line = ''.rjust(longest_name)
-    if len(trace_list) == 1:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[0]]
-    else:
-        limit_min = trace_processes[trace_list[0]]
-        limit_max = trace_processes[trace_list[len(trace_list)-1]]
-
-    # BEGIN To adjust header to big number of processes
-    procs_header = []
-    for index, trace in enumerate(trace_list):
-        if limit_min == limit_max and len(trace_list) > 1:
-            procs_header.append(str(trace_processes[trace]) + '[' + str(index+1) + ']')
-        else:
-            procs_header.append(str(trace_processes[trace]))
-
-    max_len_header = 0
-    for proc_h in procs_header:
-        if max_len_header < len(proc_h):
-            max_len_header = len(proc_h)
-
-    value_to_adjust = 10
-    if max_len_header > value_to_adjust:
-        value_to_adjust = max_len_header + 1
-    # END To adjust header to big number of processes
-
-    for index, trace in enumerate(trace_list):
-        line += ' | '
-        if limit_min == limit_max and len(trace_list) > 1:
-            line += (str(trace_processes[trace]) + '[' + str(index+1) + ']').rjust(value_to_adjust)
-        else:
-            line += (str(trace_processes[trace])).rjust(value_to_adjust)
-
-    print(''.ljust(len(line), '-'))
-    print(line)
-    line_head = line
-    print(''.ljust(len(line), '-'))
-
-    for mod_key in other_metrics_doc:
-        line = other_metrics_doc[mod_key].ljust(longest_name)
-        if len(trace_list) > 1:
-            if mod_key in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                print(line)
-        else:
-            if mod_key in ['ipc', 'freq', 'elapsed_time']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                print(line)
-    print(''.ljust(len(line_head), '-'))
-    # print('')
-
-    warning_io = []
-    warning_flush = []
-    for trace in trace_list:
-        if other_metrics['flushing'][trace] >= 10.0:
-            warning_flush.append(1)
-        if other_metrics['io_mpiio'][trace] >= 5.0 or other_metrics['io_posix'][trace] >= 5.0:
-            warning_io.append(1)
-
-    for mod_key in other_metrics_doc:
-        line = other_metrics_doc[mod_key].ljust(longest_name)
-        # Print empty line to separate values
-        if mod_key in ['freq'] and len(warning_flush) > 0:
-            print("Overview of tracer\'s flushing weight:")
-            print(''.ljust(len(line_head), '-'))
-
-        if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time','efficiency']:
-            if mod_key in ['flushing']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                if len(warning_flush) > 0:
-                    print(line)
-                    print(''.ljust(len(line_head), '-'))
-            elif mod_key in ['io_mpiio','io_posix']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                if len(warning_io) > 0:
-                    print(line)
-            elif mod_key in ['io_eff']:
-                for trace in trace_list:
-                    line += ' | '
-                    try:  # except NaN
-                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                    except ValueError:
-                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
-                if len(warning_io) > 0 or len(warning_flush) > 0:
-                    print(line)
-
-        # Print headers I/O
-        if mod_key in ['flushing'] and len(warning_io) > 0:
-            print(''.ljust(len(line), ' '))
-            print('Overview of File I/O weight:')
-            print(''.ljust(len(line), '-'))
-        if mod_key in ['io_eff'] and len(warning_io) > 0:
-            print(''.ljust(len(line), '-'))
-        #    print('')
-
-    if len(warning_flush) > 0:
-        message_warning_flush = "WARNING! %Flushing is high and affects computation of efficiency metrics."
-    else:
-        message_warning_flush = ""
-    if len(warning_io) > 0:
-        message_warning_io = "WARNING! % File I/O is high and affects computation of efficiency metrics."
-    else:
-        message_warning_io = ""
-    print(message_warning_flush + message_warning_io)
-    print('')
-
-
-def print_efficiency_table(mod_factors, trace_list, trace_processes):
-    """Prints the model factors table in human readable form on stdout."""
-    global mod_factors_doc
-
-    longest_name = len(sorted(mod_factors_doc.values(), key=len)[-1])
-    delimiter = ','
-    file_path = os.path.join(os.getcwd(), 'efficiency_table.csv')
-    with open(file_path, 'w') as output:
-        line = '\"Number of processes\"'
-        if len(trace_list) == 1:
-            limit_min = trace_processes[trace_list[0]]
-            limit_max = trace_processes[trace_list[0]]
-        else:
-            limit_min = trace_processes[trace_list[0]]
-            limit_max = trace_processes[trace_list[len(trace_list)-1]]
-
-        for index, trace in enumerate(trace_list):
-            line += delimiter
-            if limit_min == limit_max and len(trace_list) > 1:
-                line += str(trace_processes[trace]) + '[' + str(index+1) + ']'
-            else:
-                line += str(trace_processes[trace])
-        output.write(line + '\n')
-
-        for mod_key in mod_factors_doc:
-            if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency', 'flushing', 'io_mpiio', 'io_posix']:
-                if mod_key in ['parallel_eff', 'comp_scale']:
-                    line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
-                elif mod_key in ['load_balance', 'comm_eff','ipc_scale', 'inst_scale','freq_scale']:
-                    line = "\"" + mod_factors_doc[mod_key].replace('  ', '  ', 2) + "\""
-                elif mod_key in ['serial_eff', 'transfer_eff']:
-                    line = "\"    " + mod_factors_doc[mod_key].replace('  ', ' ', 4) + "\""
-                else:
-                    line = "\"" + mod_factors_doc[mod_key] + "\""
-                for trace in trace_list:
-                    line += delimiter
-                    try:  # except NaN
-                        if mod_factors[mod_key][trace] == "Non-Avail" or mod_factors[mod_key][trace] == "Warning!":
-                            line += '0.00'
-                        else:
-                            line += '{0:.2f}'.format(mod_factors[mod_key][trace])
-                    except ValueError:
-                        line += '{}'.format(mod_factors[mod_key][trace])
-                output.write(line + '\n')
-        # print('')
-
-        # Create Gnuplot file for efficiency plot
-        gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'efficiency_table.gp')
-        content = []
-
-        with open(gp_template) as f:
-            content = f.readlines()
-
-        limit_procs = 500 + len(trace_list) * 60
-
-        # Replace xrange
-        content = [line.replace('#REPLACE_BY_SIZE', ''.join(['set terminal pngcairo enhanced dashed crop size ',
-                                                             str(limit_procs), ',460 font "Latin Modern Roman,14"']))
-                   for line in content]
-
-        file_path = os.path.join(os.getcwd(), 'efficiency_table.gp')
-        with open(file_path, 'w') as f:
-            f.writelines(content)
-
-        # print('======== Plot (gnuplot File): EFFICIENCY Table ========')
-        if len(trace_list) > 1:
-            print('Efficiency Table written to ' + file_path[:len(file_path) - 3] + '.gp')
-        # print('')
-
-
-def print_mod_factors_csv(mod_factors, trace_list, trace_processes):
-    """Prints the model factors table in a csv file."""
-    global mod_factors_doc
-
-    delimiter = ';'
-    # File is stored in the trace directory
-    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
-    # File is stored in the execution directory
-    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
-
-    with open(file_path, 'w') as output:
-        line = "\"Number of processes\""
-        for trace in trace_list:
-            line += delimiter
-            line += str(trace_processes[trace])
-        output.write(line + '\n')
-
-        for mod_key in mod_factors_doc:
-            line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    line += '{0:.6f}'.format(mod_factors[mod_key][trace])
-                except ValueError:
-                    line += '{}'.format(mod_factors[mod_key][trace])
-            output.write(line + '\n')
-
-        output.write('#\n')
-
-    print('======== Output Files: Metrics and Plots ========')
-    print('Model factors written to ' + file_path)
-
-
-def print_other_metrics_csv(other_metrics, trace_list, trace_processes):
-    """Prints the model factors table in a csv file."""
-    global other_metrics_doc
-
-    delimiter = ';'
-    # File is stored in the trace directory
-    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
-    # File is stored in the execution directory
-    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
-
-    with open(file_path, 'w') as output:
-        line = "\"Number of processes\""
-        for trace in trace_list:
-            line += delimiter
-            line += str(trace_processes[trace])
-        output.write(line + '\n')
-
-        for mod_key in other_metrics_doc:
-            line = "\"" + other_metrics_doc[mod_key].replace('  ', '', 2) +"\""
-            for trace in trace_list:
-                line += delimiter
-                try:  # except NaN
-                    line += '{0:.6f}'.format(other_metrics[mod_key][trace])
-                except ValueError:
-                    line += '{}'.format(other_metrics[mod_key][trace])
-            output.write(line + '\n')
-
-        output.write('#\n')
-
-    print('======== Output File: Other Metrics ========')
-    print('Speedup, IPC, Frequency, I/O and Flushing written to ' + file_path)
-    print('')
-
-
-def plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
-    # Plotting using python
-    # For plotting using python, read the csv file
-
-    file_path = os.path.join(os.getcwd(), 'efficiency_table.csv')
-    df = pd.read_csv(file_path)
-    metrics = df['Number of processes'].tolist()
-
-    traces_procs = list(df.keys())[1:]
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list)-1]])
-
-    limit_min = trace_processes[trace_list[0]]
-
-    # To xticks label
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if int(limit) == int(limit_min) and same_procs:
-            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
-        elif int(limit) == int(limit_min) and not same_procs:
-            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
-        else:
-            s_xtics = str(trace_processes[trace])
-        if s_xtics in label_xtics:
-            s_xtics += '[' + str(index + 1) + ']'
-        label_xtics.append(s_xtics)
-    ##### End xticks
-
-    # BEGIN To adjust header to big number of processes
-    max_len_header = 7
-    for labelx in label_xtics:
-        if len(labelx) > max_len_header:
-            max_len_header = len(labelx)
-
-    # END To adjust header to big number of processes
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if float(value) == 0.0:
-                list_temp.append(np.nan)
-            else:
-                list_temp.append(float(value))
-        # print(list_temp)
-        list_data.append(list_temp)
-
-    list_np = np.array(list_data)
-
-    idx = metrics
-    cols = label_xtics
-    #cols = traces_procs
-    df = pd.DataFrame(list_np, index=idx, columns=cols)
-
-    # min for 1 traces is x=3 for the (x,y) in figsize
-    size_figure_y = len(idx) * 0.40
-    size_figure_x = len(cols) * 0.16 * max_len_header
-    plt.figure(figsize=(size_figure_x, size_figure_y))
-
-    ax = sns.heatmap(df, cmap='RdYlGn', linewidths=0.05, annot=True, vmin=0, vmax=100, center=75, \
-                     fmt='.2f', annot_kws={"size": 10}, cbar_kws={'label': 'Percentage(%)'})
-    ## to align ylabels to left
-    plt.yticks(rotation=0, ha='left')
-    ax.xaxis.tick_top()
-    # to adjust metrics
-    len_pad = 0
-    for metric in metrics:
-        if len(metric) > len_pad:
-            len_pad = len(metric)
-
-    ax.yaxis.set_tick_params(pad=len_pad + 120)
-    plt.savefig('efficiency_table-matplot.png', bbox_inches='tight')
-
-
-def plots_modelfactors_matplot(trace_list, trace_mode, trace_processes, trace_tasks, trace_threads, cmdl_args):
-    # Plotting using python
-    # For plotting using python, read the csv file
-    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
-    df = pd.read_csv(file_path, sep=';')
-
-    # metrics = df['Number of processes'].tolist()
-
-    traces_procs = list(df.keys())[1:]
-
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if value != 'Non-Avail' and value != "Warning!":
-                list_temp.append(float(value))
-            elif value == 'Non-Avail' or value == "Warning!":
-                list_temp.append(float('nan'))
-        #print(list_temp)
-        list_data.append(list_temp)
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_tasks[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list)-1]])
-
-    limit_min = trace_processes[trace_list[0]]
-
-    # To xticks label
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_tasks[trace]
-        if int(limit) == int(limit_min) and same_procs:
-            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
-        elif int(limit) == int(limit_min) and not same_procs:
-            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' \
-                           + str(threads) + ')'
-        else:
-            s_xtics = str(trace_processes[trace])
-        label_xtics.append(s_xtics)
-
-    ### Plot: Global Metrics
-    # print(list_data)
-    plt.figure()
-    max_global = max([max(list_data[0]), max(list_data[1]), max(list_data[2]), max(list_data[3]), max(list_data[6])])
-    plt.plot(traces_procs, list_data[0], 'o-', color='black', label='Global Efficiency')
-    plt.plot(traces_procs, list_data[1], 's--', color='magenta', label='Parallel Efficiency')
-    plt.plot(traces_procs, list_data[2], 'X:', color='red', linewidth=2, label='Load Balance')
-    plt.plot(traces_procs, list_data[3], 'x-.', color='green', label='Communication efficiency')
-    plt.plot(traces_procs, list_data[6], 'v--', color='blue', label='Computation scalability')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency (%)")
-    plt.xticks(tuple(traces_procs), tuple(label_xtics))
-    # print(max_global)
-    if float(max_global) < 100:
-        max_global = 100
-
-    plt.ylim(0, float(max_global)+5)
-    plt.legend()
-    plt.savefig('modelfactors-matplot.png', bbox_inches='tight')
-
-    # Plot: Comm Metrics
-    if trace_mode[trace] == 'Detailed+MPI':
-        plt.figure()
-        max_comm = max([max(list_data[3]), max(list_data[4]), max(list_data[5])])
-        plt.plot(traces_procs, list_data[3], 's-', color='green', label='Communication efficiency')
-        plt.plot(traces_procs, list_data[4], 'h--', color='gold', label='Serialization efficiency')
-        plt.plot(traces_procs, list_data[5], 'x:', color='tomato', label='Transfer efficiency')
-        plt.xlabel("Number of Processes")
-        plt.ylabel("Efficiency (%)")
-        plt.xticks(tuple(traces_procs), tuple(label_xtics))
-        if float(max_comm) < 100:
-            max_comm = 100
-
-        plt.ylim(0, float(max_comm)+5)
-        plt.legend()
-        plt.savefig('modelfactors-comm-matplot.png', bbox_inches='tight')
-
-    ### Plot: Scale Metrics
-    if trace_mode[trace][:5] != 'Burst':
-        plt.figure()
-        max_scale = max([max(list_data[6]), max(list_data[7]), max(list_data[8]), max(list_data[9])])
-        plt.plot(traces_procs, list_data[6], 'v-', color='blue', label='Computation scalability')
-        plt.plot(traces_procs, list_data[7], 'v--', color='skyblue', label='IPC scalability')
-        plt.plot(traces_procs, list_data[8], 'v:', color='gray', label='Instruction scalability')
-        plt.plot(traces_procs, list_data[9], 'v-.', color='darkviolet', label='Frequency scalability')
-        plt.xlabel("Number of Processes")
-        plt.ylabel("Efficiency (%)")
-        plt.xticks(tuple(traces_procs), tuple(label_xtics))
-        if float(max_scale) < 100:
-            max_scale = 100
-
-        plt.ylim(0, float(max_scale)+5)
-        plt.legend()
-        plt.savefig('modelfactors-scale-matplot.png', bbox_inches='tight')
-
-
-def plots_speedup_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
-    # Plotting using python
-    # For plotting using python, read the csv file
-    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
-    df = pd.read_csv(file_path, sep=';')
-
-    traces_procs = list(df.keys())[1:]
-
-    list_data = []
-    for index, rows in df.iterrows():
-        list_temp = []
-        for value in list(rows)[1:]:
-            if value != 'Non-Avail':
-                list_temp.append(float(value))
-            elif value == 'Non-Avail':
-                list_temp.append(float('nan'))
-        # print(list_temp)
-        list_data.append(list_temp)
-
-    # To control same number of processes for the header on plots and table
-    same_procs = True
-    procs_trace_prev = trace_processes[trace_list[0]]
-    tasks_trace_prev = trace_tasks[trace_list[0]]
-    threads_trace_prev = trace_threads[trace_list[0]]
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
-                and threads_trace_prev == threads:
-            same_procs *= True
-        else:
-            same_procs *= False
-
-    # Set limit for projection
-    if cmdl_args.limit:
-        limit = cmdl_args.limit
-    else:
-        limit = str(trace_processes[trace_list[len(trace_list) - 1]])
-
-    limit_min = trace_processes[trace_list[0]]
-
-    # proc_ratio to ideal speedup
-    proc_ratio = []
-    for index, trace in enumerate(trace_list):
-        proc_ratio.append(trace_processes[trace]/trace_processes[trace_list[0]])
-    # print(proc_ratio)
-
-    # To xticks label
-    label_xtics = []
-    for index, trace in enumerate(trace_list):
-        tasks = trace_tasks[trace]
-        threads = trace_threads[trace]
-        if int(limit) == int(limit_min) and same_procs:
-            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
-        elif int(limit) == int(limit_min) and not same_procs:
-            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' \
-                          + str(threads) + ')'
-        else:
-            s_xtics = str(trace_processes[trace])
-        label_xtics.append(s_xtics)
-
-    ### Plot: SpeedUp
-    # print(list_data)
-
-    int_traces_procs = []
-    prev_procs = int(float(traces_procs[0]))
-    int_traces_procs.append(int(float(traces_procs[0])))
-    count_rep = 0
-    for procs in traces_procs[1:]:
-        if prev_procs == int(float(procs)):
-            count_rep += 1
-            int_traces_procs.append(int(float(procs)) + (2 * count_rep))
-            prev_procs = int(float(procs))
-        else:
-            int_traces_procs.append(int(float(procs)))
-            prev_procs = int(float(procs))
-            count_rep = 0
-
-
-    plt.figure()
-    for x, y in zip(int_traces_procs, list_data[2]):
-        label = "{:.2f}".format(y)
-        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
-    plt.plot(int_traces_procs, list_data[2], 'o-', color='blue', label='measured')
-    plt.plot(int_traces_procs, proc_ratio, 'o-', color='black', label='ideal')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("SpeedUp")
-    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
-    #plt.yscale('log')
-    plt.legend()
-    # plt.xlim(0, )
-    plt.ylim(0, )
-    plt.savefig('speedup-matplot.png', bbox_inches='tight')
-
-    ### Plot: Efficiency
-    # print(list_data)
-    plt.figure()
-    for x, y in zip(int_traces_procs, list_data[1]):
-        label = "{:.2f}".format(y)
-        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
-
-    plt.plot(int_traces_procs, list_data[1], 'o-', color='blue', label='measured')
-    plt.axhline(y=1, color='black', linestyle='-', label='ideal')
-    plt.xlabel("Number of Processes")
-    plt.ylabel("Efficiency")
-    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
-    # plt.yscale('log')
-    max_y = max(list_data[1])
-    if max_y < 1.1:
-        max_y = 1.1
-    plt.ylim(0,max_y+0.1)
-    # plt.xlim(0, )
-    plt.legend()
-    plt.savefig('efficiency-matplot.png', bbox_inches='tight')
\ No newline at end of file
diff --git a/tracemetadata.py b/tracemetadata.py
deleted file mode 100644
index de85bd4..0000000
--- a/tracemetadata.py
+++ /dev/null
@@ -1,376 +0,0 @@
-#!/usr/bin/env python3
-
-"""Functions to extract metadata information from each trace."""
-
-from __future__ import print_function, division
-import os
-import time
-import sys
-import math
-import re
-import fnmatch
-import mmap
-import gzip
-import multiprocessing
-import threading
-from multiprocessing import Process
-
-
-def get_traces_from_args(cmdl_args):
-    """Filters the given list to extract traces, i.e. matching *.prv and sorts
-    the traces in ascending order based on the number of processes in the trace.
-    Excludes all files other than *.prv and ignores also simulated traces from
-    this script, i.e. *.sim.prv
-    Returns list of trace paths and dictionary with the number of processes.
-    """
-
-    def get_processes(prv_file):
-        return trace_processes[prv_file], trace_tasks[prv_file], trace_threads[prv_file]
-
-    trace_list = [x for x in cmdl_args.trace_list if (fnmatch.fnmatch(x, '*.prv') or fnmatch.fnmatch(x, '*.prv.gz'))
-                  if not fnmatch.fnmatch(x, '*.sim.prv')]
-    if not trace_list:
-        print('==Error== could not find any traces matching "', ' '.join(cmdl_args.trace_list))
-        sys.exit(1)
-
-    trace_processes = dict()
-    trace_tasks = dict()
-    trace_threads = dict()
-    trace_mode = dict()
-    trace_task_per_node = dict()
-
-    trace_list_temp = []
-    trace_list_removed = []
-    for trace in trace_list:
-        if float(os.path.getsize(trace)/1024/1024) < float(cmdl_args.max_trace_size):
-            trace_list_temp.append(trace)
-        else:
-            trace_list_removed.append(trace)
-
-    if len(trace_list_temp) < 1:
-        print('==Error== All traces exceed the maximum size (', cmdl_args.max_trace_size, 'MiB)')
-        for trace_upper in trace_list_removed:
-            print(trace_upper)
-        sys.exit(1)
-
-    print("Running modelfactors.py for the following traces list:")
-    trace_list = trace_list_temp
-    for trace in trace_list:
-        print(trace)
-
-    if len(trace_list_removed) > 0:
-        print("\nFollowing traces were excluded to be analyzed (size >", cmdl_args.max_trace_size, "MiB): ")
-        for trace in trace_list_removed:
-            print(trace)
-
-    print('\nExtracting metadata from the traces list.')
-    # This part could be parallelized
-    # t1 = time.perf_counter()
-    for trace in trace_list:
-        trace_processes[trace], trace_tasks[trace], trace_threads[trace] = get_num_processes(trace)
-    trace_list = sorted(trace_list, key=get_processes)
-
-    t1 = time.perf_counter()
-    jobs = []
-    manager = multiprocessing.Manager()
-    trace_mode = manager.dict()
-    for trace in trace_list:
-        p_act = Process(target=get_trace_mode, args=(trace, cmdl_args, trace_mode))
-        jobs.append(p_act)
-        p_act.start()
-
-    for p in jobs:
-        p.join()
-
-    t2 = time.perf_counter()
-
-    print('Successfully Metadata Extraction in {0:.1f} seconds.\n'.format(t2 - t1))
-
-    for trace in trace_list:
-        trace_task_per_node[trace] = get_task_per_node(trace)
-
-    print("Starting Analysis for the following sorted traces list:")
-    print_overview(trace_list, trace_processes, trace_tasks, trace_threads, trace_mode, trace_task_per_node)
-    return trace_list, trace_processes, trace_tasks, trace_threads, trace_task_per_node, trace_mode
-
-
-def get_num_processes(prv_file):
-    """Gets the number of processes in a trace from the according .row file.
-    Please note: return value needs to be integer because this function is also
-    used as sorting key.
-    """
-    if prv_file[-4:] == ".prv":
-        tracefile = open(prv_file)
-        for line in tracefile:
-            header_trace = line.split('_')
-            break
-        tracefile.close()
-
-    if prv_file[-7:] == ".prv.gz":
-        with gzip.open(prv_file, 'rt') as f:
-            for line in f:
-                if "#Paraver" in line:
-                    header_trace = line.split('_')
-                    break
-        f.close()
-
-    
-    #print(header_trace)
-    header_to_print = header_trace[1].split(':')[3].split('(')
-    tasks = header_to_print[0]
-    threads = header_to_print[1]
-    list_procspernode = header_trace[1].split('(')[2].split(')')[0].split(',')
-    #print(list_procspernode)
-    total_procs = 0
-    for proc_node in list_procspernode:
-        total_procs += int(proc_node.split(':')[0])
-
-    return int(total_procs), int(tasks), int(threads)
-
-
-def get_tasks_threads(prv_file):
-    """Gets the tasks and threads from the .prv file.
-      """
-    if prv_file[-4:] == ".prv":
-        tracefile = open(prv_file)
-        for line in tracefile:
-            header_trace = line.split('_')
-            break
-        tracefile.close()
-
-    if prv_file[-7:] == ".prv.gz":
-        with gzip.open(prv_file, 'rt') as f:
-            for line in f:
-                if "#Paraver" in line:
-                    header_trace = line.split('_')
-                    break
-        f.close()
-    header_to_print = header_trace[1].split(':')[3].split('(')
-    tasks = header_to_print[0]
-    threads = header_to_print[1]
-    return int(tasks), int(threads)
-
-
-def get_task_per_node(prv_file):
-    """Gets the number of processes and nodes in a trace from the according .row file.
-    """
-    row_file = True
-
-    if prv_file[-4:] == ".prv":
-        if os.path.exists(prv_file[:-4] + '.row'):
-            tracefile = open(prv_file[:-4] + '.row')
-        else:
-            tracefile = prv_file[:-4]
-            row_file = False
-    elif prv_file[-7:] == ".prv.gz":
-        if os.path.exists(prv_file[:-7] + '.row'):
-            tracefile = open(prv_file[:-7] + '.row')
-        else:
-            tracefile = prv_file[:-7]
-            row_file = False
-
-    tasks = 0
-    nodes = 1
-    if row_file:
-        for line in tracefile:
-            if "LEVEL CPU SIZE" in line:
-                tasks = int(line[15:])
-            if "LEVEL NODE SIZE" in line:
-                nodes = int(line[15:])
-        tracefile.close()
-        task_nodes = math.ceil(int(tasks) / int(nodes))
-    else:
-        if prv_file[-4:] == ".prv":
-            tracefile = open(prv_file)
-            for line in tracefile:
-                header_trace = line.split('_')
-                break
-            tracefile.close()
-
-        if prv_file[-7:] == ".prv.gz":
-            with gzip.open(prv_file, 'rt') as f:
-                for line in f:
-                    if "#Paraver" in line:
-                        header_trace = line.split('_')
-                        break
-            f.close()
-        task_nodes = int(header_trace[1].split(':')[1].split('(')[1].replace(')','').split(',')[0])
-
-    return int(task_nodes)
-
-
-def get_trace_mode(prv_file, cmdl_args, trace_mode):
-    """Gets the trace mode by detecting the event 40000018:2 in .prv file
-    to detect the Burst mode trace in another case is Detailed mode.
-    50000001 for MPI, 60000001 for OpenMP, 61000000 for pthreads, 63000001 for CUDA
-    """
-    mode_trace = ''
-    burst = 0
-    pcf_file = True
-    if prv_file[-4:] == ".prv":
-        file_pcf = prv_file[:-4] + '.pcf'
-        tracefile = open(prv_file)
-        for line in tracefile:
-            if "40000018:2" in line:
-                burst = 1
-                break
-        tracefile.close()
-    if prv_file[-7:] == ".prv.gz":
-        file_pcf = prv_file[:-7] + '.pcf'
-        with gzip.open(prv_file, 'rt') as f:
-            for line in f:
-                if "40000018:2" in line:
-                    burst = 1
-                    break
-        f.close()
-
-    if burst == 1:
-        mode_trace = 'Burst'
-    else:
-        mode_trace = 'Detailed'
-
-    if os.path.exists(file_pcf) and cmdl_args.trace_mode_detection == 'pcf':
-        with open(file_pcf, 'rb', 0) as file, \
-                mmap.mmap(file.fileno(), 0, access=mmap.ACCESS_READ) as s:
-            if s.find(b'   500000') != -1:
-                mode_trace += '+MPI'
-                if s.find(b'   610000') != -1:
-                    mode_trace += '+Pthreads'
-                elif s.find(b'   60000') != -1:
-                    if not s.find(b'   60000019') == s.find(b'   60000'):
-                        mode_trace += '+OpenMP'
-                if s.find(b'   630000') != -1 or s.find(b'   631000') != -1 or s.find(b'   632000') != -1:
-                    mode_trace += '+CUDA'
-                if s.find(b'   9200001') != -1:
-                    mode_trace += '+OmpSs'
-                if s.find(b'   642000') != -1 or s.find(b'   6400001') != -1 or s.find(b'   641000') != -1:
-                    mode_trace += '+OpenCL'
-            else:
-                if s.find(b'   610000') != -1:
-                    mode_trace += '+Pthreads'
-                elif s.find(b'   60000') != -1:
-                    if not s.find(b'   60000019') == s.find(b'   60000'):
-                        mode_trace += '+OpenMP'
-                if s.find(b'   630000') != -1 or s.find(b'   631000') != -1 or s.find(b'   632000') != -1:
-                    mode_trace += '+CUDA'
-                if s.find(b'   9200001') != -1:
-                    mode_trace += '+OmpSs'
-                if s.find(b'   642000') != -1 or s.find(b'   6400001') != -1 or s.find(b'   641000') != -1:
-                    mode_trace += '+OpenCL'
-        file.close()
-    else:
-        count_mpi = 0
-        count_omp = 0
-        count_pthreads = 0
-        count_cuda = 0
-        count_ompss = 0
-        count_opencl = 0
-        if prv_file[-4:] == ".prv":
-            with open(prv_file, 'rb', 0) as file, \
-                    mmap.mmap(file.fileno(), 0, access=mmap.ACCESS_COPY) as s:
-                # 2:cpu_id:appl_id:task_id:thread_id:time:event_type:event_value
-                mpi = re.compile(rb'\n2:\w+:\w+:[1-4]:1:\w+:50000\w\w\w:')
-                omp = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:60000018:')
-                cuda = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:63\w\w\w\w\w\w:')
-                pthreads = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:610000\w\w:')
-                ompss = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:9200001:')
-                opencl = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:64\w\w\w\w\w\w:')
-                if mpi.search(s):
-                    count_mpi = 1
-                    mpi_trace = '+MPI'
-                if omp.search(s):
-                    count_omp = 1
-                    omp_trace = '+OpenMP'
-                elif cuda.search(s):
-                    count_cuda = 1
-                    cuda_trace = '+CUDA'
-                elif pthreads.search(s):
-                    count_pthreads = 1
-                    pthreads_trace = '+Pthreads'
-                elif ompss.search(s):
-                    count_ompss = 1
-                    ompss_trace = '+OmpSs'
-                elif opencl.search(s):
-                    count_opencl = 1
-                    opencl_trace = '+OpenCL'
-            file.close()
-        elif prv_file[-7:] == ".prv.gz":
-            handle = open(prv_file, "rb")
-            mapped = mmap.mmap(handle.fileno(), 0, access=mmap.ACCESS_READ)
-            gzfile = gzip.GzipFile(mode="r", fileobj=mapped)
-
-            # 2:cpu_id:appl_id:task_id:thread_id:time:event_type:event_value
-            mpi = re.compile(rb'\n2:\w+:\w+:[1-4]:1:\w+:50000\w\w\w:')
-            omp = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:60000018:')
-            cuda = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:63\w\w\w\w\w\w:')
-            pthreads = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:610000\w\w:')
-            ompss = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:9200001:')
-            opencl = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:64\w\w\w\w\w\w:')
-            s = gzfile.read()
-            if mpi.search(s):
-                count_mpi = 1
-                mpi_trace = '+MPI'
-            if omp.search(s):
-                count_omp = 1
-                omp_trace = '+OpenMP'
-            elif cuda.search(s):
-                count_cuda = 1
-                cuda_trace = '+CUDA'
-            elif pthreads.search(s):
-                count_pthreads = 1
-                pthreads_trace = '+Pthreads'
-            elif ompss.search(s):
-                count_ompss = 1
-                ompss_trace = '+OmpSs'
-            elif opencl.search(s):
-                count_opencl = 1
-                opencl_trace = '+OpenCL'
-
-            handle.close()
-        if count_mpi > 0:
-            mode_trace += mpi_trace
-        if count_omp > 0:
-            mode_trace += omp_trace
-        if count_pthreads > 0:
-            mode_trace += pthreads_trace
-        if count_ompss > 0:
-            mode_trace += ompss_trace
-        if count_cuda > 0:
-            mode_trace += cuda_trace
-        if count_opencl > 0:
-            mode_trace += opencl_trace
-
-    trace_mode[prv_file] = mode_trace
-    #return mode_trace
-
-
-def human_readable(size, precision=1):
-    """Converts a given size in bytes to the value in human readable form."""
-    suffixes = ['B', 'KB', 'MB', 'GB', 'TB']
-    suffixIndex = 0
-    while size > 1024 and suffixIndex < 4:
-        suffixIndex += 1
-        size = size / 1024.0
-    return "%.*f%s" % (precision, size, suffixes[suffixIndex])
-
-
-def print_overview(trace_list, trace_processes, trace_tasks, trace_threads, trace_mode, trace_task_per_node):
-    """Prints an overview of the traces that will be processed."""
-    #print('Running', os.path.basename(__file__), 'for the following traces:')
-
-    file_path = os.path.join(os.getcwd(), 'traces_metadata.txt')
-    with open(file_path, 'w') as output:
-        for index, trace in enumerate(trace_list):
-            line = '[' + str(index+1) + '] ' + trace
-
-            line += ', ' + str(trace_processes[trace]) \
-                    + '(' + str(trace_tasks[trace]) + 'x' + str(trace_threads[trace]) + ')' + ' processes'
-            line += ', ' + str(trace_task_per_node[trace]) + ' tasks per node'
-            line += ', ' + human_readable(os.path.getsize(trace))
-            line += ', ' + str(trace_mode[trace]) + ' mode'
-            print(line)
-            output.write(line + '\n')
-
-    print('======== Output Files: Traces metadata ========')
-    print('Traces metadata written to ' + file_path)
-    print('')
\ No newline at end of file
diff --git a/utils.py b/utils.py
deleted file mode 100644
index e457c32..0000000
--- a/utils.py
+++ /dev/null
@@ -1,186 +0,0 @@
-#!/usr/bin/env python3
-
-"""modelfactors.py utils."""
-
-from __future__ import print_function, division
-import os
-import sys
-import subprocess
-import tempfile
-import argparse
-import shutil
-
-
-try:
-    import scipy.optimize
-except ImportError:
-    print('==Error== Could not import SciPy. Please make sure you have installed SciPy.')
-
-try:
-    import numpy
-except ImportError:
-    print('==Error== Could not import NumPy. Please make sure you have installed NumPy.')
-
-try:
-    import pandas as pd
-except ImportError:
-    print('==Error== Could not import pandas. Please make sure you have installed pandas.')
-try:
-    import seaborn as sns
-except ImportError:
-    print('==Error== Could not import seaborn. Please make sure you have installed  seaborn.')
-
-try:
-    import matplotlib.pyplot as plt
-except ImportError:
-    print('==Error== Could not import matplotlib. Please make sure you have installed matplotlib.')
-
-
-__author__ = "Sandra Mendez"
-__copyright__ = "Copyright 2019, Barcelona Supercomputing Center (BSC)"
-__version_major__ = 0
-__version_minor__ = 3
-__version_micro__ = 7
-__version__ = str(__version_major__) + "." + str(__version_minor__) + "." + str(__version_micro__)
-
-
-def parse_arguments():
-    """Parses the command line arguments.
-    Currently the script only accepts one parameter list, which is the list of
-    traces that are processed. This can be a regex and only valid trace files
-    are kept at the end.
-    """
-    parser = argparse.ArgumentParser(description='Generates performance metrics from a set of Paraver traces.')
-    parser.add_argument('trace_list', nargs='*',
-                        help='list of traces to process. Accepts wild cards and automatically filters for '
-                             'valid traces'),
-    parser.add_argument("-m", "--metrics", choices=['simple', 'hybrid'], default='hybrid',
-                        help='select the kind of efficiency metrics (single parallelism or hybrid, default: hybrid)')
-    parser.add_argument("-v", "--version", action='version', version='%(prog)s {version}'.format(version=__version__))
-    parser.add_argument("-d", "--debug", help="increase output verbosity to debug level", action="store_true")
-    parser.add_argument("-s", "--scaling",
-                        help="define whether the measurements are weak or strong scaling (default: auto)",
-                        choices=['weak', 'strong', 'auto'], default='auto')
-    parser.add_argument('--limit', help='limit number of cores for the plots '
-                                        '(default: max processes of the trace list )')
-    parser.add_argument("-ms", "--max_trace_size", help='set the maximum trace size in MiB allowed.'
-                                                        ' (default: 1024 MiB )', default=1024.0)
-    parser.add_argument("-tmd", "--trace_mode_detection", choices=['pcf', 'prv'], default='pcf',
-                        help='select .prv or .pcf file for trace mode detection. '
-                             'For customized traces, i.e. cut, filtered and so on, you must select'
-                             ' the .prv file. (default: pcf)')
-
-    if len(sys.argv) == 1:
-        parser.print_help()
-        sys.exit(1)
-
-    cmdl_args = parser.parse_args()
-
-    if cmdl_args.debug:
-        print('==DEBUG== Running in debug mode.')
-
-    return cmdl_args
-
-
-def which(cmd):
-    """Returns path to cmd in path or None if not available."""
-    for path in os.environ["PATH"].split(os.pathsep):
-        path = path.strip('"')
-        cmd_path = os.path.join(path, cmd)
-        if os.path.isfile(cmd_path) and os.access(cmd_path, os.X_OK):
-            return cmd_path
-
-    return None
-
-
-def check_installation(cmdl_args):
-    """Check if Dimemas and paramedir are in the path."""
-
-    if not which('Dimemas'):
-        print('Could not find Dimemas. Please make sure Dimemas is correctly installed and in the path.')
-        sys.exit(1)
-    if not which('paramedir'):
-        print('Could not find paramedir. Please make sure Paraver is correctly installed and in the path.')
-        sys.exit(1)
-
-    if not which('python3'):
-        print('==> WARNING!!! It requires python version 3 or higher for a full functionality.')
-        option_user = input("Do you want to proceed with the analysis? (Yes/No)[Yes]: ").upper()
-        if option_user == 'NO':
-            sys.exit(1)
-
-    if cmdl_args.debug:
-        print('==DEBUG== Using', __file__, __version__)
-        print('==DEBUG== Using', sys.executable, ".".join(map(str, sys.version_info[:3])))
-
-        try:
-            print('==DEBUG== Using', 'SciPy', scipy.__version__)
-        except NameError:
-            print('==DEBUG== SciPy not installed.')
-
-        try:
-            print('==DEBUG== Using', 'NumPy', numpy.__version__)
-        except NameError:
-            print('==DEBUG== NumPy not installed.')
-
-        print('==DEBUG== Using', which('Dimemas'))
-        print('==DEBUG== Using', which('paramedir'))
-        print('')
-
-    return
-
-
-def run_command(cmd, cmdl_args):
-    """Runs a command and forwards the return value."""
-    if cmdl_args.debug:
-        print('==DEBUG== Executing:', ' '.join(cmd))
-
-    # In debug mode, keep the output. Otherwise, redirect it to devnull.
-    if cmdl_args.debug:
-        out = tempfile.NamedTemporaryFile(suffix='.out', prefix=cmd[0] + '_', dir='./', delete=False)
-        err = tempfile.NamedTemporaryFile(suffix='.err', prefix=cmd[0] + '_', dir='./', delete=False)
-    else:
-        out = open(os.devnull, 'w')
-        err = open(os.devnull, 'w')
-
-    return_value = subprocess.call(cmd, stdout=out, stderr=err)
-
-    out.close
-    err.close
-
-    if return_value == 0:
-        if cmdl_args.debug:
-            os.remove(out.name)
-            os.remove(err.name)
-    else:
-        print('==ERROR== ' + ' '.join(cmd) + ' failed with return value ' + str(return_value) + '!')
-        print('See ' + out.name + ' and ' + err.name + ' for more details.')
-
-    return return_value
-
-
-def create_temp_folder(folder_name, cmdl_args):
-    path_output_aux = os.getcwd() + '/' + folder_name
-
-    if os.path.exists(path_output_aux):
-        shutil.rmtree(path_output_aux)
-    os.makedirs(path_output_aux)
-    return (path_output_aux)
-
-
-def move_files(path_source, path_dest, cmdl_args):
-    """Wraps os.remove with a try clause."""
-    try:
-        shutil.move(path_source, path_dest)
-    except:
-        if cmdl_args.debug:
-            print('==DEBUG== Failed to move ' + path_source + '!')
-
-
-def remove_files(path,cmdl_args):
-    """Wraps os.remove with a try clause."""
-    try:
-        os.remove(path)
-    except:
-        if cmdl_args.debug:
-            print('==DEBUG== Failed to remove ' + path + '!')
\ No newline at end of file
-- 
GitLab


From 17d17369e270618e6878cc64b1e05e1ca0f20e8c Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 6 Sep 2022 09:55:40 +0200
Subject: [PATCH 08/40] Fixed merge error

---
 script.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/script.sh b/script.sh
index b28e5b8..8f6d240 100755
--- a/script.sh
+++ b/script.sh
@@ -365,7 +365,7 @@ Create_metrics()
 
   echo "Creating metrics and storing theme in Metrics folder"
   echo
-  python3 Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w ".././modelfactors.py *" 
+  python3 Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "modelfactors.py *" 
   mv analysis."$Jobs_scheduler" Metrics
   cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
   state5=$("$job" --wait analysis."$Jobs_scheduler")
-- 
GitLab


From b7b8b6319a9ad92fcd4479839b4c3a263357b00a Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 6 Sep 2022 10:06:00 +0200
Subject: [PATCH 09/40] Name changes and minor comprovations

---
 README.md                          |  6 +++---
 script.sh => perf_metrics.bash     | 27 +++++++++++++++++++++------
 config.bash => perf_metrics.config |  0
 3 files changed, 24 insertions(+), 9 deletions(-)
 rename script.sh => perf_metrics.bash (94%)
 mode change 100755 => 100644
 rename config.bash => perf_metrics.config (100%)

diff --git a/README.md b/README.md
index 388dea6..2652f01 100644
--- a/README.md
+++ b/README.md
@@ -24,9 +24,9 @@ Also the different modules needed to compile and execute NEMO should be loaded b
 # Usage
 
 * Copy all the content of this folder into the folder with the input data for NEMO
-* Edit the file config.bash adding the information required.
-* Execute script.sh 
+* Edit the file perf_metrics.config and replace the parameters values with the suited information.
+* Execute perf_metrics.bash
 ```
-./script.sh
+./perf_metrics.bash
 ```
 * If the script executed without problems the data will be ready at the Metrics folder.
diff --git a/script.sh b/perf_metrics.bash
old mode 100755
new mode 100644
similarity index 94%
rename from script.sh
rename to perf_metrics.bash
index 8f6d240..d899bcc
--- a/script.sh
+++ b/perf_metrics.bash
@@ -5,7 +5,7 @@ main()
 
 if [ $# -gt 0 ]; then
 
-  echo "This script does not accept arguments, parameters need to be added to config.bash Aborting"
+  echo "This script does not accept arguments, parameters need to be added to perf_metrics.config Aborting"
   exit 1
 
 fi
@@ -16,8 +16,8 @@ dir=$(pwd)
 echo
 echo "Using the following configuration:"
 echo
-source "$dir"/config.bash
-grep -o '^[^#]*' config.bash
+source "$dir"/perf_metrics.config
+grep -o '^[^#]*' perf_metrics.config
 echo
 
 Init
@@ -67,7 +67,7 @@ Init()
   Nemo_cores="${Nemo_cores:-( 48 )}"
   Jobs_n_cores="${Jobs_n_cores:-48}"
   Jobs_scheduler="${Jobs_scheduler:-"slurm"}"
-  time="${Jobs_time:-"0"}"
+  time="${Jobs_time:-0}"
   queue="${Jobs_queue:-""}"
   compile="${Compilation_compile:-"false"}"
   cfg="${Compilation_ref:-"ORCA2_ICE_PISCES"}"
@@ -94,6 +94,21 @@ Test_arguments()
     echo
     exit 1
   fi
+  
+  
+  #Nemo_cores contains ints?
+  
+  re='^[0-9]+$'
+  for core in "${Nemo_cores[@]}"
+  do
+
+    if ! [[ $core =~ $re ]] ; then
+      echo "Error Nemo_cores has to contain integer values"
+      echo
+      exit 1
+    fi
+  done
+
   # cfg exists?
   if ! test -d "${Nemo_path}/cfgs/${cfg}"; then
     echo "configuration: ${cfg} doesn't exists in ${Nemo_path}/cfgs dir"
@@ -293,7 +308,7 @@ Create_metrics()
     Job_completed "$state2"
     if [ $Completed == false ]; then
       echo "Nemo execution failed look at run.err and ocean.output for more info"
-      echo "Remember that the namelist files are now the default, change theme in order to fit with the input files in the dir " 
+      echo "Remember that the namelist files copied are the default ones, change theme in order to fit with the input files in the dir " 
       echo
       exit 1
     else 
@@ -336,7 +351,7 @@ Create_metrics()
     state4=$("$job" --wait run_extrae."$Jobs_scheduler")
     Job_completed "$state4"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed no traces files generated more info inside run_extrae.err"
+      echo "Nemo execution failed, no traces files generated more info inside run_extrae.err"
       echo 
       exit 1
     fi
diff --git a/config.bash b/perf_metrics.config
similarity index 100%
rename from config.bash
rename to perf_metrics.config
-- 
GitLab


From fcb49b1648105584c3db24f64324ef7103b04c0a Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 6 Sep 2022 10:43:47 +0200
Subject: [PATCH 10/40] Added bash format explanation

---
 perf_metrics.config | 24 +++++++++++++-----------
 1 file changed, 13 insertions(+), 11 deletions(-)

diff --git a/perf_metrics.config b/perf_metrics.config
index aa4ad29..5bcf07a 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -1,3 +1,7 @@
+# Respect the bash format, no spaces between variables, the = symbol and the respective value. 
+# Arrays need a space after the open and before the closing parenthesism, the elements are separated by spaces.
+
+#################################################################################
 
 # Nemo_path:  Relative path to nemo installation folder containing the cfgs and arch dirs
 # Nemo_cores: List of nºcores used for executing Nemo, ( 4 48 ) makes the script execute and 
@@ -6,10 +10,10 @@
 Nemo_path="../NEMO"
 Nemo_cores=( 4 24 48 ) 
 
-# Jobs_n_cores: nºcores used for executing other scripts. More than 4 is not optimal
-# Jobs_scheduler: Available (slurm/lsf)
-# Jobs_time: Max duration of the job in min
-# Jobs_queue: Queue used
+# Jobs_n_cores: nºcores used for executing other scripts. 
+# Jobs_scheduler: Available (slurm/lsf).
+# Jobs_time: Max duration of the job in min.
+# Jobs_queue: Queue used.
 
 Jobs_n_cores=4
 Jobs_scheduler="slurm"
@@ -17,10 +21,10 @@ Jobs_time="60"
 Jobs_queue=debug
 
 # Compilation_compile:  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
-# Compilation_ref:  Reference configuration
-# Compilation_arch: Architecture used (without the -arch sufix and the .fcm)
-# Compilation_name: Name of the new configutation (Important to not be an existing one)
-# Compilation_sub:  Add or remove subcomponents
+# Compilation_ref:  Reference configuration.
+# Compilation_arch: Architecture used (without the -arch sufix and the .fcm).
+# Compilation_name: Name of the new configutation (Important to not be an existing one).
+# Compilation_sub:  Add or remove subcomponents.
 
 
 Compilation_compile="false" 
@@ -29,7 +33,7 @@ Compilation_arch="X64_MN4"
 Compilation_name="ORCA2_EXTRAE" 
 Compilation_sub="OCE del_key 'key_si3 key_top'" 
     
-# List of modules loaded 
+# List of modules loaded. 
 # Required:
 # - Perl interpreter
 # - Fortran compiler (ifort, gfortran, pgfortran, ftn, …) 
@@ -39,7 +43,5 @@ Compilation_sub="OCE del_key 'key_si3 key_top'"
 # - Paraver
 # - Dimemas 4.2 -devel
 # - Python3
-# - gnuplot
-# EXTRAE BASICANALYSIS gcc/7.2.0 intel/2017.4 impi/2018.4 netcdf/4.4.1.1 hdf5/1.8.19 DIMEMAS/5.4.2-devel
 
 Modules="EXTRAE BASICANALYSIS gcc intel/2018.3 impi/2018.4 netcdf/4.4.1.1 hdf5/1.8.19 DIMEMAS/5.4.2-devel perl"
-- 
GitLab


From 6fc01d024aa722cbf722b9395f6e83a3dccb9725 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Wed, 7 Sep 2022 08:31:46 +0200
Subject: [PATCH 11/40] New variable for Nemo iterations (12)

---
 perf_metrics.bash | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/perf_metrics.bash b/perf_metrics.bash
index d899bcc..e758f18 100644
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -75,6 +75,7 @@ Init()
   name_cfg="${Compilation_name:-"ORCA2_EXTRAE"}"
   comp_cfg="${Compilation_sub:-""}"
   Modules="${Modules:-""}"
+  Nemo_iterations=12
 }
 
 
@@ -294,7 +295,7 @@ Create_metrics()
 
 
   #Changing iterations, big traces generate problems.
-  sed -i 's|nn_itend * =.*|nn_itend    =       12  !  last  time step (std 5475)|g' namelist_cfg
+  sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
 
   #Generating function list in case of missing
 
@@ -360,7 +361,7 @@ Create_metrics()
     mv nemo.row nemo_"$core".row	
     echo "Cutting best iteration"
     echo
-    magiccut/./magicCut nemo_"${core}".prv 12 > cut_"$core".out 2>&1
+    magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, aborting." 
       echo
-- 
GitLab


From 39853ec830b36af8782aa2f531bb0c3f82d23089 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Fri, 9 Sep 2022 12:55:04 +0200
Subject: [PATCH 12/40] 1+2

---
 README.md                       |    5 +-
 cfgs/.directory                 |    4 +
 cfgs/2dh_BurstEfficiency.cfg    |  221 +++++
 cfgs/barrier-syncr-time.cfg     |   80 ++
 cfgs/burst_duration.cfg         |   77 ++
 cfgs/burst_useful.cfg           |  150 ++++
 cfgs/cycles.cfg                 |  141 +++
 cfgs/dimemas.collectives        |   14 +
 cfgs/dimemas_ideal.cfg          |  159 ++++
 cfgs/efficiency_table-global.gp |   31 +
 cfgs/efficiency_table-hybrid.gp |   30 +
 cfgs/efficiency_table.gp        |   31 +
 cfgs/flushing-cycles.cfg        |  148 +++
 cfgs/flushing-inst.cfg          |  148 +++
 cfgs/flushing.cfg               |   76 ++
 cfgs/instructions.cfg           |  141 +++
 cfgs/io-call-cycles.cfg         |  148 +++
 cfgs/io-call-instructions.cfg   |  148 +++
 cfgs/io-call-reverse.cfg        |   76 ++
 cfgs/modelfactors-all.gp        |   36 +
 cfgs/modelfactors-comm.gp       |   26 +
 cfgs/modelfactors-hybrid.gp     |   37 +
 cfgs/modelfactors-mpi-hybrid.gp |   32 +
 cfgs/modelfactors-onlydata.gp   |   31 +
 cfgs/modelfactors-scale.gp      |   27 +
 cfgs/mpi-call-outside.cfg       |   77 ++
 cfgs/mpi-io-cycles.cfg          |  149 +++
 cfgs/mpi-io-instructions.cfg    |  149 +++
 cfgs/mpi-io-reverse.cfg         |   77 ++
 cfgs/mpi-io.cfg                 |   77 ++
 cfgs/mpi-master-thread.cfg      |   79 ++
 cfgs/runtime.cfg                |   72 ++
 cfgs/runtime_app.cfg            |   74 ++
 cfgs/time_computing.cfg         |  114 +++
 cfgs/timings.cfg                |   72 ++
 hybridmetrics.py                | 1496 +++++++++++++++++++++++++++++++
 modelfactors.py                 |  192 ++++
 perf_metrics.bash               |  449 ++++++----
 perf_metrics.config             |   12 +-
 plots.py                        |  738 +++++++++++++++
 rawdata.py                      |  857 ++++++++++++++++++
 simplemetrics.py                | 1249 ++++++++++++++++++++++++++
 trace.sh                        |    1 +
 tracemetadata.py                |  376 ++++++++
 utils.py                        |  186 ++++
 45 files changed, 8339 insertions(+), 174 deletions(-)
 create mode 100644 cfgs/.directory
 create mode 100644 cfgs/2dh_BurstEfficiency.cfg
 create mode 100644 cfgs/barrier-syncr-time.cfg
 create mode 100644 cfgs/burst_duration.cfg
 create mode 100644 cfgs/burst_useful.cfg
 create mode 100644 cfgs/cycles.cfg
 create mode 100644 cfgs/dimemas.collectives
 create mode 100644 cfgs/dimemas_ideal.cfg
 create mode 100644 cfgs/efficiency_table-global.gp
 create mode 100644 cfgs/efficiency_table-hybrid.gp
 create mode 100644 cfgs/efficiency_table.gp
 create mode 100644 cfgs/flushing-cycles.cfg
 create mode 100644 cfgs/flushing-inst.cfg
 create mode 100644 cfgs/flushing.cfg
 create mode 100644 cfgs/instructions.cfg
 create mode 100644 cfgs/io-call-cycles.cfg
 create mode 100644 cfgs/io-call-instructions.cfg
 create mode 100644 cfgs/io-call-reverse.cfg
 create mode 100644 cfgs/modelfactors-all.gp
 create mode 100644 cfgs/modelfactors-comm.gp
 create mode 100644 cfgs/modelfactors-hybrid.gp
 create mode 100644 cfgs/modelfactors-mpi-hybrid.gp
 create mode 100644 cfgs/modelfactors-onlydata.gp
 create mode 100644 cfgs/modelfactors-scale.gp
 create mode 100644 cfgs/mpi-call-outside.cfg
 create mode 100644 cfgs/mpi-io-cycles.cfg
 create mode 100644 cfgs/mpi-io-instructions.cfg
 create mode 100644 cfgs/mpi-io-reverse.cfg
 create mode 100644 cfgs/mpi-io.cfg
 create mode 100644 cfgs/mpi-master-thread.cfg
 create mode 100644 cfgs/runtime.cfg
 create mode 100644 cfgs/runtime_app.cfg
 create mode 100644 cfgs/time_computing.cfg
 create mode 100644 cfgs/timings.cfg
 create mode 100644 hybridmetrics.py
 create mode 100755 modelfactors.py
 mode change 100644 => 100755 perf_metrics.bash
 create mode 100644 plots.py
 create mode 100644 rawdata.py
 create mode 100644 simplemetrics.py
 create mode 100644 tracemetadata.py
 create mode 100644 utils.py

diff --git a/README.md b/README.md
index 2652f01..beb7052 100644
--- a/README.md
+++ b/README.md
@@ -1,6 +1,9 @@
 # Nemo modelfactors
 
-Script used to get important metrics from NEMO
+Script used to get important metrics from NEMO.
+
+The script obtains data from a single nemo timestep, so keep in mind that the results of this basic analysis
+will only be accurate on longer simulations where the inicialitzation and finalitzation are close to 0% of the time.
 
 # Installation and requeriments
 
diff --git a/cfgs/.directory b/cfgs/.directory
new file mode 100644
index 0000000..5ff3922
--- /dev/null
+++ b/cfgs/.directory
@@ -0,0 +1,4 @@
+[Dolphin]
+Timestamp=2019,6,19,17,11,21
+Version=4
+ViewMode=1
diff --git a/cfgs/2dh_BurstEfficiency.cfg b/cfgs/2dh_BurstEfficiency.cfg
new file mode 100644
index 0000000..9429c78
--- /dev/null
+++ b/cfgs/2dh_BurstEfficiency.cfg
@@ -0,0 +1,221 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 5
+ConfigFile.BeginDescription
+ConfigFile.EndDescription
+
+################################################################################
+< NEW DISPLAYING WINDOW Burst Region duration.c1.c1 >
+################################################################################
+window_name Burst Region duration.c1.c1
+window_type single
+window_id 1
+window_position_x 484
+window_position_y 126
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 39435569.853000000119
+window_minimum_y 1.377000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI ellapsed time In burst Region.c3.c1 >
+################################################################################
+window_name MPI ellapsed time In burst Region.c3.c1
+window_type single
+window_id 2
+window_position_x 502
+window_position_y 144
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 39435569.853000000119
+window_minimum_y 1.377000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Div}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module compose_thread Div { 1, { 1 1000.000000000000 } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+################################################################################
+< NEW DISPLAYING WINDOW Computing time in Region.c1 >
+################################################################################
+window_name Computing time in Region.c1
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation substract
+window_identifiers 1 2
+window_position_x 538
+window_position_y 180
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 39435569.853000000119
+window_minimum_y 1.377000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 0
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+################################################################################
+< NEW DISPLAYING WINDOW Burst Region duration.c2 >
+################################################################################
+window_name Burst Region duration.c2
+window_type single
+window_id 4
+window_position_x 556
+window_position_y 198
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 39435569.853000000119
+window_minimum_y 1.377000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+################################################################################
+< NEW DISPLAYING WINDOW Burst efficiency >
+################################################################################
+window_name Burst efficiency
+window_type composed
+window_id 5
+window_factors 1.000000000000 1.000000000000
+window_operation divide
+window_identifiers 3 4
+window_position_x 475
+window_position_y 145
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 1.100000000000
+window_minimum_y 0.000000004381
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 3
+window_drawmode_rows 3
+window_pixel_size 1
+window_labels_to_draw 0
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: 2DH - efficiency
+Analyzer2D.X: 130
+Analyzer2D.Y: 233
+Analyzer2D.Width: 365
+Analyzer2D.Height: 218
+Analyzer2D.ControlWindow: 5
+Analyzer2D.DataWindow: 5
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Average value
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Enabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1.000000000000
+Analyzer2D.Delta: 2.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 0.142980245071
+Analyzer2D.MaximumGradient: 0.184636349192
+Analyzer2D.PixelSize: 1
+Analyzer2D.CodeColor: False
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/barrier-syncr-time.cfg b/cfgs/barrier-syncr-time.cfg
new file mode 100644
index 0000000..ee7b63d
--- /dev/null
+++ b/cfgs/barrier-syncr-time.cfg
@@ -0,0 +1,80 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call.SerAndTransfer >
+################################################################################
+window_name MPI call.SerAndTransfer
+window_type single
+window_id 1
+window_position_x 3024
+window_position_y 486
+window_width 729
+window_height 320
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 70.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max true
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 2 50000001 50000002
+window_filter_module evt_type_label 2 "MPI Point-to-point" "MPI Collective Comm"
+window_filter_module evt_value 3 5.000000000000 6.000000000000 8.000000000000
+window_filter_module evt_value_label 3 "MPI_Wait" "MPI_Waitall" "MPI_Barrier"
+window_synchronize 1
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: MPI-Ser-Transfer
+Analyzer2D.X: 2810
+Analyzer2D.Y: 48
+Analyzer2D.Width: 868
+Analyzer2D.Height: 491
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 3.000000000000
+Analyzer2D.Maximum: 10.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 52.305000000000
+Analyzer2D.MaximumGradient: 76291.281000000003
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/burst_duration.cfg b/cfgs/burst_duration.cfg
new file mode 100644
index 0000000..6958790
--- /dev/null
+++ b/cfgs/burst_duration.cfg
@@ -0,0 +1,77 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW burst_duration.c1 >
+################################################################################
+window_name burst_duration.c1
+window_type single
+window_id 1
+window_position_x 596
+window_position_y 238
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 39435569.853000000119
+window_minimum_y 1.377000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: burst_duration
+Analyzer2D.X: 2297
+Analyzer2D.Y: 30
+Analyzer2D.Width: 391
+Analyzer2D.Height: 472
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 18.918000000000
+Analyzer2D.Maximum: 191006.618399999978
+Analyzer2D.Delta: 1000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 952444.935999999987
+Analyzer2D.MaximumGradient: 959765.031999999890
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/burst_useful.cfg b/cfgs/burst_useful.cfg
new file mode 100644
index 0000000..ac54618
--- /dev/null
+++ b/cfgs/burst_useful.cfg
@@ -0,0 +1,150 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW burst_duration >
+################################################################################
+window_name burst_duration
+window_type single
+window_id 1
+window_position_x 567
+window_position_y 209
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 57174.218999999997
+window_minimum_y 24.956000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Int. Between Evt}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+################################################################################
+< NEW DISPLAYING WINDOW burst_MPI_ellapsed_time >
+################################################################################
+window_name burst_MPI_ellapsed_time
+window_type single
+window_id 2
+window_position_x 567
+window_position_y 209
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 12582.013999999999
+window_minimum_y 21.416000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Div}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module compose_thread Div { 1, { 1 1000.000000000000 } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+################################################################################
+< NEW DISPLAYING WINDOW useful_burst >
+################################################################################
+window_name useful_burst
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation substract
+window_identifiers 1 2
+window_position_x 1960
+window_position_y 174
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 57174.218999999997
+window_minimum_y -4162.623000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 0
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: useful_burst
+Analyzer2D.X: 2327
+Analyzer2D.Y: 31
+Analyzer2D.Width: 841
+Analyzer2D.Height: 365
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Vertical
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: -5122.957000000000
+Analyzer2D.Maximum: 142551.129350000003
+Analyzer2D.Delta: 738.370431750000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: -5122.957000000000
+Analyzer2D.MaximumGradient: 16572593.654999990016
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/cycles.cfg b/cfgs/cycles.cfg
new file mode 100644
index 0000000..7d2091e
--- /dev/null
+++ b/cfgs/cycles.cfg
@@ -0,0 +1,141 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW cycles.c1.c1 >
+################################################################################
+window_name cycles.c1.c1
+window_type single
+window_id 1
+window_position_x 300
+window_position_y 23
+window_width 600
+window_height 114
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 194620048057.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000059
+
+################################################################################
+< NEW DISPLAYING WINDOW Useful.c1.c1 >
+################################################################################
+window_name Useful.c1.c1
+window_type single
+window_id 2
+window_position_x 323
+window_position_y 46
+window_width 600
+window_height 134
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered true
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 1.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Useful}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, =}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, All}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+################################################################################
+< NEW DISPLAYING WINDOW Useful Cycles Timeline >
+################################################################################
+window_name Useful Cycles Timeline
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 391
+window_position_y 146
+window_width 767
+window_height 314
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 11047386945.000000000000
+window_minimum_y 5433.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: cycles
+Analyzer2D.X: 414
+Analyzer2D.Y: 54
+Analyzer2D.Width: 556
+Analyzer2D.Height: 764
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: False
+Analyzer2D.MinimumGradient: 0
+Analyzer2D.MaximumGradient: 999999999999999999
+Analyzer2D.PixelSize: 1
+Analyzer2D.CodeColor: False
+
diff --git a/cfgs/dimemas.collectives b/cfgs/dimemas.collectives
new file mode 100644
index 0000000..3b86752
--- /dev/null
+++ b/cfgs/dimemas.collectives
@@ -0,0 +1,14 @@
+Machine globalop: 0 0 LOG MAX 0 MAX 
+Machine globalop: 0 1 LOG MAX 0 MAX 
+Machine globalop: 0 2 LOG MAX 0 MAX 
+Machine globalop: 0 3 LOG MAX 0 MAX 
+Machine globalop: 0 4 LOG MAX 0 MAX 
+Machine globalop: 0 5 LOG MAX 0 MAX 
+Machine globalop: 0 6 LOG MAX 0 MAX 
+Machine globalop: 0 7 LOG MAX 0 MAX 
+Machine globalop: 0 8 LIN 2MAX LIN 2MAX 
+Machine globalop: 0 9 LOG MAX 0 MAX 
+Machine globalop: 0 10 LOG 2MAX 0 MAX 
+Machine globalop: 0 11 LOG MAX 0 MAX 
+Machine globalop: 0 12 LOG MAX 0 MAX 
+Machine globalop: 0 13 LOG MAX 0 MAX 
diff --git a/cfgs/dimemas_ideal.cfg b/cfgs/dimemas_ideal.cfg
new file mode 100644
index 0000000..d0f46f0
--- /dev/null
+++ b/cfgs/dimemas_ideal.cfg
@@ -0,0 +1,159 @@
+#DIMEMAS_CONFIGURATION
+
+/*******************************************************************************
+ * RECORDS DEFINITION - NOTES TO MANUAL EDIT OF THIS FILE
+ *******************************************************************************
+ *
+ * The records here described follow the SDDF file structure. Each field must be
+ * sepparated by commas in the actual records.
+ *
+ * 'int' and 'double' values are expresed as is. 'char[]' values must be always
+ * wrapped by quotes. 'double' and 'int' arrays must be in the following format:
+ *
+ * [n] { value_1, value_2, ..., value_n }
+ *
+ * Where 'n' is the number of elements in the array
+ *
+ *******************************************************************************
+
+ "wide area network information" {
+  1: char[] "name of the wide area network simulated"
+  2: int    "number of machines in wan"
+  3: int    "number of dedicated connections between machines in the simulated"
+            "system"
+  4: int    "function that models influence of traffic in the non dedicated"
+            "network."
+            "options: 1 EXPONENTIAl, 2 LOGARITHMIC, 3 LINEAR, 4 CONSTANT"
+  5: double "maximal value of traffic in the network"
+  6: double "external net bandwidth (MBps)"
+  7: int    "external network collective communications model"
+            "options: 1 CONSTANT, 2 LINEAR, 3 LOGARITHMIC"
+};;
+
+"environment information" {
+  1: char[] "machine name"
+  2: int    "machine ID";
+  3: char[] "architecture used to instrument"
+  4: int    "number of nodes on virtual machine"
+  5: double "data tranfer rate between nodes (MBps)"
+            "0 means instantaneous communication"
+  6: int    "maximun number of messages on network"
+            "0 means no limit"
+            "1 means bus contention"
+  7: int    "internal network collective communications model"
+            "options: 1 CONSTANT, 2 LINEAR, 3 LOGARITHMIC"
+};;
+
+
+"node information" {
+  1: int     "machine ID"
+  2: char[]  "architecture node name"
+  3: int     "number of processors within node"
+  4: double  "relative processor speed (divisive factor)"
+  5: double  "latency time (s) of intra-node communications model"
+  6: double  "bandwidth (MBps) of intra-node communications model"
+             "0 means instantaneous communication"
+  7: int     "maximum number of concurrent messages of intra-node"
+             "communications model:"
+             "0 means no limit"
+             "1 means bus contention"
+  8: int     "input links of intra-node communications model"
+  9: int     "output links of intra-node communications model"
+  10: double "latency time (s) of inter-node communications model"
+  11: int    "input links of inter-node communications model"
+  12: int    "input links of intra-node communications model"
+  13: double "latency time (s) of inter-machines (WAN) communications model"
+};;
+
+"multi node information" {
+  1: int     "machine ID"
+  2: int     "number of nodes with same configuration"
+  3: char[]  "architecture node name"
+  4: int     "number of processors within node"
+  5: double  "processor speed ratio wrt. original execution (divisive factor)"
+             "0 means instantaneous | negative value means fixed duration in s."
+  6: double  "latency time (s) of intra-node communications model"
+  7: double  "bandwidth (MBps) of intra-node communications model"
+             "0 means instantaneous communication"
+  8: int     "maximum number of concurrent messages of intra-node"
+             "communications model: "
+             "0 means no limit"
+             "1 means bus contention"
+  9: int     "input links of intra-node communications model"
+  10: int    "output links of intra-node communications model"
+  11: double "latency time (s) of inter-node communications model"
+  12: int    "input links of inter-node communications model"
+  13: int    "input links of intra-node communications model"
+  14: double "latency time (s) of inter-machines (WAN) communications model"
+};;
+
+"mapping information" {
+  1: char[] "application tracefile name"
+  2: int    "number of tasks in application"
+  3: int[]  "list of nodes where each application tasks is mapped"
+};;
+
+"predefined mapping information" {
+  1: char[] "application tracefile name" (OPTIONAL)
+  2: char[] "predefined map identifier"
+            "options: FILL_NODES | <int> TASKS_PER_NODE | INTERLEAVED"
+}
+
+"configuration files" {
+  1: char[] "scheduler definition filename"
+  2: char[] "file system definition filename"
+  3: char[] "communications fine tuning configuration filename"
+  4: char[] "sensitivity configuration filename"
+};;
+
+"modules information" {
+  1: int    "module type"
+  2: int    "module value"
+  3: double "module speed ration wrt. original execution (divisive factor)"
+            "0 means instantaneous | negative value means fixed duration in s."
+};;
+
+"file system parameters" {
+  1: double "disk latency"
+  2: double "disk bandwidth";
+  3: double "block size";
+  4: int    "concurrent requests";
+  5: double "hit ratio";
+};;
+
+"dedicated connection information" {
+  1:  int    "connection ID"
+  2:  int    "source machine ID"
+  3:  int    "destination machine ID"
+  4:  double "bandwidth of the connection (MBps)"
+  5:  int[]  "list of tags that will use the connection"
+  6:  int    "size of first message (bytes) to apply the comparision to use the"
+             "connection"
+  7:  char[] "size condition that should meet messages to use the connection"
+             "it can be <, =, > and (referent to first message size)"
+  8:  char[]  "operation. options: & AND, | OR"
+  9:  int    "size of second condition that should meet messages to use the"
+             "connection"
+  10: char[] "size condition that should meet messages to use the connection"
+             "it can be <, =, > and its is referent to second message size"
+  11: int[]  "list of communicators of coll. Operations that can use the"
+             "connection"
+  12: double "latency of dedicated connection (s)"
+  13: double "latency due to distance (s)"
+};;
+
+*******************************************************************************/
+
+
+"wide area network information" {"", 1, 0, 4, 0.0, 0.0, 1};;
+
+"environment information" {"", 0, "", REPLACE_BY_NTASKS, 0.0, 0, 1};;
+
+"multi node information" {0, REPLACE_BY_NTASKS, "", REPLACE_BY_CPUS_PER_NODE, 1.0, 0.0, 0.0, 0, 1, 0, 0.0, 1, 1, 0.0};;
+
+"predefined mapping information" {"1 TASKS_PER_NODE"};;
+
+"configuration files" {"", "", "REPLACE_BY_COLLECTIVES_PATH", ""};;
+
+"file system parameters" {0.0, 0.0, 8.0, 0, 1.0};;
+
diff --git a/cfgs/efficiency_table-global.gp b/cfgs/efficiency_table-global.gp
new file mode 100644
index 0000000..c7a5ef6
--- /dev/null
+++ b/cfgs/efficiency_table-global.gp
@@ -0,0 +1,31 @@
+#!/bin/gnuplot 
+set output "./efficiency_table-global.png"
+
+#Prepare the plot size
+
+#REPLACE_BY_SIZE
+
+set datafile separator ","
+
+set title ""
+unset key
+
+set format cb "%.0f%%"
+set cbrange[0:100]
+set tmargin 1
+
+
+set cbtics ('<50%%' 50, '60%%' 60, '70%%' 70, '80%%' 80, "90%%" 90, "100%%" 100)
+
+set palette defined (0.00 "#000000", 0.01 "#FF0000", 0.60 "#E67C73", 0.75 "#F9950A", 0.85 "#AADC32", 0.90 "#5CC863", 1.00 "#57BB8A")  
+
+
+set xtics offset 0,15
+set ytics offset -27,0 left
+set yrange [] reverse
+
+plot \
+  'efficiency_table-global.csv' \
+    matrix rowheaders columnheaders using 1:2:3 with image, \
+  'efficiency_table-global.csv' \
+    matrix rowheaders columnheaders using 1:2:(sprintf("%.2f",$3) ) with labels
diff --git a/cfgs/efficiency_table-hybrid.gp b/cfgs/efficiency_table-hybrid.gp
new file mode 100644
index 0000000..0e726cb
--- /dev/null
+++ b/cfgs/efficiency_table-hybrid.gp
@@ -0,0 +1,30 @@
+#!/bin/gnuplot 
+set output "./efficiency_table-hybrid.png"
+
+#Prepare the plot size
+
+#REPLACE_BY_SIZE
+
+set datafile separator ","
+
+set title ""
+unset key
+
+set format cb "%.0f%%"
+set cbrange[0:100]
+set tmargin 1
+
+
+set cbtics ('<50%%' 50, '60%%' 60, '70%%' 70, '80%%' 80, "90%%" 90, "100%%" 100)
+
+set palette defined (0.00 "#000000", 0.01 "#FF0000", 0.60 "#E67C73", 0.75 "#F9950A", 0.85 "#AADC32", 0.90 "#5CC863", 1.00 "#57BB8A")  
+
+set xtics offset 0,15
+set ytics offset -37,0 left
+set yrange [] reverse
+
+plot \
+  'efficiency_table-hybrid.csv' \
+    matrix rowheaders columnheaders using 1:2:3 with image, \
+  'efficiency_table-hybrid.csv' \
+    matrix rowheaders columnheaders using 1:2:(sprintf("%.2f",$3) ) with labels
diff --git a/cfgs/efficiency_table.gp b/cfgs/efficiency_table.gp
new file mode 100644
index 0000000..cda44e1
--- /dev/null
+++ b/cfgs/efficiency_table.gp
@@ -0,0 +1,31 @@
+#!/bin/gnuplot 
+set output "./efficiency_table.png"
+
+#Prepare the plot size
+
+#REPLACE_BY_SIZE
+
+set datafile separator ","
+
+set title ""
+unset key
+
+set format cb "%.0f%%"
+set cbrange[0:100]
+set tmargin 1
+
+
+set cbtics ('<50%%' 50, '60%%' 60, '70%%' 70, '80%%' 80, "90%%" 90, "100%%" 100)
+
+set palette defined (0.00 "#000000", 0.01 "#FF0000", 0.60 "#E67C73", 0.75 "#F9950A", 0.85 "#AADC32", 0.90 "#5CC863", 1.00 "#57BB8A")  
+
+
+set xtics offset 0,15
+set ytics offset -27,0 left
+set yrange [] reverse
+
+plot \
+  'efficiency_table.csv' \
+    matrix rowheaders columnheaders using 1:2:3 with image, \
+  'efficiency_table.csv' \
+    matrix rowheaders columnheaders using 1:2:(sprintf("%.2f",$3) ) with labels
diff --git a/cfgs/flushing-cycles.cfg b/cfgs/flushing-cycles.cfg
new file mode 100644
index 0000000..dcd59fe
--- /dev/null
+++ b/cfgs/flushing-cycles.cfg
@@ -0,0 +1,148 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW Flushing.c1.c1 >
+################################################################################
+window_name Flushing.c1.c1
+window_type single
+window_id 1
+window_position_x 442
+window_position_y 116
+window_width 600
+window_height 115
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 34.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
+window_filter_module evt_type 1 40000003
+window_filter_module evt_type_label 1 "Flushing Traces"
+
+################################################################################
+< NEW DISPLAYING WINDOW cycles.c1 >
+################################################################################
+window_name cycles.c1
+window_type single
+window_id 2
+window_position_x 417
+window_position_y 404
+window_width 600
+window_height 114
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 194620048057.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000059
+window_filter_module evt_type_label 1 "PAPI_TOT_CYC [Total cycles]"
+
+################################################################################
+< NEW DISPLAYING WINDOW flushing_cycles >
+################################################################################
+window_name flushing_cycles
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 2357
+window_position_y 217
+window_width 600
+window_height 115
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 79325.000000000000
+window_minimum_y 48287.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: flushing_cycles_hist
+Analyzer2D.X: 2597
+Analyzer2D.Y: 55
+Analyzer2D.Width: 436
+Analyzer2D.Height: 587
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 48287.000000000000
+Analyzer2D.MaximumGradient: 79325.000000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/flushing-inst.cfg b/cfgs/flushing-inst.cfg
new file mode 100644
index 0000000..767e690
--- /dev/null
+++ b/cfgs/flushing-inst.cfg
@@ -0,0 +1,148 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW Flushing.c1 >
+################################################################################
+window_name Flushing.c1
+window_type single
+window_id 1
+window_position_x 355
+window_position_y 29
+window_width 600
+window_height 115
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 34.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
+window_filter_module evt_type 1 40000003
+window_filter_module evt_type_label 1 "Flushing Traces"
+
+################################################################################
+< NEW DISPLAYING WINDOW Instructions.c1.c2.c1 >
+################################################################################
+window_name Instructions.c1.c2.c1
+window_type single
+window_id 2
+window_position_x 384
+window_position_y 58
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 206968292.000000000000
+window_minimum_y 3314.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000050
+window_filter_module evt_type_label 1 "PAPI_TOT_INS [Instr completed]"
+
+################################################################################
+< NEW DISPLAYING WINDOW flushing_inst >
+################################################################################
+window_name flushing_inst
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 2364
+window_position_y 128
+window_width 600
+window_height 115
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 17421.000000000000
+window_minimum_y 17121.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: flushing_inst_hist
+Analyzer2D.X: 2597
+Analyzer2D.Y: 55
+Analyzer2D.Width: 436
+Analyzer2D.Height: 587
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 17121.000000000000
+Analyzer2D.MaximumGradient: 17421.000000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/flushing.cfg b/cfgs/flushing.cfg
new file mode 100644
index 0000000..6c7e258
--- /dev/null
+++ b/cfgs/flushing.cfg
@@ -0,0 +1,76 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW Flushing >
+################################################################################
+window_name Flushing
+window_type single
+window_id 1
+window_position_x 2529
+window_position_y 349
+window_width 600
+window_height 115
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 34.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 72, { All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All, All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 40000003
+window_filter_module evt_type_label 1 "Flushing Traces"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: flushing
+Analyzer2D.X: 2717
+Analyzer2D.Y: 204
+Analyzer2D.Width: 617
+Analyzer2D.Height: 606
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 1.000000000000
+Analyzer2D.Maximum: 1.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 18.053000000000
+Analyzer2D.MaximumGradient: 35.420000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/instructions.cfg b/cfgs/instructions.cfg
new file mode 100644
index 0000000..777df0c
--- /dev/null
+++ b/cfgs/instructions.cfg
@@ -0,0 +1,141 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW Instructions >
+################################################################################
+window_name Instructions
+window_type single
+window_id 1
+window_position_x 346
+window_position_y 41
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 18640295641.000000000000
+window_minimum_y 5257.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000050
+
+################################################################################
+< NEW DISPLAYING WINDOW Useful >
+################################################################################
+window_name Useful
+window_type single
+window_id 2
+window_position_x 369
+window_position_y 92
+window_width 600
+window_height 134
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered true
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 1.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Useful}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, =}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, All}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+################################################################################
+< NEW DISPLAYING WINDOW Useful Instructions Timeline >
+################################################################################
+window_name Useful Instructions Timeline
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 406
+window_position_y 340
+window_width 767
+window_height 314
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 18640295641.000000000000
+window_minimum_y 5257.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: instructions
+Analyzer2D.X: 366
+Analyzer2D.Y: 24
+Analyzer2D.Width: 556
+Analyzer2D.Height: 764
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: False
+Analyzer2D.MinimumGradient: 0
+Analyzer2D.MaximumGradient: 999999999999999999
+Analyzer2D.PixelSize: 1
+Analyzer2D.CodeColor: False
+
diff --git a/cfgs/io-call-cycles.cfg b/cfgs/io-call-cycles.cfg
new file mode 100644
index 0000000..6140f79
--- /dev/null
+++ b/cfgs/io-call-cycles.cfg
@@ -0,0 +1,148 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW I/O call.c1.c1 >
+################################################################################
+window_name I/O call.c1.c1
+window_type single
+window_id 1
+window_position_x 616
+window_position_y 290
+window_width 729
+window_height 154
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 13.000000000000
+window_minimum_y 1.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
+window_filter_module evt_type 1 40000004
+window_filter_module evt_type_label 1 "I/O calls"
+
+################################################################################
+< NEW DISPLAYING WINDOW cycles.c1.c1.c1 >
+################################################################################
+window_name cycles.c1.c1.c1
+window_type single
+window_id 2
+window_position_x 645
+window_position_y 319
+window_width 600
+window_height 114
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 194620048057.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000059
+window_filter_module evt_type_label 1 "PAPI_TOT_CYC [Total cycles]"
+
+################################################################################
+< NEW DISPLAYING WINDOW posixio_cycles >
+################################################################################
+window_name posixio_cycles
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 2298
+window_position_y 141
+window_width 729
+window_height 154
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 72043816.000000000000
+window_minimum_y 3111.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: posixio_cycles_hist
+Analyzer2D.X: 2597
+Analyzer2D.Y: 55
+Analyzer2D.Width: 436
+Analyzer2D.Height: 587
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 6685313.000000000000
+Analyzer2D.MaximumGradient: 8988531.000000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/io-call-instructions.cfg b/cfgs/io-call-instructions.cfg
new file mode 100644
index 0000000..af8bc3b
--- /dev/null
+++ b/cfgs/io-call-instructions.cfg
@@ -0,0 +1,148 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW I/O call.c1 >
+################################################################################
+window_name I/O call.c1
+window_type single
+window_id 1
+window_position_x 355
+window_position_y 29
+window_width 729
+window_height 154
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 13.000000000000
+window_minimum_y 1.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
+window_filter_module evt_type 1 40000004
+window_filter_module evt_type_label 1 "I/O calls"
+
+################################################################################
+< NEW DISPLAYING WINDOW Instructions.c1.c2 >
+################################################################################
+window_name Instructions.c1.c2
+window_type single
+window_id 2
+window_position_x 384
+window_position_y 58
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 206968292.000000000000
+window_minimum_y 3314.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000050
+window_filter_module evt_type_label 1 "PAPI_TOT_INS [Instr completed]"
+
+################################################################################
+< NEW DISPLAYING WINDOW posixio_inst >
+################################################################################
+window_name posixio_inst
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 413
+window_position_y 87
+window_width 729
+window_height 154
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 3625596.000000000000
+window_minimum_y 3676.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: posixio_inst_hist
+Analyzer2D.X: 2597
+Analyzer2D.Y: 55
+Analyzer2D.Width: 436
+Analyzer2D.Height: 587
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 2247759.000000000000
+Analyzer2D.MaximumGradient: 2503143.000000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/io-call-reverse.cfg b/cfgs/io-call-reverse.cfg
new file mode 100644
index 0000000..196ec98
--- /dev/null
+++ b/cfgs/io-call-reverse.cfg
@@ -0,0 +1,76 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW I/O call >
+################################################################################
+window_name I/O call
+window_type single
+window_id 1
+window_position_x 2614
+window_position_y 238
+window_width 729
+window_height 154
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 18.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 40000004
+window_filter_module evt_type_label 1 "I/O calls"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: io-call
+Analyzer2D.X: 2971
+Analyzer2D.Y: 50
+Analyzer2D.Width: 646
+Analyzer2D.Height: 565
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Vertical
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 1.000000000000
+Analyzer2D.Maximum: 13.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 453.192000000000
+Analyzer2D.MaximumGradient: 17291.650000000001
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/modelfactors-all.gp b/cfgs/modelfactors-all.gp
new file mode 100644
index 0000000..e05e716
--- /dev/null
+++ b/cfgs/modelfactors-all.gp
@@ -0,0 +1,36 @@
+#Gnuplot template for the projection functions
+
+#Prepare the axes
+#REPLACE_BY_XRANGE
+set xlabel "Number of Processes"
+set logscale x
+#REPLACE_BY_YRANGE
+set ylabel "Efficiency"
+set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
+set grid ytics
+
+set style line 1 lt 7 dt 2 lw 1.5 lc rgb "#0E3D59"
+set style line 2 lt 7 dt 2 lw 1.5 lc rgb "#88A61B"
+set style line 3 lt 7 dt 2 lw 1.5 lc rgb "#F29F05"
+set style line 4 lt 7 dt 2 lw 1.5 lc rgb "#F25C05"
+set style line 5 lt 7 dt 2 lw 1.5 lc rgb "#D92525"
+
+set key left bottom Left reverse
+
+#REPLACE_BY_PARA_FUNCTION
+#REPLACE_BY_LOAD_FUNCTION
+#REPLACE_BY_COMM_FUNCTION
+#REPLACE_BY_COMP_FUNCTION
+#REPLACE_BY_GLOB_FUNCTION
+
+plot para(x) title "Parallel Efficiency" ls 1,\
+     load(x) title "Load Balance" ls 2,\
+     comm(x) title "Communication Efficiency" ls 3,\
+     comp(x) title "Computation Scalability" ls 4,\
+     glob(x) title "Global Efficiency" ls 5,\
+     '-' with points notitle ls 1,\
+     '-' with points notitle ls 2,\
+     '-' with points notitle ls 3,\
+     '-' with points notitle ls 4,\
+     '-' with points notitle ls 5
+
diff --git a/cfgs/modelfactors-comm.gp b/cfgs/modelfactors-comm.gp
new file mode 100644
index 0000000..6984035
--- /dev/null
+++ b/cfgs/modelfactors-comm.gp
@@ -0,0 +1,26 @@
+
+#Gnuplot template for the projection functions
+
+#REPLACE_BY_TRACE_NAMES
+#REPLACE_BY_XRANGE
+set xlabel "Number of Processes"
+#REPLACE_BY_XTICS_LABEL
+## set logscale x
+#REPLACE_BY_YRANGE
+set ylabel "Efficiency (%)"
+# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
+# set grid ytics
+
+set style line 1 lt 7 dt 2 lw 1.5 lc rgb "red"
+set style line 2 lt 7 dt 2 lw 1.5 lc rgb "green"
+set style line 3 lt 7 dt 2 lw 1.5 lc rgb "orange"
+set style line 4 lt 7 dt 2 lw 1.5 lc rgb "blue"
+set style line 5 lt 7 dt 2 lw 1.5 lc rgb "magenta"
+
+set key left bottom Left reverse
+
+
+plot '-' with linespoints title "Communication Efficiency" ls 1,\
+     '-' with linespoints title "Serialization Efficiency" ls 2,\
+     '-' with linespoints title "Transfer Efficiency" ls 3
+
diff --git a/cfgs/modelfactors-hybrid.gp b/cfgs/modelfactors-hybrid.gp
new file mode 100644
index 0000000..606ccd2
--- /dev/null
+++ b/cfgs/modelfactors-hybrid.gp
@@ -0,0 +1,37 @@
+
+#Gnuplot template for the projection functions
+
+#REPLACE_BY_TRACE_NAMES
+#REPLACE_BY_XRANGE
+set xlabel "Number of Processes"
+#REPLACE_BY_XTICS_LABEL
+## set logscale x
+#REPLACE_BY_YRANGE
+set ylabel "Efficiency (%)"
+# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
+# set grid ytics
+
+
+set style line 1 lt 8 dt 2 lw 2.0 lc rgb '#4B0082' # indigo
+
+set style line 2 lt 7 dt 2 lw 1.5 lc rgb "forest-green"
+set style line 3 lt 6 dt 2 lw 1.5 lc rgb '#00FF00' # lime
+set style line 4 lt 6 dt 2 lw 1.5 lc rgb '#008B8B' # darkcyan
+
+set style line 5 lt 5 dt 2 lw 1.5 lc rgb "red"
+set style line 6 lt 4 dt 2 lw 1.5 lc rgb "orange"
+set style line 7 lt 4 dt 2 lw 1.5 lc rgb "salmon"
+
+set key left bottom Left reverse
+
+
+
+plot '-' with linespoints title "Hybrid Efficiency" ls 1,\
+     '-' with linespoints title "MPI Parallel efficiency" ls 2,\
+     '-' with linespoints title "MPI Load balance" ls 3,\
+     '-' with linespoints title "MPI Communication efficiency" ls 4,\
+#REPLACE_BY_OMP_PAR_EFF
+#REPLACE_BY_OMP_LB
+#REPLACE_BY_OMP_COMM
+
+
diff --git a/cfgs/modelfactors-mpi-hybrid.gp b/cfgs/modelfactors-mpi-hybrid.gp
new file mode 100644
index 0000000..3e30589
--- /dev/null
+++ b/cfgs/modelfactors-mpi-hybrid.gp
@@ -0,0 +1,32 @@
+
+#Gnuplot template for the projection functions
+
+#REPLACE_BY_TRACE_NAMES
+#REPLACE_BY_XRANGE
+set xlabel "Number of Processes"
+#REPLACE_BY_XTICS_LABEL
+## set logscale x
+#REPLACE_BY_YRANGE
+set ylabel "Efficiency (%)"
+# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
+# set grid ytics
+
+set style line 1 lt 5 dt 2 lw 1.5 lc rgb '#1c1044' # dark blue
+
+set style line 2 lt 8 dt 2 lw 1.5 lc rgb "forest-green"
+set style line 3 lt 6 dt 2 lw 1.5 lc rgb '#00FF00' # lime
+set style line 4 lt 5 dt 2 lw 1.5 lc rgb '#008B8B' # darkcyan
+
+
+set style line 8 lt 4 dt 2 lw 1.5 lc rgb '#7CFC00' # lawngreen
+set style line 9 lt 4 dt 2 lw 1.5 lc rgb '#00FFFF' # cyan
+
+
+set key left bottom Left reverse
+
+
+plot '-' with linespoints title "MPI Parallel efficiency" ls 2,\
+     '-' with linespoints title "MPI Load balance" ls 3,\
+     '-' with linespoints title "MPI Communication efficiency" ls 4,\
+     '-' with linespoints title "Serialization Efficiency" ls 8,\
+     '-' with linespoints title "Transfer Efficiency" ls 9
diff --git a/cfgs/modelfactors-onlydata.gp b/cfgs/modelfactors-onlydata.gp
new file mode 100644
index 0000000..4d0ff06
--- /dev/null
+++ b/cfgs/modelfactors-onlydata.gp
@@ -0,0 +1,31 @@
+
+#Gnuplot template for the projection functions
+
+#REPLACE_BY_TRACE_NAMES
+#REPLACE_BY_XRANGE
+set xlabel "Number of Processes"
+#REPLACE_BY_XTICS_LABEL
+# set logscale x
+#REPLACE_BY_YRANGE
+## set yrange [0:]
+set ylabel "Efficiency (%)"
+
+# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
+# set grid ytics
+
+set style line 1 lt 8 dt 2 lw 2.0 lc rgb '#4B0082' # indigo
+set style line 2 lt 7 dt 2 lw 1.5 lc rgb "red"
+set style line 3 lt 7 dt 2 lw 1.5 lc rgb "green"
+
+set style line 4 lt 5 dt 5 lw 1.5 lc rgb "blue"
+set style line 5 lt 3 dt 1 lw 1.8 lc rgb "dark-grey"
+
+set key left bottom Left reverse
+
+
+plot '-' with linespoints title "Parallel Efficiency" ls 1,\
+     '-' with linespoints title "Load Balance" ls 2,\
+     '-' with linespoints title "Communication Efficiency" ls 3,\
+     '-' with linespoints title "Computation Scalability" ls 4,\
+     '-' with linespoints title "Global Efficiency" ls 5
+
diff --git a/cfgs/modelfactors-scale.gp b/cfgs/modelfactors-scale.gp
new file mode 100644
index 0000000..febb708
--- /dev/null
+++ b/cfgs/modelfactors-scale.gp
@@ -0,0 +1,27 @@
+
+#Gnuplot template for the projection functions
+
+#REPLACE_BY_TRACE_NAMES
+#REPLACE_BY_XRANGE
+set xlabel "Number of Processes"
+#REPLACE_BY_XTICS_LABEL
+# set logscale x
+#REPLACE_BY_YRANGE
+set ylabel "Efficiency (%)"
+# set ytics ( 0, "10%%" 10, "20%%" 20, "30%%" 30, "40%%" 40, "50%%" 50, "60%%" 60, "70%%" 70, "80%%" 80, "90%%" 90, "100%%" 100 )
+# set grid ytics
+
+set style line 1 lt 5 dt 2 lw 2.0 lc rgb "blue"
+set style line 2 lt 7 dt 2 lw 1.5 lc rgb "cyan"
+# set style line 2 lt 7 dt 2 lw 1.5 lc rgb '#6A5ACD' # slateblue
+set style line 3 lt 7 dt 2 lw 1.5 lc rgb '#4682B4' # steelblue
+set style line 4 lt 7 dt 2 lw 1.5 lc rgb '#8A2BE2' # blueviolet
+
+set key left bottom Left reverse
+
+
+plot '-' with linespoints title "Computation Scalability" ls 1,\
+     '-' with linespoints title "IPC Scalability" ls 2,\
+     '-' with linespoints title "Instruction Scalability" ls 3,\
+     '-' with linespoints title "Frequency Scalability" ls 4
+
diff --git a/cfgs/mpi-call-outside.cfg b/cfgs/mpi-call-outside.cfg
new file mode 100644
index 0000000..d4e7613
--- /dev/null
+++ b/cfgs/mpi-call-outside.cfg
@@ -0,0 +1,77 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call >
+################################################################################
+window_name MPI call
+window_type single
+window_id 1
+window_position_x 2753
+window_position_y 151
+window_width 856
+window_height 303
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 124.000000000000
+window_minimum_y 3.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, [x,y]}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 2 50000001 50000005
+window_filter_module evt_type_label 2 "MPI Point-to-point" "Unknown"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: MPI call profile
+Analyzer2D.X: 2262
+Analyzer2D.Y: 247
+Analyzer2D.Width: 1381
+Analyzer2D.Height: 658
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: True
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 200.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 5.988000000000
+Analyzer2D.MaximumGradient: 60105183.622000001371
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/mpi-io-cycles.cfg b/cfgs/mpi-io-cycles.cfg
new file mode 100644
index 0000000..ed0a0a6
--- /dev/null
+++ b/cfgs/mpi-io-cycles.cfg
@@ -0,0 +1,149 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW cycles.c1.c1 >
+################################################################################
+window_name cycles.c1.c1
+window_type single
+window_id 1
+window_position_x 529
+window_position_y 203
+window_width 600
+window_height 114
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 194620048057.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000059
+window_filter_module evt_type_label 1 "PAPI_TOT_CYC [Total cycles]"
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call.c1.c1 >
+################################################################################
+window_name MPI call.c1.c1
+window_type single
+window_id 2
+window_position_x 2303
+window_position_y 308
+window_width 642
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 1.000000000000
+window_minimum_y 1.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 1 50000005
+window_filter_module evt_type_label 1 "MPI I/O"
+
+################################################################################
+< NEW DISPLAYING WINDOW mpiio_cycles >
+################################################################################
+window_name mpiio_cycles
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 587
+window_position_y 261
+window_width 600
+window_height 114
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 194620048057.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_random
+window_drawmode_rows draw_random
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: mpiio_cycles_hist
+Analyzer2D.X: 2468
+Analyzer2D.Y: 122
+Analyzer2D.Width: 600
+Analyzer2D.Height: 300
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 28106010.000000000000
+Analyzer2D.MaximumGradient: 168707925.000000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/mpi-io-instructions.cfg b/cfgs/mpi-io-instructions.cfg
new file mode 100644
index 0000000..e683b74
--- /dev/null
+++ b/cfgs/mpi-io-instructions.cfg
@@ -0,0 +1,149 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW Instructions.c1 >
+################################################################################
+window_name Instructions.c1
+window_type single
+window_id 1
+window_position_x 413
+window_position_y 87
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 206968292.000000000000
+window_minimum_y 3314.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 42000050
+window_filter_module evt_type_label 1 "PAPI_TOT_INS [Instr completed]"
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI-io-sign.c1 >
+################################################################################
+window_name MPI-io-sign.c1
+window_type single
+window_id 2
+window_position_x 442
+window_position_y 116
+window_width 642
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 1.000000000000
+window_minimum_y 1.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, Sign}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, Sign}, {topcompose2, Sign} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 1 50000005
+window_filter_module evt_type_label 1 "MPI I/O"
+
+################################################################################
+< NEW DISPLAYING WINDOW mpiio_inst >
+################################################################################
+window_name mpiio_inst
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation product
+window_identifiers 1 2
+window_position_x 2334
+window_position_y 232
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 206968292.000000000000
+window_minimum_y 3314.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: mpiio_inst_hist_2
+Analyzer2D.X: 2427
+Analyzer2D.Y: 124
+Analyzer2D.Width: 600
+Analyzer2D.Height: 300
+Analyzer2D.ControlWindow: 3
+Analyzer2D.DataWindow: 3
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Sum bursts
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 1000000000000000000.000000000000
+Analyzer2D.Delta: 1000000000000000000.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 9583794.000000000000
+Analyzer2D.MaximumGradient: 108820758.000000000000
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/mpi-io-reverse.cfg b/cfgs/mpi-io-reverse.cfg
new file mode 100644
index 0000000..143be0d
--- /dev/null
+++ b/cfgs/mpi-io-reverse.cfg
@@ -0,0 +1,77 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call >
+################################################################################
+window_name MPI call
+window_type single
+window_id 1
+window_position_x 2360
+window_position_y 274
+window_width 642
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 150.000000000000
+window_minimum_y 3.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 1 50000005
+window_filter_module evt_type_label 1 "MPI I/O"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: MPI-IO
+Analyzer2D.X: 2550
+Analyzer2D.Y: 40
+Analyzer2D.Width: 979
+Analyzer2D.Height: 501
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Vertical
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 142.000000000000
+Analyzer2D.Maximum: 150.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 514.500000000000
+Analyzer2D.MaximumGradient: 6606164.996000000276
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/mpi-io.cfg b/cfgs/mpi-io.cfg
new file mode 100644
index 0000000..1f683ac
--- /dev/null
+++ b/cfgs/mpi-io.cfg
@@ -0,0 +1,77 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call >
+################################################################################
+window_name MPI call
+window_type single
+window_id 1
+window_position_x 2360
+window_position_y 274
+window_width 642
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 150.000000000000
+window_minimum_y 3.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 1 50000005
+window_filter_module evt_type_label 1 "MPI I/O"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: MPI-IO
+Analyzer2D.X: 2862
+Analyzer2D.Y: 40
+Analyzer2D.Width: 667
+Analyzer2D.Height: 483
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 141.000000000000
+Analyzer2D.Maximum: 150.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 225.865000000000
+Analyzer2D.MaximumGradient: 698578.567999999970
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/mpi-master-thread.cfg b/cfgs/mpi-master-thread.cfg
new file mode 100644
index 0000000..a130f31
--- /dev/null
+++ b/cfgs/mpi-master-thread.cfg
@@ -0,0 +1,79 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call >
+################################################################################
+window_name MPI call
+window_type single
+window_id 1
+window_position_x 2214
+window_position_y 148
+window_width 756
+window_height 390
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 70.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+#REPLACE_BY_APP_FILTER
+#REPLACE_BY_TASKS_FILTER
+#REPLACE_BY_THREADS_FILTER
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, [x,y]}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 2 50000001 50000005
+window_filter_module evt_type_label 2 "MPI Point-to-point" "Unknown"
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: MPI call profile
+Analyzer2D.X: 807
+Analyzer2D.Y: 207
+Analyzer2D.Width: 881
+Analyzer2D.Height: 582
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: True
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 200.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 11.456000000000
+Analyzer2D.MaximumGradient: 11868747.607000000775
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/runtime.cfg b/cfgs/runtime.cfg
new file mode 100644
index 0000000..5438cda
--- /dev/null
+++ b/cfgs/runtime.cfg
@@ -0,0 +1,72 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI call >
+################################################################################
+window_name MPI call
+window_type single
+window_id 1
+window_position_x 377
+window_position_y 288
+window_width 600
+window_height 114
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 70.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Thread i}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, [x,y]}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module task Thread i { 1, { 1 0.000000000000 } }
+window_filter_module evt_type 2 50000001 50000005
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: runtime
+Analyzer2D.X: 487
+Analyzer2D.Y: 156
+Analyzer2D.Width: 1271
+Analyzer2D.Height: 616
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: True
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: False
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 200.000000000000
+Analyzer2D.Delta: 200.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 55413948.358000002801
+Analyzer2D.MaximumGradient: 55413948.358000002801
+Analyzer2D.PixelSize: 1
+Analyzer2D.CodeColor: False
+
diff --git a/cfgs/runtime_app.cfg b/cfgs/runtime_app.cfg
new file mode 100644
index 0000000..791859f
--- /dev/null
+++ b/cfgs/runtime_app.cfg
@@ -0,0 +1,74 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW runtimeapp >
+################################################################################
+window_name runtimeapp
+window_type single
+window_id 1
+window_position_x 2457
+window_position_y 507
+window_width 581
+window_height 118
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered false
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 0.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max true
+window_level appl
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { 1 } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Last Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, None}, {evt_value, None} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: runtimeapp
+Analyzer2D.X: 2513
+Analyzer2D.Y: 133
+Analyzer2D.Width: 257
+Analyzer2D.Height: 251
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: False
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 0.000000000000
+Analyzer2D.Maximum: 0.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 5232000.069000000134
+Analyzer2D.MaximumGradient: 5232000.069000000134
+Analyzer2D.DrawModeObjects: draw_maximum
+Analyzer2D.DrawModeColumns: draw_maximum
+Analyzer2D.PixelSize: 1
+Analyzer2D.ColorMode: window_in_gradient_mode
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/cfgs/time_computing.cfg b/cfgs/time_computing.cfg
new file mode 100644
index 0000000..4bb17ad
--- /dev/null
+++ b/cfgs/time_computing.cfg
@@ -0,0 +1,114 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 3
+
+
+################################################################################
+< NEW DISPLAYING WINDOW interval from states.c3 >
+################################################################################
+window_name interval from states.c3
+window_type single
+window_id 1
+window_position_x 377
+window_position_y 29
+window_width 600
+window_height 134
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered true
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Nanoseconds
+window_maximum_y 325782.880999999994
+window_minimum_y 28.247000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 0.276616926766
+window_end_time_relative 0.276616926766
+window_object appl { 1, { All } }
+window_begin_time_relative 0.261615159840
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, State Record Dur.}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, None}, {to_obj, None}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, None}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_semantic_module thread State Record Dur. { 1, { 2 0.000000000000 1.000000000000 } }
+
+################################################################################
+< NEW DISPLAYING WINDOW MPI elapsed time (ns).c1 >
+################################################################################
+window_name MPI elapsed time (ns).c1
+window_type single
+window_id 2
+window_position_x 406
+window_position_y 58
+window_width 600
+window_height 134
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_logical_filtered true
+window_physical_filtered true
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Nanoseconds
+window_maximum_y 34405654.000000000000
+window_minimum_y 28247.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 0.276616926766
+window_end_time_relative 0.276616926766
+window_object appl { 1, { All } }
+window_begin_time_relative 0.261615159840
+window_open false
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, Next Evt Val}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, None}, {to_obj, None}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, =}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+window_filter_module evt_type 1 54000006
+window_filter_module evt_type_label 1 "Elapsed time in MPI"
+
+################################################################################
+< NEW DISPLAYING WINDOW time outside MPI >
+################################################################################
+window_name time outside MPI
+window_type composed
+window_id 3
+window_factors 1.000000000000 1.000000000000
+window_operation substract
+window_identifiers 1 2
+window_position_x 367
+window_position_y 385
+window_width 600
+window_height 134
+window_comm_lines_enabled false
+window_flags_enabled false
+window_noncolor_mode true
+window_color_mode window_in_null_gradient_mode
+window_units Microseconds
+window_maximum_y 472609042.000000000000
+window_minimum_y 2905.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open true
+window_drawmode draw_maximum
+window_drawmode_rows draw_maximum
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 5, { {appl, Adding}, {task, Adding}, {node, Adding}, {system, Adding}, {workload, Adding}, } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
diff --git a/cfgs/timings.cfg b/cfgs/timings.cfg
new file mode 100644
index 0000000..d2061ef
--- /dev/null
+++ b/cfgs/timings.cfg
@@ -0,0 +1,72 @@
+#ParaverCFG
+ConfigFile.Version: 3.4
+ConfigFile.NumWindows: 1
+
+
+################################################################################
+< NEW DISPLAYING WINDOW States >
+################################################################################
+window_name States
+window_type single
+window_id 1
+window_position_x 393
+window_position_y 88
+window_width 767
+window_height 314
+window_comm_lines_enabled true
+window_flags_enabled false
+window_noncolor_mode true
+window_logical_filtered true
+window_physical_filtered false
+window_comm_fromto true
+window_comm_tagsize true
+window_comm_typeval true
+window_units Microseconds
+window_maximum_y 18.000000000000
+window_minimum_y 0.000000000000
+window_compute_y_max false
+window_level thread
+window_scale_relative 1.000000000000
+window_end_time_relative 1.000000000000
+window_object appl { 1, { All } }
+window_begin_time_relative 0.000000000000
+window_open false
+window_drawmode 1
+window_drawmode_rows 1
+window_pixel_size 1
+window_labels_to_draw 1
+window_selected_functions { 14, { {cpu, Active Thd}, {appl, Adding}, {task, Adding}, {thread, State As Is}, {node, Adding}, {system, Adding}, {workload, Adding}, {from_obj, All}, {to_obj, All}, {tag_msg, All}, {size_msg, All}, {bw_msg, All}, {evt_type, All}, {evt_value, All} } }
+window_compose_functions { 9, { {compose_cpu, As Is}, {compose_appl, As Is}, {compose_task, As Is}, {compose_thread, As Is}, {compose_node, As Is}, {compose_system, As Is}, {compose_workload, As Is}, {topcompose1, As Is}, {topcompose2, As Is} } }
+
+< NEW ANALYZER2D >
+Analyzer2D.Name: States Histogram
+Analyzer2D.X: 396
+Analyzer2D.Y: 433
+Analyzer2D.Width: 600
+Analyzer2D.Height: 300
+Analyzer2D.ControlWindow: 1
+Analyzer2D.DataWindow: 1
+Analyzer2D.Accumulator: Semantic
+Analyzer2D.Statistic: Time
+Analyzer2D.CalculateAll: True
+Analyzer2D.HideCols: True
+Analyzer2D.HorizVert: Horizontal
+Analyzer2D.Color: True
+Analyzer2D.SemanticColor: False
+Analyzer2D.Zoom: Disabled
+Analyzer2D.SortCols: False
+Analyzer2D.SortCriteria: Average
+Analyzer2D.Parameters: 4 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 -179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000 179769313486231570814527423731704356798070567525844996598917476803157260780028538760589558632766878171540458953514382464234321326889464182768467546703537516986049910576551282076245490090389328944075868508455133942304583236903222948165808559332123348274797826204144723168738177180919299881250404026184124858368.000000000000
+Analyzer2D.AnalysisLimits: Alltrace
+Analyzer2D.ComputeYScale: True
+Analyzer2D.Minimum: 1.000000000000
+Analyzer2D.Maximum: 18.000000000000
+Analyzer2D.Delta: 1.000000000000
+Analyzer2D.ComputeGradient: True
+Analyzer2D.MinimumGradient: 273554.000000000000
+Analyzer2D.MaximumGradient: 9395816375.000000000000
+Analyzer2D.PixelSize: 1
+Analyzer2D.CodeColor: False
+Analyzer2D.ShowOnlyTotals: False
+Analyzer2D.ShortHeaderLabels: True
+
diff --git a/hybridmetrics.py b/hybridmetrics.py
new file mode 100644
index 0000000..4cc6abb
--- /dev/null
+++ b/hybridmetrics.py
@@ -0,0 +1,1496 @@
+#!/usr/bin/env python3
+
+"""Functions to compute the model metrics."""
+
+from __future__ import print_function, division
+import sys
+
+
+from rawdata import *
+from collections import OrderedDict
+
+# error import variables
+error_import_pandas = False
+error_import_seaborn = False
+error_import_matplotlib = False
+error_import_numpy = False
+
+try:
+    import numpy as np
+except ImportError:
+    error_import_numpy = True
+
+
+try:
+    import pandas as pd
+except ImportError:
+    error_import_pandas = True
+
+try:
+    import seaborn as sns
+except ImportError:
+    error_import_seaborn = True
+
+
+try:
+    import matplotlib.pyplot as plt
+except ImportError:
+    error_import_matplotlib = True
+    
+
+
+# Contains all model factor entries with a printable name.
+# This is used to generate and print all model factors, so, if an entry is added,
+# it should be added here, too.
+
+other_metrics_doc = OrderedDict([('elapsed_time', 'Elapsed time (sec)'),
+                               ('efficiency', 'Efficiency'),
+                               ('speedup', 'Speedup'),
+                               ('ipc', 'Average IPC'),
+                               ('freq', 'Average frequency (GHz)'),
+                               ('flushing', 'Flushing (%)'),
+                               ('io_mpiio', 'MPI I/O (%)'),
+                               ('io_posix', 'POSIX I/O (%)'),
+                               ('io_eff', 'I/O Efficiency (%)')])
+
+mod_factors_doc = OrderedDict([('global_eff', 'Global efficiency'),
+                               ('parallel_eff', '-- Parallel efficiency'),
+                               ('load_balance', '   -- Load balance'),
+                               ('comm_eff', '   -- Communication efficiency'),
+                               ('comp_scale', '-- Computation scalability'),
+                               ('ipc_scale', '   -- IPC scalability'),
+                               ('inst_scale', '   -- Instruction scalability'),
+                               ('freq_scale', '   -- Frequency scalability')])
+
+mod_factors_scale_plus_io_doc = OrderedDict([('comp_scale', '-- Computation scalability + I/O'),
+                               ('ipc_scale', '   -- IPC scalability'),
+                               ('inst_scale', '   -- Instruction scalability'),
+                               ('freq_scale', '   -- Frequency scalability')])
+
+mod_hybrid_factors_doc = OrderedDict([
+                               ('hybrid_eff', '-- Hybrid Parallel efficiency'),
+                               ('mpi_parallel_eff', '   -- MPI Parallel efficiency'),
+                               ('mpi_load_balance', '      -- MPI Load balance'),
+                               ('mpi_comm_eff', '      -- MPI Communication efficiency'),
+                               ('serial_eff', '         -- Serialization efficiency'),
+                               ('transfer_eff', '         -- Transfer efficiency'),
+                               ('omp_parallel_eff', '   -- OMP Parallel efficiency'),
+                               ('omp_load_balance', '      -- OMP Load balance'),
+                               ('omp_comm_eff', '      -- OMP Communication efficiency')])
+
+
+def create_mod_factors(trace_list):
+    """Creates 2D dictionary of the model factors and initializes with an empty
+    string. The mod_factors dictionary has the format: [mod factor key][trace].
+    """
+    global mod_factors_doc
+    mod_factors = {}
+    for key in mod_factors_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        mod_factors[key] = trace_dict
+
+    return mod_factors
+
+
+def create_mod_factors_scale_io(trace_list):
+    """Creates 2D dictionary of the model factors and initializes with an empty
+    string. The mod_factors dictionary has the format: [mod factor key][trace].
+    """
+    global mod_factors_scale_plus_io_doc
+    mod_factors_scale_plus_io = {}
+    for key in mod_factors_scale_plus_io_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        mod_factors_scale_plus_io[key] = trace_dict
+
+    return mod_factors_scale_plus_io
+
+
+def create_hybrid_mod_factors(trace_list):
+    """Creates 2D dictionary of the hybrid model factors and initializes with an empty
+    string. The hybrid_factors dictionary has the format: [mod factor key][trace].
+    """
+    global mod_hybrid_factors_doc
+    hybrid_factors = {}
+    for key in mod_hybrid_factors_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        hybrid_factors[key] = trace_dict
+
+    return hybrid_factors
+
+
+def create_other_metrics(trace_list):
+    """Creates 2D dictionary of the other metrics and initializes with an empty
+    string. The other_metrics dictionary has the format: [mod factor key][trace].
+    """
+    global other_metrics_doc
+    other_metrics = {}
+    for key in other_metrics_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        other_metrics[key] = trace_dict
+
+    return other_metrics
+
+
+def get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args):
+    """Guess the scaling type (weak/strong) based on the useful instructions.
+    Computes the normalized instruction ratio for all measurements, whereas the
+    normalized instruction ratio is (instructions ratio / process ratio) with
+    the smallest run as reference. For exact weak scaling the normalized ratio
+    should be exactly 1 and for exact strong scaling it should be close to zero
+    with an upper bound of 0.5. The eps value defines the threshold to be
+    considered weak scaling and should give enough buffer to safely handle
+    non-ideal scaling.
+    """
+    eps = 0.9
+    normalized_inst_ratio = 0
+
+    # Check if there is only one trace.
+    if len(trace_list) == 1:
+        return 'strong'
+
+    for trace in trace_list:
+        try:  # except NaN
+            inst_ratio = float(raw_data['useful_ins'][trace]) / float(raw_data['useful_ins'][trace_list[0]])
+        except:
+            inst_ratio = 0.0
+        try:  # except NaN
+            proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
+        except:
+            proc_ratio = 'NaN'
+
+        normalized_inst_ratio += inst_ratio / proc_ratio
+
+    # Get the average inst increase. Ignore ratio of first trace 1.0)
+    normalized_inst_ratio = (normalized_inst_ratio - 1) / (len(trace_list) - 1)
+
+    scaling_computed = ''
+
+    if normalized_inst_ratio > eps:
+        scaling_computed = 'weak'
+    else:
+        scaling_computed = 'strong'
+
+    if cmdl_args.scaling == 'auto':
+        if cmdl_args.debug:
+            print('==DEBUG== Detected ' + scaling_computed + ' scaling.')
+            print('')
+        return scaling_computed
+
+    if cmdl_args.scaling == 'weak':
+        if scaling_computed == 'strong':
+            print('==Warning== Scaling set to weak scaling but detected strong scaling.')
+            print('')
+        return 'weak'
+
+    if cmdl_args.scaling == 'strong':
+        if scaling_computed == 'weak':
+            print('==Warning== Scaling set to strong scaling but detected weak scaling.')
+            print('')
+        return 'strong'
+
+    print('==Error== reached undefined control flow state.')
+    sys.exit(1)
+
+
+def compute_model_factors(raw_data, trace_list, trace_processes, trace_mode, list_mpi_procs_count, cmdl_args):
+    """Computes the model factors from the gathered raw data and returns the
+    according dictionary of model factors."""
+    mod_factors = create_mod_factors(trace_list)
+    hybrid_factors = create_hybrid_mod_factors(trace_list)
+    other_metrics = create_other_metrics(trace_list)
+    mod_factors_scale_plus_io = create_mod_factors_scale_io(trace_list)
+
+    # Guess the weak or strong scaling
+    scaling = get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args)
+
+    # Loop over all traces
+    for trace in trace_list:
+
+        proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
+        total_procs = trace_processes[trace]
+
+        # Flushing measurements
+        try:  # except NaN
+            other_metrics['flushing'][trace] = float(raw_data['flushing_tot'][trace]) \
+                                                     / (raw_data['runtime'][trace] * total_procs) * 100.0
+        except:
+            other_metrics['flushing'][trace] = 0.0
+
+        # I/O measurements
+        try:  # except NaN
+            other_metrics['io_mpiio'][trace] = float(raw_data['mpiio_tot'][trace]) \
+                                               / (raw_data['runtime'][trace] * total_procs) * 100.0
+        except:
+            other_metrics['io_mpiio'][trace] = 0.0
+
+        try:  # except NaN
+            other_metrics['io_posix'][trace] = float(raw_data['io_tot'][trace]) \
+                                               / (raw_data['runtime'][trace] * total_procs) * 100.0
+        except:
+            other_metrics['io_posix'][trace] = 0.0
+        try:  # except NaN
+            io_total = float(raw_data['mpiio_tot'][trace] + raw_data['flushing_tot'][trace]
+                             + raw_data['io_tot'][trace])
+            other_metrics['io_eff'][trace] = float(raw_data['useful_tot'][trace]) \
+                                             / (raw_data['useful_tot'][trace] + io_total) * 100.0
+        except:
+            other_metrics['io_eff'][trace] = 0.0
+
+        # Basic efficiency factors
+        try:  # except NaN
+            if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
+                print("Hello, I pass for this conditional", trace)
+                mod_factors['load_balance'][trace] = float(raw_data['useful_plus_io_avg'][trace]) \
+                                                     / float(raw_data['useful_plus_io_max'][trace]) * 100.0
+            else:
+                mod_factors['load_balance'][trace] = float(raw_data['useful_avg'][trace]) \
+                                                 / float(raw_data['useful_max'][trace]) * 100.0
+        except:
+            mod_factors['load_balance'][trace] = 'NaN'
+
+        try:  # except NaN
+            if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
+                mod_factors['comm_eff'][trace] = float(raw_data['useful_plus_io_max'][trace] \
+                                                 / raw_data['runtime'][trace] * 100.0)
+            else:
+                mod_factors['comm_eff'][trace] = float(raw_data['useful_max'][trace] \
+                                                     / raw_data['runtime'][trace] * 100.0)
+        except:
+            mod_factors['comm_eff'][trace] = 'NaN'
+
+        try:  # except NaN
+            if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
+                mod_factors['parallel_eff'][trace] = float(raw_data['useful_plus_io_avg'][trace]) \
+                                                     / float(raw_data['runtime'][trace]) * 100.0
+            else:
+                mod_factors['parallel_eff'][trace] = float(mod_factors['load_balance'][trace]) \
+                                                     * float(mod_factors['comm_eff'][trace]) / 100.0
+        except:
+            mod_factors['parallel_eff'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if scaling == 'strong':
+                    mod_factors['comp_scale'][trace] = float(raw_data['useful_tot'][trace_list[0]]) \
+                                                   / float(raw_data['useful_tot'][trace]) * 100.0
+                else:
+                    mod_factors['comp_scale'][trace] = float(raw_data['useful_tot'][trace_list[0]]) \
+                                                   / float(raw_data['useful_tot'][trace]) * proc_ratio * 100.0
+            else:
+                mod_factors['comp_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['comp_scale'][trace] = 'NaN'
+
+        # Computation Scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    io_serial_0 = float(raw_data['io_tot'][trace_list[0]] + raw_data['flushing_tot'][trace_list[0]])
+                    io_serial_n = float(raw_data['io_tot'][trace] + raw_data['flushing_tot'][trace])
+                    if scaling == 'strong':
+                        mod_factors_scale_plus_io['comp_scale'][trace] = float((raw_data['useful_tot'][trace_list[0]]
+                                                                      + io_serial_0) / (raw_data['useful_tot'][trace]
+                                                                                        + io_serial_n) * 100.0)
+                    else:
+                        mod_factors_scale_plus_io['comp_scale'][trace] = (float(raw_data['useful_tot'][trace_list[0]])
+                                                                          + io_serial_0) \
+                                                                     / (float(raw_data['useful_tot'][trace])
+                                                                        + io_serial_n) * proc_ratio * 100.0
+                else:
+                    mod_factors_scale_plus_io['comp_scale'][trace] = float(mod_factors['comp_scale'][trace])
+            else:
+                mod_factors_scale_plus_io['comp_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['comp_scale'][trace] = 'NaN'
+
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                mod_factors['global_eff'][trace] = float(mod_factors['parallel_eff'][trace]) \
+                                                   * float(mod_factors['comp_scale'][trace]) / 100.0
+            else:
+                mod_factors['global_eff'][trace] = float(mod_factors['parallel_eff'][trace]) * 100.0 / 100.0
+        except:
+            mod_factors['global_eff'][trace] = 'NaN'
+
+        # Hybrid metrics calculation
+        # ------->  MPI metrics
+        try:  # except NaN
+            hybrid_factors['mpi_load_balance'][trace] = float(raw_data['outsidempi_avg'][trace]) \
+                                                        / float(raw_data['outsidempi_max'][trace]) * 100.0
+        except:
+            hybrid_factors['mpi_load_balance'][trace] = 'NaN'
+
+        try:  # except NaN
+            hybrid_factors['mpi_comm_eff'][trace] = float(raw_data['outsidempi_max'][trace]) \
+                                                    / float(raw_data['runtime'][trace]) * 100.0
+        except:
+            hybrid_factors['mpi_comm_eff'][trace] = 'NaN'
+
+        # ------------> BEGIN MPI communication sub-metrics
+        try:  # except NaN
+            hybrid_factors['serial_eff'][trace] = float(raw_data['outsidempi_dim'][trace]) \
+                                               / float(raw_data['runtime_dim'][trace]) * 100.0
+            if hybrid_factors['serial_eff'][trace] > 100.0:
+                hybrid_factors['serial_eff'][trace] = 'Warning!'
+        except:
+            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+                hybrid_factors['serial_eff'][trace] = 'NaN'
+            else:
+                hybrid_factors['serial_eff'][trace] = 'Non-Avail'
+
+        try:  # except NaN
+            if hybrid_factors['serial_eff'][trace] != 'Warning!':
+                hybrid_factors['transfer_eff'][trace] = float(hybrid_factors['mpi_comm_eff'][trace]) \
+                                                        / float(hybrid_factors['serial_eff'][trace]) * 100.0
+            else:
+                hybrid_factors['transfer_eff'][trace] = float(raw_data['runtime_dim'][trace]) \
+                                                        / float(raw_data['runtime'][trace]) * 100.0
+            if hybrid_factors['transfer_eff'][trace] > 100.0:
+                hybrid_factors['transfer_eff'][trace] = 'Warning!'
+        except:
+            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+                hybrid_factors['transfer_eff'][trace] = 'NaN'
+            else:
+                hybrid_factors['transfer_eff'][trace] = 'Non-Avail'
+        # --------------> END MPI communication sub-metrics
+        try:  # except NaN
+            if raw_data['outsidempi_tot'][trace] == raw_data['outsidempi_tot_diff'][trace]:
+                hybrid_factors['mpi_parallel_eff'][trace] = float(raw_data['outsidempi_tot'][trace] /
+                                                                  (raw_data['runtime'][trace]
+                                                                   * list_mpi_procs_count[trace]) * 100.0)
+            else:
+                hybrid_factors['mpi_parallel_eff'][trace] = float(raw_data['outsidempi_tot_diff'][trace]
+                                                                  / (raw_data['runtime'][trace]
+                                                                     * trace_processes[trace]) * 100.0)
+        except:
+            hybrid_factors['mpi_parallel_eff'][trace] = 'NaN'
+
+        # ------->  Metrics for the second parallel paradigm
+        try:  # except NaN
+            hybrid_factors['omp_comm_eff'][trace] = float(mod_factors['comm_eff'][trace]) \
+                                                     / float(hybrid_factors['mpi_comm_eff'][trace]) * 100.0
+        except:
+            hybrid_factors['omp_comm_eff'][trace] = 'NaN'
+
+        try:  # except NaN
+            hybrid_factors['omp_load_balance'][trace] = float(mod_factors['load_balance'][trace]) \
+                                                 / float(hybrid_factors['mpi_load_balance'][trace]) * 100.0
+        except:
+            hybrid_factors['omp_load_balance'][trace] = 'NaN'
+
+        try:  # except NaN
+            hybrid_factors['omp_parallel_eff'][trace] = float(mod_factors['parallel_eff'][trace]) \
+                                                     / float(hybrid_factors['mpi_parallel_eff'][trace]) * 100.0
+        except:
+            hybrid_factors['omp_parallel_eff'][trace] = 'NaN'
+
+        # ------->  Global Hybrid Metric
+        try:  # except NaN
+            hybrid_factors['hybrid_eff'][trace] = float(hybrid_factors['mpi_parallel_eff'][trace]) \
+                                               * float(hybrid_factors['omp_parallel_eff'][trace]) / 100.0
+        except:
+            hybrid_factors['hybrid_eff'][trace] = 'NaN'
+
+        # Basic scalability factors
+        try:  # except NaN
+            other_metrics['ipc'][trace] = float(raw_data['useful_ins'][trace]) \
+                                        / float(raw_data['useful_cyc'][trace])
+        except:
+            other_metrics['ipc'][trace] = 'NaN'
+        try:  # except NaN
+            if len(trace_list) > 1:
+                mod_factors['ipc_scale'][trace] = float(other_metrics['ipc'][trace]) \
+                                              / float(other_metrics['ipc'][trace_list[0]]) * 100.0
+            else:
+                mod_factors['ipc_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['ipc_scale'][trace] = 'NaN'
+
+        # IPC scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    ipc_serial_io_0 = (raw_data['useful_ins'][trace_list[0]] + raw_data['io_ins'][trace_list[0]]
+                                       + raw_data['flushing_ins'][trace_list[0]]) \
+                                      / (raw_data['useful_cyc'][trace_list[0]] + raw_data['io_cyc'][trace_list[0]]
+                                         + raw_data['flushing_cyc'][trace_list[0]])
+
+                    ipc_serial_io_n = (raw_data['useful_ins'][trace] + raw_data['io_ins'][trace]
+                                       + raw_data['flushing_ins'][trace])\
+                                      / (raw_data['useful_cyc'][trace] + raw_data['io_cyc'][trace]
+                                         + raw_data['flushing_cyc'][trace])
+                    mod_factors_scale_plus_io['ipc_scale'][trace] = float(ipc_serial_io_n / ipc_serial_io_0 * 100.0)
+                else:
+                    mod_factors_scale_plus_io['ipc_scale'][trace] = float(mod_factors['ipc_scale'][trace])
+            else:
+                mod_factors_scale_plus_io['ipc_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['ipc_scale'][trace] = 'NaN'
+
+        try:  # except NaN
+            other_metrics['freq'][trace] = float(raw_data['useful_cyc'][trace]) \
+                                           / float(raw_data['useful_tot'][trace]) / 1000
+        except:
+            other_metrics['freq'][trace] = 'NaN'
+        try:  # except NaN
+            if len(trace_list) > 1:
+                mod_factors['freq_scale'][trace] = float(other_metrics['freq'][trace]) \
+                                               / float(other_metrics['freq'][trace_list[0]]) * 100.0
+            else:
+                mod_factors['freq_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['freq_scale'][trace] = 'NaN'
+
+        # freq scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    freq_serial_io_0 = (float(raw_data['useful_cyc'][trace_list[0]])
+                                        + float(raw_data['io_cyc'][trace_list[0]])
+                                        + float(raw_data['flushing_cyc'][trace_list[0]]))\
+                                       / (raw_data['useful_tot'][trace_list[0]]
+                                          + float(raw_data['io_tot'][trace_list[0]])
+                                          + float(raw_data['flushing_tot'][trace_list[0]])) / 1000
+
+                    freq_serial_io_n = (float(raw_data['useful_cyc'][trace])
+                                              + float(raw_data['io_cyc'][trace])
+                                              + float(raw_data['flushing_cyc'][trace]))\
+                                       / (float(raw_data['useful_tot'][trace])
+                                          + float(raw_data['io_tot'][trace])
+                                          + float(raw_data['flushing_tot'][trace])) / 1000
+                    mod_factors_scale_plus_io['freq_scale'][trace] = float(freq_serial_io_n / freq_serial_io_0 * 100.0)
+                else:
+                    mod_factors_scale_plus_io['freq_scale'][trace] = float(mod_factors['freq_scale'][trace])
+            else:
+                mod_factors_scale_plus_io['freq_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['freq_scale'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if scaling == 'strong':
+                    mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]])\
+                                                       / float(raw_data['useful_ins'][trace]) * 100.0
+                else:
+                    mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]]) \
+                                                   / float(raw_data['useful_ins'][trace]) * proc_ratio * 100.0
+            else:
+                mod_factors['inst_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['inst_scale'][trace] = 'NaN'
+
+        # ins scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    useful_ins_plus_io_0 = float(raw_data['useful_ins'][trace_list[0]]) \
+                                       + float(raw_data['io_ins'][trace_list[0]]) \
+                                       + float(raw_data['flushing_ins'][trace_list[0]])
+                    useful_ins_plus_io_n = float(raw_data['useful_ins'][trace]) \
+                                       + float(raw_data['io_ins'][trace]) \
+                                       + float(raw_data['flushing_ins'][trace])
+                    if scaling == 'strong':
+                        mod_factors_scale_plus_io['inst_scale'][trace] = float(useful_ins_plus_io_0) \
+                                                                 / float(useful_ins_plus_io_n) * 100.0
+                    else:
+                        mod_factors_scale_plus_io['inst_scale'][trace] = float(useful_ins_plus_io_0) \
+                                                                         / float(useful_ins_plus_io_n)\
+                                                                         * proc_ratio * 100.0
+                else:
+                    mod_factors_scale_plus_io['inst_scale'][trace] = float(mod_factors['inst_scale'][trace])
+            else:
+                mod_factors_scale_plus_io['inst_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['inst_scale'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if scaling == 'strong':
+                    other_metrics['speedup'][trace] = float(raw_data['runtime'][trace_list[0]]
+                                                            / raw_data['runtime'][trace])
+                else:
+                    other_metrics['speedup'][trace] = float(raw_data['runtime'][trace_list[0]]
+                                                            / raw_data['runtime'][trace] * proc_ratio)
+            else:
+                other_metrics['speedup'][trace] = 'Non-Avail'
+        except:
+            other_metrics['speedup'][trace] = 'NaN'
+
+        try:  # except NaN
+            other_metrics['elapsed_time'][trace] = float(raw_data['runtime'][trace] * 0.000001)
+        except:
+            other_metrics['elapsed_time'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                #other_metrics['efficiency'][trace] = other_metrics['speedup'][trace] / proc_ratio
+                if scaling == 'strong':
+                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
+                                                        / (raw_data['runtime'][trace] * proc_ratio)
+                else:
+                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
+                                                        / raw_data['runtime'][trace]
+            else:
+                other_metrics['efficiency'][trace] = 'Non-Avail'
+        except:
+            other_metrics['efficiency'][trace] = 'NaN'
+
+    return mod_factors, mod_factors_scale_plus_io, hybrid_factors, other_metrics
+
+
+def print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, hybrid_factors, trace_list,
+                            trace_processes, trace_tasks, trace_threads,trace_mode):
+    """Prints the model factors table in human readable form on stdout."""
+    global mod_factors_doc, mod_hybrid_factors_doc
+
+    warning_io = []
+    warning_flush = []
+    warning_flush_wrong = []
+    warning_simulation = []
+    for trace in trace_list:
+        if 10.0 <= other_metrics['flushing'][trace] < 15.0:
+            warning_flush.append(1)
+        elif other_metrics['flushing'][trace] >= 15.0:
+            warning_flush_wrong.append(1)
+        if other_metrics['io_posix'][trace] >= 5.0:
+            warning_io.append(1)
+        if hybrid_factors['serial_eff'][trace] == "Warning!" \
+                or hybrid_factors['serial_eff'][trace] == "Warning!":
+            warning_simulation.append(1)
+
+    if len(warning_flush_wrong) > 0:
+        print("WARNING! Flushing in a trace is too high. Disabling standard output metrics...")
+        print("         Flushing is an overhead due to the tracer, please review your trace.")
+        print('')
+        return
+
+    # Update the hybrid parallelism mode
+    trace_mode_doc = trace_mode[trace_list[0]]
+    if trace_mode_doc[0:len("Detailed+MPI+")] == "Detailed+MPI+":
+        mod_hybrid_factors_doc['omp_parallel_eff'] = "   -- " + \
+                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Parallel efficiency"
+        mod_hybrid_factors_doc['omp_load_balance'] = "      -- " + \
+                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Load Balance"
+        mod_hybrid_factors_doc['omp_comm_eff'] = "      -- " + \
+                                                 trace_mode_doc[len("Detailed+MPI+"):] + " Communication efficiency"
+    
+    # print('')
+    print('\n Overview of the Efficiency metrics:')
+
+    longest_name = len(sorted(mod_hybrid_factors_doc.values(), key=len)[-1])
+
+    line = ''.rjust(longest_name)
+    if len(trace_list) == 1:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[0]]
+    else:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[len(trace_list)-1]]
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # BEGIN To adjust header to big number of processes
+    procs_header = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if limit_min == limit_max and same_procs and len(trace_list) > 1:
+            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
+        else:
+            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
+        if s_xtics in procs_header:
+            s_xtics += '[' + str(index + 1) + ']'
+        procs_header.append(s_xtics)
+
+    max_len_header = 0
+    for proc_h in procs_header:
+        if max_len_header < len(proc_h):
+            max_len_header = len(proc_h)
+
+    value_to_adjust = 10
+    if max_len_header > value_to_adjust:
+        value_to_adjust = max_len_header + 1
+    # END To adjust header to big number of processes
+
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        line += ' | '
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if limit_min == limit_max and same_procs and len(trace_list) > 1:
+            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
+        else:
+            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
+        if s_xtics in label_xtics:
+            s_xtics += '[' + str(index + 1) + ']'
+        label_xtics.append(s_xtics)
+        line += s_xtics.rjust(value_to_adjust)
+
+    print(''.ljust(len(line), '='))
+    print(line)
+    line_procs_factors = line
+
+    print(''.ljust(len(line), '='))
+
+    for mod_key in mod_factors_doc:
+        line = mod_factors_doc[mod_key].ljust(longest_name)
+        for trace in trace_list:
+            line += ' | '
+            try:  # except NaN
+                line += ('{0:.2f}%'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
+            except ValueError:
+                line += ('{}'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
+        print(line)
+
+    io_metrics = []
+    io_metrics.append(0)
+    for mod_key in mod_factors_scale_plus_io_doc:
+        for trace in trace_list:
+            if mod_factors_scale_plus_io[mod_key][trace] != 0:
+                io_metrics.append(1)
+
+    if (len(warning_flush) >= 1 or len(warning_io) >= 1) and len(trace_list) > 1:
+        print(''.ljust(len(line_procs_factors), '-'))
+        for mod_key in mod_factors_scale_plus_io_doc:
+            line = mod_factors_scale_plus_io_doc[mod_key].ljust(longest_name)
+            for trace in trace_list:
+                line += ' | '
+                try:  # except NaN
+                    line += ('{0:.2f}%'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
+                except ValueError:
+                    line += ('{}'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
+            print(line)
+        print(''.ljust(len(line_procs_factors), '='))
+    else:
+        print(''.ljust(len(line_procs_factors), '-'))
+        
+    for mod_key in mod_hybrid_factors_doc:
+        line = mod_hybrid_factors_doc[mod_key].ljust(longest_name)
+        for trace in trace_list:
+            line += ' | '
+            try:  # except NaN
+                if str(hybrid_factors[mod_key][trace]) != 'nan':
+                    line += ('{0:.2f}%'.format(hybrid_factors[mod_key][trace])).rjust(value_to_adjust)
+                elif str(hybrid_factors[mod_key][trace]) == 'nan':
+                    line += ('{}'.format('NaN')).rjust(value_to_adjust)
+                else:
+                    line += ('{}'.format(hybrid_factors[mod_key][trace])).rjust(value_to_adjust)
+            except ValueError:
+                line += ('{}'.format(hybrid_factors[mod_key][trace])).rjust(value_to_adjust)
+        print(line)
+
+    print(''.ljust(len(line_procs_factors), '='))
+    if len(warning_simulation) > 0:
+        print("===> Warning! Metrics obtained from simulated traces exceed 100%. "
+              "Please review original and simulated traces.")
+    print('')
+
+
+def print_other_metrics_table(other_metrics, trace_list, trace_processes, trace_tasks, trace_threads):
+    """Prints the other metrics table in human readable form on stdout."""
+    global other_metrics_doc
+
+    print('Overview of the Efficiency, Speedup, IPC and Frequency:')
+
+    longest_name = len(sorted(other_metrics_doc.values(), key=len)[-1])
+
+    line = ''.rjust(longest_name)
+    if len(trace_list) == 1:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[0]]
+    else:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[len(trace_list)-1]]
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # BEGIN To adjust header to big number of processes
+    procs_header = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if limit_min == limit_max and same_procs and len(trace_list) > 1:
+            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
+        else:
+            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
+        if s_xtics in procs_header:
+            s_xtics += '[' + str(index + 1) + ']'
+        procs_header.append(s_xtics)
+
+    max_len_header = 0
+    for proc_h in procs_header:
+        if max_len_header < len(proc_h):
+            max_len_header = len(proc_h)
+
+    value_to_adjust = 10
+    if max_len_header > value_to_adjust:
+        value_to_adjust = max_len_header + 1
+    # END To adjust header to big number of processes
+
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        line += ' | '
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if limit_min == limit_max and same_procs and len(trace_list) > 1:
+            s_xtics = (str(trace_processes[trace]) + '[' + str(index+1) + ']')
+        else:
+            s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
+        if s_xtics in label_xtics:
+            s_xtics += '[' + str(index + 1) + ']'
+        label_xtics.append(s_xtics)
+        line += s_xtics.rjust(value_to_adjust)
+
+    print(''.ljust(len(line), '-'))
+    print(line)
+    line_head = line
+    print(''.ljust(len(line), '-'))
+
+    for mod_key in other_metrics_doc:
+        line = other_metrics_doc[mod_key].ljust(longest_name)
+        if len(trace_list) > 1:
+            if mod_key in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                print(line)
+        else:
+            if mod_key in ['ipc', 'freq', 'elapsed_time']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                print(line)
+    print(''.ljust(len(line_head), '-'))
+    # print('')
+
+    warning_io = []
+    warning_flush = []
+    for trace in trace_list:
+        if other_metrics['flushing'][trace] >= 10.0:
+            warning_flush.append(1)
+        if other_metrics['io_mpiio'][trace] >= 5.0 or other_metrics['io_posix'][trace] >= 5.0:
+            warning_io.append(1)
+
+    for mod_key in other_metrics_doc:
+        line = other_metrics_doc[mod_key].ljust(longest_name)
+        # Print empty line to separate values
+        if mod_key in ['freq'] and len(warning_flush) > 0:
+            print('')
+            print("Overview of tracer\'s flushing weight:")
+            print(''.ljust(len(line_head), '-'))
+
+        if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency']:
+            if mod_key in ['flushing']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                if len(warning_flush) > 0:
+                    print(line)
+                    print(''.ljust(len(line_head), '-'))
+            elif mod_key in ['io_mpiio','io_posix','io_eff']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                if len(warning_io) > 0:
+                    print(line)
+
+        # Print headers I/O
+        if mod_key in ['flushing'] and len(warning_io) > 0:
+            print(''.ljust(len(line), ' '))
+            print('Overview of File I/O weight:')
+            print(''.ljust(len(line), '-'))
+        if mod_key in ['io_eff'] and len(warning_io) > 0:
+            print(''.ljust(len(line), '-'))
+            # print('')
+
+    if len(warning_flush) > 0:
+        message_warning_flush = "WARNING! %Flushing is high and affects computation of efficiency metrics."
+    else:
+        message_warning_flush = ""
+    if len(warning_io) > 0:
+        message_warning_io = "WARNING! % File I/O is high and affects computation of efficiency metrics."
+    else:
+        message_warning_io = ""
+    print(message_warning_flush+message_warning_io)
+    # print('')
+
+
+def print_efficiency_table(mod_factors, hybrid_factors, trace_list, trace_processes, trace_tasks, trace_threads):
+    """Prints the model factors table in human readable form on stdout."""
+    global mod_factors_doc, mod_hybrid_factors_doc
+
+    delimiter = ','
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    if len(trace_list) == 1:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[0]]
+    else:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[len(trace_list) - 1]]
+
+    file_path = os.path.join(os.getcwd(), 'efficiency_table-global.csv')
+    with open(file_path, 'w') as output:
+        line = '\"Number of processes\"'
+
+        label_xtics = []
+        for index, trace in enumerate(trace_list):
+            line += delimiter
+            tasks = trace_tasks[trace]
+            threads = trace_threads[trace]
+            if limit_min == limit_max and same_procs and len(trace_list) > 1:
+                s_xtics = (str(trace_processes[trace]) + '[' + str(index + 1) + ']')
+            else:
+                s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
+            if s_xtics in label_xtics:
+                s_xtics += '[' + str(index + 1) + ']'
+            label_xtics.append(s_xtics)
+            line += s_xtics
+
+        output.write(line + '\n')
+
+        for mod_key in mod_factors_doc:
+            if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency', 'flushing', 'io_mpiio', 'io_posix']:
+                if mod_key in ['parallel_eff', 'comp_scale']:
+                    line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
+                elif mod_key in ['load_balance', 'comm_eff','ipc_scale', 'inst_scale','freq_scale']:
+                    line = "\"" + mod_factors_doc[mod_key].replace('     ', '', 2) + "\""
+                else:
+                    line = "\"" + mod_factors_doc[mod_key] + "\""
+                for trace in trace_list:
+                    line += delimiter
+                    try:  # except NaN
+                        if mod_factors[mod_key][trace] == "Non-Avail" or mod_factors[mod_key][trace] == "Warning!":
+                            line += '0.00'
+                        else:
+                            line += '{0:.2f}'.format(mod_factors[mod_key][trace])
+                    except ValueError:
+                        line += '{}'.format(mod_factors[mod_key][trace])
+                output.write(line + '\n')
+
+        # Create Gnuplot file for efficiency plot
+        gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'efficiency_table-global.gp')
+        content = []
+
+        with open(gp_template) as f:
+            content = f.readlines()
+
+        limit_procs = 500 + len(trace_list) * 65
+        ## print(limit_procs)
+
+        # Replace xrange
+        content = [line.replace('#REPLACE_BY_SIZE', ''.join(['set terminal pngcairo enhanced dashed crop size ',
+                                                             str(limit_procs), ',460 font "Latin Modern Roman,14"']))
+                   for line in content]
+
+        file_path = os.path.join(os.getcwd(), 'efficiency_table_global.gp')
+        with open(file_path, 'w') as f:
+            f.writelines(content)
+        # print('======== Plot (gnuplot File): EFFICIENCY Table ========')
+        if len(trace_list) > 1:
+            print('Global Efficiency Table written to ' + file_path[:len(file_path) - 3] + '.gp')
+        # print('')
+
+    delimiter = ','
+    file_path = os.path.join(os.getcwd(), 'efficiency_table-hybrid.csv')
+    with open(file_path, 'w') as output:
+        line = '\"Number of processes\"'
+        label_xtics = []
+        for index, trace in enumerate(trace_list):
+            line += delimiter
+            tasks = trace_tasks[trace]
+            threads = trace_threads[trace]
+            if limit_min == limit_max and same_procs and len(trace_list) > 1:
+                s_xtics = (str(trace_processes[trace]) + '[' + str(index + 1) + ']')
+            else:
+                s_xtics = (str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')')
+            if s_xtics in label_xtics:
+                s_xtics += '[' + str(index + 1) + ']'
+            label_xtics.append(s_xtics)
+            line += s_xtics
+        output.write(line + '\n')
+
+        for mod_key in mod_hybrid_factors_doc:
+            if mod_key in ['mpi_parallel_eff', 'omp_parallel_eff']:
+                line = "\"" + mod_hybrid_factors_doc[mod_key].replace('     ', '', 2) + "\""
+            elif mod_key in ['mpi_load_balance', 'mpi_comm_eff','omp_load_balance', 'omp_comm_eff']:
+                line = "\"" + mod_hybrid_factors_doc[mod_key].replace('       ', '', 2) + "\""
+            elif mod_key in ['serial_eff', 'transfer_eff']:
+                line = "\"" + mod_hybrid_factors_doc[mod_key].replace('         ', '          ', 2) + "\""
+            else:
+                line = "\"" + mod_hybrid_factors_doc[mod_key] + "\""
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    if hybrid_factors[mod_key][trace] == "Non-Avail" or hybrid_factors[mod_key][trace] == "Warning!":
+                        line += '0.00'
+                    else:
+                        line += '{0:.2f}'.format(hybrid_factors[mod_key][trace])
+                except ValueError:
+                    line += '{}'.format(hybrid_factors[mod_key][trace])
+            output.write(line + '\n')
+
+        # Create Gnuplot file for efficiency plot
+        gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'efficiency_table-hybrid.gp')
+        content = []
+
+        with open(gp_template) as f:
+            content = f.readlines()
+
+        limit_procs = 510 + len(trace_list) * 80
+
+        # Replace xrange
+        content = [line.replace('#REPLACE_BY_SIZE', ''.join(['set terminal pngcairo enhanced dashed crop size ',
+                                                             str(limit_procs), ',460 font "Latin Modern Roman,14"']))
+                   for line in content]
+
+        file_path = os.path.join(os.getcwd(), 'efficiency_table-hybrid.gp')
+        with open(file_path, 'w') as f:
+            f.writelines(content)
+        # print('======== Plot (gnuplot File): EFFICIENCY Table ========')
+        if len(trace_list) > 1:
+            print('Hybrid Efficiency Table written to ' + file_path[:len(file_path) - 3] + '.gp')
+        #print('')
+
+
+def print_mod_factors_csv(mod_factors, hybrid_factors, trace_list, trace_processes):
+    """Prints the model factors table in a csv file."""
+    global mod_factors_doc, mod_hybrid_factors_doc
+
+    delimiter = ';'
+    # File is stored in the trace directory
+    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
+    # File is stored in the execution directory
+    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
+
+    with open(file_path, 'w') as output:
+        line = "\"Number of processes\""
+        for trace in trace_list:
+            line += delimiter
+            line += str(trace_processes[trace])
+        output.write(line + '\n')
+
+        for mod_key in mod_factors_doc:
+            line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    line += '{0:.6f}'.format(mod_factors[mod_key][trace])
+                except ValueError:
+                    line += '{}'.format(mod_factors[mod_key][trace])
+            output.write(line + '\n')
+
+        for mod_key in mod_hybrid_factors_doc:
+            line = "\"" + mod_hybrid_factors_doc[mod_key].replace('  ', '', 2) + "\""
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    line += '{0:.6f}'.format(hybrid_factors[mod_key][trace])
+                except ValueError:
+                    line += '{}'.format(hybrid_factors[mod_key][trace])
+            output.write(line + '\n')
+
+        output.write('#\n')
+
+    print('======== Output Files: Metrics and Plots  ========')
+    print('Model factors written to ' + file_path)
+
+
+def print_other_metrics_csv(other_metrics, trace_list, trace_processes):
+    """Prints the model factors table in a csv file."""
+    global other_metrics_doc
+
+    delimiter = ';'
+    # File is stored in the trace directory
+    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
+    # File is stored in the execution directory
+    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
+
+    with open(file_path, 'w') as output:
+        line = 'Number of processes'
+        for trace in trace_list:
+            line += delimiter
+            line += str(trace_processes[trace])
+        output.write(line + '\n')
+
+        for mod_key in other_metrics_doc:
+            line = other_metrics_doc[mod_key].replace('  ', '', 2)
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    line += '{0:.6f}'.format(other_metrics[mod_key][trace])
+                except ValueError:
+                    line += '{}'.format(other_metrics[mod_key][trace])
+            output.write(line + '\n')
+
+        output.write('#\n')
+
+    print('')
+    print('======== Output File: Other Metrics ========')
+    print('Speedup, IPC, Frequency, I/O and Flushing written to ' + file_path)
+
+
+def plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
+    # Plotting using python
+    # For plotting using python, read the csv file
+
+    file_path = os.path.join(os.getcwd(), 'efficiency_table-hybrid.csv')
+    df = pd.read_csv(file_path)
+    metrics = df['Number of processes'].tolist()
+
+    traces_procs = list(df.keys())[1:]
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list)-1]])
+
+    limit_min = trace_processes[trace_list[0]]
+
+    # To xticks label
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if int(limit) == int(limit_min) and same_procs:
+            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
+        else:
+            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
+        if s_xtics in label_xtics:
+            s_xtics += '[' + str(index + 1) + ']'
+        label_xtics.append(s_xtics)
+    ##### End xticks
+
+    # BEGIN To adjust header to big number of processes
+    max_len_header = 7
+    for labelx in label_xtics:
+        if len(labelx) > max_len_header:
+            max_len_header = len(labelx)
+
+    # END To adjust header to big number of processes
+
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if float(value) == 0.0:
+                list_temp.append(np.nan)
+            else:
+                list_temp.append(float(value))
+        # print(list_temp)
+        list_data.append(list_temp)
+
+    list_np = np.array(list_data)
+
+    idx = metrics
+    cols = label_xtics
+    # cols = traces_procs
+    df = pd.DataFrame(list_np, index=idx, columns=cols)
+
+    # min for 1 trace is x=3 for the (x,y) in figsize
+    size_figure_y = len(idx) * 0.40
+    size_figure_x = len(cols) * 0.14 * max_len_header
+    plt.figure(figsize=(size_figure_x, size_figure_y))
+
+    ax = sns.heatmap(df, cmap='RdYlGn', linewidths=0.05, annot=True, vmin=0, vmax=100, center=75, \
+                     fmt='.2f', annot_kws={"size": 10}, cbar_kws={'label': 'Percentage(%)'})
+    ## to align ylabels to left
+    plt.yticks(rotation=0, ha='left')
+
+    ax.xaxis.tick_top()
+    # to adjust metrics
+    len_pad = 0
+    for metric in metrics:
+        if len(metric) > len_pad:
+            len_pad = len(metric)
+
+    ax.yaxis.set_tick_params(pad=len_pad + 164)
+
+    plt.savefig('efficiency_table-hybrid-matplot.png', bbox_inches='tight')
+
+    # General Metrics plot
+
+    file_path = os.path.join(os.getcwd(), 'efficiency_table-global.csv')
+    df = pd.read_csv(file_path)
+    metrics = df['Number of processes'].tolist()
+
+    traces_procs = list(df.keys())[1:]
+
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if float(value) == 0.0:
+                list_temp.append(np.nan)
+            else:
+                list_temp.append(float(value))
+        # print(list_temp)
+        list_data.append(list_temp)
+
+    list_np = np.array(list_data)
+
+    idx = metrics
+    cols = label_xtics
+    # cols = traces_procs
+    df = pd.DataFrame(list_np, index=idx, columns=cols)
+
+    # min for 1 traces is x=3 for the (x,y) in figsize
+    size_figure_y = len(idx) * 0.40
+    size_figure_x = len(cols) * 0.14 * max_len_header
+    plt.figure(figsize=(size_figure_x, size_figure_y))
+
+    ax = sns.heatmap(df, cmap='RdYlGn', linewidths=0.05, annot=True, vmin=0, vmax=100, center=75, \
+                     fmt='.2f', annot_kws={"size": 10}, cbar_kws={'label': 'Percentage(%)'})
+    ## to align ylabels to left
+    plt.yticks(rotation=0, ha='left')
+    ax.xaxis.tick_top()
+    # to adjust metrics
+    len_pad = 0
+    for metric in metrics:
+        if len(metric) > len_pad:
+            len_pad = len(metric)
+
+    ax.yaxis.set_tick_params(pad=len_pad + 140)
+
+    plt.savefig('efficiency_table-global-matplot.png', bbox_inches='tight')
+
+
+def plots_modelfactors_matplot(trace_list, trace_processes,trace_tasks, trace_threads, cmdl_args):
+    # Plotting using python
+    # For plotting using python, read the csv file
+    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
+    df = pd.read_csv(file_path, sep=';')
+
+    traces_procs = list(df.keys())[1:]
+
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if value != 'Non-Avail' and value != 'Warning!':
+                list_temp.append(float(value))
+            elif value == 'Non-Avail' or value == 'Warning!':
+                list_temp.append('NaN')
+        # print(list_temp)
+        list_data.append(list_temp)
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list)-1]])
+
+    limit_min = trace_processes[trace_list[0]]
+
+    # To xticks label
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if int(limit) == int(limit_min) and same_procs:
+            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
+        else:
+            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
+        if s_xtics in label_xtics:
+            s_xtics += '[' + str(index + 1) + ']'
+        label_xtics.append(s_xtics)
+
+    ## Global Metrics
+    plt.figure()
+    max_global = max([max(list_data[0]), max(list_data[1]), max(list_data[2]),
+                      max(list_data[3]), max(list_data[4])])
+    plt.plot(traces_procs, list_data[0], 'o-', color='black', label='Global Efficiency')
+    plt.plot(traces_procs, list_data[1], 's--', color='magenta', label='Parallel Efficiency')
+    plt.plot(traces_procs, list_data[2], '*:', color='red', label='Load Balance')
+    plt.plot(traces_procs, list_data[3], 'x-.', color='green', label='Communication efficiency')
+    plt.plot(traces_procs, list_data[4], 'v--', color='blue', label='Computation scalability')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency (%)")
+    plt.xticks(tuple(traces_procs), tuple(label_xtics))
+    # print(max_global)
+    if float(max_global) < 100:
+        max_global = 100
+
+    plt.ylim(0, max_global+5)
+    plt.legend()
+    plt.savefig('modelfactors-global-matplot.png', bbox_inches='tight')
+
+    ## Scale Metrics
+    plt.figure()
+    max_scale = max([max(list_data[4]), max(list_data[5]), max(list_data[6]), max(list_data[7])])
+    plt.plot(traces_procs, list_data[4], 'v-', color='blue', markerfacecolor='blue', label='Computation scalability')
+    plt.plot(traces_procs, list_data[5], 'v--', color='skyblue', label='IPC scalability')
+    plt.plot(traces_procs, list_data[6], 'v:', color='gray', label='Instruction scalability')
+    plt.plot(traces_procs, list_data[7], 'v-.', color='darkviolet', label='Frequency scalability')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency (%)")
+    plt.xticks(tuple(traces_procs), tuple(label_xtics))
+    if float(max_scale) < 100:
+        max_scale = 100
+
+    plt.ylim(0, max_scale+5)
+    plt.legend()
+    plt.savefig('modelfactors-scale-matplot.png', bbox_inches='tight')
+
+    ## Hybrid Metrics
+
+    plt.figure()
+    max_hybrid = max([max(list_data[8]), max(list_data[9]), max(list_data[10]), max(list_data[11]),
+                     max(list_data[14]), max(list_data[15]), max(list_data[16])])
+    plt.plot(traces_procs, list_data[8], 's-', color='purple', label='Hybrid Parallel efficiency')
+    plt.plot(traces_procs, list_data[9], 'o--', color='green', label='MPI Parallel efficiency')
+    plt.plot(traces_procs, list_data[10], 'x-.', color='lime', label='MPI Load balance')
+    plt.plot(traces_procs, list_data[11], '*:', color='lightseagreen', label='MPI Communication efficiency')
+    plt.plot(traces_procs, list_data[14], 'h--', color='red', label='OpenMP Parallel efficiency')
+    plt.plot(traces_procs, list_data[15], 'v-.', color='orange', label='OpenMP Load Balance')
+    plt.plot(traces_procs, list_data[16], 'X:', color='salmon', label='OpenMP Communication efficiency')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency (%)")
+    plt.xticks(tuple(traces_procs), tuple(label_xtics))
+    if float(max_hybrid) < 100:
+        max_hybrid = 100
+
+    plt.ylim(0, max_hybrid+5)
+    plt.legend()
+    plt.savefig('modelfactors-hybrid-matplot.png', bbox_inches='tight')
+
+    ## MPI Metrics
+    plt.figure()
+    if max(list_data[12]) != 'NaN' and max(list_data[13]) != 'NaN':
+        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11]),
+                       max(list_data[12]), max(list_data[13])])
+        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
+        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
+        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
+        plt.plot(traces_procs, list_data[12], linestyle=(0, (3, 10, 1, 10)), marker='s', color='gold',
+                 label='Serialization efficiency')
+        plt.plot(traces_procs, list_data[13], linestyle=(0, (3, 5, 1, 5)), marker='x', color='tomato', label='Transfer efficiency')
+    elif max(list_data[12]) == 'NaN' and max(list_data[13]) == 'NaN':
+        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11])])
+        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
+        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
+        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
+    elif max(list_data[12]) != 'NaN' and max(list_data[13]) == 'NaN':
+        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11]),
+                       max(list_data[12])])
+        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
+        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
+        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
+        plt.plot(traces_procs, list_data[12], linestyle=(0, (3, 10, 1, 10)), marker='s', color='gold', label='Serialization efficiency')
+    else:
+        max_mpi = max([max(list_data[9]), max(list_data[10]), max(list_data[11]),max(list_data[13])])
+        plt.plot(traces_procs, list_data[9], 's-', color='green', label='MPI Parallel efficiency')
+        plt.plot(traces_procs, list_data[10], 'v:', color='lime', label='MPI Load balance')
+        plt.plot(traces_procs, list_data[11], 'o-.', color='lightseagreen', label='MPI Communication efficiency')
+        plt.plot(traces_procs, list_data[13], linestyle=(0, (3, 5, 1, 5)), marker='x', color='tomato', label='Transfer efficiency')
+
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency (%)")
+    plt.xticks(tuple(traces_procs), tuple(label_xtics))
+    if float(max_mpi) < 100:
+        max_mpi = 100
+
+    plt.ylim(0, max_mpi+5)
+    plt.legend()
+    plt.savefig('modelfactors-mpi-matplot.png', bbox_inches='tight')
+
+
+def plots_speedup_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
+    # Plotting using python
+    # For plotting using python, read the csv file
+    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
+    df = pd.read_csv(file_path, sep=';')
+
+    traces_procs = list(df.keys())[1:]
+
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if value != 'Non-Avail':
+                list_temp.append(float(value))
+            elif value == 'Non-Avail':
+                list_temp.append('NaN')
+        # print(list_temp)
+        list_data.append(list_temp)
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list) - 1]])
+
+    limit_min = trace_processes[trace_list[0]]
+
+    # proc_ratio to ideal speedup
+    proc_ratio = []
+    for index, trace in enumerate(trace_list):
+        proc_ratio.append(trace_processes[trace]/trace_processes[trace_list[0]])
+    # print(proc_ratio)
+
+    # To xticks label
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if int(limit) == int(limit_min) and same_procs:
+            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
+        elif int(limit) == int(limit_min) and not same_procs:
+            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' \
+                          + str(threads) + ')'
+        else:
+            s_xtics = str(trace_processes[trace])
+        label_xtics.append(s_xtics)
+
+    int_traces_procs = []
+    prev_procs = int(float(traces_procs[0]))
+    int_traces_procs.append(int(float(traces_procs[0])))
+    count_rep = 0
+    for procs in traces_procs[1:]:
+        if prev_procs == int(float(procs)):
+            count_rep += 1
+            int_traces_procs.append(int(float(procs))+ (2*count_rep))
+            prev_procs = int(float(procs))
+        else:
+            int_traces_procs.append(int(float(procs)))
+            prev_procs = int(float(procs))
+            count_rep = 0
+
+    ### Plot: Global Metrics
+    plt.figure()
+    for x, y in zip(int_traces_procs, list_data[2]):
+        label = "{:.2f}".format(y)
+        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
+
+    plt.plot(int_traces_procs, list_data[2], 'o-', color='blue', label='measured')
+    plt.plot(int_traces_procs, proc_ratio, 'o-', color='black', label='ideal')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("SpeedUp")
+    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
+    #plt.yscale('log')
+    plt.legend()
+    #plt.xlim(0, )
+    plt.ylim(0, )
+    plt.savefig('speedup-matplot.png', bbox_inches='tight')
+
+    ### Plot: Efficiency
+    # print(list_data)
+    plt.figure()
+    for x, y in zip(int_traces_procs, list_data[1]):
+        label = "{:.2f}".format(y)
+        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
+
+    plt.plot(int_traces_procs, list_data[1], 'o-', color='blue', label='measured')
+    plt.axhline(y=1, color='black', linestyle='-', label='ideal')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency")
+    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
+    # plt.yscale('log')
+    max_y = max(list_data[1])
+    if max_y < 1.1:
+        max_y = 1.0
+    #plt.xlim(0, )
+    plt.ylim(0,max_y+0.1)
+    plt.legend()
+    plt.savefig('efficiency-matplot.png', bbox_inches='tight')
\ No newline at end of file
diff --git a/modelfactors.py b/modelfactors.py
new file mode 100755
index 0000000..4eb5c6b
--- /dev/null
+++ b/modelfactors.py
@@ -0,0 +1,192 @@
+#!/usr/bin/env python3
+
+"""modelfactors.py Generates performance metrics from a set of Paraver traces."""
+
+from __future__ import print_function, division
+import subprocess
+import plots
+from utils import parse_arguments, check_installation
+from tracemetadata import get_traces_from_args
+from rawdata import gather_raw_data, print_raw_data_table, print_raw_data_csv
+from simplemetrics import compute_model_factors, print_mod_factors_csv, print_efficiency_table, \
+    print_mod_factors_table, read_mod_factors_csv, print_other_metrics_table, \
+    print_other_metrics_csv, plots_efficiency_table_matplot, plots_modelfactors_matplot, plots_speedup_matplot
+
+import hybridmetrics
+
+# error import variables
+error_import_pandas = False
+error_import_seaborn = False
+error_import_matplotlib = False
+error_import_scipy = False
+error_import_numpy = False
+
+try:
+    import pandas as pd
+except ImportError:
+    error_import_pandas = True
+
+try:
+    import seaborn as sns
+except ImportError:
+    error_import_seaborn = True
+
+try:
+    import matplotlib
+    matplotlib.use('pdf')
+    import matplotlib.pyplot as plt00
+except ImportError:
+    error_import_matplotlib = True
+
+try:
+    import scipy.optimize
+except ImportError:
+    error_import_scipy = True
+
+
+try:
+    import numpy
+except ImportError:
+    error_import_numpy = True
+
+
+__author__ = "Sandra Mendez"
+__copyright__ = "Copyright 2019, Barcelona Supercomputing Center (BSC)"
+__version_major__ = 0
+__version_minor__ = 3
+__version_micro__ = 7
+__version__ = str(__version_major__) + "." + str(__version_minor__) + "." + str(__version_micro__)
+
+
+if __name__ == "__main__":
+    """Main control flow.
+    Currently the script only accepts one parameter, which is a list of traces
+    that are processed. This can be a regex with wild cards and only valid trace
+    files are kept at the end.
+    """
+    # Parse command line arguments
+    cmdl_args = parse_arguments()
+
+    # Check if paramedir and Dimemas are in the path
+    check_installation(cmdl_args)
+
+    # Process the trace list
+    trace_list, trace_processes, trace_tasks, trace_threads, trace_task_per_node, trace_mode = \
+        get_traces_from_args(cmdl_args)
+
+    # To validate the metric type
+    trace_metrics = 0
+    # print(trace_mode)
+    for trace in trace_list:
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace][:15] == 'Detailed+OpenMP' \
+                or trace_mode[trace][:17] == 'Detailed+Pthreads' or trace_mode[trace][:13] == 'Detailed+CUDA' \
+                or trace_mode[trace][:14] == 'Detailed+OmpSs' or trace_mode[trace][:15] == 'Detailed+OpenCL' \
+                or trace_mode[trace] == 'Detailed' or trace_mode[trace][:5] == 'Burst':
+            trace_metrics += 1
+
+    # Analyze the traces and gather the raw input data
+    raw_data, list_mpi_procs_count = gather_raw_data(trace_list, trace_processes, trace_task_per_node,
+                                                     trace_mode, cmdl_args)
+    print_raw_data_csv(raw_data, trace_list, trace_processes)
+
+    # Compute the model factors and print them
+
+    if cmdl_args.metrics == 'hybrid' and trace_metrics == 0:
+        mod_factors, mod_factors_scale_plus_io, hybrid_factors, other_metrics = \
+                hybridmetrics.compute_model_factors(raw_data, trace_list, trace_processes,
+                                                    trace_mode, list_mpi_procs_count, cmdl_args)
+        hybridmetrics.print_other_metrics_table(other_metrics, trace_list, trace_processes, trace_tasks, trace_threads)
+        hybridmetrics.print_other_metrics_csv(other_metrics, trace_list, trace_processes)
+        hybridmetrics.print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, hybrid_factors,
+                                              trace_list, trace_processes, trace_tasks, trace_threads, trace_mode)
+        hybridmetrics.print_mod_factors_csv(mod_factors, hybrid_factors, trace_list, trace_processes)
+        hybridmetrics.print_efficiency_table(mod_factors, hybrid_factors, trace_list, trace_processes, trace_tasks,
+                                             trace_threads)
+        # Plotting efficiency table with matplotlib
+        error_plot_table = False
+        if error_import_numpy or error_import_pandas or error_import_matplotlib or error_import_seaborn:
+            print('Numpy/Pandas/Matplotlib/Seaborn modules not available. '
+                  'Skipping efficiency table plotting with python.')
+            if len(trace_list) > 1:
+                out_ver_gnuplot = subprocess.check_output(["gnuplot", "--version"])
+                if 'gnuplot 5.' not in str(out_ver_gnuplot):
+                    print('It requires gnuplot version 5.0 or higher. '
+                          'Skipping efficiency table and lineal plotting with gnuplot.')
+                else:
+                    try:
+                        output_gnuplot_g = subprocess.check_output(["gnuplot", "efficiency_table_global.gp"])
+                        output_gnuplot_h = subprocess.check_output(["gnuplot", "efficiency_table-hybrid.gp"])
+                    except:
+                        print(output_gnuplot_g)
+                        print(output_gnuplot_h)
+            error_plot_table = True
+
+        if not error_plot_table:
+            hybridmetrics.plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks,
+                                                         trace_threads, cmdl_args)
+            if len(trace_list) > 1:
+                hybridmetrics.plots_modelfactors_matplot(trace_list, trace_processes, trace_tasks,
+                                                         trace_threads, cmdl_args)
+                hybridmetrics.plots_speedup_matplot(trace_list, trace_processes, trace_tasks,
+                                                    trace_threads, cmdl_args)
+
+        # Plotting if SciPy and NumPy are installed.
+        error_plot_lineal = False
+        if error_import_numpy or error_import_scipy:
+            print('Scipy/NumPy module not available. Skipping lineal plotting.')
+            error_plot_lineal = True
+
+        if not error_plot_lineal:
+            if len(trace_list) > 1:
+                plots.plot_hybrid_metrics(mod_factors, hybrid_factors, trace_list, trace_processes,
+                                          trace_tasks, trace_threads, trace_mode, cmdl_args)
+
+        if len(trace_list) == 1:
+            subprocess.check_output(["rm", "efficiency_table_global.gp"])
+            subprocess.check_output(["rm", "efficiency_table-hybrid.gp"])
+
+    elif cmdl_args.metrics == 'simple' or trace_metrics > 0:
+        mod_factors, mod_factors_scale_plus_io, other_metrics = compute_model_factors(raw_data, trace_list,
+                                                                                      trace_processes, trace_mode,
+                                                                                      list_mpi_procs_count, cmdl_args)
+        print_other_metrics_table(other_metrics, trace_list, trace_processes)
+        print_other_metrics_csv(other_metrics, trace_list, trace_processes)
+        print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, trace_list, trace_processes)
+        print_mod_factors_csv(mod_factors, trace_list, trace_processes)
+        print_efficiency_table(mod_factors, trace_list, trace_processes)
+
+        # Plotting efficiency table with matplotlib
+        error_plot_table = False
+        if error_import_numpy or error_import_pandas or error_import_matplotlib or error_import_seaborn:
+            print('Numpy/Pandas/Matplotlib/Seaborn modules not available. '
+                  'Skipping efficiency table plotting with python.')
+            if len(trace_list) > 1:
+                out_ver_gnuplot = subprocess.check_output(["gnuplot", "--version"])
+                if 'gnuplot 5.' not in str(out_ver_gnuplot):
+                    print('It requires gnuplot version 5.0 or higher. '
+                          'Skipping efficiency table and lineal plotting with gnuplot.')
+                else:
+                    try:
+                        output_gnuplot = subprocess.check_output(["gnuplot", "efficiency_table.gp"])
+                    except:
+                        print(output_gnuplot)
+            error_plot_table = True
+
+        if not error_plot_table:
+            plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args)
+            if len(trace_list) > 1:
+                plots_modelfactors_matplot(trace_list, trace_mode, trace_processes, trace_tasks, trace_threads,
+                                           cmdl_args)
+
+        # Plotting if SciPy and NumPy are installed.
+        error_plot_lineal = False
+        if error_import_numpy or error_import_scipy:
+            print('Scipy/NumPy module not available. Skipping lineal plotting.')
+            error_plot_lineal = True
+        # sys.exit(1)
+        if not error_plot_lineal:
+            if len(trace_list) > 1:
+                plots.plot_simple_metrics(mod_factors, trace_list, trace_processes, trace_mode, cmdl_args)
+                plots_speedup_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args)
+        if len(trace_list) == 1:
+            subprocess.check_output(["rm", "efficiency_table.gp"])
diff --git a/perf_metrics.bash b/perf_metrics.bash
old mode 100644
new mode 100755
index e758f18..bd7685c
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -1,56 +1,34 @@
 #!/bin/bash
 
-main()
-{
-
-if [ $# -gt 0 ]; then
-
-  echo "This script does not accept arguments, parameters need to be added to perf_metrics.config Aborting"
-  exit 1
-
-fi
-
-#Get script directory
-dir=$(pwd)
-
-echo
-echo "Using the following configuration:"
-echo
-source "$dir"/perf_metrics.config
-grep -o '^[^#]*' perf_metrics.config
-echo
-
-Init
-Test_arguments
-Test_Comp
-Create_metrics
-
-}
-
+# Functions 
 
+#Checks if the job submission ended correctly. 
 Job_completed()
 {
   if [ "$Jobs_scheduler" == "slurm" ]; then
-    local id1=${1##* }
+    local id1
+    id1=${1##* }
     sleep 5
-    if ! scontrol show job $id1 | grep -q 'JobState=COMPLETED'; then
+    if ! scontrol show job "$id1" | grep -q 'JobState=COMPLETED'; then
       Completed=false
     else
       Completed=true
     fi	
 
   elif [ "$Jobs_scheduler" == "lsf" ]; then
-    local id1=$(head -n1 1 | cut -d'<' -f2 | cut -d'>' -f1)
+    local id2
+    id2=$(head -n1 "$1" | cut -d'<' -f2 | cut -d'>' -f1)
     sleep 5
-    if ! bjobs -l $id | grep -q 'Status <DONE>'; then
+    if ! bjobs -l "$id2" | grep -q 'Status <DONE>'; then
       Completed=false
     else
       Completed=true
     fi
   elif [ "$Jobs_scheduler" == "torque" ]; then
-    local id1=$(head -n1 $1 | awk '{ print $3 }')
+    local id3
+    id3=$(head -n1 "$1" | awk '{ print $3 }')
     sleep 5
-    if ! qstat f $id | grep -q 'exit_status = 0'; then
+    if ! qstat f "$id3" | grep -q 'exit_status = 0'; then
       Completed=false
     else
       Completed=true
@@ -60,9 +38,215 @@ Job_completed()
 
 }
 
+# Check if nemo is compiled for using extrae
+
+Compile_extrae()
+{
+  #Get flag lines
+
+  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
+  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
+  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
+
+
+  # If -rdynamic is not there recompilation is requiered and -rdynamic added
+
+  if ! echo "${line}"|grep -q "\-rdynamic\b"; then
+    echo "-rdynamic flag not found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -rdynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
+    compile_ext=true
+  fi
+
+  if ! echo "${line3}"|grep -q "\-export-dynamic\b"; then
+    echo "-export-dynamic flag not found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    sed -i '/^%LDFLAGS/ s/$/ -export-dynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
+    compile_ext=true
+  fi
+  
+   # If finstrument-functions is not there recompilation is requiered and -finstrument-functions added
+  if ! echo "${line}"|grep -q "\-finstrument-functions\b"; then
+    echo "-finstrument-functions flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -finstrument-functions/' "${Nemo_path}"/arch/arch-"${arch}".fcm
+    compile_ext=true
+  fi
+
+  # If -g is not there, recompilation is requiered and -g added
+    if ! echo "${line}"|grep -q "\-g\b"; then
+      echo "-g flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
+      sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}".fcm
+      compile_ext=true
+    fi
+
+  
+  if [ "$compile" == true ]; then
+      echo 'compile parameter is inicialized true'
+  fi
+
+  # If -pg is  there recompilation is requiered and -pg removed 
+
+  sed -i 's/-pg//g' "${Nemo_path}"/arch/arch-"${arch}".fcm
+
+  if echo "${line}"|grep -q "\-pg\b"; then
+    echo "-pg flag found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    compile_ext=true
+  fi
+
+  if echo "${line2}"|grep -q "\-pg\b"; then
+    echo "-pg flag found in FPPFLAGS arch-${arch}.fcm : editing arch-${arch}.fcm "
+    compile_ext=true
+  fi
+
+  if echo "${line3}"|grep -q "\-pg\b"; then
+    echo "-pg flag found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    compile_ext=true
+  fi
+   
+  # If nemo executable is not on the run file compile
+
+  if ! test -f "${Nemo_path}/cfgs/${name_cfg}/EXP00/nemo"; then
+    echo "nemo executable not found in ${name_cfg}"
+    compile_ext=true
+  fi
+
+
+  if [ "$compile" == true ] || [ "$compile_ext" == true ]; then
+
+    echo "Compiling Nemo for EXTRAE"
+    echo "Output of the compilation in compile.err and compile.out"
+
+    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
+    python3 Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+
+    state1=$("$job" --wait compile."$Jobs_scheduler")
+    echo
+    Job_completed "$state1"
+    if [ $Completed == false ]; then
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
+      echo
+      exit 1
+    else 
+      echo "Nemo compilation successful"
+      echo
+    fi
+    
+  else
+    echo "Compilation not needed"  
+    echo
+  fi
+
+  #Copy all the EXP00 data but don't overwrite namelist just the executable
+  cd "$dir" || echo "Error original dir doesn't exist" exit
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
+
+}
+
+#Check if Nemo is compiled for using Gprof
+
+Compile_gprof()
+{
+
+  if [ "$compile" == true ]; then
+    echo 'compile parameter is inicialized true'
+  fi
+
+  # Checking if Gprof_arch file is present
+  if ! test -f "${Nemo_path}/arch/arch-${arch}_GPROF.fcm"; then
+    cp "${Nemo_path}"/arch/arch-"${arch}".fcm "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+  fi
+
+  # Get text lines corresponding to the flags
+  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
+  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
+  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
+  
+  # If -g is not there, recompilation is requiered and -g added
+  if ! echo "${line}"|grep -q "\-g\b"; then
+    echo "-g flag not found in arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  # If -pg is not there recompilation is requiered and -pg added
+
+  if ! echo "${line}"|grep -q "\-pg\b"; then
+    echo "-pg flag not found in FCFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  if ! echo "${line2}"|grep -q "\-pg\b"; then
+    echo "-pg flag not found in FPPFLAGS arch-${arch}_GPROF.fcm : editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%FPPFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  if ! echo "${line3}"|grep -q "\-pg\b"; then
+    echo "-pg flag not found in LDFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%LDFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  # If nemo executable is not on the run file compile
+
+  if ! test -f "${Nemo_path}/cfgs/${name_cfg}_GPROF/EXP00/nemo"; then
+    echo "nemo executable not found in ${name_cfg}_GPROF"
+    compile_gprof=true
+  fi
+
+  if [ "$compile" == true ] || [ "$compile_gprof" == true ]; then
+    echo "Compiling Nemo for GPROF"
+    echo "Output of the compilation in compile.err and compile.out"
+
+    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
+    python3 Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+  
+    state1=$("$job" --wait compile."$Jobs_scheduler")
+    echo
+    Job_completed "$state1"
+    if [ "$Completed" == false ]; then
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
+      echo
+      exit 1
+    else 
+      echo "Nemo compilation successful"
+      echo
+    fi
+    
+  else
+    echo "Compilation not needed"  
+    echo
+  fi
+
+  #Copy all the EXP00 data but don't overwrite namelist just the executable
+  cd "$dir" || echo "Error original dir doesn't exist" exit
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* .
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo .
+  
+
+  if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+  fi
+
+  #Solving NEMO input file common errors
+
+  if test -f "weights_core_orca2_bicubic_noc.nc"; then
+    mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
+  fi
+
+  if test -f "weights_core_orca2_bilinear_noc.nc"; then 
+    mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
+  fi
+  
+}
+
+
+
+
+#Init variables with default values in case of missing
+
 Init()
 {
-  #Init variables with default values in case of missing
   Nemo_path="${Nemo_path:-"."}"
   Nemo_cores="${Nemo_cores:-( 48 )}"
   Jobs_n_cores="${Jobs_n_cores:-48}"
@@ -76,6 +260,8 @@ Init()
   comp_cfg="${Compilation_sub:-""}"
   Modules="${Modules:-""}"
   Nemo_iterations=12
+  compile_ext=false
+  compile_gprof=false
 }
 
 
@@ -168,138 +354,21 @@ Test_arguments()
 }
 
 
+# Generates a list of Nemo functions 
 
-Test_Comp()
+Gprof_functions()
 {
 
-  # Checking if compilation is needed
-
-  if [ "$compile" == true ]; then
-      echo 'compile parameter is inicialized true'
-  fi
   
-  # Get text lines corresponding to the flags
-  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
-  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
-  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
-   
-  # If -g is not there, recompilation is requiered and -g added
-  if ! echo "${line}"|grep -q "\-g\b"; then
-    echo "-g flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-
-  # If finstrument-functions is not there recompilation is requiered and -finstrument-functions added
-  if ! echo "${line}"|grep -q "\-finstrument-functions\b"; then
-    echo "-finstrument-functions flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -finstrument-functions/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-
-  # If nemo executable is not on the run file compile
-  
-  if ! test -f "${Nemo_path}/cfgs/${name_cfg}/EXP00/nemo"; then
-    echo "nemo executable not found in cfg"
-    compile=true
-  fi
-  
-  # If -pg is not there recompilation is requiered and -pg added
-
-  if ! echo "${line}"|grep -q "\-pg\b"; then
-    echo "-pg flag not found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-
-  if ! echo "${line2}"|grep -q "\-pg\b"; then
-    echo "-pg flag not found in FPPFLAGS arch-${arch}.fcm : editing arch-${arch}.fcm "
-    sed -i '/^%FPPFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-
-  if ! echo "${line3}"|grep -q "\-pg\b"; then
-    echo "-pg flag not found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%LDFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-
-
-  # If -rdynamic is not there recompilation is requiered and -rdynamic added
-  
-  if ! echo "${line}"|grep -q "\-rdynamic\b"; then
-    echo "-rdynamic flag not found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -rdynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-
- if ! echo "${line3}"|grep -q "\-export-dynamic\b"; then
-    echo "-export-dynamic flag not found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%LDFLAGS/ s/$/ -export-dynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile=true
-  fi
-  
-  
-
-  #Compile the program if needed
-
-  if [ $compile == true ]; then
-    echo "Compiling Nemo, expected duration 35m"
-    echo "Output of the compilation in compile.err and compile.out"
+  #Generating function list in case of missing
+  if ! test -f "extrae_functions.txt"; then
 
-    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    Compile_gprof
     
-    state1=$("$job" --wait compile."$Jobs_scheduler")
-    echo
-    Job_completed "$state1"
-    if [ $Completed == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
-      echo
-      exit 1
-    else 
-      echo "Nemo compilation successful"
-      echo
-    fi
     
-  else
-    echo "Compilation not needed"  
-    echo
-  fi
-
-   
-  #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" || echo "Error original dir doesn't exist" exit
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
-
-  if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
-  fi
-
-  #Solving NEMO input file common errors
-
-  if test -f "weights_core_orca2_bicubic_noc.nc"; then
-    mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
-  fi
-
-  if test -f "weights_core_orca2_bilinear_noc.nc"; then 
-    mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
-  fi
-
-  
-}
-
-Create_metrics()
-{
-
-
-  #Changing iterations, big traces generate problems.
-  sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
-
-  #Generating function list in case of missing
+    #Changing iterations, big traces generate problems.
+    sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
 
-  if ! test -f "extrae_functions_for_xml.txt"; then
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
@@ -330,17 +399,28 @@ Create_metrics()
       echo
     fi
 
-    ./extraf.sh  nemo extrae_functions.txt
+    
+    
 
   else
-    echo "Functions already listed, file extrae_functions_for_xml.txt does exist"
+    echo "Functions already listed, file extrae_functions.txt does exist"
     echo
+    
   fi
-
-  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" extrae.xml
   
-  # Run nemo with extrae
+}
+
+
+#Gets a trace from Nemo and cuts it to obtain a single timestep
+
+Get_trace()
+{
+
+Compile_extrae
 
+# Run nemo with extrae
+  ./extraf.sh  nemo extrae_functions.txt
+  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" extrae.xml
   for core in "${Nemo_cores[@]}" 
   
   do
@@ -363,7 +443,7 @@ Create_metrics()
     echo
     magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
-      echo "Cut failed, aborting." 
+      echo "Cut failed, look at cut_$core.out for more info." 
       echo
       exit 1
     fi
@@ -374,14 +454,20 @@ Create_metrics()
     fi
 
     cp nemo_"$core".best_cut.* Metrics
+    
  done
-  
-  # Create performance metrics
 
+}
 
+Create_metrics()
+{
+  
+  
+  
+  # Create performance metrics
   echo "Creating metrics and storing theme in Metrics folder"
   echo
-  python3 Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "modelfactors.py *" 
+  python3 Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w ".././modelfactors.py -ms 100000 *" 
   mv analysis."$Jobs_scheduler" Metrics
   cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
   state5=$("$job" --wait analysis."$Jobs_scheduler")
@@ -400,4 +486,33 @@ Create_metrics()
   echo "------------------------------------------------------------------------------"
   echo
 }
+
+main()
+{
+
+if [ $# -gt 0 ]; then
+
+  echo "This script does not accept arguments, parameters need to be added to perf_metrics.config Aborting"
+  exit 1
+
+fi
+
+#Get script directory
+dir=$(pwd)
+
+echo
+echo "Using the following configuration:"
+echo
+source "$dir"/perf_metrics.config
+grep -o '^[^#]*' perf_metrics.config
+echo
+
+Init
+Test_arguments
+Gprof_functions
+Get_trace
+Create_metrics
+
+}
+
 main "$@"; exit
diff --git a/perf_metrics.config b/perf_metrics.config
index 5bcf07a..ebe66fd 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -8,16 +8,16 @@
 # get Nemo traces with 4 and 48 cores. 2 different nºcores are needed to obtain scalability data. 
 
 Nemo_path="../NEMO"
-Nemo_cores=( 4 24 48 ) 
+Nemo_cores=( 4 24 48 96 192) 
 
-# Jobs_n_cores: nºcores used for executing other scripts. 
+# Jobs_n_cores: nºcores used for other jobs like compiling nemo. 
 # Jobs_scheduler: Available (slurm/lsf).
 # Jobs_time: Max duration of the job in min.
 # Jobs_queue: Queue used.
 
-Jobs_n_cores=4
+Jobs_n_cores=96  
 Jobs_scheduler="slurm"
-Jobs_time="60"
+Jobs_time=60
 Jobs_queue=debug
 
 # Compilation_compile:  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
@@ -29,8 +29,8 @@ Jobs_queue=debug
 
 Compilation_compile="false" 
 Compilation_ref="ORCA2_ICE_PISCES" 
-Compilation_arch="X64_MN4" 
-Compilation_name="ORCA2_EXTRAE" 
+Compilation_arch="X64_MN4_UNCOUPLED" 
+Compilation_name="ORCA2_UNCOUPLED" 
 Compilation_sub="OCE del_key 'key_si3 key_top'" 
     
 # List of modules loaded. 
diff --git a/plots.py b/plots.py
new file mode 100644
index 0000000..0e28cf1
--- /dev/null
+++ b/plots.py
@@ -0,0 +1,738 @@
+#!/usr/bin/env python3
+
+"""Functions to plots efficiencies metrics"""
+
+from __future__ import print_function, division
+import os
+from collections import OrderedDict
+
+# error import variables
+error_import_scipy = False
+error_import_numpy = False
+
+try:
+    import scipy.optimize
+except ImportError:
+    error_import_scipy = True
+    # print('==ERROR== Could not import SciPy. Please make sure to install a current version.')
+
+try:
+    import numpy
+except ImportError:
+    error_import_numpy = True
+    # print('==ERROR== Could not import NumPy. Please make sure to install a current version.')
+
+
+mod_hybrid_factors_doc = OrderedDict([
+                               ('hybrid_eff', '-- Hybrid Parallel efficiency'),
+                               ('mpi_parallel_eff', '   -- MPI Parallel efficiency'),
+                               ('mpi_load_balance', '      -- MPI Load balance'),
+                               ('mpi_comm_eff', '      -- MPI Communication efficiency'),
+                               ('serial_eff', '         -- Serialization efficiency'),
+                               ('transfer_eff', '         -- Transfer efficiency'),
+                               ('omp_parallel_eff', '   -- OMP Parallel efficiency'),
+                               ('omp_load_balance', '      -- OMP Load balance'),
+                               ('omp_comm_eff', '      -- OMP Communication efficiency')])
+
+
+def plot_hybrid_metrics(mod_factors, hybrid_factors, trace_list, trace_processes, trace_tasks, trace_threads, trace_mode, cmdl_args):
+    """Computes the projection from the gathered model factors and returns the
+    according dictionary of fitted prediction functions."""
+
+    global mod_hybrid_factors_doc
+
+    # Update the hybrid parallelism mode
+    trace_mode_doc = trace_mode[trace_list[0]]
+    if trace_mode_doc[0:len("Detailed+MPI+")] == "Detailed+MPI+":
+        mod_hybrid_factors_doc['omp_parallel_eff'] = "   -- " + \
+                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Parallel efficiency"
+        mod_hybrid_factors_doc['omp_load_balance'] = "      -- " + \
+                                                     trace_mode_doc[len("Detailed+MPI+"):] + " Load Balance"
+        mod_hybrid_factors_doc['omp_comm_eff'] = "      -- " + \
+                                                 trace_mode_doc[len("Detailed+MPI+"):] + " Communication efficiency"
+
+    if cmdl_args.debug:
+        print('==DEBUG== Computing projection of model factors.')
+
+    number_traces = len(trace_list)
+    x_proc = numpy.zeros(number_traces)
+    y_para = numpy.zeros(number_traces)
+    y_load = numpy.zeros(number_traces)
+    y_comm = numpy.zeros(number_traces)
+    y_comp = numpy.zeros(number_traces)
+    y_glob = numpy.zeros(number_traces)
+    y_ipc_scale = numpy.zeros(number_traces)
+    y_inst_scale = numpy.zeros(number_traces)
+    y_freq_scale = numpy.zeros(number_traces)
+    y_hybrid_par = numpy.zeros(number_traces)
+    y_mpi_par = numpy.zeros(number_traces)
+    y_mpi_load = numpy.zeros(number_traces)
+    y_mpi_comm = numpy.zeros(number_traces)
+    y_comm_serial = numpy.zeros(number_traces)
+    y_comm_transfer = numpy.zeros(number_traces)
+    y_omp_par = numpy.zeros(number_traces)
+    y_omp_load = numpy.zeros(number_traces)
+    y_omp_comm = numpy.zeros(number_traces)
+
+    #Convert dictionaries to NumPy arrays
+    for index, trace in enumerate(trace_list):
+        x_proc[index] = trace_processes[trace]
+        y_para[index] = mod_factors['parallel_eff'][trace]
+        y_load[index] = mod_factors['load_balance'][trace]
+        y_comm[index] = mod_factors['comm_eff'][trace]
+        y_comp[index] = mod_factors['comp_scale'][trace]
+        y_glob[index] = mod_factors['global_eff'][trace]
+        y_ipc_scale[index] = mod_factors['ipc_scale'][trace]
+        y_inst_scale[index] = mod_factors['inst_scale'][trace]
+        y_freq_scale[index] = mod_factors['freq_scale'][trace]
+        y_hybrid_par[index] = hybrid_factors['hybrid_eff'][trace]
+        y_mpi_par[index] = hybrid_factors['mpi_parallel_eff'][trace]
+        y_mpi_load[index] = hybrid_factors['mpi_load_balance'][trace]
+        y_mpi_comm[index] = hybrid_factors['mpi_comm_eff'][trace]
+        if trace_mode[trace] == 'Detailed+MPI' \
+                or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            if hybrid_factors['serial_eff'][trace] != 'Non-Avail' and hybrid_factors['serial_eff'][trace] != 'Warning!':
+                y_comm_serial[index] = hybrid_factors['serial_eff'][trace]
+            else:
+                y_comm_serial[index] = 0.0
+            if hybrid_factors['transfer_eff'][trace] != 'Non-Avail' \
+                    and hybrid_factors['transfer_eff'][trace] != 'Warning!':
+                y_comm_transfer[index] = hybrid_factors['transfer_eff'][trace]
+            else:
+                y_comm_transfer[index] = 0.0
+        else:
+            y_comm_serial[index] = 0.0
+            y_comm_transfer[index] = 0.0
+        y_omp_par[index] = hybrid_factors['omp_parallel_eff'][trace]
+        y_omp_load[index] = hybrid_factors['omp_load_balance'][trace]
+        y_omp_comm[index] = hybrid_factors['omp_comm_eff'][trace]
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list)-1]])
+
+    limit_min = str(int(x_proc[0]))
+    # limit_min = str(0)
+    # To extract the trace name to show in the plots
+    title_string = ""
+    for index, trace in enumerate(trace_list):
+        folder_trace_name = trace.split('/')
+        trace_name_to_show = folder_trace_name[len(folder_trace_name) - 1]
+        title_string += '(' + str(index+1) + ') ' + trace_name_to_show + "\\" + 'n'
+
+    title_string += '"' + " noenhanced"
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Create Gnuplot file for main plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-onlydata.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    # Replace xrange
+    if int(limit) == int(limit_min):
+        limit_plot = int(limit_min) + 5 * (len(trace_list) - 1)
+    else:
+        limit_plot = int(limit)
+
+    # To xticks label
+    label_xtics = 'set xtics ('
+    glabel_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
+        if int(limit) == int(limit_min) and same_procs:
+            proc_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')' \
+                         + '[' + str(index + 1) + ']'
+            real_procs = str(trace_processes[trace] + index * 5)
+        elif int(limit) == int(limit_min) and not same_procs:
+            proc_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
+            real_procs = str(trace_processes[trace] + index * 5)
+            if s_xtics in glabel_xtics:
+                proc_xtics += '[' + str(index + 1) + ']'
+            glabel_xtics.append(s_xtics)
+        else:
+            proc_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
+            real_procs = str(trace_processes[trace])
+            if s_xtics in glabel_xtics:
+                proc_xtics += '[' + str(index + 1) + ']'
+            glabel_xtics.append(s_xtics)
+
+        label_xtics += '"' + proc_xtics + '" ' + real_procs + ', '
+
+    content = [line.replace('#REPLACE_BY_XRANGE', ''
+                            .join(['set xrange [', str(limit_min), ':', str(limit_plot), ']'])) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2] + ') '])) for
+               line in content]
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+
+    max_global = max([max(y_para), max(y_load), max(y_comm), max(y_comp), max(y_glob)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_global+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    # Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index] + index * 5), str(y_para[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_para[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index] + index * 5), str(y_load[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_load[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index] + index * 5), str(y_comm[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comm[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index] + index * 5), str(y_comp[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index] + index * 5), str(y_glob[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_glob[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    # print('========= Plot (gnuplot File): EFFICIENCY METRICS ==========')
+    print('Efficiency metrics plot written to ' + file_path)
+    # print('')
+
+    # Create Gnuplot file for scalability plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-scale.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    # Replace xrange
+    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
+               line in content]
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+
+    max_comp = max([max(y_comp), max(y_ipc_scale), max(y_inst_scale), max(y_freq_scale)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_comp+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors-scale.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    # Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_comp[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_ipc_scale[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_ipc_scale[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_inst_scale[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_inst_scale[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_freq_scale[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_freq_scale[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    # print('========  Plot (gnuplot File): SCALABILITY METRICS ========')
+    print('Scalability metrics plot written to ' + file_path)
+
+    # Create Gnuplot file for hybrid metrics plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-hybrid.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    # Replace xrange
+    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
+               line in content]
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+
+    string_omp ="      '-' with linespoints title "  + '"' + (mod_hybrid_factors_doc['omp_parallel_eff'])[5:] + '"' + " ls 5,\\"
+    content = [line.replace('#REPLACE_BY_OMP_PAR_EFF', ''.join([string_omp])) for line in content]
+
+    string_omp = "      '-' with linespoints title " + '"' + (mod_hybrid_factors_doc['omp_load_balance'])[9:] + '"' + " ls 6,\\"
+    content = [line.replace('#REPLACE_BY_OMP_LB', ''.join([string_omp])) for line in content]
+    
+    string_omp = "      '-' with linespoints title " + '"' + (mod_hybrid_factors_doc['omp_comm_eff'])[9:] + '"' + " ls 7"
+    content = [line.replace('#REPLACE_BY_OMP_COMM', ''.join([string_omp])) for line in content]
+
+    max_hybrid = max([max(y_hybrid_par), max(y_mpi_par), max(y_mpi_comm), max(y_mpi_load),
+                      max(y_omp_par), max(y_omp_comm), max(y_omp_load)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_hybrid+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors-hybrid.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    # Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_hybrid_par[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_hybrid_par[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_par[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_mpi_par[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_load[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_mpi_load[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_comm[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_mpi_comm[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_omp_par[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_omp_par[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_omp_load[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_omp_load[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_omp_comm[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_omp_comm[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    print('Hybrid metrics plot written to ' + file_path)
+
+    # Create Gnuplot file for MPI hybrid metrics plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-mpi-hybrid.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    # Replace xrange
+    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
+               line in content]
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+
+    max_mpi = max([max(y_mpi_par), max(y_mpi_comm), max(y_mpi_load),
+                      max(y_comm_serial), max(y_comm_transfer)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_mpi+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors-mpi-hybrid.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    # Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_par[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_mpi_par[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_load[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_mpi_load[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_mpi_comm[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_mpi_comm[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+        
+        for index in range(0, number_traces):
+            if str(y_comm_serial[index]) != 0.0:
+                if int(limit) == int(limit_min):
+                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_serial[index]), '\n'])
+                else:
+                    line = ' '.join([str(x_proc[index]), str(y_comm_serial[index]), '\n'])
+                f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if str(y_comm_transfer[index]) != 0.0:
+                if int(limit) == int(limit_min):
+                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_transfer[index]), '\n'])
+                else:
+                    line = ' '.join([str(x_proc[index]), str(y_comm_transfer[index]), '\n'])
+                f.write(line)
+        f.write('e\n')
+
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    print('MPI hybrid metrics plot written to ' + file_path)
+
+
+def plot_simple_metrics(mod_factors, trace_list, trace_processes, trace_mode, cmdl_args):
+    """Computes the projection from the gathered model factors and returns the
+    according dictionary of fitted prediction functions."""
+
+    if cmdl_args.debug:
+        print('==DEBUG== Computing projection of model factors.')
+
+    number_traces = len(trace_list)
+    x_proc = numpy.zeros(number_traces)
+    y_para = numpy.zeros(number_traces)
+    y_load = numpy.zeros(number_traces)
+    y_comm = numpy.zeros(number_traces)
+    y_comp = numpy.zeros(number_traces)
+    y_glob = numpy.zeros(number_traces)
+    y_comm_serial = numpy.zeros(number_traces)
+    y_comm_transfer = numpy.zeros(number_traces)
+    y_ipc_scale = numpy.zeros(number_traces)
+    y_inst_scale = numpy.zeros(number_traces)
+    y_freq_scale = numpy.zeros(number_traces)
+
+    #Convert dictionaries to NumPy arrays
+    for index, trace in enumerate(trace_list):
+        x_proc[index] = trace_processes[trace]
+        y_para[index] = mod_factors['parallel_eff'][trace]
+        y_load[index] = mod_factors['load_balance'][trace]
+        y_comm[index] = mod_factors['comm_eff'][trace]
+        y_comp[index] = mod_factors['comp_scale'][trace]
+        y_glob[index] = mod_factors['global_eff'][trace]
+        if trace_mode[trace][:5] != 'Burst':
+            y_ipc_scale[index] = mod_factors['ipc_scale'][trace]
+            y_inst_scale[index] = mod_factors['inst_scale'][trace]
+            y_freq_scale[index] = mod_factors['freq_scale'][trace]
+        else:
+            y_ipc_scale[index] = 0.0
+            y_inst_scale[index] = 0.0
+            y_freq_scale[index] = 0.0
+        if trace_mode[trace] == 'Detailed+MPI':
+            if mod_factors['serial_eff'][trace] != 'Warning!':
+                y_comm_serial[index] = mod_factors['serial_eff'][trace]
+            else:
+                y_comm_serial[index] = 0.0
+            if mod_factors['transfer_eff'][trace] != 'Warning!':
+                y_comm_transfer[index] = mod_factors['transfer_eff'][trace]
+            else:
+                y_comm_transfer[index] = 0.0
+        else:
+            y_comm_serial[index] = 0.0
+            y_comm_transfer[index] = 0.0
+
+    #Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list) - 1]])
+
+    limit_min = str(int(x_proc[0]))
+    # limit_min = str(0)
+    # To extract the trace name to show in the plots
+    title_string = ""
+    for index, trace in enumerate(trace_list):
+        folder_trace_name = trace.split('/')
+        trace_name_to_show = folder_trace_name[len(folder_trace_name) - 1]
+        title_string += '(' + str(index+1) + ') ' + trace_name_to_show + "\\" + 'n'
+    title_string += '"' + " noenhanced"
+
+    #Create Gnuplot file for main plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-onlydata.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    #Replace xrange
+    if int(limit) == int(limit_min):
+        limit_plot = int(limit_min) + 5 * (len(trace_list) - 1 )
+    else:
+        limit_plot = int(limit)
+
+    # To xticks label
+    label_xtics = 'set xtics ('
+    for index, trace in enumerate(trace_list):
+
+        if int(limit) == int(limit_min):
+            label_xtics += '"' + str(trace_processes[trace]) + '[' + str(index + 1) + ']' + '" ' \
+                           + str(trace_processes[trace] + index * 5) + ', '
+        else:
+            label_xtics += '"' + str(trace_processes[trace]) + '" ' + str(trace_processes[trace]) + ', '
+
+    content = [line.replace('#REPLACE_BY_XRANGE', ''
+                            .join(['set xrange [',limit_min,':', str(limit_plot),']'])) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2] + ') '])) for
+               line in content]
+
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+
+    max_global = max([max(y_para), max(y_load), max(y_comm), max(y_comp), max(y_glob)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_global+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    #Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_para[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_para[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_load[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_load[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_comm[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comm[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_comp[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_glob[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_glob[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    # print('========= Plot (gnuplot File): EFFICIENCY METRICS ==========')
+    print('Efficiency metrics plot written to ' + file_path)
+    # print('')
+
+    # Create Gnuplot file for communication plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-comm.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    # Replace xrange
+    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
+               line in content]
+
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+
+    max_comm = max([max(y_comm), max(y_comm_serial), max(y_comm_transfer)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_comm+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors-comm.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    # Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_comm[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comm[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if str(y_comm_serial[index]) != 0.0:
+                if int(limit) == int(limit_min):
+                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_serial[index]), '\n'])
+                else:
+                    line = ' '.join([str(x_proc[index]), str(y_comm_serial[index]), '\n'])
+                f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if str(y_comm_transfer[index]) != 0.0:
+                if int(limit) == int(limit_min):
+                    line = ' '.join([str(x_proc[index]+index*5), str(y_comm_transfer[index]), '\n'])
+                else:
+                    line = ' '.join([str(x_proc[index]), str(y_comm_transfer[index]), '\n'])
+                f.write(line)
+        f.write('e\n')
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    # print('======= Plot (gnuplot File): COMMUNICATION METRICS ========')
+    print('Communication Efficiency plot written to ' + file_path)
+    # print('')
+
+    # Create Gnuplot file for scalability plot
+    gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'modelfactors-scale.gp')
+    content = []
+    with open(gp_template) as f:
+        content = f.readlines()
+
+    # Replace xrange
+    content = [line.replace('#REPLACE_BY_XRANGE', ''.join(['set xrange [',limit_min,':',str(limit_plot),']']) ) for line in content]
+    content = [line.replace('#REPLACE_BY_XTICS_LABEL', ''.join([label_xtics[:-2]+') '])) for
+               line in content]
+    content = [line.replace('#REPLACE_BY_TRACE_NAMES', ''.join(["set title " + '"' + ''])) for line in
+               content]
+    max_comp = max([max(y_comp), max(y_ipc_scale), max(y_inst_scale), max(y_freq_scale)])
+    content = [line.replace('#REPLACE_BY_YRANGE', ''
+                            .join(['set yrange [0:', str(max_comp+5), ']'])) for line in content]
+
+    file_path = os.path.join(os.getcwd(), 'modelfactors-scale.gp')
+    with open(file_path, 'w') as f:
+        f.writelines(content)
+
+    # Add data points to gnuplot file
+    with open(file_path, 'a') as f:
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_comp[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_comp[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_ipc_scale[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_ipc_scale[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_inst_scale[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_inst_scale[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        for index in range(0, number_traces):
+            if int(limit) == int(limit_min):
+                line = ' '.join([str(x_proc[index]+index*5), str(y_freq_scale[index]), '\n'])
+            else:
+                line = ' '.join([str(x_proc[index]), str(y_freq_scale[index]), '\n'])
+            f.write(line)
+        f.write('e\n')
+
+        f.write('\n')
+        f.write('pause -1\n')
+
+    # print('========  Plot (gnuplot File): SCALABILITY METRICS ========')
+    print('Scalability metrics plot written to ' + file_path)
\ No newline at end of file
diff --git a/rawdata.py b/rawdata.py
new file mode 100644
index 0000000..edbdf4d
--- /dev/null
+++ b/rawdata.py
@@ -0,0 +1,857 @@
+#!/usr/bin/env python3
+
+"""Functions to extract rawdata from each trace."""
+
+from __future__ import print_function, division
+import os
+import time
+import math
+import gzip
+import shutil
+from collections import OrderedDict
+from tracemetadata import human_readable
+from utils import run_command, move_files,remove_files, create_temp_folder
+
+
+# Contains all raw data entries with a printable name.
+# This is used to generate and print all raw data, so, if an entry is added, it
+# should be added here, too.
+raw_data_doc = OrderedDict([('runtime', 'Runtime (us)'),
+                            ('runtime_dim', 'Runtime (ideal)'),
+                            ('useful_avg', 'Useful duration (average)'),
+                            ('useful_max', 'Useful duration (maximum)'),
+                            ('useful_tot', 'Useful duration (total)'),
+                            ('useful_dim', 'Useful duration (ideal, max)'),
+                            ('useful_ins', 'Useful instructions (total)'),
+                            ('useful_cyc', 'Useful cycles (total)'),
+                            ('outsidempi_avg', 'Outside MPI duration (average)'),
+                            ('outsidempi_max', 'Outside MPI duration (maximum)'),
+                            ('outsidempi_dim', 'Outside MPI duration (ideal,maximum)'),
+                            ('outsidempi_tot', 'Outside MPI duration (total)'),
+                            ('mpicomm_tot', 'Communication MPI duration (total)'),
+                            ('outsidempi_tot_diff', 'Outside MPI duration rescaled (total*threads)'),
+                            ('flushing_avg', 'Flushing duration (average)'),
+                            ('flushing_max', 'Flushing duration (maximum)'),
+                            ('flushing_tot', 'Flushing duration (total)'),
+                            ('flushing_cyc', 'Flushing cycles (total)'),
+                            ('flushing_ins', 'Flushing instructions (total)'),
+                            ('io_tot', 'Posix I/O duration (total)'),
+                            ('io_max', 'Posix I/O duration (maximum)'),
+                            ('io_avg', 'Posix I/O duration (avg)'),
+                            ('io_std', 'Posix I/O duration (std)'),
+                            ('io_cyc', 'Posix I/O cycles (total)'),
+                            ('io_ins', 'Posix I/O instructions (total)'),
+                            ('useful_plus_io_avg', 'Serial I/O plus useful duration (avg)'),
+                            ('useful_plus_io_max', 'Serial I/O plus useful duration (max)'),
+                            ('io_state_tot', 'state I/O duration (total)'),
+                            ('io_state_avg', 'state I/O duration (avg)'),
+                            ('io_state_max', 'state I/O duration (maximum)'),
+                            ('mpiio_tot', 'MPI I/O duration (total)'),
+                            ('mpiio_max', 'MPI I/O duration (maximum)'),
+                            ('mpiio_avg', 'MPI I/O duration (avg)'),
+                            ('mpiio_std', 'MPI I/O duration (std)'),
+                            ('mpiio_cyc', 'MPI I/O cycles (total)'),
+                            ('mpiio_ins', 'MPI I/O instructions (total)'),
+                            ('burst_useful_tot', 'Burst Useful (total)'),
+                            ('burst_useful_max', 'Burst Useful (max)'),
+                            ('burst_useful_avg', 'Burst Useful (avg)')])
+
+
+def create_raw_data(trace_list):
+    """Creates 2D dictionary of the raw input data and initializes with zero.
+    The raw_data dictionary has the format: [raw data key][trace].
+    """
+    global raw_data_doc
+    raw_data = {}
+    for key in raw_data_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+
+        raw_data[key] = trace_dict
+
+    return raw_data
+
+
+def gather_raw_data(trace_list, trace_processes, trace_task_per_node, trace_mode, cmdl_args):
+    """Gathers all raw data needed to generate the model factors. Return raw
+    data in a 2D dictionary <data type><list of values for each trace>"""
+    raw_data = create_raw_data(trace_list)
+    global list_mpi_procs_count
+    list_mpi_procs_count = dict()
+
+    cfgs = {}
+    cfgs['root_dir'] = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs')
+    cfgs['timings'] = os.path.join(cfgs['root_dir'], 'timings.cfg')
+    cfgs['runtime'] = os.path.join(cfgs['root_dir'], 'runtime_app.cfg')
+    cfgs['cycles'] = os.path.join(cfgs['root_dir'], 'cycles.cfg')
+    cfgs['instructions'] = os.path.join(cfgs['root_dir'], 'instructions.cfg')
+    cfgs['flushing'] = os.path.join(cfgs['root_dir'], 'flushing.cfg')
+    cfgs['mpi_io'] = os.path.join(cfgs['root_dir'], 'mpi-io-reverse.cfg')
+    cfgs['outside_mpi'] = os.path.join(cfgs['root_dir'], 'mpi-call-outside.cfg')
+    cfgs['io_call'] = os.path.join(cfgs['root_dir'], 'io-call-reverse.cfg')
+    cfgs['io_cycles'] = os.path.join(cfgs['root_dir'], 'io-call-cycles.cfg')
+    cfgs['io_inst'] = os.path.join(cfgs['root_dir'], 'io-call-instructions.cfg')
+    cfgs['mpiio_cycles'] = os.path.join(cfgs['root_dir'], 'mpi-io-cycles.cfg')
+    cfgs['mpiio_inst'] = os.path.join(cfgs['root_dir'], 'mpi-io-instructions.cfg')
+    cfgs['flushing_cycles'] = os.path.join(cfgs['root_dir'], 'flushing-cycles.cfg')
+    cfgs['flushing_inst'] = os.path.join(cfgs['root_dir'], 'flushing-inst.cfg')
+    cfgs['burst_useful'] = os.path.join(cfgs['root_dir'], 'burst_useful.cfg')
+
+    # Main loop over all traces
+    # This can be parallelized: the loop iterations have no dependencies
+    path_dest = create_temp_folder('scratch_out_basicanalysis', cmdl_args)
+
+    for trace in trace_list:
+        time_tot = time.time()
+        if trace[-7:] == ".prv.gz":
+            trace_name_control = trace[:-7]
+            trace_name = trace[:-7] + '_' + str(trace_processes[trace]) + 'P'
+        elif trace[-4:] == ".prv":
+            trace_name_control = trace[:-4]
+            trace_name = trace[:-4] + '_' + str(trace_processes[trace]) + 'P'
+
+        line = 'Analyzing ' + os.path.basename(trace)
+        line += ' (' + str(trace_processes[trace]) + ' processes'
+        line += ', ' + str(trace_task_per_node[trace]) + ' tasks per node'
+        line += ', ' + str(trace_mode[trace]) + ' mode'
+        line += ', ' + human_readable(os.path.getsize(trace)) + ')'
+        print(line)
+
+        # Create simulated ideal trace with Dimemas
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            time_dim = time.time()
+            trace_sim = create_ideal_trace(trace, trace_processes[trace], trace_task_per_node[trace], cmdl_args)
+            trace_name_sim = trace_sim[:-4]
+            # print(trace_sim)
+            time_dim = time.time() - time_dim
+            if not trace_sim == '':
+                print('Successfully created simulated trace with Dimemas in {0:.1f} seconds.'.format(time_dim))
+            else:
+                print('Failed to create simulated trace with Dimemas.')
+
+        # Run paramedir for the original and simulated trace
+        time_pmd = time.time()
+        cmd_normal = ['paramedir', trace]
+
+        cmd_normal.extend([cfgs['timings'], trace_name + '.timings.stats'])
+        cmd_normal.extend([cfgs['runtime'], trace_name + '.runtime.stats'])
+        cmd_normal.extend([cfgs['cycles'], trace_name + '.cycles.stats'])
+        cmd_normal.extend([cfgs['instructions'], trace_name + '.instructions.stats'])
+        cmd_normal.extend([cfgs['flushing'], trace_name + '.flushing.stats'])
+        cmd_normal.extend([cfgs['io_call'], trace_name + '.posixio_call.stats'])
+        cmd_normal.extend([cfgs['io_cycles'], trace_name + '.posixio-cycles.stats'])
+        cmd_normal.extend([cfgs['io_inst'], trace_name + '.posixio-inst.stats'])
+        cmd_normal.extend([cfgs['flushing_cycles'], trace_name + '.flushing-cycles.stats'])
+        cmd_normal.extend([cfgs['flushing_inst'], trace_name + '.flushing-inst.stats'])
+
+        if trace_mode[trace][:12] == 'Detailed+MPI':
+            cmd_normal.extend([cfgs['mpi_io'], trace_name + '.mpi_io.stats'])
+            cmd_normal.extend([cfgs['outside_mpi'], trace_name + '.outside_mpi.stats'])
+            cmd_normal.extend([cfgs['mpiio_cycles'], trace_name + '.mpiio-cycles.stats'])
+            cmd_normal.extend([cfgs['mpiio_inst'], trace_name + '.mpiio-inst.stats'])
+
+        if trace_mode[trace][:9] == 'Burst+MPI':
+            cmd_normal.extend([cfgs['burst_useful'], trace_name + '.burst_useful.stats'])
+
+        run_command(cmd_normal, cmdl_args)
+
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            cmd_ideal = ['paramedir', trace_sim]
+            cmd_ideal.extend([cfgs['timings'], trace_name_sim + '.timings.stats'])
+            cmd_ideal.extend([cfgs['runtime'], trace_name_sim + '.runtime.stats'])
+            cmd_ideal.extend([cfgs['outside_mpi'], trace_name_sim + '.outside_mpi.stats'])
+
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            if not trace_sim == '':
+                # print(cmd_ideal)
+                run_command(cmd_ideal, cmdl_args)
+
+        time_pmd = time.time() - time_pmd
+
+        error_timing = 0
+        error_counters = 0
+        error_ideal = 0
+
+        # Check if all files are created
+        if not os.path.exists(trace_name + '.timings.stats') or \
+                not os.path.exists(trace_name + '.runtime.stats'):
+            print('==ERROR== Failed to compute timing information with paramedir.')
+            error_timing = 1
+
+        if not os.path.exists(trace_name + '.outside_mpi.stats') and trace_mode[trace][:5] != 'Burst' \
+                and 'MPI' in trace_mode[trace]:
+            print('==ERROR== Failed to compute outside MPI timing information with paramedir.')
+            error_timing = 1
+
+        if not os.path.exists(trace_name + '.cycles.stats') or \
+                not os.path.exists(trace_name + '.instructions.stats'):
+            print('==ERROR== Failed to compute counter information with paramedir.')
+            error_counters = 1
+
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            if not os.path.exists(trace_name_sim + '.timings.stats') or \
+                   not os.path.exists(trace_name_sim + '.runtime.stats') or \
+                   not os.path.exists(trace_name_sim + '.outside_mpi.stats'):
+                print('==ERROR== Failed to compute simulated timing information with paramedir.')
+                error_ideal = 1
+                trace_sim = ''
+
+        if error_timing or error_counters or error_ideal:
+            print('Failed to analyze trace with paramedir')
+        else:
+            print('Successfully analyzed trace with paramedir in {0:.1f} seconds.'.format(time_pmd))
+
+        # Parse the paramedir output files
+        time_prs = time.time()
+
+        # Get total, average, and maximum useful duration
+        if os.path.exists(trace_name + '.timings.stats'):
+            content = []
+            with open(trace_name + '.timings.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['useful_tot'][trace] = float(line.split()[1])
+                    if line.split()[0] == 'Average':
+                        raw_data['useful_avg'][trace] = float(line.split()[1])
+                    if line.split()[0] == 'Maximum':
+                        raw_data['useful_max'][trace] = float(line.split()[1])
+        else:
+            raw_data['useful_tot'][trace] = 'NaN'
+            raw_data['useful_avg'][trace] = 'NaN'
+            raw_data['useful_max'][trace] = 'NaN'
+        f.close()
+
+        # Get total File IO, average IO, and maximum IO duration
+        dict_trace_posixio = {}
+        if os.path.exists(trace_name + '.posixio_call.stats'):
+            content = []
+            with open(trace_name + '.posixio_call.stats') as f:
+                content = f.readlines()
+
+                for line in content:
+                    
+                    for field in line.split("\n"):
+                        line_list = field.split("\t")
+                        if "Total" in field.split("\t"):
+                            count_procs = len(line_list[1:])
+                            list_io_tot = [float(iotime) for iotime in line_list[1:count_procs]]
+                            dict_trace_posixio[trace] = list_io_tot
+                            raw_data['io_tot'][trace] = sum(list_io_tot)
+                        elif "Average" in field.split("\t"):
+                            if count_procs != 0:
+                                raw_data['io_avg'][trace] = float(sum(list_io_tot)/count_procs)
+                                raw_data['io_std'][trace] = math.sqrt(sum([(number - raw_data['io_avg'][trace]) ** 2
+                                                                           for number in list_io_tot])
+                                                                      / (len(list_io_tot) - 1))
+                            else:
+                                raw_data['io_avg'][trace] = 0.0
+                                raw_data['io_std'][trace] = 0.0
+                        elif "Maximum" in field.split("\t"):
+                            raw_data['io_max'][trace] = max(list_io_tot)
+        else:
+            raw_data['io_tot'][trace] = 0.0
+            raw_data['io_avg'][trace] = 0.0
+            raw_data['io_max'][trace] = 0.0
+            raw_data['io_std'][trace] = 0.0
+        f.close()
+
+        # Get total MPI IO, average IO, and maximum IO duration for MPI-IO
+        dict_trace_mpiio={}
+        if os.path.exists(trace_name + '.mpi_io.stats') and trace_mode[trace][:12] == 'Detailed+MPI':
+            content = []
+            with open(trace_name + '.mpi_io.stats') as f:
+                content = f.readlines()
+
+                for line in content:
+                    for field in line.split("\n"):
+                        line_list = field.split("\t")
+                        if "Total" in field.split("\t"):
+                            count_procs = len(line_list[1:])
+                            list_mpiio_tot = [float(iotime) for iotime in line_list[1:count_procs]]
+                            dict_trace_mpiio[trace] = list_mpiio_tot
+                            # print(list_mpiio_tot)
+                            raw_data['mpiio_tot'][trace] = sum(list_mpiio_tot)
+                        elif "Average" in field.split("\t"):
+                            if count_procs != 0:
+                                raw_data['mpiio_avg'][trace] = sum(list_mpiio_tot)/count_procs
+                                raw_data['mpiio_std'][trace] = math.sqrt(sum([(number - raw_data['mpiio_avg'][trace]) ** 2
+                                                                          for number in list_mpiio_tot])
+                                                                     /(len(list_mpiio_tot) - 1))
+                            else:
+                                raw_data['mpiio_avg'][trace] = 0.0
+                                raw_data['mpiio_std'][trace] = 0.0
+                        elif "Maximum" in field.split("\t"):
+                            raw_data['mpiio_max'][trace] = max(list_mpiio_tot)
+        else:
+            raw_data['mpiio_tot'][trace] = 0.0
+            raw_data['mpiio_avg'][trace] = 0.0
+            raw_data['mpiio_max'][trace] = 0.0
+            raw_data['mpiio_std'][trace] = 0.0
+        f.close()
+
+        # Get total State IO, average IO, and maximum IO duration
+        #print(dict_trace_mpiio)
+        if os.path.exists(trace_name + '.timings.stats'):
+            content = []
+            # io_index = " "
+            with open(trace_name + '.timings.stats') as f:
+                content = f.readlines()
+                useful_plus_io = []
+                useful_comp = []
+                io_time = []
+                count_line = 1
+                for line in content:
+                    for field in line.split("\n"):
+                        line_list = field.split("\t")
+                        # print(line_list)
+                        if count_line == 1:
+                            try:
+                                if os.path.exists(trace_name_control + '.pcf'):
+                                    io_index = line_list.index("I/O")
+                                else:
+                                    io_index = line_list.index('Unknown state 12')
+                            except:
+                                io_index = " "
+                        elif io_index != " ":
+                            if "Total" in field.split("\t"):
+                                raw_data['io_state_tot'][trace] = float(line_list[io_index])
+                            elif "Average" in field.split("\t"):
+                                raw_data['io_state_avg'][trace] = float(line_list[io_index])
+                            elif "Maximum" in field.split("\t"):
+                                raw_data['io_state_max'][trace] = float(line_list[io_index])
+                            elif "Minimum" not in line_list and "StDev" not in line_list \
+                                    and "Avg/Max" not in line_list and len(line_list) > 1:
+                                posixio_index = len(useful_plus_io)
+                                # print(dict_trace_posixio[trace][posixio_index])
+                                if len(dict_trace_posixio) != 0:
+                                    sum_aux = float(line_list[1]) + float(dict_trace_posixio[trace][posixio_index])
+                                else:
+                                    sum_aux = float(line_list[1])
+
+                                useful_plus_io.append(float(sum_aux))
+                                useful_comp.append(float(line_list[1]))
+                                io_time.append(float(line_list[io_index]))
+                        count_line += 1
+                if io_index != " ":
+                    if len(useful_plus_io) != 0:
+                        useful_io_avg = float(sum(useful_plus_io) / len(useful_plus_io))
+                    else:
+                        useful_io_avg = 0.0
+                    # print(len(useful_plus_io))
+                    # mpiio is not included in useful + IO
+                    raw_data['useful_plus_io_avg'][trace] = float(useful_io_avg)
+                    raw_data['useful_plus_io_max'][trace] = float(max(useful_plus_io))
+                else:
+                    raw_data['useful_plus_io_avg'][trace] = 0.0
+                    raw_data['useful_plus_io_max'][trace] = 0.0
+                    raw_data['io_state_tot'][trace] = 0.0
+                    raw_data['io_state_avg'][trace] = 0.0
+                    raw_data['io_state_max'][trace] = 0.0
+        else:
+            raw_data['useful_plus_io_avg'][trace] = 'NaN'
+            raw_data['useful_plus_io_max'][trace] = 'NaN'
+            raw_data['io_state_tot'][trace] = 'NaN'
+            raw_data['io_state_avg'][trace] = 'NaN'
+            raw_data['io_state_max'][trace] = 'NaN'
+        f.close()
+
+
+        # Get runtime
+        if os.path.exists(trace_name + '.runtime.stats'):
+            content = []
+            with open(trace_name + '.runtime.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Average':
+                        raw_data['runtime'][trace] = float(line.split()[1])
+        else:
+            raw_data['runtime'][trace] = 'NaN'
+
+        # Get total, average, and maximum outside MPI
+        # list_mpi_procs_count = []
+        if os.path.exists(trace_name + '.outside_mpi.stats') and trace_mode[trace][:12] == 'Detailed+MPI':
+            content = []
+            with open(trace_name + '.outside_mpi.stats') as f:
+                content = f.readlines()
+                list_outside_mpi = []
+
+                list_thread_outside_mpi = []
+                init_count_thread = False
+                count_threads = 1
+                for line1 in content[1:(len(content) - 8)]:
+                    line = line1.split("\t")
+                    # print(line)
+                    if line:
+                        if line[0] != 'Total' and line[0] != 'Average' \
+                                and line[0] != 'Maximum' and line[0] != 'StDev' \
+                                and line[0] != 'Avg/Max':
+                            # To extract the count of MPI tasks
+                            if float(line[1]) != raw_data['runtime'][trace]:
+                                list_outside_mpi.append(float(line[1]))
+                                # To extract the count of threads per MPI task
+                                if len(list_outside_mpi) > 1:
+                                    list_thread_outside_mpi.append(count_threads)
+                                    count_threads = 1
+                            else:
+                                if len(list_outside_mpi) == 1 and not init_count_thread:
+                                    count_threads = 2
+                                    init_count_thread = True
+                                else:
+                                    count_threads += 1
+
+                list_thread_outside_mpi.append(count_threads)
+
+                count = 0
+                equal_threads = True
+                # Evaluate if the count of threads per MPI task are equal
+                while count < (len(list_thread_outside_mpi) - 1) and equal_threads:
+                    if list_thread_outside_mpi[count] != list_thread_outside_mpi[count+1]:
+                        equal_threads = False
+                    count += 1
+                rescaled_outside_mpi = []
+                # This is need to calculate the MPI_Par_Eff with the right #MPI_tasks and #threads
+                if not equal_threads:
+                    # print("\n===== Different number of threads per mpi task \n")
+                    rescaled_outside_mpi.append(list_outside_mpi[0] * (list_thread_outside_mpi[0]))
+                    # This is the sum of the outsidempi by the threads
+                    sum_outside_mpi_threads = list_thread_outside_mpi[0]
+
+                    for i in range(1,len(list_outside_mpi)):
+                        rescaled_outside_mpi.append(list_outside_mpi[i] * (list_thread_outside_mpi[i]))
+                        sum_outside_mpi_threads += list_thread_outside_mpi[i]
+                    raw_data['outsidempi_tot_diff'][trace] = sum(rescaled_outside_mpi)
+                    raw_data['outsidempi_tot'][trace] = sum(list_outside_mpi)
+                    # Only the average is updated with the rescaled outsidempi
+                    if sum(list_thread_outside_mpi) != 0:
+                        raw_data['outsidempi_avg'][trace] = sum(rescaled_outside_mpi) / sum(list_thread_outside_mpi)
+                    else:
+                        raw_data['outsidempi_avg'][trace] = 'NaN'
+                    # Maximum outsidempi is the same, although the count of threads is different
+                    # because it waits that the MPI task has the max outsidempi.
+                    raw_data['outsidempi_max'][trace] = max(list_outside_mpi)
+                else:
+                    # print("\n===== Equal number of threads per mpi task \n")
+                    raw_data['outsidempi_tot_diff'][trace] = sum(list_outside_mpi)
+                    list_mpi_procs_count[trace] = len(list_outside_mpi)
+                    raw_data['outsidempi_tot'][trace] = sum(list_outside_mpi)
+                    if len(list_outside_mpi) != 0:
+                        raw_data['outsidempi_avg'][trace] = sum(list_outside_mpi) / len(list_outside_mpi)
+                    else:
+                        raw_data['outsidempi_avg'][trace] = 'NaN'
+                    raw_data['outsidempi_max'][trace] = max(list_outside_mpi)
+                for line2 in content[(len(content) - 7):]:
+                    line_aux = line2.split("\t")
+
+                    if line_aux[0] == 'Total':
+                        #print(line_aux)
+                        count_mpiop = len(line_aux[1:])
+                        list_mpi_tot = [float(mpitime) for mpitime in line_aux[2:count_mpiop]]
+                        #print(list_mpi_tot)
+                raw_data['mpicomm_tot'][trace] = sum(list_mpi_tot)
+        else:
+            raw_data['outsidempi_tot'][trace] = 'NaN'
+            raw_data['outsidempi_avg'][trace] = 'NaN'
+            raw_data['outsidempi_max'][trace] = 'NaN'
+            raw_data['mpicomm_tot'][trace] = 'NaN'
+        f.close()
+        # Get total, average, and maximum flushing duration
+        if os.path.exists(trace_name + '.flushing.stats'):
+            content = []
+            with open(trace_name + '.flushing.stats') as f:
+                content = f.readlines()
+                flushing_exist = ('\tBegin\t\n' in content) or ('\tvalue 1\t\n' in content)
+
+            if flushing_exist:
+                for line in content:
+                    if line.split():
+                        if line.split()[0] == 'Total':
+                            raw_data['flushing_tot'][trace] = float(line.split()[1])
+                        if line.split()[0] == 'Average':
+                            raw_data['flushing_avg'][trace] = float(line.split()[1])
+                        if line.split()[0] == 'Maximum':
+                            raw_data['flushing_max'][trace] = float(line.split()[1])
+            else:
+                raw_data['flushing_tot'][trace] = 0.0
+                raw_data['flushing_avg'][trace] = 0.0
+                raw_data['flushing_max'][trace] = 0.0
+        else:
+            raw_data['flushing_tot'][trace] = 0.0
+            raw_data['flushing_avg'][trace] = 0.0
+            raw_data['flushing_max'][trace] = 0.0
+
+        # Get total flushing cycles
+        if os.path.exists(trace_name + '.flushing-cycles.stats'):
+            content = []
+            with open(trace_name + '.flushing-cycles.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['flushing_cyc'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['flushing_cyc'][trace] = 0.0
+
+        # Get total flushing instructions
+        if os.path.exists(trace_name + '.flushing-inst.stats'):
+            content = []
+            with open(trace_name + '.flushing-inst.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['flushing_ins'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['flushing_ins'][trace] = 0.0
+
+        # Get total posixio cycles
+        if os.path.exists(trace_name + '.posixio-cycles.stats'):
+            content = []
+            with open(trace_name + '.posixio-cycles.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['io_cyc'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['io_cyc'][trace] = 0.0
+
+        # Get total posixio instructions
+        if os.path.exists(trace_name + '.posixio-inst.stats'):
+            content = []
+            with open(trace_name + '.posixio-inst.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['io_ins'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['io_ins'][trace] = 0.0
+
+        # Get total mpiio instructions
+        if os.path.exists(trace_name + '.mpiio-cycles.stats') \
+                and trace_mode[trace][:12] == 'Detailed+MPI':
+            content = []
+            with open(trace_name + '.mpiio-cycles.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['mpiio_cyc'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['mpiio_cyc'][trace] = 0.0
+
+        # Get total mpiio instructions
+        if os.path.exists(trace_name + '.mpiio-inst.stats') \
+                and trace_mode[trace][:12] == 'Detailed+MPI':
+            content = []
+            with open(trace_name + '.mpiio-inst.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['mpiio_ins'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['mpiio_ins'][trace] = 0.0
+
+        # Get useful cycles
+        if os.path.exists(trace_name + '.cycles.stats'):
+            content = []
+            with open(trace_name + '.cycles.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['useful_cyc'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['useful_cyc'][trace] = 'NaN'
+
+        # Get useful instructions
+        if os.path.exists(trace_name + '.instructions.stats'):
+            content = []
+            with open(trace_name + '.instructions.stats') as f:
+                content = f.readlines()
+
+            for line in content:
+                if line.split():
+                    if line.split()[0] == 'Total':
+                        raw_data['useful_ins'][trace] = int(float(line.split()[1]))
+        else:
+            raw_data['useful_ins'][trace] = 'NaN'
+
+        # Get Efficiencies for BurstMode
+        if trace_mode[trace] == 'Burst+MPI':
+            # Get total, maximum and avg from burst useful
+            if os.path.exists(trace_name + '.burst_useful.stats'):
+                content = []
+                list_burst_tot = []
+                with open(trace_name + '.burst_useful.stats') as f:
+                    content = f.readlines()
+                for line in content:
+                    for field in line.split("\n"):
+                        line_list = field.split("\t")
+                        if "Total" in field.split("\t"):
+                            count_procs = len(line_list[1:])
+                            list_burst_tot = [float(burst_time) for burst_time in line_list[1:count_procs]]
+
+                raw_data['burst_useful_tot'][trace] = sum(list_burst_tot)
+                raw_data['burst_useful_avg'][trace] = sum(list_burst_tot)/len(list_burst_tot)
+                raw_data['burst_useful_max'][trace] = max(list_burst_tot)
+
+            else:
+                raw_data['burst_useful_avg'][trace] = 'NaN'
+                raw_data['burst_useful_max'][trace] = 'NaN'
+                raw_data['burst_useful_tot'][trace] = 'NaN'
+        else:
+            raw_data['burst_useful_avg'][trace] = 0.0
+            raw_data['burst_useful_max'][trace] = 0.0
+            raw_data['burst_useful_tot'][trace] = 0.0
+
+        # Get timing for SIMULATED traces
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            # Get maximum useful duration for simulated trace
+            if os.path.exists(trace_name_sim + '.timings.stats'):
+                content = []
+                with open(trace_name_sim + '.timings.stats') as f:
+                    content = f.readlines()
+
+                for line in content:
+                    if line.split():
+                        if line.split()[0] == 'Maximum':
+                            raw_data['useful_dim'][trace] = float(line.split()[1])
+            else:
+                raw_data['useful_dim'][trace] = 'NaN'
+
+            # Get runtime for simulated trace
+            if os.path.exists(trace_name_sim + '.runtime.stats'):
+                content = []
+                with open(trace_name_sim + '.runtime.stats') as f:
+                    content = f.readlines()
+
+                for line in content:
+                    if line.split():
+                        if line.split()[0] == 'Average':
+                            raw_data['runtime_dim'][trace] = float(line.split()[1])
+            else:
+                raw_data['runtime_dim'][trace] = 'NaN'
+
+            # Get outsideMPI max for simulated trace
+            if os.path.exists(trace_name_sim + '.outside_mpi.stats'):
+                    with open(trace_name_sim + '.outside_mpi.stats') as f:
+                        content = f.readlines()
+                        list_outside_mpi = []
+                        list_thread_outside_mpi = []
+                        init_count_thread = False
+                        count_threads = 1
+                        for line1 in content[1:(len(content) - 8)]:
+                            line = line1.split("\t")
+                        # print(line)
+                            if line:
+                                if line[0] != 'Total' and line[0] != 'Average' \
+                                           and line[0] != 'Maximum' and line[0] != 'StDev' \
+                                           and line[0] != 'Avg/Max':
+                                    # To extract the count of MPI tasks
+                                    if float(line[1]) != raw_data['runtime_dim'][trace]:
+                                        list_outside_mpi.append(float(line[1]))
+                                        # To extract the count of threads per MPI task
+                                        if len(list_outside_mpi) > 1:
+                                           list_thread_outside_mpi.append(count_threads)
+                                        count_threads = 1
+                                    else:
+                                        if len(list_outside_mpi) == 1 and not init_count_thread:
+                                            count_threads = 2
+                                            init_count_thread = True
+                                        else:
+                                            count_threads += 1
+
+                                    if line[0] == "THREAD 1.1.1":
+                                        max_time_outside_mpi = float(line[1])
+
+                        list_thread_outside_mpi.append(count_threads)
+                        if len(list_outside_mpi) != 0:
+                            raw_data['outsidempi_dim'][trace] = max(list_outside_mpi)
+                        else:
+                            raw_data['outsidempi_dim'][trace] = max_time_outside_mpi
+            else:
+                raw_data['outsidempi_dim'][trace] = 0.0
+        else:
+            raw_data['useful_dim'][trace] = 'Non-Avail'
+            raw_data['runtime_dim'][trace] = 'Non-Avail'
+            raw_data['outsidempi_dim'][trace] = 'Non-Avail'
+
+        # Remove paramedir output files
+        move_files(trace_name + '.timings.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.runtime.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.cycles.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.instructions.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.flushing.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.posixio-cycles.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.posixio-inst.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.flushing-cycles.stats', path_dest, cmdl_args)
+        move_files(trace_name + '.flushing-inst.stats', path_dest, cmdl_args)
+
+        if trace_mode[trace][:12] == 'Detailed+MPI':
+            move_files(trace_name + '.mpi_io.stats', path_dest, cmdl_args)
+            move_files(trace_name + '.posixio_call.stats', path_dest, cmdl_args)
+            move_files(trace_name + '.outside_mpi.stats', path_dest, cmdl_args)
+            move_files(trace_name + '.mpiio-cycles.stats', path_dest, cmdl_args)
+            move_files(trace_name + '.mpiio-inst.stats', path_dest, cmdl_args)
+
+        if trace_mode[trace][:9] == 'Burst+MPI':
+            move_files(trace_name + '.2dh_BurstEff.stats', path_dest, cmdl_args)
+            move_files(trace_name + '.burst_useful.stats', path_dest, cmdl_args)
+
+        if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+            move_files(trace_name_sim + '.timings.stats', path_dest, cmdl_args)
+            move_files(trace_name_sim + '.runtime.stats', path_dest, cmdl_args)
+            move_files(trace_name_sim + '.outside_mpi.stats', path_dest, cmdl_args)
+            move_files(trace_sim, path_dest, cmdl_args)
+            move_files(trace_sim[:-4] + '.pcf', path_dest, cmdl_args)
+            move_files(trace_sim[:-4] + '.row', path_dest, cmdl_args)
+            # To move simulation trace and ideal cfg
+            move_files(trace_sim[:-8] + '.dim', path_dest, cmdl_args)
+            remove_files(trace_sim[:-8] + '.row', cmdl_args)
+            remove_files(trace_sim[:-8] + '.pcf', cmdl_args)
+            move_files(trace_sim[:-8] + '.dimemas_ideal.cfg', path_dest, cmdl_args)
+            if trace[-7:] == ".prv.gz":
+                remove_files(trace_name_control + '.prv', cmdl_args)
+                # move_files(trace_name + '.prv', path_dest, cmdl_args)
+
+        time_prs = time.time() - time_prs
+
+        time_tot = time.time() - time_tot
+        print('Finished successfully in {0:.1f} seconds.'.format(time_tot))
+        print('')
+
+    return raw_data, list_mpi_procs_count
+
+
+def create_ideal_trace(trace, processes, task_per_node, cmdl_args):
+    """Runs prv2dim and dimemas with ideal configuration for given trace."""
+    if trace[-4:] == ".prv":
+        trace_dim = trace[:-4] + '_' + str(processes) + 'P' + '.dim'
+        trace_sim = trace[:-4] + '_' + str(processes) + 'P' + '.sim.prv'
+        trace_name = trace[:-4]
+        cmd = ['prv2dim', trace, trace_dim]
+    elif trace[-7:] == ".prv.gz":
+        with gzip.open(trace, 'rb') as f_in:
+            with open(trace[:-7] + '.prv', 'wb') as f_out:
+                shutil.copyfileobj(f_in, f_out)
+        trace_dim = trace[:-7] + '_' + str(processes) + 'P' + '.dim'
+        trace_sim = trace[:-7] + '_' + str(processes) + 'P' + '.sim.prv'
+        trace_name = trace[:-7]
+        trace_unzip = trace[:-3]
+        cmd = ['prv2dim', trace_unzip, trace_dim]
+
+    run_command(cmd, cmdl_args)
+
+    if os.path.isfile(trace_dim):
+        if cmdl_args.debug:
+            print('==DEBUG== Created file ' + trace_dim)
+    else:
+        print('==Error== ' + trace_dim + 'could not be creaeted.')
+        return
+
+    # Create Dimemas configuration
+    cfg_dir = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs')
+
+    content = []
+    with open(os.path.join(cfg_dir, 'dimemas_ideal.cfg')) as f:
+        content = f.readlines()
+
+    content = [line.replace('REPLACE_BY_CPUS_PER_NODE', str(task_per_node)) for line in content]
+    content = [line.replace('REPLACE_BY_NTASKS', str(processes)) for line in content]
+    content = [line.replace('REPLACE_BY_COLLECTIVES_PATH', os.path.join(cfg_dir, 'dimemas.collectives')) for line in
+               content]
+
+    with open(trace_name + '_' + str(processes) + 'P' + '.dimemas_ideal.cfg', 'w') as f:
+        f.writelines(content)
+
+    cmd = ['Dimemas', '-S', '32k', '--dim', trace_dim, '-p', trace_sim, trace_name + '_' + str(processes)
+           + 'P' + '.dimemas_ideal.cfg']
+    run_command(cmd, cmdl_args)
+
+    if os.path.isfile(trace_sim):
+        if cmdl_args.debug:
+            print('==DEBUG== Created file ' + trace_sim)
+        return trace_sim
+    else:
+        print('==Error== ' + trace_sim + ' could not be created.')
+        return ''
+
+
+def print_raw_data_table(raw_data, trace_list, trace_processes):
+    """Prints the raw data table in human readable form on stdout."""
+    global raw_data_doc
+
+    print('Overview of the collected raw data:')
+
+    longest_name = len(sorted(raw_data_doc.values(), key=len)[-1])
+
+    line = ''.rjust(longest_name)
+    for trace in trace_list:
+        line += ' | '
+        line += str(trace_processes[trace]).rjust(15)
+    print(''.ljust(len(line), '-'))
+    print(line)
+
+    print(''.ljust(len(line), '-'))
+    final_line_raw_data = ''.ljust(len(line), '-')
+
+    for data_key in raw_data_doc:
+        line = raw_data_doc[data_key].ljust(longest_name)
+        for trace in trace_list:
+            line += ' | '
+            if raw_data[data_key][trace] != "Non-Avail" and raw_data[data_key][trace] != 'NaN':
+                line += str(round((raw_data[data_key][trace]),2)).rjust(15)
+            else:
+                line += str(raw_data[data_key][trace]).rjust(15)
+        print(line)
+    print(final_line_raw_data)
+    print('')
+
+
+def print_raw_data_csv(raw_data, trace_list, trace_processes):
+    """Prints the model factors table in a csv file."""
+    global raw_data_doc
+
+    delimiter = ';'
+    # File is stored in the trace directory
+    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
+    # File is stored in the execution directory
+    file_path = os.path.join(os.getcwd(), 'rawdata.csv')
+
+    with open(file_path, 'w') as output:
+        line = 'Number of processes'
+        for trace in trace_list:
+            line += delimiter
+            line += str(trace_processes[trace])
+        output.write(line + '\n')
+
+        for raw_key in raw_data_doc:
+            line = '#' + raw_data_doc[raw_key]
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    line += '{0:.2f}'.format(raw_data[raw_key][trace])
+                except ValueError:
+                    line += '{}'.format(raw_data[raw_key][trace])
+            output.write(line + '\n')
+
+    print('======== Output Files: Traces raw data and intermediate data ========')
+    print('Raw data written to ' + file_path)
+    file_path_intermediate = os.path.join(os.getcwd(), 'scratch_out_basicanalysis')
+    print('Intermediate file written to ' + file_path_intermediate)
+    print('')
\ No newline at end of file
diff --git a/simplemetrics.py b/simplemetrics.py
new file mode 100644
index 0000000..fcf0bf8
--- /dev/null
+++ b/simplemetrics.py
@@ -0,0 +1,1249 @@
+#!/usr/bin/env python3
+
+"""Functions to compute the model metrics."""
+
+from __future__ import print_function, division
+import sys
+
+from rawdata import *
+from collections import OrderedDict
+
+# error import variables
+error_import_pandas = False
+error_import_seaborn = False
+error_import_matplotlib = False
+error_import_numpy = False
+
+try:
+    import numpy as np
+except ImportError:
+    error_import_numpy = True
+
+
+try:
+    import pandas as pd
+except ImportError:
+    error_import_pandas = True
+
+try:
+    import seaborn as sns
+except ImportError:
+    error_import_seaborn = True
+
+
+try:
+    import matplotlib.pyplot as plt
+except ImportError:
+    error_import_matplotlib = True
+
+
+
+# Contains all model factor entries with a printable name.
+# This is used to generate and print all model factors, so, if an entry is added,
+# it should be added here, too.
+
+other_metrics_doc = OrderedDict([('elapsed_time', 'Elapsed time (sec)'),
+                               ('efficiency', 'Efficiency'),
+                               ('speedup', 'Speedup'),
+                               ('ipc', 'Average IPC'),
+                               ('freq', 'Average frequency (GHz)'),
+                               ('flushing', 'Flushing (%)'),
+                               ('io_mpiio', 'MPI I/O (%)'),
+                               ('io_posix', 'POSIX I/O (%)'),
+                               ('io_eff', 'I/O Efficiency (%)')])
+
+mod_factors_doc = OrderedDict([('global_eff', 'Global efficiency'),
+                               ('parallel_eff', '-- Parallel efficiency'),
+                               ('load_balance', '   -- Load balance'),
+                               ('comm_eff', '   -- Communication efficiency'),
+                               ('serial_eff', '      -- Serialization efficiency'),
+                               ('transfer_eff', '      -- Transfer efficiency'),
+                               ('comp_scale', '-- Computation scalability'),
+                               ('ipc_scale', '   -- IPC scalability'),
+                               ('inst_scale', '   -- Instruction scalability'),
+                               ('freq_scale', '   -- Frequency scalability')])
+
+mod_factors_scale_plus_io_doc = OrderedDict([('comp_scale', '-- Computation scalability + I/O'),
+                               ('ipc_scale', '   -- IPC scalability'),
+                               ('inst_scale', '   -- Instruction scalability'),
+                               ('freq_scale', '   -- Frequency scalability')])
+
+
+def create_mod_factors(trace_list):
+    """Creates 2D dictionary of the model factors and initializes with an empty
+    string. The mod_factors dictionary has the format: [mod factor key][trace].
+    """
+    global mod_factors_doc
+    mod_factors = {}
+    for key in mod_factors_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        mod_factors[key] = trace_dict
+
+    return mod_factors
+
+
+def create_mod_factors_scale_io(trace_list):
+    """Creates 2D dictionary of the model factors and initializes with an empty
+    string. The mod_factors dictionary has the format: [mod factor key][trace].
+    """
+    global mod_factors_scale_plus_io_doc
+    mod_factors_scale_plus_io = {}
+    for key in mod_factors_scale_plus_io_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        mod_factors_scale_plus_io[key] = trace_dict
+
+    return mod_factors_scale_plus_io
+
+
+def create_other_metrics(trace_list):
+    """Creates 2D dictionary of the model factors and initializes with an empty
+    string. The mod_factors dictionary has the format: [mod factor key][trace].
+    """
+    global other_metrics_doc
+    other_metrics = {}
+    for key in other_metrics_doc:
+        trace_dict = {}
+        for trace_name in trace_list:
+            trace_dict[trace_name] = 0.0
+        other_metrics[key] = trace_dict
+
+    return other_metrics
+
+
+def get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args):
+    """Guess the scaling type (weak/strong) based on the useful instructions.
+    Computes the normalized instruction ratio for all measurements, whereas the
+    normalized instruction ratio is (instructions ratio / process ratio) with
+    the smallest run as reference. For exact weak scaling the normalized ratio
+    should be exactly 1 and for exact strong scaling it should be close to zero
+    with an upper bound of 0.5. The eps value defines the threshold to be
+    considered weak scaling and should give enough buffer to safely handle
+    non-ideal scaling.
+    """
+    eps = 0.9
+    normalized_inst_ratio = 0
+
+    # Check if there is only one trace.
+    if len(trace_list) == 1:
+        return 'strong'
+
+    for trace in trace_list:
+        try:  # except NaN
+            inst_ratio = float(raw_data['useful_ins'][trace]) / float(raw_data['useful_ins'][trace_list[0]])
+        except:
+            inst_ratio = 0.0
+        try:  # except NaN
+            proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
+        except:
+            proc_ratio = 'NaN'
+           
+        normalized_inst_ratio += inst_ratio / proc_ratio
+
+    # Get the average inst increase. Ignore ratio of first trace 1.0)
+    normalized_inst_ratio = (normalized_inst_ratio - 1) / (len(trace_list) - 1)
+    
+    scaling_computed = ''
+
+    if normalized_inst_ratio > eps:
+        scaling_computed = 'weak'
+    else:
+        scaling_computed = 'strong'
+
+    if cmdl_args.scaling == 'auto':
+        if cmdl_args.debug:
+            print('==DEBUG== Detected ' + scaling_computed + ' scaling.')
+            print('')
+        return scaling_computed
+
+    if cmdl_args.scaling == 'weak':
+        if scaling_computed == 'strong':
+            print('==Warning== Scaling set to weak scaling but detected strong scaling.')
+            print('')
+        return 'weak'
+
+    if cmdl_args.scaling == 'strong':
+        if scaling_computed == 'weak':
+            print('==Warning== Scaling set to strong scaling but detected weak scaling.')
+            print('')
+        return 'strong'
+
+    print('==Error== reached undefined control flow state.')
+    sys.exit(1)
+
+
+def compute_model_factors(raw_data, trace_list, trace_processes, trace_mode, list_mpi_procs_count, cmdl_args):
+    """Computes the model factors from the gathered raw data and returns the
+    according dictionary of model factors."""
+    mod_factors = create_mod_factors(trace_list)
+    other_metrics = create_other_metrics(trace_list)
+    mod_factors_scale_plus_io = create_mod_factors_scale_io(trace_list)
+
+    # Guess the weak or strong scaling
+    scaling = get_scaling_type(raw_data, trace_list, trace_processes, cmdl_args)
+
+    # Loop over all traces
+    for trace in trace_list:
+
+        proc_ratio = float(trace_processes[trace]) / float(trace_processes[trace_list[0]])
+
+        # Flushing measurements
+        try:  # except NaN
+            other_metrics['flushing'][trace] = raw_data['flushing_tot'][trace] \
+                                               / (raw_data['runtime'][trace] * trace_processes[trace]) * 100.0
+        except:
+            other_metrics['flushing'][trace] = 0.0
+
+        # I/O measurements
+        try:  # except NaN
+            other_metrics['io_mpiio'][trace] = raw_data['mpiio_tot'][trace] \
+                                               / (raw_data['runtime'][trace] * trace_processes[trace]) * 100.0
+        except:
+            other_metrics['io_mpiio'][trace] = 0.0
+
+        try:  # except NaN
+            other_metrics['io_posix'][trace] = raw_data['io_tot'][trace] \
+                                               / (raw_data['runtime'][trace] * trace_processes[trace]) * 100.0
+        except:
+            other_metrics['io_posix'][trace] = 0.0
+        try:  # except NaN
+            io_total = raw_data['mpiio_tot'][trace] + raw_data['flushing_tot'][trace] + raw_data['io_tot'][trace]
+            other_metrics['io_eff'][trace] = raw_data['useful_tot'][trace] \
+                                             / (raw_data['useful_tot'][trace] + io_total) * 100.0
+        except:
+            other_metrics['io_eff'][trace] = 0.0
+
+        # Basic efficiency factors
+        try:  # except NaN
+            if trace_mode[trace] == 'Burst+MPI':
+                mod_factors['load_balance'][trace] = float(raw_data['burst_useful_avg'][trace]) \
+                                                     / float(raw_data['burst_useful_max'][trace]) * 100.0
+            else:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
+                    mod_factors['load_balance'][trace] = raw_data['useful_plus_io_avg'][trace] \
+                                                     / raw_data['useful_plus_io_max'][trace] * 100.0
+                else:
+                    mod_factors['load_balance'][trace] = raw_data['useful_avg'][trace] \
+                                                 / raw_data['useful_max'][trace] * 100.0
+        except:
+            mod_factors['load_balance'][trace] = 'NaN'
+
+        try:  # except NaN
+            if trace_mode[trace] == 'Burst+MPI':
+                mod_factors['comm_eff'][trace] = float(raw_data['burst_useful_max'][trace]) \
+                                                 / raw_data['runtime'][trace] * 100.0
+            else:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
+                    mod_factors['comm_eff'][trace] = raw_data['useful_plus_io_max'][trace] \
+                                                 / raw_data['runtime'][trace] * 100.0
+                else:
+                    mod_factors['comm_eff'][trace] = raw_data['useful_max'][trace] \
+                                                     / raw_data['runtime'][trace] * 100.0
+        except:
+            mod_factors['comm_eff'][trace] = 'NaN'
+
+        try:  # except NaN
+            mod_factors['serial_eff'][trace] = float(raw_data['outsidempi_dim'][trace]) \
+                                               / float(raw_data['runtime_dim'][trace]) * 100.0
+            if mod_factors['serial_eff'][trace] > 100.0:
+                mod_factors['serial_eff'][trace] = 'Warning!'
+        except:
+            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+                mod_factors['serial_eff'][trace] = 'NaN'
+            else:
+                mod_factors['serial_eff'][trace] = 'Non-Avail'
+
+        try:  # except NaN
+            if mod_factors['serial_eff'][trace] != 'Warning!':
+                mod_factors['transfer_eff'][trace] = mod_factors['comm_eff'][trace] \
+                                                     / mod_factors['serial_eff'][trace] * 100.0
+            else:
+                mod_factors['transfer_eff'][trace] = float(raw_data['runtime_dim'][trace]) \
+                                                     / float(raw_data['runtime'][trace]) * 100.0
+
+            if mod_factors['transfer_eff'][trace] > 100.0:
+                mod_factors['transfer_eff'][trace] = 'Warning!'
+        except:
+            if trace_mode[trace] == 'Detailed+MPI' or trace_mode[trace] == 'Detailed+MPI+OpenMP':
+                mod_factors['transfer_eff'][trace] = 'NaN'
+            else:
+                mod_factors['transfer_eff'][trace] = 'Non-Avail'
+
+        # Parallel Efficiency
+        try:  # except NaN
+            if trace_mode[trace] == 'Burst+MPI':
+                mod_factors['parallel_eff'][trace] = float(raw_data['burst_useful_avg'][trace]) \
+                                                     / float(raw_data['runtime'][trace]) * 100.0
+            else:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 5.0:
+                    mod_factors['parallel_eff'][trace] = float(raw_data['useful_plus_io_avg'][trace]) \
+                                                     / float(raw_data['runtime'][trace]) * 100.0
+                else:
+                    mod_factors['parallel_eff'][trace] = mod_factors['load_balance'][trace] \
+                                                     * mod_factors['comm_eff'][trace] / 100.0
+        except:
+            mod_factors['parallel_eff'][trace] = 'NaN'
+
+        # Computation Scale only useful computation
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if trace_mode[trace] == 'Burst+MPI':
+                    if scaling == 'strong':
+                        mod_factors['comp_scale'][trace] = raw_data['burst_useful_tot'][trace_list[0]] \
+                                                   / raw_data['burst_useful_tot'][trace] * 100.0
+                    else:
+                        mod_factors['comp_scale'][trace] = raw_data['burst_useful_tot'][trace_list[0]] \
+                                                   / raw_data['burst_useful_tot'][trace] \
+                                                   * proc_ratio * 100.0
+                else:
+                    if scaling == 'strong':
+                        mod_factors['comp_scale'][trace] = raw_data['useful_tot'][trace_list[0]] \
+                                                   / raw_data['useful_tot'][trace] * 100.0
+                    else:
+                        mod_factors['comp_scale'][trace] = raw_data['useful_tot'][trace_list[0]] \
+                                                   / raw_data['useful_tot'][trace] \
+                                                   * proc_ratio * 100.0
+            else:
+                mod_factors['comp_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['comp_scale'][trace] = 'NaN'
+
+        # Computation Scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    io_serial_0 = raw_data['io_tot'][trace_list[0]] + raw_data['flushing_tot'][trace_list[0]]
+                    io_serial_n = raw_data['io_tot'][trace] + raw_data['flushing_tot'][trace]
+                    if scaling == 'strong':
+                        mod_factors_scale_plus_io['comp_scale'][trace] = (raw_data['useful_tot'][trace_list[0]]
+                                                                      + io_serial_0) / (raw_data['useful_tot'][trace]
+                                                                                        + io_serial_n) * 100.0
+                    else:
+                        mod_factors_scale_plus_io['comp_scale'][trace] = (raw_data['useful_tot'][trace_list[0]]
+                                                                      + io_serial_0) \
+                                                                     / (raw_data['useful_tot'][trace] + io_serial_n) \
+                                                                     * proc_ratio * 100.0
+                else:
+                    mod_factors_scale_plus_io['comp_scale'][trace] = mod_factors['comp_scale'][trace]
+            else:
+                mod_factors_scale_plus_io['comp_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['comp_scale'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                mod_factors['global_eff'][trace] = mod_factors['parallel_eff'][trace] \
+                                               * mod_factors['comp_scale'][trace] / 100.0
+            else:
+                mod_factors['global_eff'][trace] = mod_factors['parallel_eff'][trace] \
+                                                   * 100.0 / 100.0
+        except:
+            mod_factors['global_eff'][trace] = 'NaN'
+
+        # Basic scalability factors
+        try:  # except NaN
+            other_metrics['ipc'][trace] = float(raw_data['useful_ins'][trace]) \
+                                        / float(raw_data['useful_cyc'][trace])
+        except:
+            other_metrics['ipc'][trace] = 'NaN'
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if trace_mode[trace][:5] != 'Burst':
+                    mod_factors['ipc_scale'][trace] = other_metrics['ipc'][trace] \
+                                              / other_metrics['ipc'][trace_list[0]] * 100.0
+                else:
+                    mod_factors['ipc_scale'][trace] = 'Non-Avail'
+            else:
+                mod_factors['ipc_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['ipc_scale'][trace] = 'NaN'
+
+        # IPC scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    ipc_serial_io_0 = (raw_data['useful_ins'][trace_list[0]] + raw_data['io_ins'][trace_list[0]]
+                               + raw_data['flushing_ins'][trace_list[0]]) \
+                              / (raw_data['useful_cyc'][trace_list[0]] + raw_data['io_cyc'][trace_list[0]]
+                                 + raw_data['flushing_cyc'][trace_list[0]])
+
+                    ipc_serial_io_n = (raw_data['useful_ins'][trace] + raw_data['io_ins'][trace]
+                               + raw_data['flushing_ins'][trace]) \
+                              / (raw_data['useful_cyc'][trace] + raw_data['io_cyc'][trace]
+                                 + raw_data['flushing_cyc'][trace])
+                    mod_factors_scale_plus_io['ipc_scale'][trace] = ipc_serial_io_n / ipc_serial_io_0 * 100.0
+                else:
+                    mod_factors_scale_plus_io['ipc_scale'][trace] = 0.0
+            else:
+                mod_factors_scale_plus_io['ipc_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['ipc_scale'][trace] = mod_factors['ipc_scale'][trace]
+
+        try:  # except NaN
+            other_metrics['freq'][trace] = float(raw_data['useful_cyc'][trace]) \
+                                       / float(raw_data['useful_tot'][trace]) / 1000
+        except:
+            other_metrics['freq'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if trace_mode[trace][:5] != 'Burst':
+                    mod_factors['freq_scale'][trace] = other_metrics['freq'][trace] \
+                                               / other_metrics['freq'][trace_list[0]] * 100.0
+                else:
+                    mod_factors['freq_scale'][trace] = 'Non-Avail'
+            else:
+                mod_factors['freq_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['freq_scale'][trace] = 'NaN'
+            
+        # freq scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    freq_serial_io_0 = (float(raw_data['useful_cyc'][trace_list[0]])
+                                    + float(raw_data['io_cyc'][trace_list[0]])
+                                    + float(raw_data['flushing_cyc'][trace_list[0]])) \
+                                   / (float(raw_data['useful_tot'][trace_list[0]])
+                                      + float(raw_data['io_tot'][trace_list[0]])
+                                      + float(raw_data['flushing_tot'][trace_list[0]])) / 1000
+
+                    freq_serial_io_n = (float(raw_data['useful_cyc'][trace]) + float(raw_data['io_cyc'][trace])
+                                    + float(raw_data['flushing_cyc'][trace])) \
+                                   / (float(raw_data['useful_tot'][trace])
+                                      + float(raw_data['io_tot'][trace])
+                                      + float(raw_data['flushing_tot'][trace])) / 1000
+                    mod_factors_scale_plus_io['freq_scale'][trace] = freq_serial_io_n / freq_serial_io_0 * 100.0
+                else:
+                    mod_factors_scale_plus_io['freq_scale'][trace] = mod_factors['freq_scale'][trace]
+            else:
+                mod_factors_scale_plus_io['freq_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['freq_scale'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if trace_mode[trace][:5] != 'Burst':
+                    if scaling == 'strong':
+                        mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]]) \
+                                                   / float(raw_data['useful_ins'][trace]) * 100.0
+                    else:
+                        mod_factors['inst_scale'][trace] = float(raw_data['useful_ins'][trace_list[0]]) \
+                                                   / float(raw_data['useful_ins'][trace]) \
+                                                       * proc_ratio * 100.0
+                else:
+                    mod_factors['inst_scale'][trace] = 'Non-Avail'
+            else:
+                mod_factors['inst_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors['inst_scale'][trace] = 'NaN'
+
+        # ins scale + Serial I/O
+        try:  # except NaN
+            if len(trace_list) > 1:
+                if other_metrics['io_posix'][trace] > 0.0 or other_metrics['flushing'][trace] > 0.0:
+                    useful_ins_plus_io_0 = float(raw_data['useful_ins'][trace_list[0]]) \
+                                       + float(raw_data['io_ins'][trace_list[0]]) \
+                                       + float(raw_data['flushing_ins'][trace_list[0]])
+                    useful_ins_plus_io_n = float(raw_data['useful_ins'][trace]) \
+                                       + float(raw_data['io_ins'][trace]) \
+                                       + float(raw_data['flushing_ins'][trace])
+                    if scaling == 'strong':
+                        mod_factors_scale_plus_io['inst_scale'][trace] = useful_ins_plus_io_0 \
+                                                                 / useful_ins_plus_io_n * 100.0
+                    else:
+                        mod_factors_scale_plus_io['inst_scale'][trace] = useful_ins_plus_io_0 / useful_ins_plus_io_n \
+                                                     * proc_ratio * 100.0
+                else:
+                    mod_factors_scale_plus_io['inst_scale'][trace] = mod_factors['inst_scale'][trace]
+            else:
+                mod_factors_scale_plus_io['inst_scale'][trace] = 'Non-Avail'
+        except:
+            mod_factors_scale_plus_io['inst_scale'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                other_metrics['speedup'][trace] = raw_data['runtime'][trace_list[0]] \
+                                                  / raw_data['runtime'][trace]
+                #if scaling == 'strong':
+                #    other_metrics['speedup'][trace] = raw_data['runtime'][trace_list[0]] \
+                #                                / raw_data['runtime'][trace]
+                #else:
+                #    other_metrics['speedup'][trace] = raw_data['runtime'][trace_list[0]] \
+                #                                      / raw_data['runtime'][trace] * proc_ratio
+            else:
+                other_metrics['speedup'][trace] = 'Non-Avail'
+        except:
+            other_metrics['speedup'][trace] = 'NaN'
+
+        try:  # except NaN
+            other_metrics['elapsed_time'][trace] = raw_data['runtime'][trace] * 0.000001
+        except:
+            other_metrics['elapsed_time'][trace] = 'NaN'
+
+        try:  # except NaN
+            if len(trace_list) > 1:
+                #other_metrics['efficiency'][trace] = other_metrics['speedup'][trace] / proc_ratio
+                if scaling == 'strong':
+                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
+                                                     / (raw_data['runtime'][trace] * proc_ratio)
+                else:
+                    other_metrics['efficiency'][trace] = raw_data['runtime'][trace_list[0]] \
+                                                         / raw_data['runtime'][trace]
+            else:
+                other_metrics['efficiency'][trace] =  'Non-Avail'
+        except:
+            other_metrics['efficiency'][trace] = 'NaN'
+
+    return mod_factors, mod_factors_scale_plus_io, other_metrics
+
+
+def read_mod_factors_csv(cmdl_args):
+    """Reads the model factors table from a csv file."""
+    global mod_factors_doc
+
+    delimiter = ';'
+    file_path = cmdl_args.project
+
+    # Read csv to list of lines
+    if os.path.isfile(file_path) and file_path[-4:] == '.csv':
+        with open(file_path, 'r') as f:
+            lines = f.readlines()
+        lines = [line.rstrip('\n') for line in lines]
+    else:
+        print('==ERROR==', file_path, 'is not a valid csv file.')
+        sys.exit(1)
+
+    # Get the number of processes of the traces
+    processes = lines[0].split(delimiter)
+    processes.pop(0)
+
+    # Create artificial trace_list and trace_processes
+    trace_list = []
+    trace_processes = dict()
+    for process in processes:
+        trace_list.append(process)
+        trace_processes[process] = int(process)
+
+    # Create empty mod_factors handle
+    mod_factors = create_mod_factors(trace_list)
+
+    # Get mod_factor_doc keys
+    mod_factors_keys = list(mod_factors_doc.items())
+
+    # Iterate over the data lines
+    for index, line in enumerate(lines[1:len(mod_factors_keys) + 1]):
+        key = mod_factors_keys[index][0]
+        line = line.split(delimiter)
+        for index, trace in enumerate(trace_list):
+            mod_factors[key][trace] = float(line[index + 1])
+
+    if cmdl_args.debug:
+        print_mod_factors_table(mod_factors, trace_list, trace_processes)
+
+    return mod_factors, trace_list, trace_processes
+
+
+def print_mod_factors_table(mod_factors, other_metrics, mod_factors_scale_plus_io, trace_list, trace_processes):
+    """Prints the model factors table in human readable form on stdout."""
+    global mod_factors_doc
+    global mod_factors_scale_plus_io_doc
+
+    warning_io = []
+    warning_flush = []
+    warning_flush_wrong = []
+    warning_simulation = []
+    for trace in trace_list:
+        if 10.0 <= other_metrics['flushing'][trace] < 15.0:
+            warning_flush.append(1)
+        elif other_metrics['flushing'][trace] >= 15.0:
+            warning_flush_wrong.append(1)
+        if other_metrics['io_posix'][trace] >= 5.0:
+            warning_io.append(1)
+        if mod_factors['serial_eff'][trace] == "Warning!" \
+                or mod_factors['transfer_eff'][trace] == "Warning!":
+            warning_simulation.append(1)
+    if len(warning_flush_wrong) > 0:
+        print("WARNING! Flushing in a trace is too high. Disabling standard output metrics...")
+        print("         Flushing is an overhead due to the tracer, please review your trace.")
+        print('')
+        return
+
+    print('Overview of the Efficiency metrics:')
+
+    longest_name = len(sorted(mod_factors_doc.values(), key=len)[-1])
+
+    line = ''.rjust(longest_name)
+
+    if len(trace_list) == 1:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[0]]
+    else:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[len(trace_list)-1]]
+
+    # BEGIN To adjust header to big number of processes
+    procs_header = []
+    for index, trace in enumerate(trace_list):
+        if limit_min == limit_max and len(trace_list) > 1:
+            procs_header.append(str(trace_processes[trace]) + '[' + str(index+1) + ']')
+        else:
+            procs_header.append(str(trace_processes[trace]))
+
+    max_len_header = 0
+    for proc_h in procs_header:
+        if max_len_header < len(proc_h):
+            max_len_header = len(proc_h)
+
+    value_to_adjust = 10
+    if max_len_header > value_to_adjust:
+        value_to_adjust = max_len_header + 1
+    # END To adjust header to big number of processes
+
+    for index, trace in enumerate(trace_list):
+        line += ' | '
+        if limit_min == limit_max and len(trace_list) > 1:
+            line += (str(trace_processes[trace]) + '[' + str(index+1) + ']').rjust(value_to_adjust)
+        else:
+            line += (str(trace_processes[trace])).rjust(value_to_adjust)
+
+    print(''.ljust(len(line), '='))
+    print(line)
+    line_procs_factors = line
+
+    print(''.ljust(len(line), '='))
+
+    for mod_key in mod_factors_doc:
+        line = mod_factors_doc[mod_key].ljust(longest_name)
+        for trace in trace_list:
+            line += ' | '
+            try:  # except NaN
+                line += ('{0:.2f}%'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
+            except ValueError:
+                line += ('{}'.format(mod_factors[mod_key][trace])).rjust(value_to_adjust)
+        print(line)
+
+    # print('')
+
+    io_metrics = []
+    io_metrics.append(0)
+    for mod_key in mod_factors_scale_plus_io_doc:
+        for trace in trace_list:
+            if mod_factors_scale_plus_io[mod_key][trace] != 0:
+                io_metrics.append(1)
+
+    if (len(warning_flush) >= 1 or len(warning_io) >= 1) and len(trace_list) > 1:
+        print(''.ljust(len(line_procs_factors), '-'))
+        for mod_key in mod_factors_scale_plus_io_doc:
+            line = mod_factors_scale_plus_io_doc[mod_key].ljust(longest_name)
+            for trace in trace_list:
+                line += ' | '
+                try:  # except NaN
+                    line += ('{0:.2f}%'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
+                except ValueError:
+                    line += ('{}'.format(mod_factors_scale_plus_io[mod_key][trace])).rjust(value_to_adjust)
+            print(line)
+
+    print(''.ljust(len(line_procs_factors), '='))
+
+    if len(warning_simulation) > 0:
+        print("===> Warning! Metrics obtained from simulated traces exceed 100%. "
+              "Please review original and simulated traces.")
+    print('')
+
+
+def print_other_metrics_table(other_metrics, trace_list, trace_processes):
+    """Prints the model factors table in human readable form on stdout."""
+    global other_metrics_doc
+
+    print('Overview of the Speedup, IPC and Frequency:')
+
+    longest_name = len(sorted(other_metrics_doc.values(), key=len)[-1])
+
+    line = ''.rjust(longest_name)
+    if len(trace_list) == 1:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[0]]
+    else:
+        limit_min = trace_processes[trace_list[0]]
+        limit_max = trace_processes[trace_list[len(trace_list)-1]]
+
+    # BEGIN To adjust header to big number of processes
+    procs_header = []
+    for index, trace in enumerate(trace_list):
+        if limit_min == limit_max and len(trace_list) > 1:
+            procs_header.append(str(trace_processes[trace]) + '[' + str(index+1) + ']')
+        else:
+            procs_header.append(str(trace_processes[trace]))
+
+    max_len_header = 0
+    for proc_h in procs_header:
+        if max_len_header < len(proc_h):
+            max_len_header = len(proc_h)
+
+    value_to_adjust = 10
+    if max_len_header > value_to_adjust:
+        value_to_adjust = max_len_header + 1
+    # END To adjust header to big number of processes
+
+    for index, trace in enumerate(trace_list):
+        line += ' | '
+        if limit_min == limit_max and len(trace_list) > 1:
+            line += (str(trace_processes[trace]) + '[' + str(index+1) + ']').rjust(value_to_adjust)
+        else:
+            line += (str(trace_processes[trace])).rjust(value_to_adjust)
+
+    print(''.ljust(len(line), '-'))
+    print(line)
+    line_head = line
+    print(''.ljust(len(line), '-'))
+
+    for mod_key in other_metrics_doc:
+        line = other_metrics_doc[mod_key].ljust(longest_name)
+        if len(trace_list) > 1:
+            if mod_key in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                print(line)
+        else:
+            if mod_key in ['ipc', 'freq', 'elapsed_time']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                print(line)
+    print(''.ljust(len(line_head), '-'))
+    # print('')
+
+    warning_io = []
+    warning_flush = []
+    for trace in trace_list:
+        if other_metrics['flushing'][trace] >= 10.0:
+            warning_flush.append(1)
+        if other_metrics['io_mpiio'][trace] >= 5.0 or other_metrics['io_posix'][trace] >= 5.0:
+            warning_io.append(1)
+
+    for mod_key in other_metrics_doc:
+        line = other_metrics_doc[mod_key].ljust(longest_name)
+        # Print empty line to separate values
+        if mod_key in ['freq'] and len(warning_flush) > 0:
+            print("Overview of tracer\'s flushing weight:")
+            print(''.ljust(len(line_head), '-'))
+
+        if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time','efficiency']:
+            if mod_key in ['flushing']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                if len(warning_flush) > 0:
+                    print(line)
+                    print(''.ljust(len(line_head), '-'))
+            elif mod_key in ['io_mpiio','io_posix']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                if len(warning_io) > 0:
+                    print(line)
+            elif mod_key in ['io_eff']:
+                for trace in trace_list:
+                    line += ' | '
+                    try:  # except NaN
+                        line += ('{0:.2f}%'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                    except ValueError:
+                        line += ('{}'.format(other_metrics[mod_key][trace])).rjust(value_to_adjust)
+                if len(warning_io) > 0 or len(warning_flush) > 0:
+                    print(line)
+
+        # Print headers I/O
+        if mod_key in ['flushing'] and len(warning_io) > 0:
+            print(''.ljust(len(line), ' '))
+            print('Overview of File I/O weight:')
+            print(''.ljust(len(line), '-'))
+        if mod_key in ['io_eff'] and len(warning_io) > 0:
+            print(''.ljust(len(line), '-'))
+        #    print('')
+
+    if len(warning_flush) > 0:
+        message_warning_flush = "WARNING! %Flushing is high and affects computation of efficiency metrics."
+    else:
+        message_warning_flush = ""
+    if len(warning_io) > 0:
+        message_warning_io = "WARNING! % File I/O is high and affects computation of efficiency metrics."
+    else:
+        message_warning_io = ""
+    print(message_warning_flush + message_warning_io)
+    print('')
+
+
+def print_efficiency_table(mod_factors, trace_list, trace_processes):
+    """Prints the model factors table in human readable form on stdout."""
+    global mod_factors_doc
+
+    longest_name = len(sorted(mod_factors_doc.values(), key=len)[-1])
+    delimiter = ','
+    file_path = os.path.join(os.getcwd(), 'efficiency_table.csv')
+    with open(file_path, 'w') as output:
+        line = '\"Number of processes\"'
+        if len(trace_list) == 1:
+            limit_min = trace_processes[trace_list[0]]
+            limit_max = trace_processes[trace_list[0]]
+        else:
+            limit_min = trace_processes[trace_list[0]]
+            limit_max = trace_processes[trace_list[len(trace_list)-1]]
+
+        for index, trace in enumerate(trace_list):
+            line += delimiter
+            if limit_min == limit_max and len(trace_list) > 1:
+                line += str(trace_processes[trace]) + '[' + str(index+1) + ']'
+            else:
+                line += str(trace_processes[trace])
+        output.write(line + '\n')
+
+        for mod_key in mod_factors_doc:
+            if mod_key not in ['speedup', 'ipc', 'freq', 'elapsed_time', 'efficiency', 'flushing', 'io_mpiio', 'io_posix']:
+                if mod_key in ['parallel_eff', 'comp_scale']:
+                    line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
+                elif mod_key in ['load_balance', 'comm_eff','ipc_scale', 'inst_scale','freq_scale']:
+                    line = "\"" + mod_factors_doc[mod_key].replace('  ', '  ', 2) + "\""
+                elif mod_key in ['serial_eff', 'transfer_eff']:
+                    line = "\"    " + mod_factors_doc[mod_key].replace('  ', ' ', 4) + "\""
+                else:
+                    line = "\"" + mod_factors_doc[mod_key] + "\""
+                for trace in trace_list:
+                    line += delimiter
+                    try:  # except NaN
+                        if mod_factors[mod_key][trace] == "Non-Avail" or mod_factors[mod_key][trace] == "Warning!":
+                            line += '0.00'
+                        else:
+                            line += '{0:.2f}'.format(mod_factors[mod_key][trace])
+                    except ValueError:
+                        line += '{}'.format(mod_factors[mod_key][trace])
+                output.write(line + '\n')
+        # print('')
+
+        # Create Gnuplot file for efficiency plot
+        gp_template = os.path.join(os.path.dirname(os.path.realpath(__file__)), 'cfgs', 'efficiency_table.gp')
+        content = []
+
+        with open(gp_template) as f:
+            content = f.readlines()
+
+        limit_procs = 500 + len(trace_list) * 60
+
+        # Replace xrange
+        content = [line.replace('#REPLACE_BY_SIZE', ''.join(['set terminal pngcairo enhanced dashed crop size ',
+                                                             str(limit_procs), ',460 font "Latin Modern Roman,14"']))
+                   for line in content]
+
+        file_path = os.path.join(os.getcwd(), 'efficiency_table.gp')
+        with open(file_path, 'w') as f:
+            f.writelines(content)
+
+        # print('======== Plot (gnuplot File): EFFICIENCY Table ========')
+        if len(trace_list) > 1:
+            print('Efficiency Table written to ' + file_path[:len(file_path) - 3] + '.gp')
+        # print('')
+
+
+def print_mod_factors_csv(mod_factors, trace_list, trace_processes):
+    """Prints the model factors table in a csv file."""
+    global mod_factors_doc
+
+    delimiter = ';'
+    # File is stored in the trace directory
+    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
+    # File is stored in the execution directory
+    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
+
+    with open(file_path, 'w') as output:
+        line = "\"Number of processes\""
+        for trace in trace_list:
+            line += delimiter
+            line += str(trace_processes[trace])
+        output.write(line + '\n')
+
+        for mod_key in mod_factors_doc:
+            line = "\"" + mod_factors_doc[mod_key].replace('  ', '', 2) + "\""
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    line += '{0:.6f}'.format(mod_factors[mod_key][trace])
+                except ValueError:
+                    line += '{}'.format(mod_factors[mod_key][trace])
+            output.write(line + '\n')
+
+        output.write('#\n')
+
+    print('======== Output Files: Metrics and Plots ========')
+    print('Model factors written to ' + file_path)
+
+
+def print_other_metrics_csv(other_metrics, trace_list, trace_processes):
+    """Prints the model factors table in a csv file."""
+    global other_metrics_doc
+
+    delimiter = ';'
+    # File is stored in the trace directory
+    # file_path = os.path.join(os.path.dirname(os.path.realpath(trace_list[0])), 'modelfactors.csv')
+    # File is stored in the execution directory
+    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
+
+    with open(file_path, 'w') as output:
+        line = "\"Number of processes\""
+        for trace in trace_list:
+            line += delimiter
+            line += str(trace_processes[trace])
+        output.write(line + '\n')
+
+        for mod_key in other_metrics_doc:
+            line = "\"" + other_metrics_doc[mod_key].replace('  ', '', 2) +"\""
+            for trace in trace_list:
+                line += delimiter
+                try:  # except NaN
+                    line += '{0:.6f}'.format(other_metrics[mod_key][trace])
+                except ValueError:
+                    line += '{}'.format(other_metrics[mod_key][trace])
+            output.write(line + '\n')
+
+        output.write('#\n')
+
+    print('======== Output File: Other Metrics ========')
+    print('Speedup, IPC, Frequency, I/O and Flushing written to ' + file_path)
+    print('')
+
+
+def plots_efficiency_table_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
+    # Plotting using python
+    # For plotting using python, read the csv file
+
+    file_path = os.path.join(os.getcwd(), 'efficiency_table.csv')
+    df = pd.read_csv(file_path)
+    metrics = df['Number of processes'].tolist()
+
+    traces_procs = list(df.keys())[1:]
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list)-1]])
+
+    limit_min = trace_processes[trace_list[0]]
+
+    # To xticks label
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if int(limit) == int(limit_min) and same_procs:
+            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
+        elif int(limit) == int(limit_min) and not same_procs:
+            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' + str(threads) + ')'
+        else:
+            s_xtics = str(trace_processes[trace])
+        if s_xtics in label_xtics:
+            s_xtics += '[' + str(index + 1) + ']'
+        label_xtics.append(s_xtics)
+    ##### End xticks
+
+    # BEGIN To adjust header to big number of processes
+    max_len_header = 7
+    for labelx in label_xtics:
+        if len(labelx) > max_len_header:
+            max_len_header = len(labelx)
+
+    # END To adjust header to big number of processes
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if float(value) == 0.0:
+                list_temp.append(np.nan)
+            else:
+                list_temp.append(float(value))
+        # print(list_temp)
+        list_data.append(list_temp)
+
+    list_np = np.array(list_data)
+
+    idx = metrics
+    cols = label_xtics
+    #cols = traces_procs
+    df = pd.DataFrame(list_np, index=idx, columns=cols)
+
+    # min for 1 traces is x=3 for the (x,y) in figsize
+    size_figure_y = len(idx) * 0.40
+    size_figure_x = len(cols) * 0.16 * max_len_header
+    plt.figure(figsize=(size_figure_x, size_figure_y))
+
+    ax = sns.heatmap(df, cmap='RdYlGn', linewidths=0.05, annot=True, vmin=0, vmax=100, center=75, \
+                     fmt='.2f', annot_kws={"size": 10}, cbar_kws={'label': 'Percentage(%)'})
+    ## to align ylabels to left
+    plt.yticks(rotation=0, ha='left')
+    ax.xaxis.tick_top()
+    # to adjust metrics
+    len_pad = 0
+    for metric in metrics:
+        if len(metric) > len_pad:
+            len_pad = len(metric)
+
+    ax.yaxis.set_tick_params(pad=len_pad + 120)
+    plt.savefig('efficiency_table-matplot.png', bbox_inches='tight')
+
+
+def plots_modelfactors_matplot(trace_list, trace_mode, trace_processes, trace_tasks, trace_threads, cmdl_args):
+    # Plotting using python
+    # For plotting using python, read the csv file
+    file_path = os.path.join(os.getcwd(), 'modelfactors.csv')
+    df = pd.read_csv(file_path, sep=';')
+
+    # metrics = df['Number of processes'].tolist()
+
+    traces_procs = list(df.keys())[1:]
+
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if value != 'Non-Avail' and value != "Warning!":
+                list_temp.append(float(value))
+            elif value == 'Non-Avail' or value == "Warning!":
+                list_temp.append(float('nan'))
+        #print(list_temp)
+        list_data.append(list_temp)
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_tasks[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list)-1]])
+
+    limit_min = trace_processes[trace_list[0]]
+
+    # To xticks label
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_tasks[trace]
+        if int(limit) == int(limit_min) and same_procs:
+            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
+        elif int(limit) == int(limit_min) and not same_procs:
+            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' \
+                           + str(threads) + ')'
+        else:
+            s_xtics = str(trace_processes[trace])
+        label_xtics.append(s_xtics)
+
+    ### Plot: Global Metrics
+    # print(list_data)
+    plt.figure()
+    max_global = max([max(list_data[0]), max(list_data[1]), max(list_data[2]), max(list_data[3]), max(list_data[6])])
+    plt.plot(traces_procs, list_data[0], 'o-', color='black', label='Global Efficiency')
+    plt.plot(traces_procs, list_data[1], 's--', color='magenta', label='Parallel Efficiency')
+    plt.plot(traces_procs, list_data[2], 'X:', color='red', linewidth=2, label='Load Balance')
+    plt.plot(traces_procs, list_data[3], 'x-.', color='green', label='Communication efficiency')
+    plt.plot(traces_procs, list_data[6], 'v--', color='blue', label='Computation scalability')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency (%)")
+    plt.xticks(tuple(traces_procs), tuple(label_xtics))
+    # print(max_global)
+    if float(max_global) < 100:
+        max_global = 100
+
+    plt.ylim(0, float(max_global)+5)
+    plt.legend()
+    plt.savefig('modelfactors-matplot.png', bbox_inches='tight')
+
+    # Plot: Comm Metrics
+    if trace_mode[trace] == 'Detailed+MPI':
+        plt.figure()
+        max_comm = max([max(list_data[3]), max(list_data[4]), max(list_data[5])])
+        plt.plot(traces_procs, list_data[3], 's-', color='green', label='Communication efficiency')
+        plt.plot(traces_procs, list_data[4], 'h--', color='gold', label='Serialization efficiency')
+        plt.plot(traces_procs, list_data[5], 'x:', color='tomato', label='Transfer efficiency')
+        plt.xlabel("Number of Processes")
+        plt.ylabel("Efficiency (%)")
+        plt.xticks(tuple(traces_procs), tuple(label_xtics))
+        if float(max_comm) < 100:
+            max_comm = 100
+
+        plt.ylim(0, float(max_comm)+5)
+        plt.legend()
+        plt.savefig('modelfactors-comm-matplot.png', bbox_inches='tight')
+
+    ### Plot: Scale Metrics
+    if trace_mode[trace][:5] != 'Burst':
+        plt.figure()
+        max_scale = max([max(list_data[6]), max(list_data[7]), max(list_data[8]), max(list_data[9])])
+        plt.plot(traces_procs, list_data[6], 'v-', color='blue', label='Computation scalability')
+        plt.plot(traces_procs, list_data[7], 'v--', color='skyblue', label='IPC scalability')
+        plt.plot(traces_procs, list_data[8], 'v:', color='gray', label='Instruction scalability')
+        plt.plot(traces_procs, list_data[9], 'v-.', color='darkviolet', label='Frequency scalability')
+        plt.xlabel("Number of Processes")
+        plt.ylabel("Efficiency (%)")
+        plt.xticks(tuple(traces_procs), tuple(label_xtics))
+        if float(max_scale) < 100:
+            max_scale = 100
+
+        plt.ylim(0, float(max_scale)+5)
+        plt.legend()
+        plt.savefig('modelfactors-scale-matplot.png', bbox_inches='tight')
+
+
+def plots_speedup_matplot(trace_list, trace_processes, trace_tasks, trace_threads, cmdl_args):
+    # Plotting using python
+    # For plotting using python, read the csv file
+    file_path = os.path.join(os.getcwd(), 'other_metrics.csv')
+    df = pd.read_csv(file_path, sep=';')
+
+    traces_procs = list(df.keys())[1:]
+
+    list_data = []
+    for index, rows in df.iterrows():
+        list_temp = []
+        for value in list(rows)[1:]:
+            if value != 'Non-Avail':
+                list_temp.append(float(value))
+            elif value == 'Non-Avail':
+                list_temp.append(float('nan'))
+        # print(list_temp)
+        list_data.append(list_temp)
+
+    # To control same number of processes for the header on plots and table
+    same_procs = True
+    procs_trace_prev = trace_processes[trace_list[0]]
+    tasks_trace_prev = trace_tasks[trace_list[0]]
+    threads_trace_prev = trace_threads[trace_list[0]]
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if procs_trace_prev == trace_processes[trace] and tasks_trace_prev == tasks \
+                and threads_trace_prev == threads:
+            same_procs *= True
+        else:
+            same_procs *= False
+
+    # Set limit for projection
+    if cmdl_args.limit:
+        limit = cmdl_args.limit
+    else:
+        limit = str(trace_processes[trace_list[len(trace_list) - 1]])
+
+    limit_min = trace_processes[trace_list[0]]
+
+    # proc_ratio to ideal speedup
+    proc_ratio = []
+    for index, trace in enumerate(trace_list):
+        proc_ratio.append(trace_processes[trace]/trace_processes[trace_list[0]])
+    # print(proc_ratio)
+
+    # To xticks label
+    label_xtics = []
+    for index, trace in enumerate(trace_list):
+        tasks = trace_tasks[trace]
+        threads = trace_threads[trace]
+        if int(limit) == int(limit_min) and same_procs:
+            s_xtics = str(trace_processes[trace]) + '[' + str(index + 1) + ']'
+        elif int(limit) == int(limit_min) and not same_procs:
+            s_xtics = str(trace_processes[trace]) + '(' + str(tasks) + 'x' \
+                          + str(threads) + ')'
+        else:
+            s_xtics = str(trace_processes[trace])
+        label_xtics.append(s_xtics)
+
+    ### Plot: SpeedUp
+    # print(list_data)
+
+    int_traces_procs = []
+    prev_procs = int(float(traces_procs[0]))
+    int_traces_procs.append(int(float(traces_procs[0])))
+    count_rep = 0
+    for procs in traces_procs[1:]:
+        if prev_procs == int(float(procs)):
+            count_rep += 1
+            int_traces_procs.append(int(float(procs)) + (2 * count_rep))
+            prev_procs = int(float(procs))
+        else:
+            int_traces_procs.append(int(float(procs)))
+            prev_procs = int(float(procs))
+            count_rep = 0
+
+
+    plt.figure()
+    for x, y in zip(int_traces_procs, list_data[2]):
+        label = "{:.2f}".format(y)
+        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
+    plt.plot(int_traces_procs, list_data[2], 'o-', color='blue', label='measured')
+    plt.plot(int_traces_procs, proc_ratio, 'o-', color='black', label='ideal')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("SpeedUp")
+    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
+    #plt.yscale('log')
+    plt.legend()
+    # plt.xlim(0, )
+    plt.ylim(0, )
+    plt.savefig('speedup-matplot.png', bbox_inches='tight')
+
+    ### Plot: Efficiency
+    # print(list_data)
+    plt.figure()
+    for x, y in zip(int_traces_procs, list_data[1]):
+        label = "{:.2f}".format(y)
+        plt.annotate(label, (x, y), textcoords="offset points", xytext=(0, 10), ha='center')
+
+    plt.plot(int_traces_procs, list_data[1], 'o-', color='blue', label='measured')
+    plt.axhline(y=1, color='black', linestyle='-', label='ideal')
+    plt.xlabel("Number of Processes")
+    plt.ylabel("Efficiency")
+    plt.xticks(tuple(int_traces_procs), tuple(label_xtics))
+    # plt.yscale('log')
+    max_y = max(list_data[1])
+    if max_y < 1.1:
+        max_y = 1.1
+    plt.ylim(0,max_y+0.1)
+    # plt.xlim(0, )
+    plt.legend()
+    plt.savefig('efficiency-matplot.png', bbox_inches='tight')
\ No newline at end of file
diff --git a/trace.sh b/trace.sh
index fa295ae..7c38951 100755
--- a/trace.sh
+++ b/trace.sh
@@ -4,6 +4,7 @@
 export EXTRAE_CONFIG_FILE=./extrae.xml
 # Load the tracing library (choose C/Fortran)
 #export LD_PRELOAD=${EXTRAE_HOME}/lib/libmpitrace.so
+export EXTRAE_SKIP_AUTO_LIBRARY_INITIALIZE=1
 export LD_PRELOAD=${EXTRAE_HOME}/lib/libmpitracecf.so
 # Run the program
 $*
diff --git a/tracemetadata.py b/tracemetadata.py
new file mode 100644
index 0000000..de85bd4
--- /dev/null
+++ b/tracemetadata.py
@@ -0,0 +1,376 @@
+#!/usr/bin/env python3
+
+"""Functions to extract metadata information from each trace."""
+
+from __future__ import print_function, division
+import os
+import time
+import sys
+import math
+import re
+import fnmatch
+import mmap
+import gzip
+import multiprocessing
+import threading
+from multiprocessing import Process
+
+
+def get_traces_from_args(cmdl_args):
+    """Filters the given list to extract traces, i.e. matching *.prv and sorts
+    the traces in ascending order based on the number of processes in the trace.
+    Excludes all files other than *.prv and ignores also simulated traces from
+    this script, i.e. *.sim.prv
+    Returns list of trace paths and dictionary with the number of processes.
+    """
+
+    def get_processes(prv_file):
+        return trace_processes[prv_file], trace_tasks[prv_file], trace_threads[prv_file]
+
+    trace_list = [x for x in cmdl_args.trace_list if (fnmatch.fnmatch(x, '*.prv') or fnmatch.fnmatch(x, '*.prv.gz'))
+                  if not fnmatch.fnmatch(x, '*.sim.prv')]
+    if not trace_list:
+        print('==Error== could not find any traces matching "', ' '.join(cmdl_args.trace_list))
+        sys.exit(1)
+
+    trace_processes = dict()
+    trace_tasks = dict()
+    trace_threads = dict()
+    trace_mode = dict()
+    trace_task_per_node = dict()
+
+    trace_list_temp = []
+    trace_list_removed = []
+    for trace in trace_list:
+        if float(os.path.getsize(trace)/1024/1024) < float(cmdl_args.max_trace_size):
+            trace_list_temp.append(trace)
+        else:
+            trace_list_removed.append(trace)
+
+    if len(trace_list_temp) < 1:
+        print('==Error== All traces exceed the maximum size (', cmdl_args.max_trace_size, 'MiB)')
+        for trace_upper in trace_list_removed:
+            print(trace_upper)
+        sys.exit(1)
+
+    print("Running modelfactors.py for the following traces list:")
+    trace_list = trace_list_temp
+    for trace in trace_list:
+        print(trace)
+
+    if len(trace_list_removed) > 0:
+        print("\nFollowing traces were excluded to be analyzed (size >", cmdl_args.max_trace_size, "MiB): ")
+        for trace in trace_list_removed:
+            print(trace)
+
+    print('\nExtracting metadata from the traces list.')
+    # This part could be parallelized
+    # t1 = time.perf_counter()
+    for trace in trace_list:
+        trace_processes[trace], trace_tasks[trace], trace_threads[trace] = get_num_processes(trace)
+    trace_list = sorted(trace_list, key=get_processes)
+
+    t1 = time.perf_counter()
+    jobs = []
+    manager = multiprocessing.Manager()
+    trace_mode = manager.dict()
+    for trace in trace_list:
+        p_act = Process(target=get_trace_mode, args=(trace, cmdl_args, trace_mode))
+        jobs.append(p_act)
+        p_act.start()
+
+    for p in jobs:
+        p.join()
+
+    t2 = time.perf_counter()
+
+    print('Successfully Metadata Extraction in {0:.1f} seconds.\n'.format(t2 - t1))
+
+    for trace in trace_list:
+        trace_task_per_node[trace] = get_task_per_node(trace)
+
+    print("Starting Analysis for the following sorted traces list:")
+    print_overview(trace_list, trace_processes, trace_tasks, trace_threads, trace_mode, trace_task_per_node)
+    return trace_list, trace_processes, trace_tasks, trace_threads, trace_task_per_node, trace_mode
+
+
+def get_num_processes(prv_file):
+    """Gets the number of processes in a trace from the according .row file.
+    Please note: return value needs to be integer because this function is also
+    used as sorting key.
+    """
+    if prv_file[-4:] == ".prv":
+        tracefile = open(prv_file)
+        for line in tracefile:
+            header_trace = line.split('_')
+            break
+        tracefile.close()
+
+    if prv_file[-7:] == ".prv.gz":
+        with gzip.open(prv_file, 'rt') as f:
+            for line in f:
+                if "#Paraver" in line:
+                    header_trace = line.split('_')
+                    break
+        f.close()
+
+    
+    #print(header_trace)
+    header_to_print = header_trace[1].split(':')[3].split('(')
+    tasks = header_to_print[0]
+    threads = header_to_print[1]
+    list_procspernode = header_trace[1].split('(')[2].split(')')[0].split(',')
+    #print(list_procspernode)
+    total_procs = 0
+    for proc_node in list_procspernode:
+        total_procs += int(proc_node.split(':')[0])
+
+    return int(total_procs), int(tasks), int(threads)
+
+
+def get_tasks_threads(prv_file):
+    """Gets the tasks and threads from the .prv file.
+      """
+    if prv_file[-4:] == ".prv":
+        tracefile = open(prv_file)
+        for line in tracefile:
+            header_trace = line.split('_')
+            break
+        tracefile.close()
+
+    if prv_file[-7:] == ".prv.gz":
+        with gzip.open(prv_file, 'rt') as f:
+            for line in f:
+                if "#Paraver" in line:
+                    header_trace = line.split('_')
+                    break
+        f.close()
+    header_to_print = header_trace[1].split(':')[3].split('(')
+    tasks = header_to_print[0]
+    threads = header_to_print[1]
+    return int(tasks), int(threads)
+
+
+def get_task_per_node(prv_file):
+    """Gets the number of processes and nodes in a trace from the according .row file.
+    """
+    row_file = True
+
+    if prv_file[-4:] == ".prv":
+        if os.path.exists(prv_file[:-4] + '.row'):
+            tracefile = open(prv_file[:-4] + '.row')
+        else:
+            tracefile = prv_file[:-4]
+            row_file = False
+    elif prv_file[-7:] == ".prv.gz":
+        if os.path.exists(prv_file[:-7] + '.row'):
+            tracefile = open(prv_file[:-7] + '.row')
+        else:
+            tracefile = prv_file[:-7]
+            row_file = False
+
+    tasks = 0
+    nodes = 1
+    if row_file:
+        for line in tracefile:
+            if "LEVEL CPU SIZE" in line:
+                tasks = int(line[15:])
+            if "LEVEL NODE SIZE" in line:
+                nodes = int(line[15:])
+        tracefile.close()
+        task_nodes = math.ceil(int(tasks) / int(nodes))
+    else:
+        if prv_file[-4:] == ".prv":
+            tracefile = open(prv_file)
+            for line in tracefile:
+                header_trace = line.split('_')
+                break
+            tracefile.close()
+
+        if prv_file[-7:] == ".prv.gz":
+            with gzip.open(prv_file, 'rt') as f:
+                for line in f:
+                    if "#Paraver" in line:
+                        header_trace = line.split('_')
+                        break
+            f.close()
+        task_nodes = int(header_trace[1].split(':')[1].split('(')[1].replace(')','').split(',')[0])
+
+    return int(task_nodes)
+
+
+def get_trace_mode(prv_file, cmdl_args, trace_mode):
+    """Gets the trace mode by detecting the event 40000018:2 in .prv file
+    to detect the Burst mode trace in another case is Detailed mode.
+    50000001 for MPI, 60000001 for OpenMP, 61000000 for pthreads, 63000001 for CUDA
+    """
+    mode_trace = ''
+    burst = 0
+    pcf_file = True
+    if prv_file[-4:] == ".prv":
+        file_pcf = prv_file[:-4] + '.pcf'
+        tracefile = open(prv_file)
+        for line in tracefile:
+            if "40000018:2" in line:
+                burst = 1
+                break
+        tracefile.close()
+    if prv_file[-7:] == ".prv.gz":
+        file_pcf = prv_file[:-7] + '.pcf'
+        with gzip.open(prv_file, 'rt') as f:
+            for line in f:
+                if "40000018:2" in line:
+                    burst = 1
+                    break
+        f.close()
+
+    if burst == 1:
+        mode_trace = 'Burst'
+    else:
+        mode_trace = 'Detailed'
+
+    if os.path.exists(file_pcf) and cmdl_args.trace_mode_detection == 'pcf':
+        with open(file_pcf, 'rb', 0) as file, \
+                mmap.mmap(file.fileno(), 0, access=mmap.ACCESS_READ) as s:
+            if s.find(b'   500000') != -1:
+                mode_trace += '+MPI'
+                if s.find(b'   610000') != -1:
+                    mode_trace += '+Pthreads'
+                elif s.find(b'   60000') != -1:
+                    if not s.find(b'   60000019') == s.find(b'   60000'):
+                        mode_trace += '+OpenMP'
+                if s.find(b'   630000') != -1 or s.find(b'   631000') != -1 or s.find(b'   632000') != -1:
+                    mode_trace += '+CUDA'
+                if s.find(b'   9200001') != -1:
+                    mode_trace += '+OmpSs'
+                if s.find(b'   642000') != -1 or s.find(b'   6400001') != -1 or s.find(b'   641000') != -1:
+                    mode_trace += '+OpenCL'
+            else:
+                if s.find(b'   610000') != -1:
+                    mode_trace += '+Pthreads'
+                elif s.find(b'   60000') != -1:
+                    if not s.find(b'   60000019') == s.find(b'   60000'):
+                        mode_trace += '+OpenMP'
+                if s.find(b'   630000') != -1 or s.find(b'   631000') != -1 or s.find(b'   632000') != -1:
+                    mode_trace += '+CUDA'
+                if s.find(b'   9200001') != -1:
+                    mode_trace += '+OmpSs'
+                if s.find(b'   642000') != -1 or s.find(b'   6400001') != -1 or s.find(b'   641000') != -1:
+                    mode_trace += '+OpenCL'
+        file.close()
+    else:
+        count_mpi = 0
+        count_omp = 0
+        count_pthreads = 0
+        count_cuda = 0
+        count_ompss = 0
+        count_opencl = 0
+        if prv_file[-4:] == ".prv":
+            with open(prv_file, 'rb', 0) as file, \
+                    mmap.mmap(file.fileno(), 0, access=mmap.ACCESS_COPY) as s:
+                # 2:cpu_id:appl_id:task_id:thread_id:time:event_type:event_value
+                mpi = re.compile(rb'\n2:\w+:\w+:[1-4]:1:\w+:50000\w\w\w:')
+                omp = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:60000018:')
+                cuda = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:63\w\w\w\w\w\w:')
+                pthreads = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:610000\w\w:')
+                ompss = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:9200001:')
+                opencl = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:64\w\w\w\w\w\w:')
+                if mpi.search(s):
+                    count_mpi = 1
+                    mpi_trace = '+MPI'
+                if omp.search(s):
+                    count_omp = 1
+                    omp_trace = '+OpenMP'
+                elif cuda.search(s):
+                    count_cuda = 1
+                    cuda_trace = '+CUDA'
+                elif pthreads.search(s):
+                    count_pthreads = 1
+                    pthreads_trace = '+Pthreads'
+                elif ompss.search(s):
+                    count_ompss = 1
+                    ompss_trace = '+OmpSs'
+                elif opencl.search(s):
+                    count_opencl = 1
+                    opencl_trace = '+OpenCL'
+            file.close()
+        elif prv_file[-7:] == ".prv.gz":
+            handle = open(prv_file, "rb")
+            mapped = mmap.mmap(handle.fileno(), 0, access=mmap.ACCESS_READ)
+            gzfile = gzip.GzipFile(mode="r", fileobj=mapped)
+
+            # 2:cpu_id:appl_id:task_id:thread_id:time:event_type:event_value
+            mpi = re.compile(rb'\n2:\w+:\w+:[1-4]:1:\w+:50000\w\w\w:')
+            omp = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:60000018:')
+            cuda = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:63\w\w\w\w\w\w:')
+            pthreads = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:610000\w\w:')
+            ompss = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:9200001:')
+            opencl = re.compile(rb'\n2:\w+:\w+:[1-3]:[1-3]:\w+:64\w\w\w\w\w\w:')
+            s = gzfile.read()
+            if mpi.search(s):
+                count_mpi = 1
+                mpi_trace = '+MPI'
+            if omp.search(s):
+                count_omp = 1
+                omp_trace = '+OpenMP'
+            elif cuda.search(s):
+                count_cuda = 1
+                cuda_trace = '+CUDA'
+            elif pthreads.search(s):
+                count_pthreads = 1
+                pthreads_trace = '+Pthreads'
+            elif ompss.search(s):
+                count_ompss = 1
+                ompss_trace = '+OmpSs'
+            elif opencl.search(s):
+                count_opencl = 1
+                opencl_trace = '+OpenCL'
+
+            handle.close()
+        if count_mpi > 0:
+            mode_trace += mpi_trace
+        if count_omp > 0:
+            mode_trace += omp_trace
+        if count_pthreads > 0:
+            mode_trace += pthreads_trace
+        if count_ompss > 0:
+            mode_trace += ompss_trace
+        if count_cuda > 0:
+            mode_trace += cuda_trace
+        if count_opencl > 0:
+            mode_trace += opencl_trace
+
+    trace_mode[prv_file] = mode_trace
+    #return mode_trace
+
+
+def human_readable(size, precision=1):
+    """Converts a given size in bytes to the value in human readable form."""
+    suffixes = ['B', 'KB', 'MB', 'GB', 'TB']
+    suffixIndex = 0
+    while size > 1024 and suffixIndex < 4:
+        suffixIndex += 1
+        size = size / 1024.0
+    return "%.*f%s" % (precision, size, suffixes[suffixIndex])
+
+
+def print_overview(trace_list, trace_processes, trace_tasks, trace_threads, trace_mode, trace_task_per_node):
+    """Prints an overview of the traces that will be processed."""
+    #print('Running', os.path.basename(__file__), 'for the following traces:')
+
+    file_path = os.path.join(os.getcwd(), 'traces_metadata.txt')
+    with open(file_path, 'w') as output:
+        for index, trace in enumerate(trace_list):
+            line = '[' + str(index+1) + '] ' + trace
+
+            line += ', ' + str(trace_processes[trace]) \
+                    + '(' + str(trace_tasks[trace]) + 'x' + str(trace_threads[trace]) + ')' + ' processes'
+            line += ', ' + str(trace_task_per_node[trace]) + ' tasks per node'
+            line += ', ' + human_readable(os.path.getsize(trace))
+            line += ', ' + str(trace_mode[trace]) + ' mode'
+            print(line)
+            output.write(line + '\n')
+
+    print('======== Output Files: Traces metadata ========')
+    print('Traces metadata written to ' + file_path)
+    print('')
\ No newline at end of file
diff --git a/utils.py b/utils.py
new file mode 100644
index 0000000..e457c32
--- /dev/null
+++ b/utils.py
@@ -0,0 +1,186 @@
+#!/usr/bin/env python3
+
+"""modelfactors.py utils."""
+
+from __future__ import print_function, division
+import os
+import sys
+import subprocess
+import tempfile
+import argparse
+import shutil
+
+
+try:
+    import scipy.optimize
+except ImportError:
+    print('==Error== Could not import SciPy. Please make sure you have installed SciPy.')
+
+try:
+    import numpy
+except ImportError:
+    print('==Error== Could not import NumPy. Please make sure you have installed NumPy.')
+
+try:
+    import pandas as pd
+except ImportError:
+    print('==Error== Could not import pandas. Please make sure you have installed pandas.')
+try:
+    import seaborn as sns
+except ImportError:
+    print('==Error== Could not import seaborn. Please make sure you have installed  seaborn.')
+
+try:
+    import matplotlib.pyplot as plt
+except ImportError:
+    print('==Error== Could not import matplotlib. Please make sure you have installed matplotlib.')
+
+
+__author__ = "Sandra Mendez"
+__copyright__ = "Copyright 2019, Barcelona Supercomputing Center (BSC)"
+__version_major__ = 0
+__version_minor__ = 3
+__version_micro__ = 7
+__version__ = str(__version_major__) + "." + str(__version_minor__) + "." + str(__version_micro__)
+
+
+def parse_arguments():
+    """Parses the command line arguments.
+    Currently the script only accepts one parameter list, which is the list of
+    traces that are processed. This can be a regex and only valid trace files
+    are kept at the end.
+    """
+    parser = argparse.ArgumentParser(description='Generates performance metrics from a set of Paraver traces.')
+    parser.add_argument('trace_list', nargs='*',
+                        help='list of traces to process. Accepts wild cards and automatically filters for '
+                             'valid traces'),
+    parser.add_argument("-m", "--metrics", choices=['simple', 'hybrid'], default='hybrid',
+                        help='select the kind of efficiency metrics (single parallelism or hybrid, default: hybrid)')
+    parser.add_argument("-v", "--version", action='version', version='%(prog)s {version}'.format(version=__version__))
+    parser.add_argument("-d", "--debug", help="increase output verbosity to debug level", action="store_true")
+    parser.add_argument("-s", "--scaling",
+                        help="define whether the measurements are weak or strong scaling (default: auto)",
+                        choices=['weak', 'strong', 'auto'], default='auto')
+    parser.add_argument('--limit', help='limit number of cores for the plots '
+                                        '(default: max processes of the trace list )')
+    parser.add_argument("-ms", "--max_trace_size", help='set the maximum trace size in MiB allowed.'
+                                                        ' (default: 1024 MiB )', default=1024.0)
+    parser.add_argument("-tmd", "--trace_mode_detection", choices=['pcf', 'prv'], default='pcf',
+                        help='select .prv or .pcf file for trace mode detection. '
+                             'For customized traces, i.e. cut, filtered and so on, you must select'
+                             ' the .prv file. (default: pcf)')
+
+    if len(sys.argv) == 1:
+        parser.print_help()
+        sys.exit(1)
+
+    cmdl_args = parser.parse_args()
+
+    if cmdl_args.debug:
+        print('==DEBUG== Running in debug mode.')
+
+    return cmdl_args
+
+
+def which(cmd):
+    """Returns path to cmd in path or None if not available."""
+    for path in os.environ["PATH"].split(os.pathsep):
+        path = path.strip('"')
+        cmd_path = os.path.join(path, cmd)
+        if os.path.isfile(cmd_path) and os.access(cmd_path, os.X_OK):
+            return cmd_path
+
+    return None
+
+
+def check_installation(cmdl_args):
+    """Check if Dimemas and paramedir are in the path."""
+
+    if not which('Dimemas'):
+        print('Could not find Dimemas. Please make sure Dimemas is correctly installed and in the path.')
+        sys.exit(1)
+    if not which('paramedir'):
+        print('Could not find paramedir. Please make sure Paraver is correctly installed and in the path.')
+        sys.exit(1)
+
+    if not which('python3'):
+        print('==> WARNING!!! It requires python version 3 or higher for a full functionality.')
+        option_user = input("Do you want to proceed with the analysis? (Yes/No)[Yes]: ").upper()
+        if option_user == 'NO':
+            sys.exit(1)
+
+    if cmdl_args.debug:
+        print('==DEBUG== Using', __file__, __version__)
+        print('==DEBUG== Using', sys.executable, ".".join(map(str, sys.version_info[:3])))
+
+        try:
+            print('==DEBUG== Using', 'SciPy', scipy.__version__)
+        except NameError:
+            print('==DEBUG== SciPy not installed.')
+
+        try:
+            print('==DEBUG== Using', 'NumPy', numpy.__version__)
+        except NameError:
+            print('==DEBUG== NumPy not installed.')
+
+        print('==DEBUG== Using', which('Dimemas'))
+        print('==DEBUG== Using', which('paramedir'))
+        print('')
+
+    return
+
+
+def run_command(cmd, cmdl_args):
+    """Runs a command and forwards the return value."""
+    if cmdl_args.debug:
+        print('==DEBUG== Executing:', ' '.join(cmd))
+
+    # In debug mode, keep the output. Otherwise, redirect it to devnull.
+    if cmdl_args.debug:
+        out = tempfile.NamedTemporaryFile(suffix='.out', prefix=cmd[0] + '_', dir='./', delete=False)
+        err = tempfile.NamedTemporaryFile(suffix='.err', prefix=cmd[0] + '_', dir='./', delete=False)
+    else:
+        out = open(os.devnull, 'w')
+        err = open(os.devnull, 'w')
+
+    return_value = subprocess.call(cmd, stdout=out, stderr=err)
+
+    out.close
+    err.close
+
+    if return_value == 0:
+        if cmdl_args.debug:
+            os.remove(out.name)
+            os.remove(err.name)
+    else:
+        print('==ERROR== ' + ' '.join(cmd) + ' failed with return value ' + str(return_value) + '!')
+        print('See ' + out.name + ' and ' + err.name + ' for more details.')
+
+    return return_value
+
+
+def create_temp_folder(folder_name, cmdl_args):
+    path_output_aux = os.getcwd() + '/' + folder_name
+
+    if os.path.exists(path_output_aux):
+        shutil.rmtree(path_output_aux)
+    os.makedirs(path_output_aux)
+    return (path_output_aux)
+
+
+def move_files(path_source, path_dest, cmdl_args):
+    """Wraps os.remove with a try clause."""
+    try:
+        shutil.move(path_source, path_dest)
+    except:
+        if cmdl_args.debug:
+            print('==DEBUG== Failed to move ' + path_source + '!')
+
+
+def remove_files(path,cmdl_args):
+    """Wraps os.remove with a try clause."""
+    try:
+        os.remove(path)
+    except:
+        if cmdl_args.debug:
+            print('==DEBUG== Failed to remove ' + path + '!')
\ No newline at end of file
-- 
GitLab


From f2321fba162eda3a2d71480f9bf365407bb08d86 Mon Sep 17 00:00:00 2001
From: sparonuz <stella.paronuzzi@bsc.es>
Date: Fri, 9 Sep 2022 15:31:18 +0200
Subject: [PATCH 13/40] Update README.md

---
 README.md | 13 ++++++-------
 1 file changed, 6 insertions(+), 7 deletions(-)

diff --git a/README.md b/README.md
index beb7052..cd009b6 100644
--- a/README.md
+++ b/README.md
@@ -1,22 +1,21 @@
 # Nemo modelfactors
 
-Script used to get important metrics from NEMO.
+This project is intended to compute important performance metrics for a NEMO run.
 
-The script obtains data from a single nemo timestep, so keep in mind that the results of this basic analysis
-will only be accurate on longer simulations where the inicialitzation and finalitzation are close to 0% of the time.
+The statistic produced is focusing on the timestep loop, so these numbers are not related to the initialization and finalization parts.
 
 # Installation and requeriments
 
-This script requires the following BSCTOOLS to be installed, loaded and available through the PATH environment variable.
+This script relies on the following tools:
  
 * *Extrae (4.0.0 or above)* 
 * *Paraver*
 * *Dimemas (latest has a bug use 5.4.2-devel instead)* 
 * *Basicanalysis* 
 
-*Tools available at https://tools.bsc.es/downloads*
+*They can be downloaded at https://tools.bsc.es/downloads* and need to be installed, loaded and available through the PATH environment variable.
 
-Also the different modules needed to compile and execute NEMO should be loaded before the script execution.
+Here the list of the modules that need to be loaded before the script execution.
 
 * Perl interpreter
 * Fortran compiler (ifort, gfortran, pgfortran, ftn, …),
@@ -32,4 +31,4 @@ Also the different modules needed to compile and execute NEMO should be loaded b
 ```
 ./perf_metrics.bash
 ```
-* If the script executed without problems the data will be ready at the Metrics folder.
+* If the script executes without problems the data will be ready in the Metrics folder.
-- 
GitLab


From f01cca5671ecfcffe37758a6d175d2ba58fe0c5c Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 09:39:28 +0200
Subject: [PATCH 14/40] Secondary files moved to subfolder src

---
 perf_metrics.bash                             |  20 +++++++++---------
 Job_Creator.py => src/Job_Creator.py          |   0
 src/__pycache__/hybridmetrics.cpython-34.pyc  | Bin 0 -> 35256 bytes
 src/__pycache__/plots.cpython-34.pyc          | Bin 0 -> 22771 bytes
 src/__pycache__/rawdata.cpython-34.pyc        | Bin 0 -> 21439 bytes
 src/__pycache__/simplemetrics.cpython-34.pyc  | Bin 0 -> 28847 bytes
 src/__pycache__/tracemetadata.cpython-34.pyc  | Bin 0 -> 10662 bytes
 src/__pycache__/utils.cpython-34.pyc          | Bin 0 -> 6502 bytes
 {cfgs => src/cfgs}/.directory                 |   0
 {cfgs => src/cfgs}/2dh_BurstEfficiency.cfg    |   0
 {cfgs => src/cfgs}/barrier-syncr-time.cfg     |   0
 {cfgs => src/cfgs}/burst_duration.cfg         |   0
 {cfgs => src/cfgs}/burst_useful.cfg           |   0
 {cfgs => src/cfgs}/cycles.cfg                 |   0
 {cfgs => src/cfgs}/dimemas.collectives        |   0
 {cfgs => src/cfgs}/dimemas_ideal.cfg          |   0
 {cfgs => src/cfgs}/efficiency_table-global.gp |   0
 {cfgs => src/cfgs}/efficiency_table-hybrid.gp |   0
 {cfgs => src/cfgs}/efficiency_table.gp        |   0
 {cfgs => src/cfgs}/flushing-cycles.cfg        |   0
 {cfgs => src/cfgs}/flushing-inst.cfg          |   0
 {cfgs => src/cfgs}/flushing.cfg               |   0
 {cfgs => src/cfgs}/instructions.cfg           |   0
 {cfgs => src/cfgs}/io-call-cycles.cfg         |   0
 {cfgs => src/cfgs}/io-call-instructions.cfg   |   0
 {cfgs => src/cfgs}/io-call-reverse.cfg        |   0
 {cfgs => src/cfgs}/modelfactors-all.gp        |   0
 {cfgs => src/cfgs}/modelfactors-comm.gp       |   0
 {cfgs => src/cfgs}/modelfactors-hybrid.gp     |   0
 {cfgs => src/cfgs}/modelfactors-mpi-hybrid.gp |   0
 {cfgs => src/cfgs}/modelfactors-onlydata.gp   |   0
 {cfgs => src/cfgs}/modelfactors-scale.gp      |   0
 {cfgs => src/cfgs}/mpi-call-outside.cfg       |   0
 {cfgs => src/cfgs}/mpi-io-cycles.cfg          |   0
 {cfgs => src/cfgs}/mpi-io-instructions.cfg    |   0
 {cfgs => src/cfgs}/mpi-io-reverse.cfg         |   0
 {cfgs => src/cfgs}/mpi-io.cfg                 |   0
 {cfgs => src/cfgs}/mpi-master-thread.cfg      |   0
 {cfgs => src/cfgs}/runtime.cfg                |   0
 {cfgs => src/cfgs}/runtime_app.cfg            |   0
 {cfgs => src/cfgs}/time_computing.cfg         |   0
 {cfgs => src/cfgs}/timings.cfg                |   0
 extrae.xml => src/extrae.xml                  |   0
 extraf.sh => src/extraf.sh                    |   0
 gthrottling.sh => src/gthrottling.sh          |   0
 hybridmetrics.py => src/hybridmetrics.py      |   0
 {magiccut => src/magiccut}/README.md          |   0
 {magiccut => src/magiccut}/bin/TraceCutter.py |   0
 {magiccut => src/magiccut}/magicCut           |   0
 .../magiccut}/templates/cutter_template.xml   |   0
 modelfactors.py => src/modelfactors.py        |   0
 plots.py => src/plots.py                      |   0
 rawdata.py => src/rawdata.py                  |   0
 simplemetrics.py => src/simplemetrics.py      |   0
 trace.sh => src/trace.sh                      |   2 +-
 tracemetadata.py => src/tracemetadata.py      |   0
 utils.py => src/utils.py                      |   0
 57 files changed, 11 insertions(+), 11 deletions(-)
 rename Job_Creator.py => src/Job_Creator.py (100%)
 create mode 100644 src/__pycache__/hybridmetrics.cpython-34.pyc
 create mode 100644 src/__pycache__/plots.cpython-34.pyc
 create mode 100644 src/__pycache__/rawdata.cpython-34.pyc
 create mode 100644 src/__pycache__/simplemetrics.cpython-34.pyc
 create mode 100644 src/__pycache__/tracemetadata.cpython-34.pyc
 create mode 100644 src/__pycache__/utils.cpython-34.pyc
 rename {cfgs => src/cfgs}/.directory (100%)
 rename {cfgs => src/cfgs}/2dh_BurstEfficiency.cfg (100%)
 rename {cfgs => src/cfgs}/barrier-syncr-time.cfg (100%)
 rename {cfgs => src/cfgs}/burst_duration.cfg (100%)
 rename {cfgs => src/cfgs}/burst_useful.cfg (100%)
 rename {cfgs => src/cfgs}/cycles.cfg (100%)
 rename {cfgs => src/cfgs}/dimemas.collectives (100%)
 rename {cfgs => src/cfgs}/dimemas_ideal.cfg (100%)
 rename {cfgs => src/cfgs}/efficiency_table-global.gp (100%)
 rename {cfgs => src/cfgs}/efficiency_table-hybrid.gp (100%)
 rename {cfgs => src/cfgs}/efficiency_table.gp (100%)
 rename {cfgs => src/cfgs}/flushing-cycles.cfg (100%)
 rename {cfgs => src/cfgs}/flushing-inst.cfg (100%)
 rename {cfgs => src/cfgs}/flushing.cfg (100%)
 rename {cfgs => src/cfgs}/instructions.cfg (100%)
 rename {cfgs => src/cfgs}/io-call-cycles.cfg (100%)
 rename {cfgs => src/cfgs}/io-call-instructions.cfg (100%)
 rename {cfgs => src/cfgs}/io-call-reverse.cfg (100%)
 rename {cfgs => src/cfgs}/modelfactors-all.gp (100%)
 rename {cfgs => src/cfgs}/modelfactors-comm.gp (100%)
 rename {cfgs => src/cfgs}/modelfactors-hybrid.gp (100%)
 rename {cfgs => src/cfgs}/modelfactors-mpi-hybrid.gp (100%)
 rename {cfgs => src/cfgs}/modelfactors-onlydata.gp (100%)
 rename {cfgs => src/cfgs}/modelfactors-scale.gp (100%)
 rename {cfgs => src/cfgs}/mpi-call-outside.cfg (100%)
 rename {cfgs => src/cfgs}/mpi-io-cycles.cfg (100%)
 rename {cfgs => src/cfgs}/mpi-io-instructions.cfg (100%)
 rename {cfgs => src/cfgs}/mpi-io-reverse.cfg (100%)
 rename {cfgs => src/cfgs}/mpi-io.cfg (100%)
 rename {cfgs => src/cfgs}/mpi-master-thread.cfg (100%)
 rename {cfgs => src/cfgs}/runtime.cfg (100%)
 rename {cfgs => src/cfgs}/runtime_app.cfg (100%)
 rename {cfgs => src/cfgs}/time_computing.cfg (100%)
 rename {cfgs => src/cfgs}/timings.cfg (100%)
 rename extrae.xml => src/extrae.xml (100%)
 rename extraf.sh => src/extraf.sh (100%)
 rename gthrottling.sh => src/gthrottling.sh (100%)
 rename hybridmetrics.py => src/hybridmetrics.py (100%)
 rename {magiccut => src/magiccut}/README.md (100%)
 rename {magiccut => src/magiccut}/bin/TraceCutter.py (100%)
 rename {magiccut => src/magiccut}/magicCut (100%)
 rename {magiccut => src/magiccut}/templates/cutter_template.xml (100%)
 rename modelfactors.py => src/modelfactors.py (100%)
 rename plots.py => src/plots.py (100%)
 rename rawdata.py => src/rawdata.py (100%)
 rename simplemetrics.py => src/simplemetrics.py (100%)
 rename trace.sh => src/trace.sh (85%)
 rename tracemetadata.py => src/tracemetadata.py (100%)
 rename utils.py => src/utils.py (100%)

diff --git a/perf_metrics.bash b/perf_metrics.bash
index bd7685c..4fb3326 100755
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -115,7 +115,7 @@ Compile_extrae()
     echo "Output of the compilation in compile.err and compile.out"
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
     state1=$("$job" --wait compile."$Jobs_scheduler")
     echo
@@ -199,7 +199,7 @@ Compile_gprof()
     echo "Output of the compilation in compile.err and compile.out"
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
-    python3 Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
     state1=$("$job" --wait compile."$Jobs_scheduler")
     echo
@@ -333,7 +333,7 @@ Test_arguments()
     echo
     exit 1
   else
-    sed -i 's|home=.*|home="'"$EXTRAE_HOME"'"|g' extrae.xml
+    sed -i 's|home=.*|home="'"$EXTRAE_HOME"'"|g' src/extrae.xml
   fi
 
   # Adding -d to variable if not empty
@@ -372,7 +372,7 @@ Gprof_functions()
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
-    python3 Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
+    python3 ./src/Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
     
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
@@ -387,7 +387,7 @@ Gprof_functions()
     fi
     echo "Gthrottling functions ..."
     echo
-    python3 Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./gthrottling.sh nemo" 
+    python3 ./src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./src/gthrottling.sh nemo" 
     state3=$("$job" --wait gthrottling."$Jobs_scheduler")
     Job_completed "$state3"
     if [ $Completed == false ]; then
@@ -419,15 +419,15 @@ Get_trace()
 Compile_extrae
 
 # Run nemo with extrae
-  ./extraf.sh  nemo extrae_functions.txt
-  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" extrae.xml
+  ./src/extraf.sh  nemo extrae_functions.txt
+  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" src/extrae.xml
   for core in "${Nemo_cores[@]}" 
   
   do
     
     echo "Creating trace with $core cores..."
     echo
-    python3 Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./trace.sh ./nemo" 
+    python3 ./src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./src/trace.sh ./nemo" 
     
     state4=$("$job" --wait run_extrae."$Jobs_scheduler")
     Job_completed "$state4"
@@ -441,7 +441,7 @@ Compile_extrae
     mv nemo.row nemo_"$core".row	
     echo "Cutting best iteration"
     echo
-    magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
+    ./src/magiccut/magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, look at cut_$core.out for more info." 
       echo
@@ -467,7 +467,7 @@ Create_metrics()
   # Create performance metrics
   echo "Creating metrics and storing theme in Metrics folder"
   echo
-  python3 Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w ".././modelfactors.py -ms 100000 *" 
+  python3 ./src/Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/modelfactors.py -ms 100000 *" 
   mv analysis."$Jobs_scheduler" Metrics
   cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
   state5=$("$job" --wait analysis."$Jobs_scheduler")
diff --git a/Job_Creator.py b/src/Job_Creator.py
similarity index 100%
rename from Job_Creator.py
rename to src/Job_Creator.py
diff --git a/src/__pycache__/hybridmetrics.cpython-34.pyc b/src/__pycache__/hybridmetrics.cpython-34.pyc
new file mode 100644
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similarity index 100%
rename from rawdata.py
rename to src/rawdata.py
diff --git a/simplemetrics.py b/src/simplemetrics.py
similarity index 100%
rename from simplemetrics.py
rename to src/simplemetrics.py
diff --git a/trace.sh b/src/trace.sh
similarity index 85%
rename from trace.sh
rename to src/trace.sh
index 7c38951..12a53dc 100755
--- a/trace.sh
+++ b/src/trace.sh
@@ -1,7 +1,7 @@
 #!/bin/sh
 # Configure Extrae
 
-export EXTRAE_CONFIG_FILE=./extrae.xml
+export EXTRAE_CONFIG_FILE=./src/extrae.xml
 # Load the tracing library (choose C/Fortran)
 #export LD_PRELOAD=${EXTRAE_HOME}/lib/libmpitrace.so
 export EXTRAE_SKIP_AUTO_LIBRARY_INITIALIZE=1
diff --git a/tracemetadata.py b/src/tracemetadata.py
similarity index 100%
rename from tracemetadata.py
rename to src/tracemetadata.py
diff --git a/utils.py b/src/utils.py
similarity index 100%
rename from utils.py
rename to src/utils.py
-- 
GitLab


From 83b0a84fe521a34e02f724fb4354e73903a5dbb8 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 10:09:32 +0200
Subject: [PATCH 15/40] Functions moved to another file to improve main
 workflow readability

---
 perf_metrics.bash   | 503 ++------------------------------------------
 perf_metrics.config |   4 +-
 src/functions.bash  | 486 ++++++++++++++++++++++++++++++++++++++++++
 3 files changed, 504 insertions(+), 489 deletions(-)
 create mode 100644 src/functions.bash

diff --git a/perf_metrics.bash b/perf_metrics.bash
index 4fb3326..6f28d98 100755
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -1,492 +1,5 @@
 #!/bin/bash
 
-# Functions 
-
-#Checks if the job submission ended correctly. 
-Job_completed()
-{
-  if [ "$Jobs_scheduler" == "slurm" ]; then
-    local id1
-    id1=${1##* }
-    sleep 5
-    if ! scontrol show job "$id1" | grep -q 'JobState=COMPLETED'; then
-      Completed=false
-    else
-      Completed=true
-    fi	
-
-  elif [ "$Jobs_scheduler" == "lsf" ]; then
-    local id2
-    id2=$(head -n1 "$1" | cut -d'<' -f2 | cut -d'>' -f1)
-    sleep 5
-    if ! bjobs -l "$id2" | grep -q 'Status <DONE>'; then
-      Completed=false
-    else
-      Completed=true
-    fi
-  elif [ "$Jobs_scheduler" == "torque" ]; then
-    local id3
-    id3=$(head -n1 "$1" | awk '{ print $3 }')
-    sleep 5
-    if ! qstat f "$id3" | grep -q 'exit_status = 0'; then
-      Completed=false
-    else
-      Completed=true
-    fi
-  fi
-  
-
-}
-
-# Check if nemo is compiled for using extrae
-
-Compile_extrae()
-{
-  #Get flag lines
-
-  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
-  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
-  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
-
-
-  # If -rdynamic is not there recompilation is requiered and -rdynamic added
-
-  if ! echo "${line}"|grep -q "\-rdynamic\b"; then
-    echo "-rdynamic flag not found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -rdynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile_ext=true
-  fi
-
-  if ! echo "${line3}"|grep -q "\-export-dynamic\b"; then
-    echo "-export-dynamic flag not found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%LDFLAGS/ s/$/ -export-dynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile_ext=true
-  fi
-  
-   # If finstrument-functions is not there recompilation is requiered and -finstrument-functions added
-  if ! echo "${line}"|grep -q "\-finstrument-functions\b"; then
-    echo "-finstrument-functions flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -finstrument-functions/' "${Nemo_path}"/arch/arch-"${arch}".fcm
-    compile_ext=true
-  fi
-
-  # If -g is not there, recompilation is requiered and -g added
-    if ! echo "${line}"|grep -q "\-g\b"; then
-      echo "-g flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
-      sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}".fcm
-      compile_ext=true
-    fi
-
-  
-  if [ "$compile" == true ]; then
-      echo 'compile parameter is inicialized true'
-  fi
-
-  # If -pg is  there recompilation is requiered and -pg removed 
-
-  sed -i 's/-pg//g' "${Nemo_path}"/arch/arch-"${arch}".fcm
-
-  if echo "${line}"|grep -q "\-pg\b"; then
-    echo "-pg flag found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    compile_ext=true
-  fi
-
-  if echo "${line2}"|grep -q "\-pg\b"; then
-    echo "-pg flag found in FPPFLAGS arch-${arch}.fcm : editing arch-${arch}.fcm "
-    compile_ext=true
-  fi
-
-  if echo "${line3}"|grep -q "\-pg\b"; then
-    echo "-pg flag found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
-    compile_ext=true
-  fi
-   
-  # If nemo executable is not on the run file compile
-
-  if ! test -f "${Nemo_path}/cfgs/${name_cfg}/EXP00/nemo"; then
-    echo "nemo executable not found in ${name_cfg}"
-    compile_ext=true
-  fi
-
-
-  if [ "$compile" == true ] || [ "$compile_ext" == true ]; then
-
-    echo "Compiling Nemo for EXTRAE"
-    echo "Output of the compilation in compile.err and compile.out"
-
-    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
-
-    state1=$("$job" --wait compile."$Jobs_scheduler")
-    echo
-    Job_completed "$state1"
-    if [ $Completed == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
-      echo
-      exit 1
-    else 
-      echo "Nemo compilation successful"
-      echo
-    fi
-    
-  else
-    echo "Compilation not needed"  
-    echo
-  fi
-
-  #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" || echo "Error original dir doesn't exist" exit
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
-
-}
-
-#Check if Nemo is compiled for using Gprof
-
-Compile_gprof()
-{
-
-  if [ "$compile" == true ]; then
-    echo 'compile parameter is inicialized true'
-  fi
-
-  # Checking if Gprof_arch file is present
-  if ! test -f "${Nemo_path}/arch/arch-${arch}_GPROF.fcm"; then
-    cp "${Nemo_path}"/arch/arch-"${arch}".fcm "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-  fi
-
-  # Get text lines corresponding to the flags
-  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
-  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
-  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
-  
-  # If -g is not there, recompilation is requiered and -g added
-  if ! echo "${line}"|grep -q "\-g\b"; then
-    echo "-g flag not found in arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
-  fi
-
-  # If -pg is not there recompilation is requiered and -pg added
-
-  if ! echo "${line}"|grep -q "\-pg\b"; then
-    echo "-pg flag not found in FCFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
-    sed -i '/^%FCFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
-  fi
-
-  if ! echo "${line2}"|grep -q "\-pg\b"; then
-    echo "-pg flag not found in FPPFLAGS arch-${arch}_GPROF.fcm : editing arch-${arch}_GPROF.fcm "
-    sed -i '/^%FPPFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
-  fi
-
-  if ! echo "${line3}"|grep -q "\-pg\b"; then
-    echo "-pg flag not found in LDFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
-    sed -i '/^%LDFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
-  fi
-
-  # If nemo executable is not on the run file compile
-
-  if ! test -f "${Nemo_path}/cfgs/${name_cfg}_GPROF/EXP00/nemo"; then
-    echo "nemo executable not found in ${name_cfg}_GPROF"
-    compile_gprof=true
-  fi
-
-  if [ "$compile" == true ] || [ "$compile_gprof" == true ]; then
-    echo "Compiling Nemo for GPROF"
-    echo "Output of the compilation in compile.err and compile.out"
-
-    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
-    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
-  
-    state1=$("$job" --wait compile."$Jobs_scheduler")
-    echo
-    Job_completed "$state1"
-    if [ "$Completed" == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
-      echo
-      exit 1
-    else 
-      echo "Nemo compilation successful"
-      echo
-    fi
-    
-  else
-    echo "Compilation not needed"  
-    echo
-  fi
-
-  #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" || echo "Error original dir doesn't exist" exit
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* .
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo .
-  
-
-  if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
-  fi
-
-  #Solving NEMO input file common errors
-
-  if test -f "weights_core_orca2_bicubic_noc.nc"; then
-    mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
-  fi
-
-  if test -f "weights_core_orca2_bilinear_noc.nc"; then 
-    mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
-  fi
-  
-}
-
-
-
-
-#Init variables with default values in case of missing
-
-Init()
-{
-  Nemo_path="${Nemo_path:-"."}"
-  Nemo_cores="${Nemo_cores:-( 48 )}"
-  Jobs_n_cores="${Jobs_n_cores:-48}"
-  Jobs_scheduler="${Jobs_scheduler:-"slurm"}"
-  time="${Jobs_time:-0}"
-  queue="${Jobs_queue:-""}"
-  compile="${Compilation_compile:-"false"}"
-  cfg="${Compilation_ref:-"ORCA2_ICE_PISCES"}"
-  arch="${Compilation_arch:-"X64_MN4"}"
-  name_cfg="${Compilation_name:-"ORCA2_EXTRAE"}"
-  comp_cfg="${Compilation_sub:-""}"
-  Modules="${Modules:-""}"
-  Nemo_iterations=12
-  compile_ext=false
-  compile_gprof=false
-}
-
-
-# Checks if the paths given are correct.
-
-Test_arguments()
-{
-  # Nemo path correct?
-  if ! test -d "${Nemo_path}"; then
-    echo "Nemo relative path: ${Nemo_path} is not found"
-    echo
-    exit 1
-  fi
-  #Nemo_cores is array?
-  if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
-    echo "Error Nemo_cores has to be a bash array like ( 4 24 48 )"
-    echo
-    exit 1
-  fi
-  
-  
-  #Nemo_cores contains ints?
-  
-  re='^[0-9]+$'
-  for core in "${Nemo_cores[@]}"
-  do
-
-    if ! [[ $core =~ $re ]] ; then
-      echo "Error Nemo_cores has to contain integer values"
-      echo
-      exit 1
-    fi
-  done
-
-  # cfg exists?
-  if ! test -d "${Nemo_path}/cfgs/${cfg}"; then
-    echo "configuration: ${cfg} doesn't exists in ${Nemo_path}/cfgs dir"
-    echo
-    exit 1
-  fi
-  # arch exists?
-  if ! test -f "${Nemo_path}/arch/arch-${arch}.fcm"; then
-    echo "architecture: arch-${arch}.fcm doesn't exists in ${Nemo_path}/arch dir"
-    echo
-    exit 1
-  fi
-  # scheduler correct?
-  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ] && [ "$Jobs_scheduler" != "torque" ]; then
-    echo "$Jobs_scheduler is not a valid scheduler"
-    echo
-    exit 1
-  fi
-  #Nemo_cores is array?
-  if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
-    echo "Error, variable Nemo_cores has to be an array"
-    echo
-    exit 1
-  fi
-  #Modules available
-  if ! module load $Modules;then
-    echo "Error loading modules aborting"
-    echo
-    exit 1
-  fi
-  echo
-  #$EXTRAE_HOME loaded ?
-  if ! test -d "${EXTRAE_HOME}"; then
-  echo "Extrae relative path: ${EXTRAE_HOME} is not found"
-    echo
-    exit 1
-  else
-    sed -i 's|home=.*|home="'"$EXTRAE_HOME"'"|g' src/extrae.xml
-  fi
-
-  # Adding -d to variable if not empty
-  if [ -n "$comp_cfg" ]; then
-    comp_cfg="-d $comp_cfg"
-  fi
-  
-  # Creating auxiliar vars for submiting jobs
-  if [ "$Jobs_scheduler" == "slurm" ]; then 
-    job="sbatch"
-  elif [ "$Jobs_scheduler" == "lsf" ]; then
-    job="bsub"
-  elif [ "$Jobs_scheduler" == "torque" ]; then
-    job="qsub"
-  fi
-
-  
-}
-
-
-# Generates a list of Nemo functions 
-
-Gprof_functions()
-{
-
-  
-  #Generating function list in case of missing
-  if ! test -f "extrae_functions.txt"; then
-
-    Compile_gprof
-    
-    
-    #Changing iterations, big traces generate problems.
-    sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
-
-    rm gmon* 2> /dev/null
-    echo "Runing Nemo with 2 cores to obtain function data..."
-    echo
-    python3 ./src/Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
-    
-    state2=$("$job" --wait run."$Jobs_scheduler")
-    Job_completed "$state2"
-    if [ $Completed == false ]; then
-      echo "Nemo execution failed look at run.err and ocean.output for more info"
-      echo "Remember that the namelist files copied are the default ones, change theme in order to fit with the input files in the dir " 
-      echo
-      exit 1
-    else 
-      echo "Gprof files generated "
-      echo
-    fi
-    echo "Gthrottling functions ..."
-    echo
-    python3 ./src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./src/gthrottling.sh nemo" 
-    state3=$("$job" --wait gthrottling."$Jobs_scheduler")
-    Job_completed "$state3"
-    if [ $Completed == false ]; then
-      echo "Error listing functions, look at gthrottling.err for more info"
-      echo
-      exit 1
-    else
-      echo "Functions listed correctly"
-      echo
-    fi
-
-    
-    
-
-  else
-    echo "Functions already listed, file extrae_functions.txt does exist"
-    echo
-    
-  fi
-  
-}
-
-
-#Gets a trace from Nemo and cuts it to obtain a single timestep
-
-Get_trace()
-{
-
-Compile_extrae
-
-# Run nemo with extrae
-  ./src/extraf.sh  nemo extrae_functions.txt
-  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" src/extrae.xml
-  for core in "${Nemo_cores[@]}" 
-  
-  do
-    
-    echo "Creating trace with $core cores..."
-    echo
-    python3 ./src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./src/trace.sh ./nemo" 
-    
-    state4=$("$job" --wait run_extrae."$Jobs_scheduler")
-    Job_completed "$state4"
-    if [ $Completed == false ]; then
-      echo "Nemo execution failed, no traces files generated more info inside run_extrae.err"
-      echo 
-      exit 1
-    fi
-    mv nemo.prv nemo_"$core".prv
-    mv nemo.pcf nemo_"$core".pcf
-    mv nemo.row nemo_"$core".row	
-    echo "Cutting best iteration"
-    echo
-    ./src/magiccut/magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
-    if ! ls nemo_"$core".best_cut.prv; then
-      echo "Cut failed, look at cut_$core.out for more info." 
-      echo
-      exit 1
-    fi
-    echo
-    # Creating folder
-    if ! test -d "Metrics"; then
-      mkdir Metrics
-    fi
-
-    cp nemo_"$core".best_cut.* Metrics
-    
- done
-
-}
-
-Create_metrics()
-{
-  
-  
-  
-  # Create performance metrics
-  echo "Creating metrics and storing theme in Metrics folder"
-  echo
-  python3 ./src/Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/modelfactors.py -ms 100000 *" 
-  mv analysis."$Jobs_scheduler" Metrics
-  cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
-  state5=$("$job" --wait analysis."$Jobs_scheduler")
-  Job_completed "$state5"
-  if [ $Completed == false ]; then
-    echo "Error, metrics have not generated check Metrics/analysis.err to get more details"
-    echo
-    exit 1
- 
-  fi
-  
-  echo "------------------------------------------------------------------------------"
-  echo "------------------------- Script Completed -----------------------------------"
-  echo "----------------------- Data in Metrics folder -------------------------------"
-  echo "------------------------------------------------------------------------------"
-  echo "------------------------------------------------------------------------------"
-  echo
-}
-
 main()
 {
 
@@ -503,14 +16,30 @@ dir=$(pwd)
 echo
 echo "Using the following configuration:"
 echo
+
+#Load functions from file
+source "$dir"/src/functions.bash
+
+#Load parameters from file
 source "$dir"/perf_metrics.config
+
+# print parameters
 grep -o '^[^#]*' perf_metrics.config
 echo
 
+#Init variables
 Init
+
+#Test if parameters are valid
 Test_arguments
+
+#Create the list of important functions from NEMO
 Gprof_functions
+
+#Get the traces of the executions and cut 1 timestep 
 Get_trace
+
+#Generate the performance metrics
 Create_metrics
 
 }
diff --git a/perf_metrics.config b/perf_metrics.config
index ebe66fd..96a65f7 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -29,8 +29,8 @@ Jobs_queue=debug
 
 Compilation_compile="false" 
 Compilation_ref="ORCA2_ICE_PISCES" 
-Compilation_arch="X64_MN4_UNCOUPLED" 
-Compilation_name="ORCA2_UNCOUPLED" 
+Compilation_arch="Your-arch-file" 
+Compilation_name="ORCA2_EXTRAE" 
 Compilation_sub="OCE del_key 'key_si3 key_top'" 
     
 # List of modules loaded. 
diff --git a/src/functions.bash b/src/functions.bash
new file mode 100644
index 0000000..144c860
--- /dev/null
+++ b/src/functions.bash
@@ -0,0 +1,486 @@
+# Functions 
+
+#Checks if the job submission ended correctly. 
+Job_completed()
+{
+  if [ "$Jobs_scheduler" == "slurm" ]; then
+    local id1
+    id1=${1##* }
+    sleep 5
+    if ! scontrol show job "$id1" | grep -q 'JobState=COMPLETED'; then
+      Completed=false
+    else
+      Completed=true
+    fi	
+
+  elif [ "$Jobs_scheduler" == "lsf" ]; then
+    local id2
+    id2=$(head -n1 "$1" | cut -d'<' -f2 | cut -d'>' -f1)
+    sleep 5
+    if ! bjobs -l "$id2" | grep -q 'Status <DONE>'; then
+      Completed=false
+    else
+      Completed=true
+    fi
+  elif [ "$Jobs_scheduler" == "torque" ]; then
+    local id3
+    id3=$(head -n1 "$1" | awk '{ print $3 }')
+    sleep 5
+    if ! qstat f "$id3" | grep -q 'exit_status = 0'; then
+      Completed=false
+    else
+      Completed=true
+    fi
+  fi
+  
+
+}
+
+# Check if nemo is compiled for using extrae
+
+Compile_extrae()
+{
+  #Get flag lines
+
+  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
+  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
+  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
+
+
+  # If -rdynamic is not there recompilation is requiered and -rdynamic added
+
+  if ! echo "${line}"|grep -q "\-rdynamic\b"; then
+    echo "-rdynamic flag not found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -rdynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
+    compile_ext=true
+  fi
+
+  if ! echo "${line3}"|grep -q "\-export-dynamic\b"; then
+    echo "-export-dynamic flag not found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    sed -i '/^%LDFLAGS/ s/$/ -export-dynamic/' "${Nemo_path}"/arch/arch-"${arch}".fcm
+    compile_ext=true
+  fi
+  
+   # If finstrument-functions is not there recompilation is requiered and -finstrument-functions added
+  if ! echo "${line}"|grep -q "\-finstrument-functions\b"; then
+    echo "-finstrument-functions flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -finstrument-functions/' "${Nemo_path}"/arch/arch-"${arch}".fcm
+    compile_ext=true
+  fi
+
+  # If -g is not there, recompilation is requiered and -g added
+    if ! echo "${line}"|grep -q "\-g\b"; then
+      echo "-g flag not found in arch-${arch}.fcm: editing arch-${arch}.fcm "
+      sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}".fcm
+      compile_ext=true
+    fi
+
+  
+  if [ "$compile" == true ]; then
+      echo 'compile parameter is inicialized true'
+  fi
+
+  # If -pg is  there recompilation is requiered and -pg removed 
+
+  sed -i 's/-pg//g' "${Nemo_path}"/arch/arch-"${arch}".fcm
+
+  if echo "${line}"|grep -q "\-pg\b"; then
+    echo "-pg flag found in FCFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    compile_ext=true
+  fi
+
+  if echo "${line2}"|grep -q "\-pg\b"; then
+    echo "-pg flag found in FPPFLAGS arch-${arch}.fcm : editing arch-${arch}.fcm "
+    compile_ext=true
+  fi
+
+  if echo "${line3}"|grep -q "\-pg\b"; then
+    echo "-pg flag found in LDFLAGS arch-${arch}.fcm: editing arch-${arch}.fcm "
+    compile_ext=true
+  fi
+   
+  # If nemo executable is not on the run file compile
+
+  if ! test -f "${Nemo_path}/cfgs/${name_cfg}/EXP00/nemo"; then
+    echo "nemo executable not found in ${name_cfg}"
+    compile_ext=true
+  fi
+
+
+  if [ "$compile" == true ] || [ "$compile_ext" == true ]; then
+
+    echo "Compiling Nemo for EXTRAE"
+    echo "Output of the compilation in compile.err and compile.out"
+
+    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
+    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+
+    state1=$("$job" --wait compile."$Jobs_scheduler")
+    echo
+    Job_completed "$state1"
+    if [ $Completed == false ]; then
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
+      echo
+      exit 1
+    else 
+      echo "Nemo compilation successful"
+      echo
+    fi
+    
+  else
+    echo "Compilation not needed"  
+    echo
+  fi
+
+  #Copy all the EXP00 data but don't overwrite namelist just the executable
+  cd "$dir" || echo "Error original dir doesn't exist" exit
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
+
+}
+
+#Check if Nemo is compiled for using Gprof
+
+Compile_gprof()
+{
+
+  if [ "$compile" == true ]; then
+    echo 'compile parameter is inicialized true'
+  fi
+
+  # Checking if Gprof_arch file is present
+  if ! test -f "${Nemo_path}/arch/arch-${arch}_GPROF.fcm"; then
+    cp "${Nemo_path}"/arch/arch-"${arch}".fcm "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+  fi
+
+  # Get text lines corresponding to the flags
+  line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
+  line2=$(sed -n '/^%FPPFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
+  line3=$(sed -n '/^%LDFLAGS /p' "$Nemo_path"/arch/arch-"${arch}"_GPROF.fcm)
+  
+  # If -g is not there, recompilation is requiered and -g added
+  if ! echo "${line}"|grep -q "\-g\b"; then
+    echo "-g flag not found in arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  # If -pg is not there recompilation is requiered and -pg added
+
+  if ! echo "${line}"|grep -q "\-pg\b"; then
+    echo "-pg flag not found in FCFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%FCFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  if ! echo "${line2}"|grep -q "\-pg\b"; then
+    echo "-pg flag not found in FPPFLAGS arch-${arch}_GPROF.fcm : editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%FPPFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  if ! echo "${line3}"|grep -q "\-pg\b"; then
+    echo "-pg flag not found in LDFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
+    sed -i '/^%LDFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
+    compile_gprof=true
+  fi
+
+  # If nemo executable is not on the run file compile
+
+  if ! test -f "${Nemo_path}/cfgs/${name_cfg}_GPROF/EXP00/nemo"; then
+    echo "nemo executable not found in ${name_cfg}_GPROF"
+    compile_gprof=true
+  fi
+
+  if [ "$compile" == true ] || [ "$compile_gprof" == true ]; then
+    echo "Compiling Nemo for GPROF"
+    echo "Output of the compilation in compile.err and compile.out"
+
+    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
+    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+  
+    state1=$("$job" --wait compile."$Jobs_scheduler")
+    echo
+    Job_completed "$state1"
+    if [ "$Completed" == false ]; then
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
+      echo
+      exit 1
+    else 
+      echo "Nemo compilation successful"
+      echo
+    fi
+    
+  else
+    echo "Compilation not needed"  
+    echo
+  fi
+
+  #Copy all the EXP00 data but don't overwrite namelist just the executable
+  cd "$dir" || echo "Error original dir doesn't exist" exit
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* .
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo .
+  
+
+  if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+  fi
+
+  #Solving NEMO input file common errors
+
+  if test -f "weights_core_orca2_bicubic_noc.nc"; then
+    mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
+  fi
+
+  if test -f "weights_core_orca2_bilinear_noc.nc"; then 
+    mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
+  fi
+  
+}
+
+
+
+
+#Init variables with default values in case of missing
+
+Init()
+{
+  Nemo_path="${Nemo_path:-"."}"
+  Nemo_cores="${Nemo_cores:-( 48 )}"
+  Jobs_n_cores="${Jobs_n_cores:-48}"
+  Jobs_scheduler="${Jobs_scheduler:-"slurm"}"
+  time="${Jobs_time:-0}"
+  queue="${Jobs_queue:-""}"
+  compile="${Compilation_compile:-"false"}"
+  cfg="${Compilation_ref:-"ORCA2_ICE_PISCES"}"
+  arch="${Compilation_arch:-"X64_MN4"}"
+  name_cfg="${Compilation_name:-"ORCA2_EXTRAE"}"
+  comp_cfg="${Compilation_sub:-""}"
+  Modules="${Modules:-""}"
+  Nemo_iterations=12
+  compile_ext=false
+  compile_gprof=false
+}
+
+
+# Checks if the paths given are correct.
+
+Test_arguments()
+{
+  # Nemo path correct?
+  if ! test -d "${Nemo_path}"; then
+    echo "Nemo relative path: ${Nemo_path} is not found"
+    echo
+    exit 1
+  fi
+  #Nemo_cores is array?
+  if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
+    echo "Error Nemo_cores has to be a bash array like ( 4 24 48 )"
+    echo
+    exit 1
+  fi
+  
+  
+  #Nemo_cores contains ints?
+  
+  re='^[0-9]+$'
+  for core in "${Nemo_cores[@]}"
+  do
+
+    if ! [[ $core =~ $re ]] ; then
+      echo "Error Nemo_cores has to contain integer values"
+      echo
+      exit 1
+    fi
+  done
+
+  # cfg exists?
+  if ! test -d "${Nemo_path}/cfgs/${cfg}"; then
+    echo "configuration: ${cfg} doesn't exists in ${Nemo_path}/cfgs dir"
+    echo
+    exit 1
+  fi
+  # arch exists?
+  if ! test -f "${Nemo_path}/arch/arch-${arch}.fcm"; then
+    echo "architecture: arch-${arch}.fcm doesn't exists in ${Nemo_path}/arch dir"
+    echo
+    exit 1
+  fi
+  # scheduler correct?
+  if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ] && [ "$Jobs_scheduler" != "torque" ]; then
+    echo "$Jobs_scheduler is not a valid scheduler"
+    echo
+    exit 1
+  fi
+  #Nemo_cores is array?
+  if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
+    echo "Error, variable Nemo_cores has to be an array"
+    echo
+    exit 1
+  fi
+  #Modules available
+  if ! module load $Modules;then
+    echo "Error loading modules aborting"
+    echo
+    exit 1
+  fi
+  echo
+  #$EXTRAE_HOME loaded ?
+  if ! test -d "${EXTRAE_HOME}"; then
+  echo "Extrae relative path: ${EXTRAE_HOME} is not found"
+    echo
+    exit 1
+  else
+    sed -i 's|home=.*|home="'"$EXTRAE_HOME"'"|g' src/extrae.xml
+  fi
+
+  # Adding -d to variable if not empty
+  if [ -n "$comp_cfg" ]; then
+    comp_cfg="-d $comp_cfg"
+  fi
+  
+  # Creating auxiliar vars for submiting jobs
+  if [ "$Jobs_scheduler" == "slurm" ]; then 
+    job="sbatch"
+  elif [ "$Jobs_scheduler" == "lsf" ]; then
+    job="bsub"
+  elif [ "$Jobs_scheduler" == "torque" ]; then
+    job="qsub"
+  fi
+
+  
+}
+
+
+# Generates a list of Nemo functions 
+
+Gprof_functions()
+{
+
+  
+  #Generating function list in case of missing
+  if ! test -f "extrae_functions.txt"; then
+
+    Compile_gprof
+    
+    
+    #Changing iterations, big traces generate problems.
+    sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
+
+    rm gmon* 2> /dev/null
+    echo "Runing Nemo with 2 cores to obtain function data..."
+    echo
+    python3 ./src/Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
+    
+    state2=$("$job" --wait run."$Jobs_scheduler")
+    Job_completed "$state2"
+    if [ $Completed == false ]; then
+      echo "Nemo execution failed look at run.err and ocean.output for more info"
+      echo "Remember that the namelist files copied are the default ones, change theme in order to fit with the input files in the dir " 
+      echo
+      exit 1
+    else 
+      echo "Gprof files generated "
+      echo
+    fi
+    echo "Gthrottling functions ..."
+    echo
+    python3 ./src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./src/gthrottling.sh nemo" 
+    state3=$("$job" --wait gthrottling."$Jobs_scheduler")
+    Job_completed "$state3"
+    if [ $Completed == false ]; then
+      echo "Error listing functions, look at gthrottling.err for more info"
+      echo
+      exit 1
+    else
+      echo "Functions listed correctly"
+      echo
+    fi
+
+    
+    
+
+  else
+    echo "Functions already listed, file extrae_functions.txt does exist"
+    echo
+    
+  fi
+  
+}
+
+
+#Gets a trace from Nemo and cuts it to obtain a single timestep
+
+Get_trace()
+{
+
+Compile_extrae
+
+# Run nemo with extrae
+  ./src/extraf.sh  nemo extrae_functions.txt
+  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" src/extrae.xml
+  for core in "${Nemo_cores[@]}" 
+  
+  do
+    
+    echo "Creating trace with $core cores..."
+    echo
+    python3 ./src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./src/trace.sh ./nemo" 
+    
+    state4=$("$job" --wait run_extrae."$Jobs_scheduler")
+    Job_completed "$state4"
+    if [ $Completed == false ]; then
+      echo "Nemo execution failed, no traces files generated more info inside run_extrae.err"
+      echo 
+      exit 1
+    fi
+    mv nemo.prv nemo_"$core".prv
+    mv nemo.pcf nemo_"$core".pcf
+    mv nemo.row nemo_"$core".row	
+    echo "Cutting best iteration"
+    echo
+    ./src/magiccut/magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
+    if ! ls nemo_"$core".best_cut.prv; then
+      echo "Cut failed, look at cut_$core.out for more info." 
+      echo
+      exit 1
+    fi
+    echo
+    # Creating folder
+    if ! test -d "Metrics"; then
+      mkdir Metrics
+    fi
+
+    cp nemo_"$core".best_cut.* Metrics
+    
+ done
+
+}
+
+Create_metrics()
+{
+  
+  
+  
+  # Create performance metrics
+  echo "Creating metrics and storing theme in Metrics folder"
+  echo
+  python3 ./src/Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/modelfactors.py -ms 100000 *" 
+  mv analysis."$Jobs_scheduler" Metrics
+  cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
+  state5=$("$job" --wait analysis."$Jobs_scheduler")
+  Job_completed "$state5"
+  if [ $Completed == false ]; then
+    echo "Error, metrics have not generated check Metrics/analysis.err to get more details"
+    echo
+    exit 1
+ 
+  fi
+  
+  echo "------------------------------------------------------------------------------"
+  echo "------------------------- Script Completed -----------------------------------"
+  echo "----------------------- Data in Metrics folder -------------------------------"
+  echo "------------------------------------------------------------------------------"
+  echo "------------------------------------------------------------------------------"
+  echo
+}
\ No newline at end of file
-- 
GitLab


From 3e4104b7ccdcf16f6f8fd8148814ffb56a35358d Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 10:26:07 +0200
Subject: [PATCH 16/40] Highligthed the changes needed in cfg file

---
 README.md           | 13 +++++++++----
 perf_metrics.config |  2 +-
 2 files changed, 10 insertions(+), 5 deletions(-)

diff --git a/README.md b/README.md
index cd009b6..4f45dcf 100644
--- a/README.md
+++ b/README.md
@@ -17,16 +17,21 @@ This script relies on the following tools:
 
 Here the list of the modules that need to be loaded before the script execution.
 
-* Perl interpreter
+* Perl interpreter.
 * Fortran compiler (ifort, gfortran, pgfortran, ftn, …),
 * Message Passing Interface (MPI) implementation (e.g. OpenMPI or MPICH).
-* Network Common Data Form (NetCDF) library with its underlying Hierarchical Data Form (HDF)
+* Network Common Data Form (NetCDF) library with its underlying Hierarchical Data Form (HDF).
 
 
 # Usage
 
-* Copy all the content of this folder into the folder with the input data for NEMO
-* Edit the file perf_metrics.config and replace the parameters values with the suited information.
+* Copy all the content of this folder into the folder with the input data for NEMO.
+* Edit the file perf_metrics.config and replace the parameters values with the suited information. 
+* MINIMUM CHANGES:
+	* Change the Nemo_path value to the path were NEMO is installed in your machine.
+	* Change the Compilation_arch value to the name of the arch file that you use to compile NEMO.
+	* Delete or modify the Modules value to suit the name of the modules you need to load.
+	* Change the Jobs_scheduler value with the name of the scheduler installed in your machine (currently supports slurm,lsf and torque)
 * Execute perf_metrics.bash
 ```
 ./perf_metrics.bash
diff --git a/perf_metrics.config b/perf_metrics.config
index 96a65f7..37374c5 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -11,7 +11,7 @@ Nemo_path="../NEMO"
 Nemo_cores=( 4 24 48 96 192) 
 
 # Jobs_n_cores: nºcores used for other jobs like compiling nemo. 
-# Jobs_scheduler: Available (slurm/lsf).
+# Jobs_scheduler: Available (slurm/lsf/torque).
 # Jobs_time: Max duration of the job in min.
 # Jobs_queue: Queue used.
 
-- 
GitLab


From cb7e1c13605ead4ea42cbd93b26a66aa9b8097c9 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 10:31:21 +0200
Subject: [PATCH 17/40] Fixed typos

---
 README.md | 10 +++++-----
 1 file changed, 5 insertions(+), 5 deletions(-)

diff --git a/README.md b/README.md
index 4f45dcf..1438ef3 100644
--- a/README.md
+++ b/README.md
@@ -27,11 +27,11 @@ Here the list of the modules that need to be loaded before the script execution.
 
 * Copy all the content of this folder into the folder with the input data for NEMO.
 * Edit the file perf_metrics.config and replace the parameters values with the suited information. 
-* MINIMUM CHANGES:
-	* Change the Nemo_path value to the path were NEMO is installed in your machine.
-	* Change the Compilation_arch value to the name of the arch file that you use to compile NEMO.
-	* Delete or modify the Modules value to suit the name of the modules you need to load.
-	* Change the Jobs_scheduler value with the name of the scheduler installed in your machine (currently supports slurm,lsf and torque)
+* MINIMUM CHANGES perf_metrics.config :
+	* Nemo_path, change the value to the path were NEMO is installed in your machine.
+	* Compilation_arch, replace the value with the name of the arch file that you use to compile NEMO.
+	* Modules, change the value to suit the name of the modules you need to load.
+	* Jobs_scheduler, replace the value with the name of the scheduler installed in your machine (currently supports slurm, lsf and torque)
 * Execute perf_metrics.bash
 ```
 ./perf_metrics.bash
-- 
GitLab


From 70c25a37a7a02813c2db59db45d913f1b9df715b Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 15:03:26 +0200
Subject: [PATCH 18/40] Now magiccut is added as a submodule

---
 .gitmodules                                |   4 +
 src/magiccut                               |   1 +
 src/magiccut/README.md                     |   4 -
 src/magiccut/bin/TraceCutter.py            | 266 ---------------------
 src/magiccut/magicCut                      |  64 -----
 src/magiccut/templates/cutter_template.xml |  23 --
 6 files changed, 5 insertions(+), 357 deletions(-)
 create mode 100644 .gitmodules
 create mode 160000 src/magiccut
 delete mode 100644 src/magiccut/README.md
 delete mode 100755 src/magiccut/bin/TraceCutter.py
 delete mode 100755 src/magiccut/magicCut
 delete mode 100755 src/magiccut/templates/cutter_template.xml

diff --git a/.gitmodules b/.gitmodules
new file mode 100644
index 0000000..ff1e283
--- /dev/null
+++ b/.gitmodules
@@ -0,0 +1,4 @@
+[submodule "src/magiccut"]
+	path = src/magiccut
+	url = https://earth.bsc.es/gitlab/ces/magiccut.git
+	branch = numpy_version
diff --git a/src/magiccut b/src/magiccut
new file mode 160000
index 0000000..13b714f
--- /dev/null
+++ b/src/magiccut
@@ -0,0 +1 @@
+Subproject commit 13b714f08a265150dc3b5cc05c5303fa0a650448
diff --git a/src/magiccut/README.md b/src/magiccut/README.md
deleted file mode 100644
index 3015d29..0000000
--- a/src/magiccut/README.md
+++ /dev/null
@@ -1,4 +0,0 @@
-# Magic Cut
-
-A tool created to automatically cut a single iteration from a **extrae trace** using function events (60000019) as a reference.
-Created using NEMO traces, not tested with other codes.
\ No newline at end of file
diff --git a/src/magiccut/bin/TraceCutter.py b/src/magiccut/bin/TraceCutter.py
deleted file mode 100755
index 4b26cd1..0000000
--- a/src/magiccut/bin/TraceCutter.py
+++ /dev/null
@@ -1,266 +0,0 @@
-import numpy as np
-import xml.etree.ElementTree as ET
-import time as clock_time
-from os.path import exists, realpath
-
-
-def get_command_line_arguments():
-    """
-    Returns a list of files that have been provided as a command line argument
-    :return: list of files
-    """
-
-    # Parse and assert command line options
-    import argparse
-
-    parser = argparse.ArgumentParser()
-    parser.add_argument("-i", "--input-data", required=True, type=PathType(exists=True, type='file'),
-                        help="File with filtered info on cores ID, function ID, and timings")
-    parser.add_argument("--ts-number", default=None, type=int,
-                        help="Number of time-steps present in the trace")
-    parser.add_argument("-t", "--tool-path", default=None, type=PathType(exists=True, type='dir'),
-                        help="Path to Magicut templates")
-    parser.add_argument("--function-file", required=True, type=PathType(exists=True, type='file'),
-                        help="File with names corresponding to function IDs")
-
-    args = parser.parse_args()
-
-    if args.input_data is None:
-        parser.error("Input data are needed")
-    else:
-        if not exists(args.input_data):
-            parser.error("The specified input does not exists")
-    if args.function_file is not None and not exists(args.function_file):
-        parser.error("The specified file  does not exists")
-    if args.ts_number is None:
-        print("Warning: magicCut will try to guess the number of time-steps")
-    if args.tool_path is None:
-        args.tool_path = "/".join(realpath(__file__).split("/")[:-2]) + "/templates/"
-    if not exists(args.tool_path):
-        parser.error("The specified path to tools does not exist: " + args.tool_path)
-
-    return args
-
-
-class PathType(object):
-    def __init__(self, exists=True, type='file', dash_ok=True):
-        '''exists:
-                True: a path that does exist
-                False: a path that does not exist, in a valid parent directory
-                None: don't care
-           type: file, dir, symlink, None, or a function returning True for valid paths
-                None: don't care
-           dash_ok: whether to allow "-" as stdin/stdout'''
-
-        assert exists in (True, False, None)
-        assert type in ('file', 'dir', 'symlink', None) or hasattr(type, '__call__')
-
-        self._exists = exists
-        self._type = type
-        self._dash_ok = dash_ok
-
-    def __call__(self, string):
-        from argparse import ArgumentTypeError as err
-        import os
-        if string == '-':
-            # the special argument "-" means sys.std{in,out}
-            if self._type == 'dir':
-                raise err('standard input/output (-) not allowed as directory path')
-            elif self._type == 'symlink':
-                raise err('standard input/output (-) not allowed as symlink path')
-            elif not self._dash_ok:
-                raise err('standard input/output (-) not allowed')
-        else:
-            e = os.path.exists(string)
-            if self._exists == True:
-                if not e:
-                    raise err("path does not exist: '%s'" % string)
-
-                if self._type is None:
-                    pass
-                elif self._type == 'file':
-                    if not os.path.isfile(string):
-                        raise err("path is not a file: '%s'" % string)
-                elif self._type == 'symlink':
-                    if not os.path.symlink(string):
-                        raise err("path is not a symlink: '%s'" % string)
-                elif self._type == 'dir':
-                    if not os.path.isdir(string):
-                        raise err("path is not a directory: '%s'" % string)
-                elif not self._type(string):
-                    raise err("path not valid: '%s'" % string)
-            else:
-                if self._exists == False and e:
-                    raise err("path exists: '%s'" % string)
-
-                p = os.path.dirname(os.path.normpath(string)) or '.'
-                if not os.path.isdir(p):
-                    raise err("parent path is not a directory: '%s'" % p)
-                elif not os.path.exists(p):
-                    raise err("parent directory does not exist: '%s'" % p)
-
-        return string
-
-
-def get_function_name(functions_name_file, function_ids):
-    # Opens file with format #ID FUNCTION_NAME
-    with open(functions_name_file) as f:
-        ids_name_list = f.read()
-    id = [l.split()[0] for l in ids_name_list.splitlines()]
-    names = [l.split()[1] for l in ids_name_list.splitlines()]
-    function_names = []
-    for ID in function_ids:
-        index = id.index(str(ID))
-        function_names.append(names[index])
-    return function_names
-
-
-def save_function_names(function_ids, functions_name_file):
-    # Opens file with format #ID FUNCTION_NAME
-    with open(functions_name_file) as f:
-        ids_name_list = f.read()
-    id = [l.split()[0] for l in ids_name_list.splitlines()]
-    names = [l.split()[1] for l in ids_name_list.splitlines()]
-    with open('functions.txt', 'w') as f:
-        for ID in function_ids:
-            index = id.index(str(ID))
-            f.write(id[index] + " " + names[index] + "\n")
-    print("Functions that are called once per time-step saved to functions.txt")
-
-
-def cut_time(tool_path, input_data, function_name_file, time_steps=None):
-    # Path to the cutter template
-    template_path = tool_path + "cutter_template.xml"
-    print("Starting the magic")
-    start = clock_time.time()
-
-    # Read trace and load function calls
-    cpu_ids, time, function_ids = np.genfromtxt(input_data, dtype='int', unpack='True')
-
-    print("for opening the input_data: ")
-    end = clock_time.time()
-    print(end - start)
-
-    # Find set of different routines, and number of cores
-    unique_function_ids, call_counts = np.unique(function_ids, return_counts=True)
-    cpu_number = len(np.unique(cpu_ids))
-
-    function_names = get_function_name(function_name_file, unique_function_ids)
-
-    if time_steps is None:
-        # Remember that everything is multiplied by N cores
-        # Creates an histogram with the number of how many functions are called n times
-        counts = np.bincount(call_counts)
-        # Suppose that the most common value is the number of ts
-        time_steps = np.argmax(counts)
-        # Find functions that are called once per time-step
-        functions_called_once_per_step = unique_function_ids[call_counts == time_steps]
-    else:
-        # We just search for that functions that appears once per core per time-step
-        functions_called_once_per_step = unique_function_ids[call_counts / cpu_number == time_steps]
-
-    if not len(functions_called_once_per_step):
-        raise Exception("No function has been found which is called once per timestep")
-
-    # Find which routine is called in first place
-    magic_sentinel = [n for n in function_names if n.count("magiccut")]
-    if magic_sentinel:
-        # An artificial first routine was introduces
-        index = function_names.index(magic_sentinel[0])
-        first_routine = unique_function_ids[index]
-    else:
-        # see which functions is first
-        first_routine = functions_called_once_per_step[0]
-
-    print("First called routine: ", function_names[unique_function_ids.tolist().index(first_routine)])
-    # Find number of nemo_proc_number
-    nemo_proc = cpu_ids[function_ids == first_routine]
-    nemo_proc = np.unique(nemo_proc)
-    nemo_proc_number = nemo_proc.shape[0]
-
-    nemo_proc_min = min(nemo_proc)
-    nemo_proc_max = max(nemo_proc)
-
-    print("Actual n_proc", nemo_proc_number, "with ", time_steps, "time steps")
-
-    # Find the index of the fastest step
-    time_step = np.ones([nemo_proc_number, time_steps])
-
-    ts_min_index = np.zeros(nemo_proc_number, dtype='int')
-    ts_max_index = np.zeros(nemo_proc_number, dtype='int')
-
-    ts_time = np.zeros([nemo_proc_number, time_steps])
-    start = clock_time.time()
-    # For each processor
-    for index, proc in enumerate(nemo_proc):
-
-        # Get the starting time of all time-step
-        ts_time[index] = time[(cpu_ids == proc) & (function_ids == first_routine)]
-
-        # Compute the duration of each ts
-        ts_duration = np.diff(ts_time[index])
-
-        # Index of the shortest ts
-        ts_min_index[index] = np.argmin(ts_duration)
-
-        # Index of the largest ts
-        ts_max_index[index] = np.argmax(ts_duration[1:-1]) + 1
-
-    # Evaluate the most common index for best ts
-    counts = np.bincount(ts_min_index)
-    best_ts_index = np.argmax(counts)
-
-    # Evaluate the most common index for worst ts
-    counts = np.bincount(ts_max_index)
-    worst_ts_index = np.argmax(counts)
-
-    print("for finding the index of the slowest / fastest step: ", worst_ts_index, "/", best_ts_index)
-    end = clock_time.time()
-    print(end - start)
-
-    # Find the start and the end of the best step
-    best_ts_start = min(ts_time[:, best_ts_index])
-    best_ts_end = max(ts_time[:, best_ts_index + 1])
-
-    # Find the start and the end of the best step
-    worst_ts_start = min(ts_time[:, worst_ts_index])
-    worst_ts_end = max(ts_time[:, worst_ts_index + 1])
-
-    print("Worst / best time step's duration: ", worst_ts_end - worst_ts_start, best_ts_end - best_ts_start)
-
-    # Open the xml template
-    tree = ET.parse(template_path)
-
-    cutter = tree.find('cutter')
-    for tasks in tree.iter('tasks'):
-        tasks.text = str(nemo_proc_min) + "-" + str(nemo_proc_max)
-    for minimum_time in tree.iter('minimum_time'):
-        minimum_time.text = str(best_ts_start - 1000)
-    for maximum_time in tree.iter('maximum_time'):
-        maximum_time.text = str(best_ts_end + 1000)
-
-    # Create paramedir cutter file
-    tree.write('best_time_cutter.xml')
-    for minimum_time in tree.iter('minimum_time'):
-        minimum_time.text = str(worst_ts_start - 1000)
-    for maximum_time in tree.iter('maximum_time'):
-        maximum_time.text = str(worst_ts_end + 1000)
-
-    # Create paramedir cutter file
-    tree.write('worst_time_cutter.xml')
-
-    return unique_function_ids.tolist()
-
-
-if __name__ == "__main__":
-    # Get files from command line
-    args = get_command_line_arguments()
-
-    tool_path = args.tool_path
-    input_data = args.input_data
-    function_file = args.function_file
-    ts_number = args.ts_number
-
-    unique_functions = cut_time(tool_path, input_data, function_file, ts_number)
-    # unique_functions = [6, 33]
-    save_function_names(unique_functions, function_file)
diff --git a/src/magiccut/magicCut b/src/magiccut/magicCut
deleted file mode 100755
index 9d0b6aa..0000000
--- a/src/magiccut/magicCut
+++ /dev/null
@@ -1,64 +0,0 @@
-#!/bin/bash
- 
-# Get inputs arg
-if [[ $# -lt 2 ]]
-then
-  echo $0 "expects trace and number of timesteps as input"
-  echo "abort"
-  exit 1
-fi
-
-# trace file to cut
-trace_file=$1
-# Number of timesteps
-time_steps=$2
-
-if [[ ! -e  ${trace_file} ]]
-then
-  echo "The specified trace does not exist: "${trace_file}
-  echo "Abort"
-  exit 1
-fi
-trace_file=`readlink -f ${trace_file}`
-pcf_trace_file=${trace_file/.prv/.pcf}
-trace_folder=${trace_file%/*}
-
-tool_path=`readlink -f $0`
-tool_path=${tool_path//'/magicCut'}
-
-
-trace_base_name=${trace_file//.exe.prv.gz}
-trace_base_name=${trace_base_name//.exe.prv}
-trace_base_name=${trace_base_name//.prv.gz}
-trace_base_name=${trace_base_name//.prv}
-
-# grep through prv file if functions are there
-func_check=`grep -m 1 60000019 ${pcf_trace_file} | wc -l`
-# Stores the list of function and extrae ids
-begin_line_number=`awk '/60000019    User function/ {print FNR}' ${pcf_trace_file}`
-begin_line_number=$((begin_line_number+2))
-end_line_number=`tail -n +${begin_line_number}  ${pcf_trace_file} | grep -nm 1  EVENT_TYPE | awk -F: '{print $1}'`
-end_line_number=$((begin_line_number+end_line_number-2))
-
-# removes also the blank lines at the end
-sed -n "${begin_line_number},${end_line_number}p" ${pcf_trace_file}| awk '{print $1, $2}' | awk NF > FUNCTION_ID_NAMES.txt
-
-if [[ ${func_check} -gt 0 ]]
-then
-  CPU_T_ID=${trace_folder}/CPU_T_ID.txt
-  cat /dev/null > ${CPU_T_ID}
-
-  # Retrieve function's ID
-  echo "Retrieve function's ID"
-  grep  ':60000019:'  ${trace_file}  |\
-  grep -v ':0:'  |\
-  awk -F : '{print $2, $6, $8}' > ${CPU_T_ID}
-  # Finds best time step
-  python ${tool_path}/bin/TraceCutter.py  --input-data ${CPU_T_ID} --ts-number ${time_steps} --function-file FUNCTION_ID_NAMES.txt
-  #rm ${CPU_T_ID}
-  echo "start paramedir cutter"
-  time paramedir -c best_time_cutter.xml ${trace_file} -o ${trace_base_name}.best_cut.prv
-else
-  echo -e "Functions must be present in the trace for the script to work.\nAborting ... "
-  exit 1
-fi
diff --git a/src/magiccut/templates/cutter_template.xml b/src/magiccut/templates/cutter_template.xml
deleted file mode 100755
index 3394112..0000000
--- a/src/magiccut/templates/cutter_template.xml
+++ /dev/null
@@ -1,23 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!-- *********************************************************************** -->
-<!--                    PARAVER TRACE CUTTER CONFIGURATION                   -->
-<!--                             PERFORMANCE TOOLS                           -->
-<!--  Barcelona Supercomputing Center - Centro Nacional de Supercomputacion  -->
-<!-- *********************************************************************** -->
-
-<config>
-  <!-- CUTTER OPTIONS -->
-  <cutter>
-    <tasks>1-256</tasks>
-    <max_trace_size>0</max_trace_size>
-    <by_time>1</by_time>
-    <minimum_time>%START%</minimum_time>
-    <maximum_time>%END%</maximum_time>
-    <minimum_time_percentage>0</minimum_time_percentage>
-    <maximum_time_percentage>100</maximum_time_percentage>
-    <original_time>0</original_time>
-    <break_states>1</break_states>
-    <remove_first_states>0</remove_first_states>
-    <remove_last_states>0</remove_last_states>
-  </cutter>
-</config>
-- 
GitLab


From 1236b30013b55a33cbb72ac9abbc493ec9cf272c Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 16:08:46 +0200
Subject: [PATCH 19/40] Now the run of Nemo is done in Run_NEMO and input data
 path added to config file

---
 README.md           |  4 ++-
 perf_metrics.config |  6 ++--
 src/functions.bash  | 88 ++++++++++++++++++++++++++++-----------------
 3 files changed, 62 insertions(+), 36 deletions(-)

diff --git a/README.md b/README.md
index 1438ef3..58941d3 100644
--- a/README.md
+++ b/README.md
@@ -1,4 +1,5 @@
 # Nemo modelfactors
+The project was developed tested using NEMO 4.2 version.
 
 This project is intended to compute important performance metrics for a NEMO run.
 
@@ -25,10 +26,11 @@ Here the list of the modules that need to be loaded before the script execution.
 
 # Usage
 
-* Copy all the content of this folder into the folder with the input data for NEMO.
+* Clone this repository wherever you please.
 * Edit the file perf_metrics.config and replace the parameters values with the suited information. 
 * MINIMUM CHANGES perf_metrics.config :
 	* Nemo_path, change the value to the path were NEMO is installed in your machine.
+	* Nemo_input_data, change the value to the path were the input data for the configuration is downloaded.
 	* Compilation_arch, replace the value with the name of the arch file that you use to compile NEMO.
 	* Modules, change the value to suit the name of the modules you need to load.
 	* Jobs_scheduler, replace the value with the name of the scheduler installed in your machine (currently supports slurm, lsf and torque)
diff --git a/perf_metrics.config b/perf_metrics.config
index 37374c5..575f178 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -3,11 +3,13 @@
 
 #################################################################################
 
-# Nemo_path:  Relative path to nemo installation folder containing the cfgs and arch dirs
+# Nemo_path: Path to nemo installation folder containing the cfgs and arch dirs.
+# Nemo_input_data: Path to the input data needed to run the nemo cfg.
 # Nemo_cores: List of nºcores used for executing Nemo, ( 4 48 ) makes the script execute and 
 # get Nemo traces with 4 and 48 cores. 2 different nºcores are needed to obtain scalability data. 
 
-Nemo_path="../NEMO"
+Nemo_path="../NEMO/"
+Nemo_input_data="../DATA/ORCA2_ICE_v4.2.0/"
 Nemo_cores=( 4 24 48 96 192) 
 
 # Jobs_n_cores: nºcores used for other jobs like compiling nemo. 
diff --git a/src/functions.bash b/src/functions.bash
index 144c860..eb5c5bd 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -40,6 +40,8 @@ Job_completed()
 
 Compile_extrae()
 {
+  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
+
   #Get flag lines
 
   line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
@@ -133,10 +135,10 @@ Compile_extrae()
   fi
 
   #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" || echo "Error original dir doesn't exist" exit
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
-
+  cd "$dir" ||( echo "Error original dir doesn't exist"; exit 1 )
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* Run_NEMO
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo Run_NEMO
+  cd Run_NEMO||( echo "Error Run_NEMO folder doesn't exists";  exit 1 )
 }
 
 #Check if Nemo is compiled for using Gprof
@@ -144,6 +146,8 @@ Compile_extrae()
 Compile_gprof()
 {
 
+  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
+
   if [ "$compile" == true ]; then
     echo 'compile parameter is inicialized true'
   fi
@@ -216,24 +220,27 @@ Compile_gprof()
     echo
   fi
 
-  #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" || echo "Error original dir doesn't exist" exit
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* .
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo .
+
+   
+    
+  #Copy all the EXP00 data in RUN_NEMO folder but don't overwrite the namelist, just the executable.
+  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* Run_NEMO
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo Run_NEMO
   
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' Run_NEMO/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
   #Solving NEMO input file common errors
 
-  if test -f "weights_core_orca2_bicubic_noc.nc"; then
-    mv weights_core_orca2_bicubic_noc.nc weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
+  if test -f "Run_NEMO/weights_core_orca2_bicubic_noc.nc"; then
+    mv Run_NEMO/weights_core_orca2_bicubic_noc.nc Run_NEMO/weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
   fi
 
   if test -f "weights_core_orca2_bilinear_noc.nc"; then 
-    mv weights_core_orca2_bilinear_noc.nc weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
+    mv Run_NEMO/weights_core_orca2_bilinear_noc.nc Run_NEMO/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
   
 }
@@ -245,7 +252,8 @@ Compile_gprof()
 
 Init()
 {
-  Nemo_path="${Nemo_path:-"."}"
+  Nemo_path="${Nemo_path:-"./"}"
+  Nemo_input_data="${Nemo_input_data=:-"./"}"
   Nemo_cores="${Nemo_cores:-( 48 )}"
   Jobs_n_cores="${Jobs_n_cores:-48}"
   Jobs_scheduler="${Jobs_scheduler:-"slurm"}"
@@ -273,6 +281,21 @@ Test_arguments()
     echo
     exit 1
   fi
+
+
+   # Is Nemo data path correct?
+  if ! test -d "${Nemo_input_data}"; then
+    echo "Nemo input data path: ${Nemo_input_data} is not found"
+    echo
+    exit 1
+  
+  else
+    if ! test -d "Run_NEMO"; then
+      mkdir Run_NEMO
+    fi
+    cp -P "${Nemo_input_data}"* Run_NEMO
+  fi
+
   #Nemo_cores is array?
   if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
     echo "Error Nemo_cores has to be a bash array like ( 4 24 48 )"
@@ -357,25 +380,22 @@ Test_arguments()
 Gprof_functions()
 {
 
-  
+  cd Run_NEMO||(echo "Error Run_NEMO folder doesn't exists";  exit 1)
   #Generating function list in case of missing
   if ! test -f "extrae_functions.txt"; then
 
     Compile_gprof
-    
-    
     #Changing iterations, big traces generate problems.
     sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
-
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
-    python3 ./src/Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
+    python3 ./../src/Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
     
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed look at run.err and ocean.output for more info"
+      echo "Nemo execution failed look at Run_NEMO/run.err and Run_NEMO/ocean.output for more info"
       echo "Remember that the namelist files copied are the default ones, change theme in order to fit with the input files in the dir " 
       echo
       exit 1
@@ -385,11 +405,11 @@ Gprof_functions()
     fi
     echo "Gthrottling functions ..."
     echo
-    python3 ./src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./src/gthrottling.sh nemo" 
+    python3 ./../src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/gthrottling.sh nemo" 
     state3=$("$job" --wait gthrottling."$Jobs_scheduler")
     Job_completed "$state3"
     if [ $Completed == false ]; then
-      echo "Error listing functions, look at gthrottling.err for more info"
+      echo "Error listing functions, look at Run_NEMO/gthrottling.err for more info"
       echo
       exit 1
     else
@@ -401,7 +421,7 @@ Gprof_functions()
     
 
   else
-    echo "Functions already listed, file extrae_functions.txt does exist"
+    echo "Functions already listed, file Run_NEMO/extrae_functions.txt does exist"
     echo
     
   fi
@@ -417,20 +437,20 @@ Get_trace()
 Compile_extrae
 
 # Run nemo with extrae
-  ./src/extraf.sh  nemo extrae_functions.txt
-  sed -i "s|list=.*|list=\"${dir}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" src/extrae.xml
+  ./../src/extraf.sh  nemo extrae_functions.txt
+  sed -i "s|list=.*|list=\"${dir}/Run_NEMO/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" ../src/extrae.xml
   for core in "${Nemo_cores[@]}" 
   
   do
     
     echo "Creating trace with $core cores..."
     echo
-    python3 ./src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./src/trace.sh ./nemo" 
+    python3 ./../src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./../src/trace.sh ./nemo" 
     
     state4=$("$job" --wait run_extrae."$Jobs_scheduler")
     Job_completed "$state4"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed, no traces files generated more info inside run_extrae.err"
+      echo "Nemo execution failed, no traces files generated more info inside Run_NEMO/run_extrae.err"
       echo 
       exit 1
     fi
@@ -439,21 +459,23 @@ Compile_extrae
     mv nemo.row nemo_"$core".row	
     echo "Cutting best iteration"
     echo
-    ./src/magiccut/magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
+    ./../src/magiccut/magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
-      echo "Cut failed, look at cut_$core.out for more info." 
+      echo "Cut failed, look at Run_NEMO/cut_$core.out for more info." 
       echo
       exit 1
     fi
     echo
     # Creating folder
-    if ! test -d "Metrics"; then
-      mkdir Metrics
+    
+    if ! test -d "../Metrics"; then
+      mkdir ../Metrics
     fi
+    cp nemo_"$core".best_cut.* ../Metrics
 
-    cp nemo_"$core".best_cut.* Metrics
     
- done
+    
+  done
 
 }
 
@@ -461,7 +483,7 @@ Create_metrics()
 {
   
   
-  
+  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
   # Create performance metrics
   echo "Creating metrics and storing theme in Metrics folder"
   echo
-- 
GitLab


From 75df6af1b99ae70022d188cf876ac3961d1ea413 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 12 Sep 2022 16:25:44 +0200
Subject: [PATCH 20/40] Fixed mistake

---
 src/functions.bash | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index eb5c5bd..7d7cb1d 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -136,6 +136,7 @@ Compile_extrae()
 
   #Copy all the EXP00 data but don't overwrite namelist just the executable
   cd "$dir" ||( echo "Error original dir doesn't exist"; exit 1 )
+  echow ""
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* Run_NEMO
   cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo Run_NEMO
   cd Run_NEMO||( echo "Error Run_NEMO folder doesn't exists";  exit 1 )
@@ -221,10 +222,8 @@ Compile_gprof()
   fi
 
 
-   
-    
   #Copy all the EXP00 data in RUN_NEMO folder but don't overwrite the namelist, just the executable.
-  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
+ 
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* Run_NEMO
   cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo Run_NEMO
   
@@ -243,6 +242,8 @@ Compile_gprof()
     mv Run_NEMO/weights_core_orca2_bilinear_noc.nc Run_NEMO/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
   
+    cd Run_NEMO||(echo "Error Run_NEMO folder doesn't exists";  exit 1)
+
 }
 
 
-- 
GitLab


From 660ad49185683dc8bf4809d7f3e1d51551edb9eb Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 13 Sep 2022 09:15:17 +0200
Subject: [PATCH 21/40] Added cores_per_node to config

---
 perf_metrics.config |  4 +++-
 src/Job_Creator.py  | 14 +++++++++-----
 src/functions.bash  | 13 +++++++------
 3 files changed, 19 insertions(+), 12 deletions(-)

diff --git a/perf_metrics.config b/perf_metrics.config
index 575f178..39125fa 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -13,11 +13,13 @@ Nemo_input_data="../DATA/ORCA2_ICE_v4.2.0/"
 Nemo_cores=( 4 24 48 96 192) 
 
 # Jobs_n_cores: nºcores used for other jobs like compiling nemo. 
+# Jobs_cores_per_node: define the number of cores per node.
 # Jobs_scheduler: Available (slurm/lsf/torque).
 # Jobs_time: Max duration of the job in min.
 # Jobs_queue: Queue used.
 
-Jobs_n_cores=96  
+Jobs_n_cores=96 
+Jobs_cores_per_node=0
 Jobs_scheduler="slurm"
 Jobs_time=60
 Jobs_queue=debug
diff --git a/src/Job_Creator.py b/src/Job_Creator.py
index dc70f90..97cc727 100644
--- a/src/Job_Creator.py
+++ b/src/Job_Creator.py
@@ -22,7 +22,7 @@ def get_command_line_arguments():
                         help="Set slurm time, in minutes")
     parser.add_argument("--set-core", default=1, type=int,
                         help="Set number of cores to be used for the job")
-    parser.add_argument("--set-core-per-node", default=48, type=int,
+    parser.add_argument("--set-core-per-node", default=0, type=int,
                         help="Set number of cores to be used for the job")
     parser.add_argument("-j", "--job-name", default=None,
                         help="Name of the job you want to create or modify")
@@ -65,7 +65,7 @@ def create_job_slurm(args):
 
     if cores is not None:
         file.append("#SBATCH --ntasks " + str(cores) + "\n")
-    if cores_per_node is not None:
+    if cores_per_node is not None and not 0:
         file.append("#SBATCH --ntasks-per-node " + str(cores_per_node) + "\n")
     if time is not None and not 0:
         file.append("#SBATCH --time " + str(time) + "\n")
@@ -125,9 +125,13 @@ def create_job_torque(args):
     cores_per_node = args.set_core_per_node
     queue = args.set_queue
     workload = args.set_workload
-    nodes = (cores//cores_per_node)+1
-    hours = time // 60
-    minutes = time % 60
+    if cores_per_node is not None:
+        nodes = (cores//cores_per_node)+1
+    
+    if time is not None:
+        hours = time // 60
+        minutes = time % 60
+        
     file = ["#!/bin/bash \n",
             "############################################################################### \n",
             "#PBS -o "+str(name)+".out \n#PBS -e "+str(name)+".err \n"
diff --git a/src/functions.bash b/src/functions.bash
index 7d7cb1d..e3832aa 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -115,7 +115,7 @@ Compile_extrae()
     echo "Output of the compilation in compile.err and compile.out"
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
     state1=$("$job" --wait compile."$Jobs_scheduler")
     echo
@@ -202,7 +202,7 @@ Compile_gprof()
     echo "Output of the compilation in compile.err and compile.out"
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
-    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
     state1=$("$job" --wait compile."$Jobs_scheduler")
     echo
@@ -257,6 +257,7 @@ Init()
   Nemo_input_data="${Nemo_input_data=:-"./"}"
   Nemo_cores="${Nemo_cores:-( 48 )}"
   Jobs_n_cores="${Jobs_n_cores:-48}"
+  Jobs_cores_per_node="${Jobs_cores_per_node:-0}"
   Jobs_scheduler="${Jobs_scheduler:-"slurm"}"
   time="${Jobs_time:-0}"
   queue="${Jobs_queue:-""}"
@@ -391,7 +392,7 @@ Gprof_functions()
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
-    python3 ./../src/Job_Creator.py -f "run" -j "run" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
+    python3 ./../src/Job_Creator.py -f "run" -j "run" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
     
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
@@ -406,7 +407,7 @@ Gprof_functions()
     fi
     echo "Gthrottling functions ..."
     echo
-    python3 ./../src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/gthrottling.sh nemo" 
+    python3 ./../src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/gthrottling.sh nemo" 
     state3=$("$job" --wait gthrottling."$Jobs_scheduler")
     Job_completed "$state3"
     if [ $Completed == false ]; then
@@ -446,7 +447,7 @@ Compile_extrae
     
     echo "Creating trace with $core cores..."
     echo
-    python3 ./../src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./../src/trace.sh ./nemo" 
+    python3 ./../src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./../src/trace.sh ./nemo" 
     
     state4=$("$job" --wait run_extrae."$Jobs_scheduler")
     Job_completed "$state4"
@@ -488,7 +489,7 @@ Create_metrics()
   # Create performance metrics
   echo "Creating metrics and storing theme in Metrics folder"
   echo
-  python3 ./src/Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/modelfactors.py -ms 100000 *" 
+  python3 ./src/Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/modelfactors.py -ms 100000 *" 
   mv analysis."$Jobs_scheduler" Metrics
   cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
   state5=$("$job" --wait analysis."$Jobs_scheduler")
-- 
GitLab


From 1b93fa7175e234ebe686f78072af0ae823f457ba Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 13 Sep 2022 09:30:05 +0200
Subject: [PATCH 22/40] Fixed mistakes

---
 src/functions.bash | 1 -
 src/trace.sh       | 2 +-
 2 files changed, 1 insertion(+), 2 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index e3832aa..8564d5e 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -136,7 +136,6 @@ Compile_extrae()
 
   #Copy all the EXP00 data but don't overwrite namelist just the executable
   cd "$dir" ||( echo "Error original dir doesn't exist"; exit 1 )
-  echow ""
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* Run_NEMO
   cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo Run_NEMO
   cd Run_NEMO||( echo "Error Run_NEMO folder doesn't exists";  exit 1 )
diff --git a/src/trace.sh b/src/trace.sh
index 12a53dc..f81f6d5 100755
--- a/src/trace.sh
+++ b/src/trace.sh
@@ -1,7 +1,7 @@
 #!/bin/sh
 # Configure Extrae
 
-export EXTRAE_CONFIG_FILE=./src/extrae.xml
+export EXTRAE_CONFIG_FILE=./../src/extrae.xml
 # Load the tracing library (choose C/Fortran)
 #export LD_PRELOAD=${EXTRAE_HOME}/lib/libmpitrace.so
 export EXTRAE_SKIP_AUTO_LIBRARY_INITIALIZE=1
-- 
GitLab


From 52ba0e2bb4e5a5c86039860ba1112ee51dcbd33e Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 13 Sep 2022 12:11:11 +0200
Subject: [PATCH 23/40] Fixed some errors related with absolute path

---
 perf_metrics.config | 40 +++++++++++++++++-----------------
 src/Job_Creator.py  |  8 +++----
 src/functions.bash  | 52 +++++++++++++++++++++++++--------------------
 3 files changed, 54 insertions(+), 46 deletions(-)

diff --git a/perf_metrics.config b/perf_metrics.config
index 39125fa..0d14865 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -3,41 +3,43 @@
 
 #################################################################################
 
-# Nemo_path: Path to nemo installation folder containing the cfgs and arch dirs.
-# Nemo_input_data: Path to the input data needed to run the nemo cfg.
-# Nemo_cores: List of nºcores used for executing Nemo, ( 4 48 ) makes the script execute and 
+# Nemo_path (string) : Path to nemo installation folder containing the cfgs and arch dirs.
+# Nemo_input_data (string): Path to the input data needed to run the nemo cfg.
+# Nemo_run (string): Path where the folder Run_NEMO will be created.
+# Nemo_cores (array): List of nºcores used for executing Nemo, ( 4 48 ) makes the script execute and 
 # get Nemo traces with 4 and 48 cores. 2 different nºcores are needed to obtain scalability data. 
 
-Nemo_path="../NEMO/"
-Nemo_input_data="../DATA/ORCA2_ICE_v4.2.0/"
+Nemo_path="Nemo_installation_path"
+Nemo_input_data="Nemo_input_data_path"
+Nemo_run="."
 Nemo_cores=( 4 24 48 96 192) 
 
-# Jobs_n_cores: nºcores used for other jobs like compiling nemo. 
-# Jobs_cores_per_node: define the number of cores per node.
-# Jobs_scheduler: Available (slurm/lsf/torque).
-# Jobs_time: Max duration of the job in min.
-# Jobs_queue: Queue used.
+# Jobs_n_cores (integer): nºcores used for other jobs like compiling nemo. 
+# Jobs_cores_per_node (integer): define the number of cores per node.
+# Jobs_scheduler (string): Available (slurm/lsf/torque).
+# Jobs_time (integer): Max duration of the job in min.
+# Jobs_queue (string): Queue used.
 
-Jobs_n_cores=96 
+Jobs_n_cores= 4 
 Jobs_cores_per_node=0
 Jobs_scheduler="slurm"
 Jobs_time=60
-Jobs_queue=debug
+Jobs_queue="debug"
 
-# Compilation_compile:  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
-# Compilation_ref:  Reference configuration.
-# Compilation_arch: Architecture used (without the -arch sufix and the .fcm).
-# Compilation_name: Name of the new configutation (Important to not be an existing one).
-# Compilation_sub:  Add or remove subcomponents.
+# Compilation_compile (string):  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
+# Compilation_ref (string):  Reference configuration.
+# Compilation_arch (string): Architecture used (without the -arch sufix and the .fcm).
+# Compilation_name (string): Name of the new configutation (Important to not be an existing one).
+# Compilation_sub (string):  Add or remove subcomponents.
 
 
 Compilation_compile="false" 
 Compilation_ref="ORCA2_ICE_PISCES" 
-Compilation_arch="Your-arch-file" 
+Compilation_arch="Your-arch-file"
 Compilation_name="ORCA2_EXTRAE" 
 Compilation_sub="OCE del_key 'key_si3 key_top'" 
     
-# List of modules loaded. 
+# Modules (string): List of modules loaded.
 # Required:
 # - Perl interpreter
 # - Fortran compiler (ifort, gfortran, pgfortran, ftn, …) 
diff --git a/src/Job_Creator.py b/src/Job_Creator.py
index 97cc727..94180fd 100644
--- a/src/Job_Creator.py
+++ b/src/Job_Creator.py
@@ -65,9 +65,9 @@ def create_job_slurm(args):
 
     if cores is not None:
         file.append("#SBATCH --ntasks " + str(cores) + "\n")
-    if cores_per_node is not None and not 0:
+    if cores_per_node is not None and cores_per_node != 0:
         file.append("#SBATCH --ntasks-per-node " + str(cores_per_node) + "\n")
-    if time is not None and not 0:
+    if time is not None and time!= 0:
         file.append("#SBATCH --time " + str(time) + "\n")
     if name is not None:
         file.append("#SBATCH -J " + name + "\n")
@@ -100,7 +100,7 @@ def create_job_lsf(args):
 
     if cores is not None:
         file.append("#BSUB -n " + str(cores) + "\n")
-    if time is not None and not 0:
+    if time is not None and time!= 0:
         file.append("#BSUB -W " + str(time) + "\n")
     if name is not None:
         file.append("#BSUB-J " + name + "\n")
@@ -139,7 +139,7 @@ def create_job_torque(args):
 
     if cores is not None:
         file.append("#PBS -l nodes" + str(nodes) + ":ppn=" + str(cores) + "\n")
-    if time is not None and not 0:
+    if time is not None and time != 0:
         file.append("#PBS -l cput=" + str(hours) + ":"+str(minutes)+ ":00\n")
     if name is not None:
         file.append("#PBS -N " + name + "\n")
diff --git a/src/functions.bash b/src/functions.bash
index 8564d5e..3afa808 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -115,7 +115,7 @@ Compile_extrae()
     echo "Output of the compilation in compile.err and compile.out"
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 src/./Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
     state1=$("$job" --wait compile."$Jobs_scheduler")
     echo
@@ -135,9 +135,10 @@ Compile_extrae()
   fi
 
   #Copy all the EXP00 data but don't overwrite namelist just the executable
-  cd "$dir" ||( echo "Error original dir doesn't exist"; exit 1 )
+  
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* Run_NEMO
   cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo Run_NEMO
+
   cd Run_NEMO||( echo "Error Run_NEMO folder doesn't exists";  exit 1 )
 }
 
@@ -201,7 +202,7 @@ Compile_gprof()
     echo "Output of the compilation in compile.err and compile.out"
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
-    python3 ./src/Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 src/./Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
     state1=$("$job" --wait compile."$Jobs_scheduler")
     echo
@@ -278,7 +279,7 @@ Test_arguments()
 {
   # Nemo path correct?
   if ! test -d "${Nemo_path}"; then
-    echo "Nemo relative path: ${Nemo_path} is not found"
+    echo "Nemo relative path: ${Nemo_path} is not found, modify it in perf_metrics.config with the correct path"
     echo
     exit 1
   fi
@@ -286,7 +287,7 @@ Test_arguments()
 
    # Is Nemo data path correct?
   if ! test -d "${Nemo_input_data}"; then
-    echo "Nemo input data path: ${Nemo_input_data} is not found"
+    echo "Nemo input data path: ${Nemo_input_data} is not found,  modify it in perf_metrics.config with the correct path"
     echo
     exit 1
   
@@ -294,12 +295,12 @@ Test_arguments()
     if ! test -d "Run_NEMO"; then
       mkdir Run_NEMO
     fi
-    cp -P "${Nemo_input_data}"* Run_NEMO
+    cp -P "${Nemo_input_data}"/* Run_NEMO
   fi
 
   #Nemo_cores is array?
   if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
-    echo "Error Nemo_cores has to be a bash array like ( 4 24 48 )"
+    echo "Error Nemo_cores has to be a bash array like ( 4 24 48 ), modify it in perf_metrics.config with a valid value"
     echo
     exit 1
   fi
@@ -312,7 +313,7 @@ Test_arguments()
   do
 
     if ! [[ $core =~ $re ]] ; then
-      echo "Error Nemo_cores has to contain integer values"
+      echo "Error Nemo_cores has to contain integer values,  modify it in perf_metrics.config with a valid value"
       echo
       exit 1
     fi
@@ -320,31 +321,31 @@ Test_arguments()
 
   # cfg exists?
   if ! test -d "${Nemo_path}/cfgs/${cfg}"; then
-    echo "configuration: ${cfg} doesn't exists in ${Nemo_path}/cfgs dir"
+    echo "configuration: ${cfg} doesn't exists in ${Nemo_path}/cfgs dir, modify it in perf_metrics.config with a valid cfg"
     echo
     exit 1
   fi
   # arch exists?
   if ! test -f "${Nemo_path}/arch/arch-${arch}.fcm"; then
-    echo "architecture: arch-${arch}.fcm doesn't exists in ${Nemo_path}/arch dir"
+    echo "architecture: arch-${arch}.fcm doesn't exists in ${Nemo_path}/arch dir, modify it in perf_metrics.config with a valid arch"
     echo
     exit 1
   fi
   # scheduler correct?
   if [ "$Jobs_scheduler" != "slurm" ] && [ "$Jobs_scheduler" != "lsf" ] && [ "$Jobs_scheduler" != "torque" ]; then
-    echo "$Jobs_scheduler is not a valid scheduler"
+    echo "$Jobs_scheduler is not a valid scheduler, modify it in perf_metrics.config with a valid scheduler (slurm/lsf/torque)"
     echo
     exit 1
   fi
   #Nemo_cores is array?
   if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
-    echo "Error, variable Nemo_cores has to be an array"
+    echo "Error, variable Nemo_cores has to be an array, modify it in perf_metrics.config with a proper value"
     echo
     exit 1
   fi
   #Modules available
   if ! module load $Modules;then
-    echo "Error loading modules aborting"
+    echo "Error loading modules aborting, modify the modules loaded in perf_metrics.config"
     echo
     exit 1
   fi
@@ -357,7 +358,7 @@ Test_arguments()
   else
     sed -i 's|home=.*|home="'"$EXTRAE_HOME"'"|g' src/extrae.xml
   fi
-
+  
   # Adding -d to variable if not empty
   if [ -n "$comp_cfg" ]; then
     comp_cfg="-d $comp_cfg"
@@ -372,6 +373,10 @@ Test_arguments()
     job="qsub"
   fi
 
+  # Changing trace.sh reference to extrae.xml
+
+  sed -i "s|export EXTRAE_CONFIG_FILE=.*|export EXTRAE_CONFIG_FILE=$dir/src/./extrae.xml|g" src/trace.sh
+  
   
 }
 
@@ -382,6 +387,7 @@ Gprof_functions()
 {
 
   cd Run_NEMO||(echo "Error Run_NEMO folder doesn't exists";  exit 1)
+  
   #Generating function list in case of missing
   if ! test -f "extrae_functions.txt"; then
 
@@ -391,7 +397,7 @@ Gprof_functions()
     rm gmon* 2> /dev/null
     echo "Runing Nemo with 2 cores to obtain function data..."
     echo
-    python3 ./../src/Job_Creator.py -f "run" -j "run" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
+    python3 "$dir"/src/./Job_Creator.py -f "run" -j "run" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
     
     state2=$("$job" --wait run."$Jobs_scheduler")
     Job_completed "$state2"
@@ -406,7 +412,7 @@ Gprof_functions()
     fi
     echo "Gthrottling functions ..."
     echo
-    python3 ./../src/Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/gthrottling.sh nemo" 
+    python3 "$dir"/src/./Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./gthrottling.sh nemo" 
     state3=$("$job" --wait gthrottling."$Jobs_scheduler")
     Job_completed "$state3"
     if [ $Completed == false ]; then
@@ -438,7 +444,7 @@ Get_trace()
 Compile_extrae
 
 # Run nemo with extrae
-  ./../src/extraf.sh  nemo extrae_functions.txt
+  "$dir"/src/./extraf.sh  nemo extrae_functions.txt
   sed -i "s|list=.*|list=\"${dir}/Run_NEMO/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" ../src/extrae.xml
   for core in "${Nemo_cores[@]}" 
   
@@ -446,7 +452,7 @@ Compile_extrae
     
     echo "Creating trace with $core cores..."
     echo
-    python3 ./../src/Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core ./../src/trace.sh ./nemo" 
+    python3 "$dir"/src/./Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
     
     state4=$("$job" --wait run_extrae."$Jobs_scheduler")
     Job_completed "$state4"
@@ -469,10 +475,10 @@ Compile_extrae
     echo
     # Creating folder
     
-    if ! test -d "../Metrics"; then
-      mkdir ../Metrics
+    if ! test -d "$dir/Metrics"; then
+      mkdir "$dir"/Metrics
     fi
-    cp nemo_"$core".best_cut.* ../Metrics
+    cp nemo_"$core".best_cut.* "$dir"/Metrics
 
     
     
@@ -488,7 +494,7 @@ Create_metrics()
   # Create performance metrics
   echo "Creating metrics and storing theme in Metrics folder"
   echo
-  python3 ./src/Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "./../src/modelfactors.py -ms 100000 *" 
+  python3 src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
   mv analysis."$Jobs_scheduler" Metrics
   cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
   state5=$("$job" --wait analysis."$Jobs_scheduler")
@@ -506,4 +512,4 @@ Create_metrics()
   echo "------------------------------------------------------------------------------"
   echo "------------------------------------------------------------------------------"
   echo
-}
\ No newline at end of file
+}
-- 
GitLab


From 53249f7c805335985efc1833c2147919c4aa0fc0 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 13 Sep 2022 12:32:03 +0200
Subject: [PATCH 24/40] Now exits if sbatch fails submitting a job

---
 src/functions.bash | 27 +++++++++++++++++++++------
 1 file changed, 21 insertions(+), 6 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index 3afa808..6362da4 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -117,7 +117,11 @@ Compile_extrae()
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
     python3 src/./Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
-    state1=$("$job" --wait compile."$Jobs_scheduler")
+    
+    if ! state1=$("$job" --wait compile."$Jobs_scheduler"); then
+      exit 1:
+    fi
+    
     echo
     Job_completed "$state1"
     if [ $Completed == false ]; then
@@ -204,7 +208,10 @@ Compile_gprof()
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
     python3 src/./Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
-    state1=$("$job" --wait compile."$Jobs_scheduler")
+    if ! state1=$("$job" --wait compile."$Jobs_scheduler"); then
+      exit 1
+    fi
+
     echo
     Job_completed "$state1"
     if [ "$Completed" == false ]; then
@@ -399,7 +406,9 @@ Gprof_functions()
     echo
     python3 "$dir"/src/./Job_Creator.py -f "run" -j "run" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
     
-    state2=$("$job" --wait run."$Jobs_scheduler")
+    if ! state2=$("$job" --wait run."$Jobs_scheduler"); then 
+      exit 1
+    fi
     Job_completed "$state2"
     if [ $Completed == false ]; then
       echo "Nemo execution failed look at Run_NEMO/run.err and Run_NEMO/ocean.output for more info"
@@ -413,7 +422,9 @@ Gprof_functions()
     echo "Gthrottling functions ..."
     echo
     python3 "$dir"/src/./Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./gthrottling.sh nemo" 
-    state3=$("$job" --wait gthrottling."$Jobs_scheduler")
+    if ! state3=$("$job" --wait gthrottling."$Jobs_scheduler"); then
+      exit 1
+    fi
     Job_completed "$state3"
     if [ $Completed == false ]; then
       echo "Error listing functions, look at Run_NEMO/gthrottling.err for more info"
@@ -454,7 +465,9 @@ Compile_extrae
     echo
     python3 "$dir"/src/./Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
     
-    state4=$("$job" --wait run_extrae."$Jobs_scheduler")
+    if ! state4=$("$job" --wait run_extrae."$Jobs_scheduler") ; then
+      exit 1
+    fi
     Job_completed "$state4"
     if [ $Completed == false ]; then
       echo "Nemo execution failed, no traces files generated more info inside Run_NEMO/run_extrae.err"
@@ -497,7 +510,9 @@ Create_metrics()
   python3 src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
   mv analysis."$Jobs_scheduler" Metrics
   cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
-  state5=$("$job" --wait analysis."$Jobs_scheduler")
+  if ! state5=$("$job" --wait analysis."$Jobs_scheduler"); then
+    exit 1
+  fi
   Job_completed "$state5"
   if [ $Completed == false ]; then
     echo "Error, metrics have not generated check Metrics/analysis.err to get more details"
-- 
GitLab


From 490b654fd7e90877083886f9d35a39b531e6212d Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 13 Sep 2022 12:54:28 +0200
Subject: [PATCH 25/40] Logs are now stored in logs dir

---
 src/functions.bash | 27 ++++++++++++++++++++-------
 1 file changed, 20 insertions(+), 7 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index 6362da4..d6f64dd 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -125,12 +125,13 @@ Compile_extrae()
     echo
     Job_completed "$state1"
     if [ $Completed == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile.err"
       echo
       exit 1
     else 
       echo "Nemo compilation successful"
       echo
+      mv compile.* "$dir"/logs
     fi
     
   else
@@ -215,12 +216,13 @@ Compile_gprof()
     echo
     Job_completed "$state1"
     if [ "$Completed" == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in compile.err"
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile.err"
       echo
       exit 1
     else 
       echo "Nemo compilation successful"
       echo
+      mv compile.* "$dir"/logs
     fi
     
   else
@@ -384,6 +386,10 @@ Test_arguments()
 
   sed -i "s|export EXTRAE_CONFIG_FILE=.*|export EXTRAE_CONFIG_FILE=$dir/src/./extrae.xml|g" src/trace.sh
   
+  # Creating logs dir
+   if ! test -d "logs"; then
+      mkdir logs
+   fi
   
 }
 
@@ -411,13 +417,14 @@ Gprof_functions()
     fi
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed look at Run_NEMO/run.err and Run_NEMO/ocean.output for more info"
+      echo "Nemo execution failed look at logs/run.err and Run_NEMO/ocean.output for more info"
       echo "Remember that the namelist files copied are the default ones, change theme in order to fit with the input files in the dir " 
       echo
       exit 1
     else 
       echo "Gprof files generated "
       echo
+      mv run.* "$dir"/logs
     fi
     echo "Gthrottling functions ..."
     echo
@@ -427,12 +434,13 @@ Gprof_functions()
     fi
     Job_completed "$state3"
     if [ $Completed == false ]; then
-      echo "Error listing functions, look at Run_NEMO/gthrottling.err for more info"
+      echo "Error listing functions, look at logs/gthrottling.err for more info"
       echo
       exit 1
     else
       echo "Functions listed correctly"
       echo
+      mv gthrottling.* "$dir"/logs
     fi
 
     
@@ -470,10 +478,13 @@ Compile_extrae
     fi
     Job_completed "$state4"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed, no traces files generated more info inside Run_NEMO/run_extrae.err"
+      echo "Nemo execution failed, no traces files generated more info inside logs/run_extrae.err"
       echo 
       exit 1
     fi
+
+    mv run_extrae.* "$dir"/logs
+
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
     mv nemo.row nemo_"$core".row	
@@ -513,14 +524,16 @@ Create_metrics()
   if ! state5=$("$job" --wait analysis."$Jobs_scheduler"); then
     exit 1
   fi
+  
   Job_completed "$state5"
   if [ $Completed == false ]; then
-    echo "Error, metrics have not generated check Metrics/analysis.err to get more details"
+    echo "Error, metrics have not generated check logs/analysis.err to get more details"
     echo
     exit 1
  
   fi
-  
+  cp analysis.out overview.txt
+  mv analysis.* "$dir"/logs
   echo "------------------------------------------------------------------------------"
   echo "------------------------- Script Completed -----------------------------------"
   echo "----------------------- Data in Metrics folder -------------------------------"
-- 
GitLab


From c5e99533b58f912a678ace1fd5159890e9f0149b Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 13 Sep 2022 15:11:18 +0200
Subject: [PATCH 26/40] Now NEMO run dir can be defined in config

---
 README.md           |  2 +-
 perf_metrics.config |  2 +-
 src/functions.bash  | 65 ++++++++++++++++++++++++++-------------------
 3 files changed, 39 insertions(+), 30 deletions(-)

diff --git a/README.md b/README.md
index 58941d3..abf8159 100644
--- a/README.md
+++ b/README.md
@@ -1,5 +1,5 @@
 # Nemo modelfactors
-The project was developed tested using NEMO 4.2 version.
+The project was developed and tested using NEMO 4.2 version.
 
 This project is intended to compute important performance metrics for a NEMO run.
 
diff --git a/perf_metrics.config b/perf_metrics.config
index 0d14865..86c051c 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -21,7 +21,7 @@ Nemo_cores=( 4 24 48 96 192)
 # Jobs_queue (string): Queue used.
 
 Jobs_n_cores= 4 
-Jobs_cores_per_node=0
+Jobs_cores_per_node=
 Jobs_scheduler="slurm"
 Jobs_time=60
 Jobs_queue="debug"
diff --git a/src/functions.bash b/src/functions.bash
index d6f64dd..ebf0faa 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -141,10 +141,10 @@ Compile_extrae()
 
   #Copy all the EXP00 data but don't overwrite namelist just the executable
   
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* Run_NEMO
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo Run_NEMO
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* "${Nemo_run}"/Run_NEMO
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Nemo_run}"/Run_NEMO
 
-  cd Run_NEMO||( echo "Error Run_NEMO folder doesn't exists";  exit 1 )
+  cd "${Nemo_run}"/Run_NEMO||( echo "Error ${Nemo_run}/Run_NEMO folder doesn't exists";  exit 1 )
 }
 
 #Check if Nemo is compiled for using Gprof
@@ -233,25 +233,25 @@ Compile_gprof()
 
   #Copy all the EXP00 data in RUN_NEMO folder but don't overwrite the namelist, just the executable.
  
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* Run_NEMO
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo Run_NEMO
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* "${Nemo_run}"/Run_NEMO
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo "${Nemo_run}"/Run_NEMO
   
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' Run_NEMO/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Nemo_run}"/Run_NEMO/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
   #Solving NEMO input file common errors
 
-  if test -f "Run_NEMO/weights_core_orca2_bicubic_noc.nc"; then
-    mv Run_NEMO/weights_core_orca2_bicubic_noc.nc Run_NEMO/weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
+  if test -f "${Nemo_run}/Run_NEMO/weights_core_orca2_bicubic_noc.nc"; then
+    mv "${Nemo_run}"/Run_NEMO/weights_core_orca2_bicubic_noc.nc "${Nemo_run}"/Run_NEMO/weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
   fi
 
-  if test -f "weights_core_orca2_bilinear_noc.nc"; then 
-    mv Run_NEMO/weights_core_orca2_bilinear_noc.nc Run_NEMO/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
+  if test -f "${Nemo_run}/Run_NEMO/weights_core_orca2_bilinear_noc.nc"; then 
+    mv "${Nemo_run}"/Run_NEMO/weights_core_orca2_bilinear_noc.nc "${Nemo_run}"/Run_NEMO/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
   
-    cd Run_NEMO||(echo "Error Run_NEMO folder doesn't exists";  exit 1)
+    cd "${Nemo_run}"/Run_NEMO||(echo "Error ${Nemo_run}/Run_NEMO folder doesn't exists";  exit 1)
 
 }
 
@@ -264,6 +264,7 @@ Init()
 {
   Nemo_path="${Nemo_path:-"./"}"
   Nemo_input_data="${Nemo_input_data=:-"./"}"
+  Nemo_run="${Nemo_run=:-"./"}"
   Nemo_cores="${Nemo_cores:-( 48 )}"
   Jobs_n_cores="${Jobs_n_cores:-48}"
   Jobs_cores_per_node="${Jobs_cores_per_node:-0}"
@@ -299,14 +300,21 @@ Test_arguments()
     echo "Nemo input data path: ${Nemo_input_data} is not found,  modify it in perf_metrics.config with the correct path"
     echo
     exit 1
-  
-  else
-    if ! test -d "Run_NEMO"; then
-      mkdir Run_NEMO
-    fi
-    cp -P "${Nemo_input_data}"/* Run_NEMO
+  fi
+   # Is Nemo Run path correct?
+  if ! test -d "${Nemo_run}"; then
+    echo "Nemo run path: ${Nemo_run} is not found,  modify it in perf_metrics.config with the correct path"
+    echo
+    exit 1
   fi
 
+  # Create Run_Nemo dir after comprovations
+  if ! test -d "${Nemo_run}/Run_NEMO"; then
+    mkdir "${Nemo_run}"/Run_NEMO
+  fi
+  cp -P "${Nemo_input_data}"/* "${Nemo_run}"/Run_NEMO
+  
+
   #Nemo_cores is array?
   if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
     echo "Error Nemo_cores has to be a bash array like ( 4 24 48 ), modify it in perf_metrics.config with a valid value"
@@ -387,9 +395,10 @@ Test_arguments()
   sed -i "s|export EXTRAE_CONFIG_FILE=.*|export EXTRAE_CONFIG_FILE=$dir/src/./extrae.xml|g" src/trace.sh
   
   # Creating logs dir
-   if ! test -d "logs"; then
-      mkdir logs
-   fi
+  if ! test -d "logs"; then
+    mkdir logs
+   
+  fi
   
 }
 
@@ -399,7 +408,7 @@ Test_arguments()
 Gprof_functions()
 {
 
-  cd Run_NEMO||(echo "Error Run_NEMO folder doesn't exists";  exit 1)
+  cd "${Nemo_run}"/Run_NEMO||(echo "Error ${Nemo_run}/Run_NEMO folder doesn't exists";  exit 1)
   
   #Generating function list in case of missing
   if ! test -f "extrae_functions.txt"; then
@@ -417,8 +426,8 @@ Gprof_functions()
     fi
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed look at logs/run.err and Run_NEMO/ocean.output for more info"
-      echo "Remember that the namelist files copied are the default ones, change theme in order to fit with the input files in the dir " 
+      echo "Nemo execution failed look at logs/run.err and ${Nemo_run}/Run_NEMO/ocean.output for more info"
+      echo "Remember that the namelist files copied are the default ones, change them in order to fit with the input files in the dir " 
       echo
       exit 1
     else 
@@ -447,7 +456,7 @@ Gprof_functions()
     
 
   else
-    echo "Functions already listed, file Run_NEMO/extrae_functions.txt does exist"
+    echo "Functions already listed, file ${Nemo_run}/Run_NEMO/extrae_functions.txt does exist"
     echo
     
   fi
@@ -464,7 +473,7 @@ Compile_extrae
 
 # Run nemo with extrae
   "$dir"/src/./extraf.sh  nemo extrae_functions.txt
-  sed -i "s|list=.*|list=\"${dir}/Run_NEMO/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" ../src/extrae.xml
+  sed -i "s|list=.*|list=\"${Nemo_run}/Run_NEMO/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
   for core in "${Nemo_cores[@]}" 
   
   do
@@ -490,9 +499,9 @@ Compile_extrae
     mv nemo.row nemo_"$core".row	
     echo "Cutting best iteration"
     echo
-    ./../src/magiccut/magicCut nemo_"${core}".prv "$Nemo_iterations" > cut_"$core".out 2>&1
+    "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "$dir"/logs/cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
-      echo "Cut failed, look at Run_NEMO/cut_$core.out for more info." 
+      echo "Cut failed, look at ${dir}/logs/cut_$core.out for more info." 
       echo
       exit 1
     fi
@@ -516,7 +525,7 @@ Create_metrics()
   
   cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
   # Create performance metrics
-  echo "Creating metrics and storing theme in Metrics folder"
+  echo "Creating metrics and storing them in Metrics folder"
   echo
   python3 src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
   mv analysis."$Jobs_scheduler" Metrics
-- 
GitLab


From fd9d7ae3e9223a437d602b77035c9fb4d4624f36 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Wed, 14 Sep 2022 09:17:03 +0200
Subject: [PATCH 27/40] Now each execution to obtain a trace has logs

---
 src/functions.bash | 55 +++++++++++++++++++++++-----------------------
 1 file changed, 27 insertions(+), 28 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index ebf0faa..37090cb 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -112,28 +112,29 @@ Compile_extrae()
   if [ "$compile" == true ] || [ "$compile_ext" == true ]; then
 
     echo "Compiling Nemo for EXTRAE"
-    echo "Output of the compilation in compile.err and compile.out"
+   
 
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 src/./Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 src/./Job_Creator.py -f "compile_extrae" -j "compile_extrae" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
     
-    if ! state1=$("$job" --wait compile."$Jobs_scheduler"); then
+    if ! state1=$("$job" --wait compile_extrae."$Jobs_scheduler"); then
       exit 1:
     fi
     
     echo
     Job_completed "$state1"
     if [ $Completed == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile.err"
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile_extrae.err"
       echo
       exit 1
     else 
       echo "Nemo compilation successful"
       echo
-      mv compile.* "$dir"/logs
+     
     fi
-    
+    mv compile_extrae.* "$dir"/logs
+
   else
     echo "Compilation not needed"  
     echo
@@ -172,7 +173,7 @@ Compile_gprof()
   if ! echo "${line}"|grep -q "\-g\b"; then
     echo "-g flag not found in arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
     sed -i '/^%FCFLAGS/ s/$/ -g /' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
+    comp_gprof=true
   fi
 
   # If -pg is not there recompilation is requiered and -pg added
@@ -180,51 +181,50 @@ Compile_gprof()
   if ! echo "${line}"|grep -q "\-pg\b"; then
     echo "-pg flag not found in FCFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
     sed -i '/^%FCFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
+    comp_gprof=true
   fi
 
   if ! echo "${line2}"|grep -q "\-pg\b"; then
     echo "-pg flag not found in FPPFLAGS arch-${arch}_GPROF.fcm : editing arch-${arch}_GPROF.fcm "
     sed -i '/^%FPPFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
+    comp_gprof=true
   fi
 
   if ! echo "${line3}"|grep -q "\-pg\b"; then
     echo "-pg flag not found in LDFLAGS arch-${arch}_GPROF.fcm: editing arch-${arch}_GPROF.fcm "
     sed -i '/^%LDFLAGS/ s/$/ -pg/' "${Nemo_path}"/arch/arch-"${arch}"_GPROF.fcm
-    compile_gprof=true
+    comp_gprof=true
   fi
 
   # If nemo executable is not on the run file compile
 
   if ! test -f "${Nemo_path}/cfgs/${name_cfg}_GPROF/EXP00/nemo"; then
     echo "nemo executable not found in ${name_cfg}_GPROF"
-    compile_gprof=true
+    comp_gprof=true
   fi
 
-  if [ "$compile" == true ] || [ "$compile_gprof" == true ]; then
+  if [ "$compile" == true ] || [ "$comp_gprof" == true ]; then
     echo "Compiling Nemo for GPROF"
-    echo "Output of the compilation in compile.err and compile.out"
-
     printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
-    python3 src/./Job_Creator.py -f "compile" -j "compile" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    python3 src/./Job_Creator.py -f "compile_gprof" -j "compile_gprof" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
-    if ! state1=$("$job" --wait compile."$Jobs_scheduler"); then
+    if ! state1=$("$job" --wait compile_gprof."$Jobs_scheduler"); then
       exit 1
     fi
 
     echo
     Job_completed "$state1"
     if [ "$Completed" == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile.err"
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile_gprof.err"
       echo
       exit 1
     else 
       echo "Nemo compilation successful"
       echo
-      mv compile.* "$dir"/logs
+      
     fi
-    
+    mv compile_gprof.* "$dir"/logs
+
   else
     echo "Compilation not needed"  
     echo
@@ -433,8 +433,9 @@ Gprof_functions()
     else 
       echo "Gprof files generated "
       echo
-      mv run.* "$dir"/logs
     fi
+    mv run.* "$dir"/logs
+
     echo "Gthrottling functions ..."
     echo
     python3 "$dir"/src/./Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./gthrottling.sh nemo" 
@@ -449,12 +450,10 @@ Gprof_functions()
     else
       echo "Functions listed correctly"
       echo
-      mv gthrottling.* "$dir"/logs
+      
     fi
-
+    mv gthrottling.* "$dir"/logs
     
-    
-
   else
     echo "Functions already listed, file ${Nemo_run}/Run_NEMO/extrae_functions.txt does exist"
     echo
@@ -480,19 +479,19 @@ Compile_extrae
     
     echo "Creating trace with $core cores..."
     echo
-    python3 "$dir"/src/./Job_Creator.py -f "run_extrae" -j "run_extrae" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
+    python3 "$dir"/src/./Job_Creator.py -f "run_extrae_$core" -j "run_extrae_$core" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
     
-    if ! state4=$("$job" --wait run_extrae."$Jobs_scheduler") ; then
+    if ! state4=$("$job" --wait run_extrae_$core."$Jobs_scheduler") ; then
       exit 1
     fi
     Job_completed "$state4"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed, no traces files generated more info inside logs/run_extrae.err"
+      echo "Nemo execution failed, no traces files generated more info inside logs/run_extrae_$core.err"
       echo 
       exit 1
     fi
 
-    mv run_extrae.* "$dir"/logs
+    mv run_extrae_"$core".* "$dir"/logs
 
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
-- 
GitLab


From 585b91f42fbaf18e3115d653e9a446b2058b51aa Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Wed, 14 Sep 2022 09:44:54 +0200
Subject: [PATCH 28/40] Fixed spelling errors

---
 perf_metrics.config | 6 +++---
 src/functions.bash  | 2 +-
 2 files changed, 4 insertions(+), 4 deletions(-)

diff --git a/perf_metrics.config b/perf_metrics.config
index 86c051c..cccfd7a 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -28,9 +28,9 @@ Jobs_queue="debug"
 
 # Compilation_compile (string):  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
 # Compilation_ref (string):  Reference configuration.
-# Compilation_arch (string): Architecture used (without the -arch sufix and the .fcm).
-# Compilation_name (string): Name of the new configutation (Important to not be an existing one).
-# Compilation_sub (string):  Add or remove subcomponents.
+# Compilation_arch (string): Architecture used (without the -arch suffix and the .fcm).
+# Compilation_name (string): Name of the new configuration (Important to not be an existing one).
+# Compilation_sub (string):  Add or remove sub-components.
 
 
 Compilation_compile="false" 
diff --git a/src/functions.bash b/src/functions.bash
index 37090cb..34ded5d 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -496,7 +496,7 @@ Compile_extrae
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
     mv nemo.row nemo_"$core".row	
-    echo "Cutting best iteration"
+    echo "Cutting up best iteration"
     echo
     "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "$dir"/logs/cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
-- 
GitLab


From a8f9412a9180812b2857239f4d57802126452451 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Wed, 14 Sep 2022 11:50:42 +0200
Subject: [PATCH 29/40] Now all the output is located in Output dir

---
 perf_metrics.config |  13 +++--
 src/functions.bash  | 113 +++++++++++++++++++++++++-------------------
 2 files changed, 73 insertions(+), 53 deletions(-)

diff --git a/perf_metrics.config b/perf_metrics.config
index cccfd7a..16fa533 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -3,15 +3,18 @@
 
 #################################################################################
 
+# Output (string): Path where the Output dir, containing all the output files, will be created.
+
+Output=".."
+
 # Nemo_path (string) : Path to nemo installation folder containing the cfgs and arch dirs.
 # Nemo_input_data (string): Path to the input data needed to run the nemo cfg.
 # Nemo_run (string): Path where the folder Run_NEMO will be created.
 # Nemo_cores (array): List of nºcores used for executing Nemo, ( 4 48 ) makes the script execute and 
 # get Nemo traces with 4 and 48 cores. 2 different nºcores are needed to obtain scalability data. 
 
-Nemo_path="Nemo_installation_path"
-Nemo_input_data="Nemo_input_data_path"
-Nemo_run="."
+Nemo_path="NEMO_INSTALLATION_PATH"
+Nemo_input_data="NEMO_INPUT_DATA_PATH"
 Nemo_cores=( 4 24 48 96 192) 
 
 # Jobs_n_cores (integer): nºcores used for other jobs like compiling nemo. 
@@ -20,7 +23,7 @@ Nemo_cores=( 4 24 48 96 192)
 # Jobs_time (integer): Max duration of the job in min.
 # Jobs_queue (string): Queue used.
 
-Jobs_n_cores= 4 
+Jobs_n_cores=4 
 Jobs_cores_per_node=
 Jobs_scheduler="slurm"
 Jobs_time=60
@@ -35,7 +38,7 @@ Jobs_queue="debug"
 
 Compilation_compile="false" 
 Compilation_ref="ORCA2_ICE_PISCES" 
-Compilation_arch="Your-arch-file"
+Compilation_arch="YOUR_ARCH_FILE"
 Compilation_name="ORCA2_EXTRAE" 
 Compilation_sub="OCE del_key 'key_si3 key_top'" 
     
diff --git a/src/functions.bash b/src/functions.bash
index 34ded5d..a73d802 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -125,7 +125,7 @@ Compile_extrae()
     echo
     Job_completed "$state1"
     if [ $Completed == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile_extrae.err"
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in ${logs_path}/compile_extrae.err"
       echo
       exit 1
     else 
@@ -133,7 +133,7 @@ Compile_extrae()
       echo
      
     fi
-    mv compile_extrae.* "$dir"/logs
+    mv compile_extrae.* "${logs_path}"
 
   else
     echo "Compilation not needed"  
@@ -142,10 +142,10 @@ Compile_extrae()
 
   #Copy all the EXP00 data but don't overwrite namelist just the executable
   
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* "${Nemo_run}"/Run_NEMO
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Nemo_run}"/Run_NEMO
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* "${Run_path}"
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Run_path}"
 
-  cd "${Nemo_run}"/Run_NEMO||( echo "Error ${Nemo_run}/Run_NEMO folder doesn't exists";  exit 1 )
+  cd "${Run_path}"||( echo "Error ${Run_path} folder doesn't exists";  exit 1 )
 }
 
 #Check if Nemo is compiled for using Gprof
@@ -215,7 +215,7 @@ Compile_gprof()
     echo
     Job_completed "$state1"
     if [ "$Completed" == false ]; then
-      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in logs/compile_gprof.err"
+      echo "Nemo compilation failed, remember to load all the needed modules. Check the details in ${logs_path}/compile_gprof.err"
       echo
       exit 1
     else 
@@ -223,7 +223,7 @@ Compile_gprof()
       echo
       
     fi
-    mv compile_gprof.* "$dir"/logs
+    mv compile_gprof.* "${logs_path}"
 
   else
     echo "Compilation not needed"  
@@ -233,25 +233,25 @@ Compile_gprof()
 
   #Copy all the EXP00 data in RUN_NEMO folder but don't overwrite the namelist, just the executable.
  
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* "${Nemo_run}"/Run_NEMO
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo "${Nemo_run}"/Run_NEMO
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* "${Run_path}"
+  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo "${Run_path}"
   
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Nemo_run}"/Run_NEMO/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Run_path}"/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
   #Solving NEMO input file common errors
 
-  if test -f "${Nemo_run}/Run_NEMO/weights_core_orca2_bicubic_noc.nc"; then
-    mv "${Nemo_run}"/Run_NEMO/weights_core_orca2_bicubic_noc.nc "${Nemo_run}"/Run_NEMO/weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
+  if test -f "${Run_path}/weights_core_orca2_bicubic_noc.nc"; then
+    mv "${Run_path}"/weights_core_orca2_bicubic_noc.nc "${Run_path}"/weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
   fi
 
-  if test -f "${Nemo_run}/Run_NEMO/weights_core_orca2_bilinear_noc.nc"; then 
-    mv "${Nemo_run}"/Run_NEMO/weights_core_orca2_bilinear_noc.nc "${Nemo_run}"/Run_NEMO/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
+  if test -f "${Run_path}/weights_core_orca2_bilinear_noc.nc"; then 
+    mv "${Run_path}"/weights_core_orca2_bilinear_noc.nc "${Run_path}"/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
   
-    cd "${Nemo_run}"/Run_NEMO||(echo "Error ${Nemo_run}/Run_NEMO folder doesn't exists";  exit 1)
+    cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
 
 }
 
@@ -262,9 +262,9 @@ Compile_gprof()
 
 Init()
 {
+  Output="${Output=:-"../"}"
   Nemo_path="${Nemo_path:-"./"}"
   Nemo_input_data="${Nemo_input_data=:-"./"}"
-  Nemo_run="${Nemo_run=:-"./"}"
   Nemo_cores="${Nemo_cores:-( 48 )}"
   Jobs_n_cores="${Jobs_n_cores:-48}"
   Jobs_cores_per_node="${Jobs_cores_per_node:-0}"
@@ -287,6 +287,23 @@ Init()
 
 Test_arguments()
 {
+
+  # Does Output path exist?
+  if ! test -d "${Output}"; then
+    echo "Output path: ${Output} is not found,  modify it in perf_metrics.config with the correct path"
+    echo
+    exit 1
+  fi
+
+  Output_dir="${Output}/Output"
+
+  if ! test -d "${Output_dir}"; then
+    
+    mkdir "${Output_dir}"
+   
+  fi
+  
+  
   # Nemo path correct?
   if ! test -d "${Nemo_path}"; then
     echo "Nemo relative path: ${Nemo_path} is not found, modify it in perf_metrics.config with the correct path"
@@ -301,18 +318,14 @@ Test_arguments()
     echo
     exit 1
   fi
-   # Is Nemo Run path correct?
-  if ! test -d "${Nemo_run}"; then
-    echo "Nemo run path: ${Nemo_run} is not found,  modify it in perf_metrics.config with the correct path"
-    echo
-    exit 1
-  fi
-
+   
+  Run_path="${Output_dir}/Run_NEMO"
   # Create Run_Nemo dir after comprovations
-  if ! test -d "${Nemo_run}/Run_NEMO"; then
-    mkdir "${Nemo_run}"/Run_NEMO
+  if ! test -d "${Run_path}"; then
+    
+    mkdir "${Run_path}"
   fi
-  cp -P "${Nemo_input_data}"/* "${Nemo_run}"/Run_NEMO
+  cp -P "${Nemo_input_data}"/* "${Run_path}"
   
 
   #Nemo_cores is array?
@@ -394,9 +407,11 @@ Test_arguments()
 
   sed -i "s|export EXTRAE_CONFIG_FILE=.*|export EXTRAE_CONFIG_FILE=$dir/src/./extrae.xml|g" src/trace.sh
   
+  logs_path="${Output_dir}/logs"
   # Creating logs dir
-  if ! test -d "logs"; then
-    mkdir logs
+  if ! test -d "${logs_path}"; then
+    
+    mkdir "$logs_path"
    
   fi
   
@@ -408,7 +423,7 @@ Test_arguments()
 Gprof_functions()
 {
 
-  cd "${Nemo_run}"/Run_NEMO||(echo "Error ${Nemo_run}/Run_NEMO folder doesn't exists";  exit 1)
+  cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
   
   #Generating function list in case of missing
   if ! test -f "extrae_functions.txt"; then
@@ -426,7 +441,7 @@ Gprof_functions()
     fi
     Job_completed "$state2"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed look at logs/run.err and ${Nemo_run}/Run_NEMO/ocean.output for more info"
+      echo "Nemo execution failed look at ${logs_path}/run.err and ${Run_path}/ocean.output for more info"
       echo "Remember that the namelist files copied are the default ones, change them in order to fit with the input files in the dir " 
       echo
       exit 1
@@ -434,7 +449,7 @@ Gprof_functions()
       echo "Gprof files generated "
       echo
     fi
-    mv run.* "$dir"/logs
+    mv run.* "${logs_path}"
 
     echo "Gthrottling functions ..."
     echo
@@ -444,7 +459,7 @@ Gprof_functions()
     fi
     Job_completed "$state3"
     if [ $Completed == false ]; then
-      echo "Error listing functions, look at logs/gthrottling.err for more info"
+      echo "Error listing functions, look at ${logs_path}/gthrottling.err for more info"
       echo
       exit 1
     else
@@ -452,10 +467,10 @@ Gprof_functions()
       echo
       
     fi
-    mv gthrottling.* "$dir"/logs
+    mv gthrottling.* "${logs_path}"
     
   else
-    echo "Functions already listed, file ${Nemo_run}/Run_NEMO/extrae_functions.txt does exist"
+    echo "Functions already listed, file ${Run_path}/extrae_functions.txt does exist"
     echo
     
   fi
@@ -472,7 +487,7 @@ Compile_extrae
 
 # Run nemo with extrae
   "$dir"/src/./extraf.sh  nemo extrae_functions.txt
-  sed -i "s|list=.*|list=\"${Nemo_run}/Run_NEMO/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
+  sed -i "s|list=.*|list=\"${Run_path}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
   for core in "${Nemo_cores[@]}" 
   
   do
@@ -486,31 +501,33 @@ Compile_extrae
     fi
     Job_completed "$state4"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed, no traces files generated more info inside logs/run_extrae_$core.err"
+      echo "Nemo execution failed, no traces files generated more info inside ${logs_path}/run_extrae_$core.err"
       echo 
       exit 1
     fi
 
-    mv run_extrae_"$core".* "$dir"/logs
+    mv run_extrae_"$core".* "${logs_path}"
 
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
     mv nemo.row nemo_"$core".row	
     echo "Cutting up best iteration"
     echo
-    "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "$dir"/logs/cut_"$core".out 2>&1
+    "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "${logs_path}"/cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
-      echo "Cut failed, look at ${dir}/logs/cut_$core.out for more info." 
+      echo "Cut failed, look at "${logs_path}"/cut_$core.out for more info." 
       echo
       exit 1
     fi
     echo
     # Creating folder
     
-    if ! test -d "$dir/Metrics"; then
-      mkdir "$dir"/Metrics
+    Metrics_path="${Output_dir}/Metrics"
+
+    if ! test -d "${Metrics_path}"; then
+      mkdir "${Metrics_path}"
     fi
-    cp nemo_"$core".best_cut.* "$dir"/Metrics
+    cp nemo_"$core".best_cut.* "${Metrics_path}"
 
     
     
@@ -524,27 +541,27 @@ Create_metrics()
   
   cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
   # Create performance metrics
-  echo "Creating metrics and storing them in Metrics folder"
+  echo "Creating metrics and storing them in ${Metrics_path} folder"
   echo
   python3 src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
-  mv analysis."$Jobs_scheduler" Metrics
-  cd Metrics||(echo "Error Metrics folder doesn't exists";  exit 1)
+  mv analysis."$Jobs_scheduler" "${Metrics_path}"
+  cd "${Metrics_path}"||(echo "Error ${Metrics_path} folder doesn't exists";  exit 1)
   if ! state5=$("$job" --wait analysis."$Jobs_scheduler"); then
     exit 1
   fi
   
   Job_completed "$state5"
   if [ $Completed == false ]; then
-    echo "Error, metrics have not generated check logs/analysis.err to get more details"
+    echo "Error, metrics have not generated check ${logs_path}/analysis.err to get more details"
     echo
     exit 1
  
   fi
   cp analysis.out overview.txt
-  mv analysis.* "$dir"/logs
+  mv analysis.* "${logs_path}"
   echo "------------------------------------------------------------------------------"
   echo "------------------------- Script Completed -----------------------------------"
-  echo "----------------------- Data in Metrics folder -------------------------------"
+  echo "----------------------- Data in ${Metrics_path} folder -------------------------------"
   echo "------------------------------------------------------------------------------"
   echo "------------------------------------------------------------------------------"
   echo
-- 
GitLab


From 0d1bf7997d40ebfd316e86999d5e442e35781807 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Thu, 15 Sep 2022 09:39:15 +0200
Subject: [PATCH 30/40] Code cleaned, relative path now work, fixed bugs

---
 perf_metrics.bash  |   3 ++
 src/functions.bash | 105 ++++++++++++++++++++++++---------------------
 2 files changed, 60 insertions(+), 48 deletions(-)

diff --git a/perf_metrics.bash b/perf_metrics.bash
index 6f28d98..b427da1 100755
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -33,12 +33,15 @@ Init
 #Test if parameters are valid
 Test_arguments
 
+cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
+
 #Create the list of important functions from NEMO
 Gprof_functions
 
 #Get the traces of the executions and cut 1 timestep 
 Get_trace
 
+cd "${Metrics_path}"||(echo "Error ${Metrics_path} folder doesn't exists";  exit 1)
 #Generate the performance metrics
 Create_metrics
 
diff --git a/src/functions.bash b/src/functions.bash
index a73d802..a4a442a 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -40,8 +40,7 @@ Job_completed()
 
 Compile_extrae()
 {
-  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
-
+ 
   #Get flag lines
 
   line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
@@ -114,8 +113,8 @@ Compile_extrae()
     echo "Compiling Nemo for EXTRAE"
    
 
-    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg"
-    python3 src/./Job_Creator.py -f "compile_extrae" -j "compile_extrae" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    printf -v workload1 "cd ${Nemo_path}; ./makenemo -r ${cfg} -n ${name_cfg} -m ${arch} -j$Jobs_n_cores $comp_cfg; cd ${Run_path}"
+    python3 "$dir"/src/./Job_Creator.py -f "compile_extrae" -j "compile_extrae" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
     
     if ! state1=$("$job" --wait compile_extrae."$Jobs_scheduler"); then
@@ -145,7 +144,7 @@ Compile_extrae()
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* "${Run_path}"
   cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Run_path}"
 
-  cd "${Run_path}"||( echo "Error ${Run_path} folder doesn't exists";  exit 1 )
+ 
 }
 
 #Check if Nemo is compiled for using Gprof
@@ -153,8 +152,6 @@ Compile_extrae()
 Compile_gprof()
 {
 
-  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
-
   if [ "$compile" == true ]; then
     echo 'compile parameter is inicialized true'
   fi
@@ -205,8 +202,8 @@ Compile_gprof()
 
   if [ "$compile" == true ] || [ "$comp_gprof" == true ]; then
     echo "Compiling Nemo for GPROF"
-    printf -v workload1 "cd ${Nemo_path}\n./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg"
-    python3 src/./Job_Creator.py -f "compile_gprof" -j "compile_gprof" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
+    printf -v workload1 "cd ${Nemo_path}; ./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg; cd ${Run_path};"
+    python3 "$dir"/src/./Job_Creator.py -f "compile_gprof" -j "compile_gprof" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
     if ! state1=$("$job" --wait compile_gprof."$Jobs_scheduler"); then
       exit 1
@@ -251,7 +248,7 @@ Compile_gprof()
     mv "${Run_path}"/weights_core_orca2_bilinear_noc.nc "${Run_path}"/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
   fi
   
-    cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
+  
 
 }
 
@@ -288,44 +285,43 @@ Init()
 Test_arguments()
 {
 
+
   # Does Output path exist?
   if ! test -d "${Output}"; then
     echo "Output path: ${Output} is not found,  modify it in perf_metrics.config with the correct path"
     echo
     exit 1
+  # Transform to absolute path
+  else 
+    cd "${Output}"
+    Output=$(pwd)
+    cd "$dir"
   fi
 
-  Output_dir="${Output}/Output"
-
-  if ! test -d "${Output_dir}"; then
-    
-    mkdir "${Output_dir}"
-   
-  fi
-  
-  
   # Nemo path correct?
   if ! test -d "${Nemo_path}"; then
     echo "Nemo relative path: ${Nemo_path} is not found, modify it in perf_metrics.config with the correct path"
     echo
     exit 1
+  # Transform to absolute path
+  else
+    cd "${Nemo_path}"
+    Nemo_path=$(pwd)
+    cd "$dir"
   fi
-
-
    # Is Nemo data path correct?
   if ! test -d "${Nemo_input_data}"; then
     echo "Nemo input data path: ${Nemo_input_data} is not found,  modify it in perf_metrics.config with the correct path"
     echo
     exit 1
+  # Transform to absolute path
+   else 
+    cd "${Nemo_input_data}"
+    Nemo_input_data=$(pwd)
+    cd "$dir"
   fi
    
-  Run_path="${Output_dir}/Run_NEMO"
-  # Create Run_Nemo dir after comprovations
-  if ! test -d "${Run_path}"; then
-    
-    mkdir "${Run_path}"
-  fi
-  cp -P "${Nemo_input_data}"/* "${Run_path}"
+  
   
 
   #Nemo_cores is array?
@@ -407,24 +403,43 @@ Test_arguments()
 
   sed -i "s|export EXTRAE_CONFIG_FILE=.*|export EXTRAE_CONFIG_FILE=$dir/src/./extrae.xml|g" src/trace.sh
   
+
+  #Creating output folder after comprovations
+
+  Output_dir="${Output}/Output"
+  mkdir -p "${Output_dir}"
+  
+
+   # Creating logs folder
+
   logs_path="${Output_dir}/logs"
-  # Creating logs dir
-  if ! test -d "${logs_path}"; then
-    
-    mkdir "$logs_path"
+  mkdir -p "$logs_path" 
    
-  fi
+  
+  
+  
+  # Create Run_Nemo folder
+
+  Run_path="${Output_dir}/Run_NEMO"
+  mkdir -p "${Run_path}"
+  cp -P "${Nemo_input_data}"/* "${Run_path}"
+
+   
+  # Creating Metricsfolder
+
+  Metrics_path="${Output_dir}/Metrics"
+  mkdir -p "${Metrics_path}"
   
 }
 
 
+
+
 # Generates a list of Nemo functions 
 
 Gprof_functions()
 {
 
-  cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
-  
   #Generating function list in case of missing
   if ! test -f "extrae_functions.txt"; then
 
@@ -486,6 +501,7 @@ Get_trace()
 Compile_extrae
 
 # Run nemo with extrae
+
   "$dir"/src/./extraf.sh  nemo extrae_functions.txt
   sed -i "s|list=.*|list=\"${Run_path}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
   for core in "${Nemo_cores[@]}" 
@@ -515,18 +531,13 @@ Compile_extrae
     echo
     "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "${logs_path}"/cut_"$core".out 2>&1
     if ! ls nemo_"$core".best_cut.prv; then
-      echo "Cut failed, look at "${logs_path}"/cut_$core.out for more info." 
+      echo "Cut failed, look at ${logs_path}/cut_$core.out for more info." 
       echo
       exit 1
     fi
     echo
-    # Creating folder
     
-    Metrics_path="${Output_dir}/Metrics"
-
-    if ! test -d "${Metrics_path}"; then
-      mkdir "${Metrics_path}"
-    fi
+    
     cp nemo_"$core".best_cut.* "${Metrics_path}"
 
     
@@ -538,14 +549,12 @@ Compile_extrae
 Create_metrics()
 {
   
-  
-  cd "$dir" || (echo "Error original dir doesn't exist"; exit 1)
   # Create performance metrics
   echo "Creating metrics and storing them in ${Metrics_path} folder"
   echo
-  python3 src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
-  mv analysis."$Jobs_scheduler" "${Metrics_path}"
-  cd "${Metrics_path}"||(echo "Error ${Metrics_path} folder doesn't exists";  exit 1)
+  python3 "$dir"/src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
+  
+  
   if ! state5=$("$job" --wait analysis."$Jobs_scheduler"); then
     exit 1
   fi
@@ -561,7 +570,7 @@ Create_metrics()
   mv analysis.* "${logs_path}"
   echo "------------------------------------------------------------------------------"
   echo "------------------------- Script Completed -----------------------------------"
-  echo "----------------------- Data in ${Metrics_path} folder -------------------------------"
+  echo "--- Data in ${Metrics_path} folder ---"
   echo "------------------------------------------------------------------------------"
   echo "------------------------------------------------------------------------------"
   echo
-- 
GitLab


From 2cd586d4ca0dde58e0a97773e7a70db445e2606f Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Thu, 15 Sep 2022 09:50:17 +0200
Subject: [PATCH 31/40] Now gthrottling forks the for to go quicker.

---
 src/gthrottling.sh | 45 +++++++++++++++++++++++++++------------------
 1 file changed, 27 insertions(+), 18 deletions(-)

diff --git a/src/gthrottling.sh b/src/gthrottling.sh
index 27c4f50..e91d785 100755
--- a/src/gthrottling.sh
+++ b/src/gthrottling.sh
@@ -3,27 +3,26 @@
 # Usage: ./extract_gprof.sh path/to/executable/executable 
 # Output file: extrae_functions.txt
 
-rm gprof_functions
-rm suspected_functions_names_only
-rm suspected_functions
-rm extrae_functions.txt
 
 # nm tool lists the symbols from objects and we select the ones with type T|t which the type is in the text section  
 nm $1 | grep -i " T " | awk '{print $3}' > function_names.txt
 echo "See the function names from the binary in the file function_names.txt"
 dir=$(dirname $1)
 
-for i in `ls $dir/gmon*`;
-do
+analyze_gmon()
+
+  { 
+    local n=$(echo "$2" | sed 's/[^0-9]*//g')
+    local i=$2
     echo -e "Analyzing "$i"\n" 
-    gprof $1 $i >gprof_temp
+    gprof $1 $i >gprof_temp_"$n"
     #We extract from each gprof file only the part about the functions, number of calls and durations, the call-paths ar enot needed
-    cat gprof_temp | grep -v ":" | awk 'BEGIN{k=0}{if($1=="%") {k=k+1};if(k>0 && k<2 && $1==$1+0) print $0}' > temp
+    cat gprof_temp_"$n" | grep -v ":" | awk 'BEGIN{k=0}{if($1=="%") {k=k+1};if(k>0 && k<2 && $1==$1+0) print $0}' > temp_"$n"
     #We save the name of the functions
-    cat temp | awk '{if($7~/^$/) print $4;else print $7}' > gprof_functions
+    cat temp_"$n" | awk '{if($7~/^$/) print $4;else print $7}' > gprof_functions_"$n"
 
     #From the initial list we save only the ones that gprof files include    
-    cat function_names.txt | grep -w -f gprof_functions > extrae_new_list
+    cat function_names.txt | grep -w -f gprof_functions_"$n" > extrae_new_list_"$n"
 
     #We apply the throttling rule: 
     # 1) If there is no information about each call of a function is suspected if the total duration is less than 0.1% of the total execution time
@@ -31,24 +30,34 @@ do
     #    2.1) If its duration is less or equal to 5% ($1<=5, you can change them according to your application) of the total execution time 
     #    2.2) If the duration of each call is less than 0.001s, then exclude it
     # 3) If the total execution time of this function is 0.0%, then remove it
-    cat temp | awk '{if($7~/^$/ && $1<0.1) print $4" "$1; else if(NF==7 && $4>10000 && (($1<=5 || $5<=0.001)) || $1==0.0) print $7" "$4}' >> suspected_functions
-    awk '{print $1}' suspected_functions >> suspected_functions_names_only
+    cat temp_"$n" | awk '{if($7~/^$/ && $1<0.1) print $4" "$1; else if(NF==7 && $4>10000 && (($1<=5 || $5<=0.001)) || $1==0.0) print $7" "$4}' >> suspected_functions_"$n"
+    awk '{print $1}' suspected_functions_"$n" >> suspected_functions_names_only_"$n"
 
     # Sort and remove any double functions from the list with suspected functions
-    cat suspected_functions_names_only | sort | uniq > temp_file
-    mv temp_file suspected_functions_names_only
+    cat suspected_functions_names_only_"$n" | sort | uniq > temp_file_"$n"
+    mv temp_file_"$n" suspected_functions_names_only_"$n"
 
     # Create a new fucntion list with the non suspected functions
-    cat extrae_new_list | grep -w -v -f suspected_functions_names_only >> extrae_functions.txt
-done
+    cat extrae_new_list_"$n" | grep -w -v -f suspected_functions_names_only_"$n" >> extrae_functions.txt
+  
+    rm extrae_new_list_"$n"
+    rm suspected_functions_names_only_"$n"
+    rm suspected_functions_"$n"
+    rm gprof_temp_"$n"
+    rm temp_"$n"
+    rm gprof_functions_"$n"
+
+}
 
+for i in `ls $dir/gmon*`; do analyze_gmon "$1" "$i" & done
+
+wait
 #Sort and uniw the useful functions because are called from many processors and can by include twice
 cat extrae_functions.txt | sort | uniq > temp2
 mv temp2 extrae_functions.txt
-rm temp
 echo -e "Input function list: "function_names.txt" "`wc -l function_names.txt | awk '{print $1}'`" functions"
 echo -e "New function list: extrae_functions.txt "`wc -l extrae_functions.txt | awk '{print $1}'`" functions"
-
+rm function_names.txt
 exit
 
 
-- 
GitLab


From ea4a59a7bfeb8451c25f1671c212cde2fadf1000 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Thu, 15 Sep 2022 10:55:32 +0200
Subject: [PATCH 32/40] Extra clarification

---
 README.md | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

diff --git a/README.md b/README.md
index abf8159..f98650c 100644
--- a/README.md
+++ b/README.md
@@ -27,8 +27,9 @@ Here the list of the modules that need to be loaded before the script execution.
 # Usage
 
 * Clone this repository wherever you please.
-* Edit the file perf_metrics.config and replace the parameters values with the suited information. 
-* MINIMUM CHANGES perf_metrics.config :
+* Inside the cloned repository use `git submodule update --init` to load the submodules.
+* ***Edit the file perf_metrics.config and replace the parameters values with the suited information.*** 
+* ***MINIMUM CHANGES perf_metrics.config:***
 	* Nemo_path, change the value to the path were NEMO is installed in your machine.
 	* Nemo_input_data, change the value to the path were the input data for the configuration is downloaded.
 	* Compilation_arch, replace the value with the name of the arch file that you use to compile NEMO.
@@ -38,4 +39,4 @@ Here the list of the modules that need to be loaded before the script execution.
 ```
 ./perf_metrics.bash
 ```
-* If the script executes without problems the data will be ready in the Metrics folder.
+* If the script executes without problems the data will be by default ready inside ../Output/Metrics folder. The Output dir path can be changed at perf_metrics.config.
-- 
GitLab


From e182f5aa477fdf0c65842bdd291e63ff1f9c0e9a Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Fri, 16 Sep 2022 10:35:11 +0200
Subject: [PATCH 33/40] Made the for to obtain traces parallel. Now submodules
 load at the beginning of the script

---
 README.md          | 3 +--
 perf_metrics.bash  | 3 +++
 src/functions.bash | 7 +++----
 3 files changed, 7 insertions(+), 6 deletions(-)

diff --git a/README.md b/README.md
index f98650c..006aed1 100644
--- a/README.md
+++ b/README.md
@@ -27,7 +27,6 @@ Here the list of the modules that need to be loaded before the script execution.
 # Usage
 
 * Clone this repository wherever you please.
-* Inside the cloned repository use `git submodule update --init` to load the submodules.
 * ***Edit the file perf_metrics.config and replace the parameters values with the suited information.*** 
 * ***MINIMUM CHANGES perf_metrics.config:***
 	* Nemo_path, change the value to the path were NEMO is installed in your machine.
@@ -35,7 +34,7 @@ Here the list of the modules that need to be loaded before the script execution.
 	* Compilation_arch, replace the value with the name of the arch file that you use to compile NEMO.
 	* Modules, change the value to suit the name of the modules you need to load.
 	* Jobs_scheduler, replace the value with the name of the scheduler installed in your machine (currently supports slurm, lsf and torque)
-* Execute perf_metrics.bash
+* Execute perf_metrics.bash inside the git repository 
 ```
 ./perf_metrics.bash
 ```
diff --git a/perf_metrics.bash b/perf_metrics.bash
index b427da1..3520439 100755
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -10,6 +10,9 @@ if [ $# -gt 0 ]; then
 
 fi
 
+
+#Load submodules
+git submodule update --init
 #Get script directory
 dir=$(pwd)
 
diff --git a/src/functions.bash b/src/functions.bash
index a4a442a..03d17d5 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -507,7 +507,7 @@ Compile_extrae
   for core in "${Nemo_cores[@]}" 
   
   do
-    
+    (
     echo "Creating trace with $core cores..."
     echo
     python3 "$dir"/src/./Job_Creator.py -f "run_extrae_$core" -j "run_extrae_$core" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
@@ -536,14 +536,13 @@ Compile_extrae
       exit 1
     fi
     echo
-    
-    
     cp nemo_"$core".best_cut.* "${Metrics_path}"
-
+    )&
     
     
   done
 
+  wait
 }
 
 Create_metrics()
-- 
GitLab


From d711dab43daa2f17ad276cf87afe7a932ad84ed9 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Fri, 16 Sep 2022 10:47:32 +0200
Subject: [PATCH 34/40] Expanded explanation

---
 README.md | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/README.md b/README.md
index 006aed1..ade9efd 100644
--- a/README.md
+++ b/README.md
@@ -27,6 +27,7 @@ Here the list of the modules that need to be loaded before the script execution.
 # Usage
 
 * Clone this repository wherever you please.
+* Don't move the content of the repository outside , the sub-modules won't load and the script will fail. If you want you can init the sub-modules manually with `git submodule update --init` and then move the content.
 * ***Edit the file perf_metrics.config and replace the parameters values with the suited information.*** 
 * ***MINIMUM CHANGES perf_metrics.config:***
 	* Nemo_path, change the value to the path were NEMO is installed in your machine.
@@ -34,7 +35,7 @@ Here the list of the modules that need to be loaded before the script execution.
 	* Compilation_arch, replace the value with the name of the arch file that you use to compile NEMO.
 	* Modules, change the value to suit the name of the modules you need to load.
 	* Jobs_scheduler, replace the value with the name of the scheduler installed in your machine (currently supports slurm, lsf and torque)
-* Execute perf_metrics.bash inside the git repository 
+* Execute perf_metrics.bash 
 ```
 ./perf_metrics.bash
 ```
-- 
GitLab


From 36743e5351ac938d8440433ef01084a53916e8f1 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Mon, 19 Sep 2022 12:01:43 +0200
Subject: [PATCH 35/40] link instead of copy, dir for gprof, deleted outputs

---
 perf_metrics.bash  |   5 ++-
 src/functions.bash | 105 ++++++++++++++++++++++++++-------------------
 2 files changed, 65 insertions(+), 45 deletions(-)

diff --git a/perf_metrics.bash b/perf_metrics.bash
index 3520439..f9dd8cb 100755
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -36,11 +36,12 @@ Init
 #Test if parameters are valid
 Test_arguments
 
-cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
+cd "${Gprof_path}"||(echo "Error ${Gprof_path} folder doesn't exists";  exit 1)
 
 #Create the list of important functions from NEMO
-Gprof_functions
+Gprof_functions &
 
+cd "${Run_path}"||(echo "Error ${Run_path} folder doesn't exists";  exit 1)
 #Get the traces of the executions and cut 1 timestep 
 Get_trace
 
diff --git a/src/functions.bash b/src/functions.bash
index 03d17d5..d5b8259 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -6,7 +6,10 @@ Job_completed()
   if [ "$Jobs_scheduler" == "slurm" ]; then
     local id1
     id1=${1##* }
-    sleep 5
+    until ! scontrol show job "$id1" | grep -q 'JobState=COMPLETING' 
+    do
+      sleep 1
+    done
     if ! scontrol show job "$id1" | grep -q 'JobState=COMPLETED'; then
       Completed=false
     else
@@ -16,7 +19,6 @@ Job_completed()
   elif [ "$Jobs_scheduler" == "lsf" ]; then
     local id2
     id2=$(head -n1 "$1" | cut -d'<' -f2 | cut -d'>' -f1)
-    sleep 5
     if ! bjobs -l "$id2" | grep -q 'Status <DONE>'; then
       Completed=false
     else
@@ -25,7 +27,6 @@ Job_completed()
   elif [ "$Jobs_scheduler" == "torque" ]; then
     local id3
     id3=$(head -n1 "$1" | awk '{ print $3 }')
-    sleep 5
     if ! qstat f "$id3" | grep -q 'exit_status = 0'; then
       Completed=false
     else
@@ -117,22 +118,23 @@ Compile_extrae()
     python3 "$dir"/src/./Job_Creator.py -f "compile_extrae" -j "compile_extrae" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
 
     
-    if ! state1=$("$job" --wait compile_extrae."$Jobs_scheduler"); then
+    if ! state1=$("$job" "$wait" compile_extrae."$Jobs_scheduler"); then
       exit 1:
     fi
     
     echo
     Job_completed "$state1"
+    mv compile_extrae.* "${logs_path}"
     if [ $Completed == false ]; then
       echo "Nemo compilation failed, remember to load all the needed modules. Check the details in ${logs_path}/compile_extrae.err"
       echo
       exit 1
     else 
-      echo "Nemo compilation successful"
+      echo "Nemo Extrae compilation successful"
       echo
      
     fi
-    mv compile_extrae.* "${logs_path}"
+    
 
   else
     echo "Compilation not needed"  
@@ -142,9 +144,17 @@ Compile_extrae()
   #Copy all the EXP00 data but don't overwrite namelist just the executable
   
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* "${Run_path}"
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Run_path}"
+  cp  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Run_path}"
+
+
+
+ if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Run_path}"/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+  fi
+
+  sed -i '/<file_definition/d' "${Run_path}"/context_nemo.xml #DELETING OUTPUT DEFINITON
+
 
- 
 }
 
 #Check if Nemo is compiled for using Gprof
@@ -202,25 +212,26 @@ Compile_gprof()
 
   if [ "$compile" == true ] || [ "$comp_gprof" == true ]; then
     echo "Compiling Nemo for GPROF"
-    printf -v workload1 "cd ${Nemo_path}; ./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg; cd ${Run_path};"
+    printf -v workload1 "cd ${Nemo_path}; ./makenemo -r ${cfg} -n ${name_cfg}_GPROF -m ${arch}_GPROF -j$Jobs_n_cores $comp_cfg; cd ${Gprof_path};"
     python3 "$dir"/src/./Job_Creator.py -f "compile_gprof" -j "compile_gprof" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "${workload1}"
   
-    if ! state1=$("$job" --wait compile_gprof."$Jobs_scheduler"); then
+    if ! state1=$("$job" "$wait" compile_gprof."$Jobs_scheduler"); then
       exit 1
     fi
 
     echo
     Job_completed "$state1"
+    mv compile_gprof.* "${logs_path}"
     if [ "$Completed" == false ]; then
       echo "Nemo compilation failed, remember to load all the needed modules. Check the details in ${logs_path}/compile_gprof.err"
       echo
       exit 1
     else 
-      echo "Nemo compilation successful"
+      echo "Nemo Gprof compilation successful"
       echo
       
     fi
-    mv compile_gprof.* "${logs_path}"
+    
 
   else
     echo "Compilation not needed"  
@@ -228,25 +239,18 @@ Compile_gprof()
   fi
 
 
-  #Copy all the EXP00 data in RUN_NEMO folder but don't overwrite the namelist, just the executable.
+  #Copy all the EXP00 data in Gprof folder but don't overwrite the namelist, just the executable.
  
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* "${Run_path}"
-  cp "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo "${Run_path}"
+  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* "${Gprof_path}"
+  cp  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/nemo "${Gprof_path}"
   
 
   if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Run_path}"/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Gprof_path}"/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
   fi
 
-  #Solving NEMO input file common errors
-
-  if test -f "${Run_path}/weights_core_orca2_bicubic_noc.nc"; then
-    mv "${Run_path}"/weights_core_orca2_bicubic_noc.nc "${Run_path}"/weights_core2_orca2_bicub.nc #RENAME WRONG NAMED FILES
-  fi
+  sed -i '/<file_definition/d' "${Gprof_path}"/context_nemo.xml #DELETING OUTPUT DEFINITON
 
-  if test -f "${Run_path}/weights_core_orca2_bilinear_noc.nc"; then 
-    mv "${Run_path}"/weights_core_orca2_bilinear_noc.nc "${Run_path}"/weights_core2_orca2_bilin.nc #RENAME WRONG NAMED FILES
-  fi
   
   
 
@@ -393,10 +397,13 @@ Test_arguments()
   # Creating auxiliar vars for submiting jobs
   if [ "$Jobs_scheduler" == "slurm" ]; then 
     job="sbatch"
+    wait="--wait"
   elif [ "$Jobs_scheduler" == "lsf" ]; then
     job="bsub"
+    wait="-k"
   elif [ "$Jobs_scheduler" == "torque" ]; then
     job="qsub"
+    wait="-sync"
   fi
 
   # Changing trace.sh reference to extrae.xml
@@ -415,14 +422,16 @@ Test_arguments()
   logs_path="${Output_dir}/logs"
   mkdir -p "$logs_path" 
    
-  
-  
-  
+  # Creating gprof folder
+
+  Gprof_path="${Output_dir}/gprof"
+  mkdir -p "$Gprof_path" 
+  cp -s -f "${Nemo_input_data}"/* "${Gprof_path}"
   # Create Run_Nemo folder
 
   Run_path="${Output_dir}/Run_NEMO"
   mkdir -p "${Run_path}"
-  cp -P "${Nemo_input_data}"/* "${Run_path}"
+  cp -s -f "${Nemo_input_data}"/* "${Run_path}"
 
    
   # Creating Metricsfolder
@@ -451,12 +460,13 @@ Gprof_functions()
     echo
     python3 "$dir"/src/./Job_Creator.py -f "run" -j "run" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np 2 ./nemo" 
     
-    if ! state2=$("$job" --wait run."$Jobs_scheduler"); then 
+    if ! state2=$("$job" "$wait"  run."$Jobs_scheduler"); then 
       exit 1
     fi
     Job_completed "$state2"
+    mv run.* "${logs_path}"
     if [ $Completed == false ]; then
-      echo "Nemo execution failed look at ${logs_path}/run.err and ${Run_path}/ocean.output for more info"
+      echo "Nemo execution failed look at ${logs_path}/run.err and ${Gprof_path}/ocean.output for more info"
       echo "Remember that the namelist files copied are the default ones, change them in order to fit with the input files in the dir " 
       echo
       exit 1
@@ -464,15 +474,16 @@ Gprof_functions()
       echo "Gprof files generated "
       echo
     fi
-    mv run.* "${logs_path}"
+  
 
     echo "Gthrottling functions ..."
     echo
     python3 "$dir"/src/./Job_Creator.py -f "gthrottling" -j "gthrottling" --set-core 4 --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./gthrottling.sh nemo" 
-    if ! state3=$("$job" --wait gthrottling."$Jobs_scheduler"); then
+    if ! state3=$("$job" "$wait" gthrottling."$Jobs_scheduler"); then
       exit 1
     fi
     Job_completed "$state3"
+     mv gthrottling.* "${logs_path}"
     if [ $Completed == false ]; then
       echo "Error listing functions, look at ${logs_path}/gthrottling.err for more info"
       echo
@@ -482,10 +493,10 @@ Gprof_functions()
       echo
       
     fi
-    mv gthrottling.* "${logs_path}"
+   
     
   else
-    echo "Functions already listed, file ${Run_path}/extrae_functions.txt does exist"
+    echo "Functions already listed, file ${Gprof_path}/extrae_functions.txt does exist"
     echo
     
   fi
@@ -498,12 +509,16 @@ Gprof_functions()
 Get_trace()
 {
 
-Compile_extrae
-
+  Compile_extrae
+  # Change iterations
+  sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
 # Run nemo with extrae
-
+  wait
+  
+  cp ${Gprof_path}/extrae_functions.txt .
   "$dir"/src/./extraf.sh  nemo extrae_functions.txt
   sed -i "s|list=.*|list=\"${Run_path}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
+
   for core in "${Nemo_cores[@]}" 
   
   do
@@ -512,24 +527,27 @@ Compile_extrae
     echo
     python3 "$dir"/src/./Job_Creator.py -f "run_extrae_$core" -j "run_extrae_$core" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
     
-    if ! state4=$("$job" --wait run_extrae_$core."$Jobs_scheduler") ; then
+    if ! state4=$("$job" "$wait" run_extrae_$core."$Jobs_scheduler") ; then
       exit 1
     fi
     Job_completed "$state4"
+    mv run_extrae_"$core".* "${logs_path}"
+
     if [ $Completed == false ]; then
       echo "Nemo execution failed, no traces files generated more info inside ${logs_path}/run_extrae_$core.err"
       echo 
       exit 1
     fi
 
-    mv run_extrae_"$core".* "${logs_path}"
-
+  
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
     mv nemo.row nemo_"$core".row	
     echo "Cutting up best iteration"
     echo
     "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "${logs_path}"/cut_"$core".out 2>&1
+
+   
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, look at ${logs_path}/cut_$core.out for more info." 
       echo
@@ -554,19 +572,20 @@ Create_metrics()
   python3 "$dir"/src/./Job_Creator.py -f "analysis" -j "analysis" --set-core "${Jobs_n_cores}" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "$dir/src/./modelfactors.py -ms 100000 *" 
   
   
-  if ! state5=$("$job" --wait analysis."$Jobs_scheduler"); then
+  if ! state5=$("$job" "$wait" analysis."$Jobs_scheduler"); then
     exit 1
   fi
   
   Job_completed "$state5"
+  cp analysis.out overview.txt
+  mv analysis.* "${logs_path}"
   if [ $Completed == false ]; then
     echo "Error, metrics have not generated check ${logs_path}/analysis.err to get more details"
     echo
     exit 1
  
   fi
-  cp analysis.out overview.txt
-  mv analysis.* "${logs_path}"
+ 
   echo "------------------------------------------------------------------------------"
   echo "------------------------- Script Completed -----------------------------------"
   echo "--- Data in ${Metrics_path} folder ---"
-- 
GitLab


From fe9888e1327305bbb5f2e95b1d40c54880009d37 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 20 Sep 2022 12:12:49 +0200
Subject: [PATCH 36/40] Now dir for every execution are created, run files are
 deleted after finishing

---
 perf_metrics.config | 12 ++++--
 src/functions.bash  | 90 ++++++++++++++++++++++-----------------------
 2 files changed, 52 insertions(+), 50 deletions(-)

diff --git a/perf_metrics.config b/perf_metrics.config
index 16fa533..59ee9cc 100644
--- a/perf_metrics.config
+++ b/perf_metrics.config
@@ -27,21 +27,25 @@ Jobs_n_cores=4
 Jobs_cores_per_node=
 Jobs_scheduler="slurm"
 Jobs_time=60
-Jobs_queue="debug"
+Jobs_queue=
 
-# Compilation_compile (string):  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
+# Compilation_compile (boolean):  When false only compiles NEMO if arch file lacks the needed flags, when true always compiles NEMO.
 # Compilation_ref (string):  Reference configuration.
 # Compilation_arch (string): Architecture used (without the -arch suffix and the .fcm).
 # Compilation_name (string): Name of the new configuration (Important to not be an existing one).
 # Compilation_sub (string):  Add or remove sub-components.
 
 
-Compilation_compile="false" 
+Compilation_compile=false
 Compilation_ref="ORCA2_ICE_PISCES" 
 Compilation_arch="YOUR_ARCH_FILE"
 Compilation_name="ORCA2_EXTRAE" 
 Compilation_sub="OCE del_key 'key_si3 key_top'" 
-    
+
+# Clean (boolean): If true, at the end of the script, all residual files from NEMO executions (data, outputs, executable, folders) are deleted.
+
+Clean=true
+
 # Modules (string): List of modules loaded.
 # Required:
 # - Perl interpreter
diff --git a/src/functions.bash b/src/functions.bash
index d5b8259..e7a1c47 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -141,19 +141,7 @@ Compile_extrae()
     echo
   fi
 
-  #Copy all the EXP00 data but don't overwrite namelist just the executable
-  
-  cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* "${Run_path}"
-  cp  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Run_path}"
-
-
-
- if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then
-    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Run_path}"/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
-  fi
-
-  sed -i '/<file_definition/d' "${Run_path}"/context_nemo.xml #DELETING OUTPUT DEFINITON
-
+ 
 
 }
 
@@ -238,7 +226,6 @@ Compile_gprof()
     echo
   fi
 
-
   #Copy all the EXP00 data in Gprof folder but don't overwrite the namelist, just the executable.
  
   cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"_GPROF/EXP00/* "${Gprof_path}"
@@ -251,14 +238,9 @@ Compile_gprof()
 
   sed -i '/<file_definition/d' "${Gprof_path}"/context_nemo.xml #DELETING OUTPUT DEFINITON
 
-  
-  
-
 }
 
 
-
-
 #Init variables with default values in case of missing
 
 Init()
@@ -272,11 +254,12 @@ Init()
   Jobs_scheduler="${Jobs_scheduler:-"slurm"}"
   time="${Jobs_time:-0}"
   queue="${Jobs_queue:-""}"
-  compile="${Compilation_compile:-"false"}"
+  compile="${Compilation_compile:-false}"
   cfg="${Compilation_ref:-"ORCA2_ICE_PISCES"}"
   arch="${Compilation_arch:-"X64_MN4"}"
   name_cfg="${Compilation_name:-"ORCA2_EXTRAE"}"
   comp_cfg="${Compilation_sub:-""}"
+  Clean="${Clean:-true}"
   Modules="${Modules:-""}"
   Nemo_iterations=12
   compile_ext=false
@@ -325,9 +308,6 @@ Test_arguments()
     cd "$dir"
   fi
    
-  
-  
-
   #Nemo_cores is array?
   if [[ ! "$(declare -p Nemo_cores)" =~ "declare -a" ]]; then
     echo "Error Nemo_cores has to be a bash array like ( 4 24 48 ), modify it in perf_metrics.config with a valid value"
@@ -335,7 +315,6 @@ Test_arguments()
     exit 1
   fi
   
-  
   #Nemo_cores contains ints?
   
   re='^[0-9]+$'
@@ -400,7 +379,7 @@ Test_arguments()
     wait="--wait"
   elif [ "$Jobs_scheduler" == "lsf" ]; then
     job="bsub"
-    wait="-k"
+    wait="-K"
   elif [ "$Jobs_scheduler" == "torque" ]; then
     job="qsub"
     wait="-sync"
@@ -410,30 +389,28 @@ Test_arguments()
 
   sed -i "s|export EXTRAE_CONFIG_FILE=.*|export EXTRAE_CONFIG_FILE=$dir/src/./extrae.xml|g" src/trace.sh
   
-
   #Creating output folder after comprovations
 
   Output_dir="${Output}/Output"
   mkdir -p "${Output_dir}"
   
-
-   # Creating logs folder
+  # Creating logs folder
 
   logs_path="${Output_dir}/logs"
   mkdir -p "$logs_path" 
+  rm -f "$logs_path"/*
    
   # Creating gprof folder
 
   Gprof_path="${Output_dir}/gprof"
   mkdir -p "$Gprof_path" 
   cp -s -f "${Nemo_input_data}"/* "${Gprof_path}"
+
   # Create Run_Nemo folder
 
   Run_path="${Output_dir}/Run_NEMO"
   mkdir -p "${Run_path}"
-  cp -s -f "${Nemo_input_data}"/* "${Run_path}"
 
-   
   # Creating Metricsfolder
 
   Metrics_path="${Output_dir}/Metrics"
@@ -450,7 +427,7 @@ Gprof_functions()
 {
 
   #Generating function list in case of missing
-  if ! test -f "extrae_functions.txt"; then
+  if ! test -f "extrae_functions_${cfg}.txt"; then
 
     Compile_gprof
     #Changing iterations, big traces generate problems.
@@ -489,18 +466,17 @@ Gprof_functions()
       echo
       exit 1
     else
+      mv extrae_functions.txt extrae_functions_"${cfg}".txt
       echo "Functions listed correctly"
       echo
       
     fi
-   
-    
+      
   else
-    echo "Functions already listed, file ${Gprof_path}/extrae_functions.txt does exist"
+    echo "Functions already listed, file ${Gprof_path}/extrae_functions_${cfg}.txt does exist."
     echo
     
   fi
-  
 }
 
 
@@ -510,19 +486,36 @@ Get_trace()
 {
 
   Compile_extrae
-  # Change iterations
-  sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" namelist_cfg
-# Run nemo with extrae
+ 
   wait
-  
-  cp ${Gprof_path}/extrae_functions.txt .
-  "$dir"/src/./extraf.sh  nemo extrae_functions.txt
+  "$dir"/src/./extraf.sh  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Gprof_path}"/extrae_functions_"${cfg}".txt > /dev/null
   sed -i "s|list=.*|list=\"${Run_path}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
 
+  # Change iterations
+  sed -i "s|nn_itend * =.*|nn_itend    =       $Nemo_iterations  !  last  time step (std 5475)|g" "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/namelist_cfg
+  if [[ $comp_cfg == "-d OCE del_key 'key_si3 key_top'" ]]; then 
+    sed -i '/_def_nemo-ice.xml\|def_nemo-pisces.xml/d' "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/context_nemo.xml #DELETE ICE AND PISCES CONTEXT (NOT USED)
+  fi
+  sed -i '/<file_definition/d' "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/context_nemo.xml #DELETING OUTPUT DEFINITON
+
+
   for core in "${Nemo_cores[@]}" 
   
   do
     (
+    
+    
+    # Create folder for n cores
+    mkdir -p "$core"_cores
+    cd "$core"_cores
+    
+    # Copy all the EXP00 data but don't overwrite namelist just the executable
+  
+    cp -n  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/* .
+    cp  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo .
+    cp -s -f "${Nemo_input_data}"/* .
+
+    # Obtain trace
     echo "Creating trace with $core cores..."
     echo
     python3 "$dir"/src/./Job_Creator.py -f "run_extrae_$core" -j "run_extrae_$core" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
@@ -538,8 +531,6 @@ Get_trace()
       echo 
       exit 1
     fi
-
-  
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
     mv nemo.row nemo_"$core".row	
@@ -547,7 +538,6 @@ Get_trace()
     echo
     "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "${logs_path}"/cut_"$core".out 2>&1
 
-   
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, look at ${logs_path}/cut_$core.out for more info." 
       echo
@@ -555,9 +545,9 @@ Get_trace()
     fi
     echo
     cp nemo_"$core".best_cut.* "${Metrics_path}"
+    cd "$Run_path"
     )&
-    
-    
+      
   done
 
   wait
@@ -586,6 +576,14 @@ Create_metrics()
  
   fi
  
+  # Removing run folders
+  if [ $Clean == true ]; then
+    rm -r -f "$Run_path"
+    mv "${Gprof_path}"/extrae_functions* "$dir"
+    rm -r -f "$Gprof_path"/*
+    mv "${dir}"/extrae_functions* "${Gprof_path}"
+  fi
+
   echo "------------------------------------------------------------------------------"
   echo "------------------------- Script Completed -----------------------------------"
   echo "--- Data in ${Metrics_path} folder ---"
-- 
GitLab


From 5e96722bb6a86e9e803ad378db064f8a55c21844 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 20 Sep 2022 12:33:39 +0200
Subject: [PATCH 37/40] Fixed naming mistake

---
 src/functions.bash | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index e7a1c47..f21ba9e 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -427,7 +427,7 @@ Gprof_functions()
 {
 
   #Generating function list in case of missing
-  if ! test -f "extrae_functions_${cfg}.txt"; then
+  if ! test -f "extrae_functions_${name_cfg}.txt"; then
 
     Compile_gprof
     #Changing iterations, big traces generate problems.
@@ -466,14 +466,14 @@ Gprof_functions()
       echo
       exit 1
     else
-      mv extrae_functions.txt extrae_functions_"${cfg}".txt
+      mv extrae_functions.txt extrae_functions_"${name_cfg}".txt
       echo "Functions listed correctly"
       echo
       
     fi
       
   else
-    echo "Functions already listed, file ${Gprof_path}/extrae_functions_${cfg}.txt does exist."
+    echo "Functions already listed, file ${Gprof_path}/extrae_functions_${name_cfg}.txt does exist."
     echo
     
   fi
@@ -488,7 +488,7 @@ Get_trace()
   Compile_extrae
  
   wait
-  "$dir"/src/./extraf.sh  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Gprof_path}"/extrae_functions_"${cfg}".txt > /dev/null
+  "$dir"/src/./extraf.sh  "${Nemo_path}"/cfgs/"${name_cfg}"/EXP00/nemo "${Gprof_path}"/extrae_functions_"${name_cfg}".txt > /dev/null
   sed -i "s|list=.*|list=\"${Run_path}/extrae_functions_for_xml.txt\" exclude-automatic-functions=\"yes\">|g" "$dir"/src/extrae.xml
 
   # Change iterations
-- 
GitLab


From 44cb3e215ddd61c403810f70da90144d1abad834 Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 20 Sep 2022 14:41:28 +0200
Subject: [PATCH 38/40] Now exit terminates all the processes

---
 perf_metrics.bash  |  2 ++
 src/functions.bash | 14 ++++++++------
 2 files changed, 10 insertions(+), 6 deletions(-)

diff --git a/perf_metrics.bash b/perf_metrics.bash
index f9dd8cb..9470d4a 100755
--- a/perf_metrics.bash
+++ b/perf_metrics.bash
@@ -52,3 +52,5 @@ Create_metrics
 }
 
 main "$@"; exit
+
+
diff --git a/src/functions.bash b/src/functions.bash
index f21ba9e..95792cc 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -1,3 +1,5 @@
+
+
 # Functions 
 
 #Checks if the job submission ended correctly. 
@@ -41,7 +43,8 @@ Job_completed()
 
 Compile_extrae()
 {
- 
+  trap "trap - SIGTERM && kill -- -$$" SIGINT SIGTERM EXIT
+
   #Get flag lines
 
   line=$(sed -n '/^%FCFLAGS /p' "$Nemo_path"/arch/arch-"${arch}".fcm)
@@ -149,6 +152,7 @@ Compile_extrae()
 
 Compile_gprof()
 {
+  trap "trap - SIGTERM && kill -- -$$" SIGINT SIGTERM EXIT
 
   if [ "$compile" == true ]; then
     echo 'compile parameter is inicialized true'
@@ -425,7 +429,7 @@ Test_arguments()
 
 Gprof_functions()
 {
-
+  trap "trap - SIGTERM && kill -- -$$" SIGINT SIGTERM EXIT
   #Generating function list in case of missing
   if ! test -f "extrae_functions_${name_cfg}.txt"; then
 
@@ -484,7 +488,7 @@ Gprof_functions()
 
 Get_trace()
 {
-
+  trap "trap - SIGTERM && kill -- -$$" SIGINT SIGTERM EXIT
   Compile_extrae
  
   wait
@@ -504,6 +508,7 @@ Get_trace()
   do
     (
     
+    trap "trap - SIGTERM && kill -- -$$" SIGINT SIGTERM EXIT
     
     # Create folder for n cores
     mkdir -p "$core"_cores
@@ -528,19 +533,16 @@ Get_trace()
 
     if [ $Completed == false ]; then
       echo "Nemo execution failed, no traces files generated more info inside ${logs_path}/run_extrae_$core.err"
-      echo 
       exit 1
     fi
     mv nemo.prv nemo_"$core".prv
     mv nemo.pcf nemo_"$core".pcf
     mv nemo.row nemo_"$core".row	
     echo "Cutting up best iteration"
-    echo
     "$dir"/src/magiccut/./magicCut nemo_"${core}".prv "$Nemo_iterations" > "${logs_path}"/cut_"$core".out 2>&1
 
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, look at ${logs_path}/cut_$core.out for more info." 
-      echo
       exit 1
     fi
     echo
-- 
GitLab


From bdf053d16c451b5cfdb1656291dd797eadc1a45c Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 20 Sep 2022 15:34:24 +0200
Subject: [PATCH 39/40] Fixed mistake where exits loops instead script

---
 src/functions.bash | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index 95792cc..996ec0d 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -508,8 +508,7 @@ Get_trace()
   do
     (
     
-    trap "trap - SIGTERM && kill -- -$$" SIGINT SIGTERM EXIT
-    
+
     # Create folder for n cores
     mkdir -p "$core"_cores
     cd "$core"_cores
@@ -526,6 +525,7 @@ Get_trace()
     python3 "$dir"/src/./Job_Creator.py -f "run_extrae_$core" -j "run_extrae_$core" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
     
     if ! state4=$("$job" "$wait" run_extrae_$core."$Jobs_scheduler") ; then
+      kill -- -$$
       exit 1
     fi
     Job_completed "$state4"
@@ -533,6 +533,7 @@ Get_trace()
 
     if [ $Completed == false ]; then
       echo "Nemo execution failed, no traces files generated more info inside ${logs_path}/run_extrae_$core.err"
+      kill -- -$$
       exit 1
     fi
     mv nemo.prv nemo_"$core".prv
@@ -543,6 +544,7 @@ Get_trace()
 
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, look at ${logs_path}/cut_$core.out for more info." 
+      kill -- -$$
       exit 1
     fi
     echo
-- 
GitLab


From c2b6653f1107df9beee45198b154f595472262ae Mon Sep 17 00:00:00 2001
From: cpenadep <carlos.penadepedro@bsc.es>
Date: Tue, 20 Sep 2022 15:35:21 +0200
Subject: [PATCH 40/40] Fixed mistake exiting script

---
 src/functions.bash | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/src/functions.bash b/src/functions.bash
index 996ec0d..fd3de97 100644
--- a/src/functions.bash
+++ b/src/functions.bash
@@ -525,7 +525,7 @@ Get_trace()
     python3 "$dir"/src/./Job_Creator.py -f "run_extrae_$core" -j "run_extrae_$core" --set-core "$core" --set-core-per-node "$Jobs_cores_per_node" -s "$Jobs_scheduler" --set-time "$time" --set-queue "$queue" -w "mpirun -np $core "$dir"/src/./trace.sh ./nemo" 
     
     if ! state4=$("$job" "$wait" run_extrae_$core."$Jobs_scheduler") ; then
-      kill -- -$$
+      kill 0
       exit 1
     fi
     Job_completed "$state4"
@@ -533,7 +533,7 @@ Get_trace()
 
     if [ $Completed == false ]; then
       echo "Nemo execution failed, no traces files generated more info inside ${logs_path}/run_extrae_$core.err"
-      kill -- -$$
+      kill 0
       exit 1
     fi
     mv nemo.prv nemo_"$core".prv
@@ -544,7 +544,7 @@ Get_trace()
 
     if ! ls nemo_"$core".best_cut.prv; then
       echo "Cut failed, look at ${logs_path}/cut_$core.out for more info." 
-      kill -- -$$
+      kill 0
       exit 1
     fi
     echo
-- 
GitLab