This file contains a description of the major changes to the easybuild-easyconfigs EasyBuild package. For more detailed information, please see the git log. The latest version of easybuild-easyconfig provides 1,340 easyconfig files, for 288 different software packages and 19 different compiler toolchains. v1.5.0.0 (May 31st 2013) ------------------------ feature + bugfix release - added example easyconfig files for 23 new software packages: - bam2fastq (#287), CBLAS (#263), EMBOSS (#265, #290), FCM (#272), FRC_align (#273), freeglut (#271), FreeSurfer (#271), FSL (#271), GATK (#287), libharu (#290), libxslt (#235), MariaDB (#292), Mothur (#265) mpi4py (#276), OpenIFS (#272), orthomcl (#265), PAML (#287), pandas (#262), phonopy (#235), problog (#277), PSI (#258), PyYAML (#235), RAxML (#277) - added additional example easyconfig files for: - ABINIT (#235), ACML (#267), BLAST (#275), Boost (#273), BWA (#270), bzip2 (#263), Chapel (#240), CMake (#290), FFTW2 (#247, #267), flex (#267), freetype (#235), grib_api (#272), gzip (#265), Java (#279), libpng (#240, #279), libreadline (#267), libxml2 (#235), libxml (#235), matplotlib (#235), MCL (#265), MUMmer (#265), ncurses (#267), numpy (#267), OpenFOAM (#267), Perl (#265), Python (#276, #263), R (#240, #279), SCOTCH (#267), ScaLAPACK (#267), TopHat (#289), Valgrind (#255), zlib (#267) - various enhancements, including: - enhance unit test suite, include testing for module conflicts (#256) and presence of patch files (#264) - use provided constants and templates in easyconfig files where appropriate (#248, #266, #281) - various 'bug' fixes, including: - get rid of hardcoded license_file paths for VTune, Inspector (#253) - assign proper moduleclass where they were missing (#278) - fix naming for LZO (#280) - make unit tests clean up after themselves more thoroughly (#283, #284, #285, #286) - fix TopHat dependencies (#289) - fix source URLs for XML (#279) - fix versions for all listed R extensions (#279) - fix CUDA easyconfig file for use on Debian Squeeze (#291) - correct easyconfig filename and module name mismatches (bbcp, DL_POLY Classic, ...) (#295) v1.4.0.0 (May 2nd 2013) ----------------------- feature + bugfix release - added a unit test suite for easyconfigs (#228, #230) - added example easyconfig files for 20 new software packages: - ABAQUS (#231), BioPerl (#242), Bowtie (#227), Clang (#177), CRF++ (#131), DL_POLY Classic (#132), ESMF, GROMACS (#165), HH-suite (#219), Inspector (#232), likwid (#131), Perl (#242), scikit (#133), TiCCutils (#131), TiMBL (#131), TinySVM (#131), UDUNITS (#167), VTune (#232), YamCha (#131) - add example easyconfigs for new compiler toolchains (use `eb --list-toolchains` for a full list of supported toolchains): - the newly added toolchains only differ in compilers/MPI library, and all feature OpenBLAS, LAPACK, ScaLAPACK and FFTW - goolfc: GCC, CUDA (co-compiler), OpenMPI (#191) - a goolfc easyconfig for GROMACS is inluded as proof-of-concept (#165) - cgmpolf: Clang (C/C++ compilers), GCC (Fortran compilers), MPICH (#213) - cgmvolf: Clang, GCC, MVAPICH2 (#218) - cgoolf: Clang, GCC, OpenMPI (#213) - gmvolf: GCC, MVAPICH (#202, #222) - ported already available easyconfigs to new compiler toolchains: - ictce-5.3.0: 193 easyconfigs (#229) - cgmpolf: 11 easyconfigs (#213) - cgmvolf: 11 easyconfigs (#218) - cgoolf: 12 easyconfigs (#213) - gmvolf: 10 easyconfigs (#215) - added additional example easyconfig files for: - CMake (#163), git (#210), Java (#206), #221, Mercurial (#201, #215), ncurses (#225), TotalView (#160) - various enhancements, including: - added ESMF and UDUNITS dependencies to NCL easyconfigs (#211) - changed value of source_urls in R easyconfigs, to be generic enough for version 3.0 and possibly beyond (#251) - various 'bug' fixes, including: - add --enable-mpirun-prefix-by-default configure option for all OpenMPI easyconfigs (#205) v1.3.0.0 (April 1st 2013) ------------------------- feature + bugfix release - added example easyconfig files for 13 new software packages: - Bash, CUDA, ccache, Ferret, gzip, libxc, ns, numactl, OpenBLAS, otcl, Tar, tclcl, tcsh - several of these easyconfig files were contributed by attendees of the EasyBuild hackathon in Cyprus! - added example easyconfigs for goolf toolchain (#158) - added example easyconfigs for builds with goolf toolchain, i.e. for all goalf easyconfigs (#189) - for several software packages, a patch file was needed to get them to build with GCC 4.7: AMOS, BEAGLE, Cufflinks, DOLFIN, GATE, ns, Pasha, Trilinos, Trinity - for PETSc, a patch file was required to make it build with a toolchain that doesn't include BLACS - added additional example easyconfig files for: gompi, hwloc, LAPACK, MVAPICH2, OpenMPI, ScaLAPACK - various enhancements, including: - define a proper module class in *all* easyconfigs, cfr. default module classes defined in framework (#150, #159, #161, #162, #179, #181) - extend FFTW easyconfig to 'fat' builds that include single, double, long double and quad precision libraries in the same module - quad precision is disabled for Intel compiler based builds (it requires GCC v4.6+) - the imkl easyconfigs used for the ictce 3.2.2.u3 toolchain now also enable FFTW interfaces - various 'bug' fixes, including: - fix filename for Mercurial and ROOT easyconfig files - fix homepage/description for Hypre - fix enabling OpenMP support in OpenMPI: use '--enable-openmp', not 'with-openmp' - use correct configure flag for enabling OpenMPI threading support in v1.6 (#186) - '--enable-mpi-thread-multiple' instead of '--enable-mpi-threads' - explicitely add '--without-openib --without-udapl' configure options in OpenMPI easyconfig using versionsuffix -no-OFED (#168) - this avoids that OpenMPI auto-detects that it can enable Infiniband (OpenIB) support, which doesn't fit the -no-OFED versionsuffix - Note: this makes goalf-1.1.0-no-OFED effectively not suitable to produce software builds that are IB-capable! - remove explicit '--with-udapl' from OpenMPI easyconfigs, does more harm than good (#178) - remove libibvers, libibmad, libibumad as explicit dependencies for OpenMPI/MVAPICH2 (#173, #182) leave it up to the OS to provide these, since the required version is too much tied to the version of IB drivers - use 'license_file' in Intel tools easyconfigs, as opposed to the new generic 'license' parameter with a different meaning (#180) - modify patch for impi to avoid installation problems due to hardcoded path in /tmp (#185) - now uses '$USER-$RANDOM' subdir to avoid clashes between different users on the same system - the patch file for numpy was extended to also supporting ATLAS and other BLAS libraries spread across multiple directories - the extension for ATLAS is required because we now no longer rely on the automatic numpy mechanism to find the ATLAS libs - fixed dependencies: - libibumad as dependency for libibmad - ncurses as dependency for libreadline - ncurses and zlib as dependency for SAMtools (+ enhanced patch) - remove explicit FFTW dependency for Meep, ... since toolchain already provided FFTW v1.2.0.0 (February 28th 2013) --------------------------- feature + bugfix release - added example easyconfig files for 41 new software packages: - a2ps, AnalyzeFMRI, aria, bbcp, bbFTP, bbftpPRO, binutils, Bonnie++, ccache, cflow, cgdb, Corkscrew, EasyBuild, Elinks, EPD, FLUENT, fmri, GDB, GDAL, gnuplot, gnutls, gperf, Iperf, lftp, libyaml, lzo, MATLAB, mc, nano, NASM, nettle, numexpr, parallel, pyTables, QLogic MPI, Stow, TotalView, Valgrind, VTK, Yasm, zsync - added example easyconfigs for iqacml and iiqmpi toolchains - added additional example easyconfig files for: - ABINIT, ABySS, ACML, BFAST, Bison, BLACS, Cython, cURL, Doxygen, FFTW, flex, g2clib, g2lib, GHC, h5py, HDF, HDF5, HMMER, JasPer, icc, ictce, ifort, imkl, impi, libpng, libreadline, M4, matplotlib, MCL, MEME, mpiBLAST, NCL, ncurses, netCDF, netCDF-Fortran, NWChem, R, ScaLAPACK, Tcl, Tk, WPS, WRF, zlib - various enhancements, including: - fix version of xtable R library in list of extensions for R, to avoid installation failures - various 'bug' fixes, including: - fix toolchain and file names for ABINIT easyconfigs - fix sanity check paths for cURL - don't disable 'optarch' for WRF, it's not needed (only disable heavy optimizations is required) - fix homepage/description for ALADIN v1.1.0.0 (January 27th 2013) -------------------------- feature + bugfix release - added example easyconfig files for 48 new software packages: - ABINIT, ABySS, ACML, ALADIN, ant, BFAST, BLAST, Chapel, CLHEP, Cufflinks, ESPRresSo, GATE, GHC, Geant4, Greenlet, google-sparsehash, grib_api, HMMER, Java, JUnit, libibmad, libibumad, libibverbs, MCL, MDP, MEME, mpiBLAST, NCBI Toolkit, NEURON, NWChem, numpy, MDP, Oger, OpenPGM, paycheck, PyZMQ, QuantumESPRESSO, R, ROOT, SCOOP, scipy, Tophat, Trinity, util-linux, VSC-tools, wiki2beamer, XML, ZeroMQ - added example easyconfigs for gmacml, gmvapich2, iccifort, ictce, iomkl toolchains - added additional example easyconfig files for: - ATLAS, BLACS, Boost, Bowtie2, bzip2, CP2K, Doxygen, FFTW, GCC, HDF5, hwloc, icc, ifort, imkl, impi, JasPer, Libint, libreadline, libsmm, libxml, ncurses, netCDF, M4, Meep, MVAPICH2, OpenMPI, Python, ScaLAPACK, Szip, zlib - various enhancements, including: - major style cleanup of all example easyconfig file (PEP008 compliance) - added setuptools to list of Python extensions - get rid of 'parallel' versionsuffix for HDF5, as its meaningless (MPI-enabled build is always parallel) - various 'bug' fixes, i.e. added missing dependencies or replaced os dependencies with proper dependencies v1.0.0.2 (December 8th 2012) ---------------------------- bugfix release - fixed source URL for ligtextutils (toolchain refactoring error) v1.0.0.1 (November 24th 2012) ----------------------------- bugfix release - remove patch file for OpenMPI to resolve issue with pax hanging configure - tar_config_opts should be enabled as needed - disable parallel build for PAPI, seems to be causing problems v1.0.0 (November 13th 2012) --------------------------- - split up EasyBuild across three repositories: framework, easyblocks and easyconfigs - packaged EasyBuild, different parts can now be installed easily using easy_install - added example easyconfig files for 106 new software packages: AMOS, Armadillo, ASE, Autoconf, BiSearch, Boost, Bowtie2, BWA, byacc, bzip2, CGAL, ClustalW2, CMake, CPLEX, cURL, CVXOPT, Cython, Docutils, DOLFIN, ECore, Eigen, expat, FASTX-Toolkit, FFC, FIAT, freetype, FSL, GEOS, git, glproto, GMP, gmvapich2, gompi, GPAW, GSL, guile, h5py, h5utils, Harminv, hwloc, Hypre, Infernal, Instant, Jinja2, libctl, libdrm, libffi, libgtextutils, libmatheval, libpciaccess, libpthread-stubs, libreadline, libtool, libunistring, libxcb, libxml2, makedepend, matplotlib, Meep, Mercurial, Mesa, MetaVelvet, METIS, MPFR, MTL4, MUMmer, ncurses, OpenFOAM, OpenSSL, ORCA, PAPI, ParMETIS, Pasha, PCRE, PETSc, petsc4py, pkg-config, Primer3, python-meep, RNAz, SAMtools, ScientificPython, SCOTCH, setuptools, Shapely, SHRiMP, SLEPc, SOAPdenovo, Sphinx, SuiteSparse, SWIG, Tcl, Theano, Tk, Tornado, Trilinos, UFC, UFL, Velvet, ViennaRNA, Viper, WIEN2k, xcb-proto, XCrySDen, xorg-macros, xproto - added additional example easyconfig files (versions, builds) for several software packages Bison, BLACS, Doxygen, flex, GCC, HDF5, icc, ifort, libpng, M4, MVAPICH2, OpenMPI, Szip, tbb, zlib - replaced GCC/OpenMPI based easyconfig files with equivalents using the gompi toolchain ATLAS, BLACS, FFTW, LAPACK, ScaLAPACK - enhanced Python example easyconfig files (more dependencies required for features, e.g. libreadline, bzip2, zlib, ...) - corrected file name of easyconfig files to adher to standard as followed by EasyBuild robot dependency resolver - style cleanup in existing easyconfig files v0.8 (June 29th 2012) --------------------- - added support for building/installing 17 additional software packages: - BEAGLE, Doxygen, g2clib, g2lib, HDF, HDF5, JasPer, libpng, Maple, MrBayes, NCL, netCDF, netCDF-Fortran, Szip, WPS, WRF, zlib - the build procedure for WRF and WPS includes running the tests available for these packages - various bug fixes and enhancements: - made support for interactive installers (run_cmd_qa) more robust - fixed Python git package check - implemented toolkit functions for determine compiler family, MPI type, MPI run command, ... v0.7 (June 18th 2012) --------------------- - fixed BLACS build - diagnostic tools to determine INTERFACE and TRANSCOMM values are now used - added support for building Bison, CP2K, flex - with regression test enabled for CP2K as part of build process - note: BLACS built with EasyBuild prior to v0.7 needs to be rebuilt for CP2K to work correctly - added --enable-mpi-threads to OpenMPI example easyconfigs - required for correct CP2K psmp build - adjusted libsmm example easyconfig for lower build time - to make the full regression test finish in a reasonable amount of time - added script to make porting of easyblocks from old to new EasyBuild codebase easier - takes care of refactoring, checks for PyLint warnings/errors, ... - fixed several small bugs - prefixed EasyBuild messages with "==" - full regression test passed (58 easyconfigs tested) v0.6 (May 11th 2012) --------------------- - added support for Intel compiler toolkit (ictce) - which included the Intel compilers, Intel Math Kernel Library (imkl) and Intel MPI library (impi) - added support for building Python with nose/numpy/scipy packages - added simple regression test - this version is able to build all supplied example easyconfigs v0.5 (April 6th 2012) ---------------------- - first public release of EasyBuild - after a thorough cleanup of the EasyBuild framework of the in-house version - supports building HPL with goalf compiler toolkit - the goalf toolkit consists of the GCC compilers, and the OpenMPI, ATLAS, LAPACK, FFTW and ScaLAPACK libraries - also support build and installation of MVAPICH2