Move reading of knl.conf from src/common/read_config.c into
  src/plugins/node_features/knl_cray/node_features_knl_cray.c
  with minimal changes to logic

First phase of adding node_features plugin infrastructure (taken
  largely from knl plugin infrastructure).
Added node_features/knl_cray plugin.

bug 2407

bug 2408

qalter and qrerun have wrong end-of-line encoding: \r\n rather than \n.

To fix it, please run
sed -e 's/\r$//' -i contribs/torque/qalter.pl
sed -e 's/\r$//' -i contribs/torque/qrerun.pl

Note that these two files have different permission (644) compare to other .pl files (755).
bug 2409

Change some power capping message from debug3 to debug5 if powercapping
  has nothing to do.

Set a job's --test-only start time and resources functioning properly
  with node active/available feature information (i.e. use active
  features if possible and fall-back to whole nodes and available
  features, the whole node flag is needed to insure we can reboot
  the node and change its active features).

Use PRIu64 instead of %ld for uint64_t types (libsh5util_old),
%zu instead of PRIu64 for size_t.

Add macros to fix compatibility for IPv6, deal with
lack of POLLRDHUP on FreeBSD.

Handle difference in cpu affinity APIs in gres.c.

$((10#$SLURM_API_MAJOR)) is bash-specific. replace with portable
${SLURM_API_MAJOR#0} which accomplishes the same thing.

The first forces bash to treat the value as base-10 even with a
leading zero, the second portable format strips a leading zero off.

Also remove checks for sys/termios.h from build system.
Slurm directly includes the POSIX-required <termios.h> already,
and the one use of this conditional is being removed here.

Fixes one of several build errors on FreeBSD.

This fixes a bug introduced in commit a801d264
Whole node resource allocations with REPLACE option were not working.
Detected by test3.14 failure.

Support AuthInfo in slurmdbd.conf that is different from the value in
    slurm.conf.
There is a possible bug in the slurm_get_auth_info function (src/common/slurm_protocol_api.c) that can cause the slurmdbd daemon to look for the AuthInfo parameter in slurm.conf instead of slurmdbd.conf when the auth/munge authentication method is used (AuthType=auth/munge).

Here is the slurmdbd log revealing the problem (debug5() printing were added in the sources) :

slurmdbd: slurmdbd version 15.08.7 started
slurmdbd: debug2: running rollup at Tue Feb 02 14:20:14 2016
slurmdbd: debug5: in ../../../src/slurmdbd/slurmdbd.c, _send_slurmctld_register_req (line 690)
slurmdbd: debug5: in ../../../src/common/slurm_protocol_api.c, slurm_send_node_msg (line 3601)
slurmdbd: debug5: in ../../../../../src/plugins/auth/munge/auth_munge.c, slurm_auth_create (line 217)
slurmdbd: debug5: in ../../../src/common/slurm_protocol_api.c, slurm_get_auth_ttl (line 1732)
slurmdbd: debug5: Entering ../../../src/common/slurm_protocol_api.c, slurm_get_auth_info
slurmdbd: debug:  Reading slurm.conf file: /usr/local/slurm-15-08-7-1/etc/slurm.conf
slurmdbd: error: s_p_parse_file: unable to status file /usr/local/slurm-15-08-7-1/etc/slurm.conf: No such file or directory, retrying in 1sec up to 60sec
...

Then 60 seconds later, the auth_info value returned by slurm_get_auth_info is NULL:

slurmdbd: debug5: Leaving ../../../src/common/slurm_protocol_api.c, slurm_get_auth_info, auth_info=(null)

and slurmdbd continues without crashing, but I am not sure it is in a safe state.

When applying this patch :

diff --git a/src/common/slurm_protocol_api.c b/src/common/slurm_protocol_api.c
index c5db879..be1dab6 100644
--- a/src/common/slurm_protocol_api.c
+++ b/src/common/slurm_protocol_api.c
@@ -1703,9 +1703,13 @@ extern char *slurm_get_auth_info(void)
        char *auth_info;
        slurm_ctl_conf_t *conf;

-       conf = slurm_conf_lock();
-       auth_info = xstrdup(conf->authinfo);
-       slurm_conf_unlock();
+       if (slurmdbd_conf) {
+                auth_info = xstrdup(slurmdbd_conf->auth_info);
+        } else {
+               conf = slurm_conf_lock();
+               auth_info = xstrdup(conf->authinfo);
+               slurm_conf_unlock();
+       }

        return auth_info;
 }

the auth_info value is now valid and consistent with the slurmdbd.conf setting:

slurmdbd: slurmdbd version 15.08.7 started
slurmdbd: debug2: running rollup at Tue Feb 02 14:47:37 2016
slurmdbd: debug5: in ../../../src/slurmdbd/slurmdbd.c, _send_slurmctld_register_req (line 690)
slurmdbd: debug5: in ../../../src/common/slurm_protocol_api.c, slurm_send_node_msg (line 3600)
slurmdbd: debug5: in ../../../../../src/plugins/auth/munge/auth_munge.c, slurm_auth_create (line 217)
slurmdbd: debug5: in ../../../src/common/slurm_protocol_api.c, slurm_get_auth_ttl (line 1731)
slurmdbd: debug5: Entering ../../../src/common/slurm_protocol_api.c, slurm_get_auth_info
slurmdbd: debug5: Leaving ../../../src/common/slurm_protocol_api.c, slurm_get_auth_info, auth_info=socket=/var/run/munge/munge_dbd.socket.2

Reserve node weight value of INIFINITE for nodes which require reboot
Avoid scheduling on nodes requiring reboot that are not IDLE
  (More work needed for backfill and will_run RPC).

parse_time - strlcpy not strncpy
slurm_protocol_api - set tree width to 1 as a default,
	0 leads coverity to warn about potential div/0
pmi2/setup.c - avoid strncpy entirely with a small rearrangement

contribs/cray/csm/slurmconfgen_smw.py - avoid erroneously including
repurposed compute nodes in the list of nodes to start slurmd.

Added support for node features with or without counts

$((10#$SLURM_API_MAJOR)) is bash-specific. replace with portable
${SLURM_API_MAJOR#0} which accomplishes the same thing.

The first forces bash to treat the value as base-10 even with a
leading zero, the second portable format strips a leading zero off.

Only do if job reboot requested

Including setting of default MCDRAM and NUMA modes