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Merged
merged 190 commits into from
Jan 12, 2018
Merged

Sync to ORTE/OPAL master #21

merged 190 commits into from
Jan 12, 2018

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@rhc54 rhc54 commented Jan 12, 2018

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Thananon Patinyasakdikul and others added 30 commits October 30, 2017 12:01
In multithreaded case, it is expensive to release the lock, call the slow match
and retake the lock again just to queue the frag. This patch will eliminate number of
lock taken by queueing the frag right away and return.

Signed-off-by: Thananon Patinyasakdikul <tpatinya@utk.edu>
LSF running on top of CSM does not provide LSF daemons on the compute nodes.

Signed-off-by: Matt Ezell <ezellma@ornl.gov>
If not the pvars will remain valid after the OB1 PML is unloaded, and
any access will segfault (the callbacks associated with the pvar will
point to the memory of the dlclosed module).

Signed-off-by: George Bosilca <bosilca@icl.utk.edu>
Store the pointer to the object handle and not the pointer to the
pointer.
We should not assert(0) in the code !

Signed-off-by: George Bosilca <bosilca@icl.utk.edu>
values to FI_PROGRESS_UNSPEC so each provider will use its default.

Signed-off-by: Matias Cabral <matias.a.cabral@intel.com>
Rework the logic to handle the out-of-sequence fragments on the receiver
side. A large number of OOS messages are still arriving even in single
threaded scenarios.

Signed-off-by: George Bosilca <bosilca@icl.utk.edu>
The following issues have been fixed for `mindist`:
- computing the job map on the backend nodes
- using slots count (`-host node1:<s1>,nodeN:<sN>`)
- fixed `dist:span` job mapping method
- fixed `oversubcribe` option with `-host`

Signed-off-by: Boris Karasev <karasev.b@gmail.com>
rmaps/mindist: reworked the job map binding
…d have

higher priority than rdma and default to psm2.

Context: the Intel Omni-path driver (hfi1) has verbs support, so the openib
btl is available to use. However, at a bad performance. Without this
change osc rdma using btl openib is the default choice when running on Intel
Omni-path, with a lower performance than osc pt2pt over mtl psm2.

Signed-off-by: Matias A Cabral <matias.a.cabral@intel.com>
so the bool type is defined when using old compilers that do not support gcc builtin atomics (such as gcc 4.1.x from CentOS 5)

Fixes open-mpi/ompi#4478

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
Per
https://www.mail-archive.com/users@lists.open-mpi.org/msg31758.html,
only output unknown frames when we're outputting verbose BTL messages.

Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
…n-verbose-mode

usnic: only output unknown frames in verbose mode
pml/ob1: match callback will now queue wrong sequence frag and return.
No code or logic changes.

Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
No code or logic changes.

Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
The value of ret is negative (e.g., -61), but it is displayed in the
help message as `%zd`, which renders as unsigned (i.e., a giant
positive value).  So make sure to negate the negative value before
rendering it (e.g., so we display "61", not "4294967235").

Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
Before this commit, the presence of usNIC devices -- which will
(currently) return no data when fi_getinfo() is queried for tagged
matching providers -- would cause an error message to be displayed.

Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
gcc 5.2 complains:

```
mtl_ofi_component.c: In function ‘ompi_mtl_ofi_finalize’:
mtl_ofi_component.c:613:5: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
     if (ret = fi_close((fid_t)ompi_mtl_ofi.fabric)) {
     ^
```

Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Some minor cleanups of the DVM
mtl/ofi: Set data and control progress options default values to FI_PROGRESS_UNSPEC
Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
pmix: pack pointer to object (vs. pointer to pointer)
Sometimes, the ethernet interfaces can get quite high kernel indices. struct
ifreq (see netdevice(7)) defines ifr_ifindex to be int's. The OOB component
used int16_t internally for matching (in case of -mca oob_tcp_if_[in|ex]clude)
which meant that any interface index > 32767 would never be matched because the
integer would be truncated to int16_t upon return from the function. OOB would
then refuse to work because it didn't find any usable interfaces and MPI job
would abort.

Signed-off-by: Wojtek Wasko <wwasko@nvidia.com>
of "unset".
mtl/psm2: Update some shadow mca parameters to use the default "unset".
mtl/psm2: Add new shadow parameter to allow specifying the service level.

Signed-off-by: Matias A Cabral <matias.a.cabral@intel.com>
Make interface's kernel index an int instead of int16_t
ggouaillardet and others added 25 commits January 9, 2018 18:05
return true if the datatype has non-negative displacements and
monotonically nondecreasing, and false otherwise.

Thanks George for the guidance.

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
Per MPI 3.1 chapter 13.3 :
"Derived etypes can be constructed by using any of the MPI
datatype constructor routines, provided all resulting typemap
displacements are non-negative and monotonically nondecreasing."
Same restriction applies to ftypes.

add the OMPI_DATATYPE_CHECK_FOR_VIEW() macro that is
check the underlying opal_datatype_t is monotonic, on top
of all checks performed in OMPI_DATATYPE_CHECK_FOR_RECV().

Since checking monotoniciy is expensive, check is only performed
when needed, but the result is cached by ompi_datatype_is_monotonic().

Thanks Wei-keng Liao for the valuable feedback.
Thanks George for the guidance.

Refs. open-mpi/ompi#4682

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
MPI_File_set_view(): check datatypes are monotonic
Signed-off-by: Philip Kovacs <pkdevel@yahoo.com>
Fix DIR, DIR/include search for --with-pmix
If we abnormally terminate, then we still want any cleanups to be
executed.

Remove debug

Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Ensure the epilog gets executed in PMIx server
Handle the need for different regex generator/parsers by moving the
orte/util/nidmap and orte/util/regex code into a new "regx" framework.
Use the original code to complete a "fwd" component, and create a
scaffold for IBM's "reverse" component.

Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Convert nidmap to regx framework
Resolve a race condition between registering for a file to be removed upon termination and actual creation of that file by providing attributes that identify whether the path is a file or directory. This removes the need for PMIx to detect the difference.

Refs #4686

Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Ensure cleanup of registered files/dirs
Use asprintf in description message to avoid missing default values
Signed-off-by: Matias Cabral <matias.a.cabral@intel.com>
Refs. open-mpi/ompi#4689

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
typedef int (*orte_regx_base_module_extract_node_names_fn_t)(char *regexp, char ***names);

among other things, that will make testing way easier.

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
Search for the digits to be compressed from the end of the node names.

For example, if the nodelist is c712f6n01,c712f6n02,c712f6n03
the regx/fwd component generates c[3:712]f6n01,c[3:712]f6n02,c[3:712]f6n03@(3)
when the regx/reverse component generates c712f6n[2:1-3]@0(3) which is
a better fit here.

Josh Hursey authored the changes and must be credited.

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
Ensure that prun doesn't exit until notified that its own child job
terminated.

Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Ensure that prun doesn't prematurely exit
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
orte/regx: fix, revamp and enhancement
osc/rmda: fix missing opal_argv_free in mtls search.
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
@rhc54 rhc54 changed the title Sync to OMPI master Sync to ORTE/OPAL master Jan 12, 2018
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rhc54 commented Jan 12, 2018

@ggouaillardet Looks like Travis changed something, and now GCC v6 cannot be found. I've captured it here in case the detailed log is lost.

This job ran on our Trusty environment, which has been updated on Tuesday, December 12th, 2017. 
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  system
  5.6
* 5.6.32 (set by /home/travis/.phpenv/version)
  7.0
  7.0.25
  7.1
  7.1.11
  hhvm
  hhvm-stable
composer --version
Composer version 1.5.2 2017-09-11 16:59:25
Pre-installed Ruby versions
ruby-2.2.7
ruby-2.3.4
ruby-2.4.1
removed ‘/etc/apt/sources.list.d/basho_riak.list’
Executing: /tmp/tmp.ptvi3RzcKN/gpg.1.sh --keyserver
hkp://keyserver.ubuntu.com:80
--recv
0C49F3730359A14518585931BC711F9BA15703C6
gpg: requesting key A15703C6 from hkp server keyserver.ubuntu.com
gpg: key A15703C6: "MongoDB 3.4 Release Signing Key <packaging@mongodb.com>" 1 new signature
gpg: Total number processed: 1
gpg:         new signatures: 1
W: The repository 'http://ppa.launchpad.net/couchdb/stable/ubuntu trusty Release' does not have a Release file.
W: Failed to fetch http://www.apache.org/dist/cassandra/debian/dists/39x/InRelease  Could not connect to www.apache.org:80 (140.211.11.105), connection timed out
W: Failed to fetch http://ppa.launchpad.net/chris-lea/redis-server/ubuntu/dists/trusty/main/binary-i386/Packages  Could not connect to ppa.launchpad.net:80 (91.189.95.83), connection timed out
W: Failed to fetch http://ppa.launchpad.net/chris-lea/redis-server/ubuntu/dists/trusty/main/i18n/Translation-en  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/git-core/ppa/ubuntu/dists/trusty/main/binary-amd64/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/git-core/ppa/ubuntu/dists/trusty/main/binary-i386/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/git-core/ppa/ubuntu/dists/trusty/main/i18n/Translation-en  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/openjdk-r/ppa/ubuntu/dists/trusty/main/binary-amd64/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/openjdk-r/ppa/ubuntu/dists/trusty/main/binary-i386/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/openjdk-r/ppa/ubuntu/dists/trusty/main/i18n/Translation-en  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/pollinate/ppa/ubuntu/dists/trusty/main/binary-amd64/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/pollinate/ppa/ubuntu/dists/trusty/main/binary-i386/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/pollinate/ppa/ubuntu/dists/trusty/main/i18n/Translation-en  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/webupd8team/java/ubuntu/dists/trusty/main/binary-amd64/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/webupd8team/java/ubuntu/dists/trusty/main/binary-i386/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/webupd8team/java/ubuntu/dists/trusty/main/i18n/Translation-en  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/couchdb/stable/ubuntu/dists/trusty/main/binary-amd64/Packages  Unable to connect to ppa.launchpad.net:http:
W: Failed to fetch http://ppa.launchpad.net/couchdb/stable/ubuntu/dists/trusty/main/binary-i386/Packages  Unable to connect to ppa.launchpad.net:http:
W: Some index files failed to download. They have been ignored, or old ones used instead.
127.0.0.1 localhost nettuno travis vagrant
127.0.1.1 travis-job-56e0ec00-55b5-42ef-a9ec-f75d05149b67 travis-job-56e0ec00-55b5-42ef-a9ec-f75d05149b67 ip4-loopback trusty64
git.checkout
7.17s$ git clone --depth=50 https://github.com/pmix/pmix-reference-server.git pmix/pmix-reference-server
Cloning into 'pmix/pmix-reference-server'...
remote: Counting objects: 24115, done.
remote: Compressing objects: 100% (11460/11460), done.
remote: Total 24115 (delta 16509), reused 16501 (delta 12498), pack-reused 0
Receiving objects: 100% (24115/24115), 14.00 MiB | 11.27 MiB/s, done.
Resolving deltas: 100% (16509/16509), done.
$ cd pmix/pmix-reference-server
1.03s$ git fetch origin +refs/pull/21/merge:
remote: Counting objects: 1845, done.
remote: Compressing objects: 100% (459/459), done.
remote: Total 1845 (delta 1567), reused 1644 (delta 1384), pack-reused 0
Receiving objects: 100% (1845/1845), 427.83 KiB | 6.58 MiB/s, done.
Resolving deltas: 100% (1567/1567), completed with 579 local objects.
From https://github.com/pmix/pmix-reference-server
 * branch              refs/pull/21/merge -> FETCH_HEAD
$ git checkout -qf FETCH_HEAD
apt
Adding APT Sources (BETA)
$ export DEBIAN_FRONTEND=noninteractive
1.48s$ sudo -E apt-add-repository -y "ppa:ubuntu-toolchain-r/test"
gpg: keyring `/tmp/tmpx1vivyvo/secring.gpg' created
gpg: keyring `/tmp/tmpx1vivyvo/pubring.gpg' created
gpg: requesting key BA9EF27F from hkp server keyserver.ubuntu.com
gpg: /tmp/tmpx1vivyvo/trustdb.gpg: trustdb created
gpg: key BA9EF27F: public key "Launchpad Toolchain builds" imported
gpg: Total number processed: 1
gpg:               imported: 1  (RSA: 1)
OK
Installing APT Packages (BETA)
$ export DEBIAN_FRONTEND=noninteractive
12.21s$ sudo -E apt-get -yq update &>> ~/apt-get-update.log
3.15s$ sudo -E apt-get -yq --no-install-suggests --no-install-recommends --force-yes install autoconf automake libtool libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libibverbs-dev librdmacm-dev libhwloc-dev
Reading package lists...
Building dependency tree...
Reading state information...
autoconf is already the newest version (2.69-6).
automake is already the newest version (1:1.14.1-2ubuntu1).
libtool is already the newest version (2.4.2-1.7ubuntu1).
libnl-3-200 is already the newest version (3.2.21-1ubuntu4.1).
libnl-3-200 set to manually installed.
Suggested packages:
  libhwloc-contrib-plugins
Recommended packages:
  libhwloc-plugins
The following NEW packages will be installed:
  libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libnl-3-dev
  libnl-route-3-200 libnl-route-3-dev libpci-dev librdmacm-dev librdmacm1
0 upgraded, 10 newly installed, 0 to remove and 28 not upgraded.
Need to get 737 kB of archives.
After this operation, 3,461 kB of additional disk space will be used.
Get:1 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/main amd64 libnl-route-3-200 amd64 3.2.21-1ubuntu4.1 [96.2 kB]
Get:2 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/universe amd64 libhwloc5 amd64 1.8-1ubuntu1.14.04.1 [78.0 kB]
Get:3 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/main amd64 libibverbs1 amd64 1.1.7-1ubuntu1.1 [23.6 kB]
Get:4 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty/main amd64 librdmacm1 amd64 1.0.16-1 [36.8 kB]
Get:5 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/main amd64 libnl-3-dev amd64 3.2.21-1ubuntu4.1 [69.6 kB]
Get:6 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/main amd64 libnl-route-3-dev amd64 3.2.21-1ubuntu4.1 [103 kB]
Get:7 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/main amd64 libpci-dev amd64 1:3.2.1-1ubuntu5.1 [43.9 kB]
Get:8 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/universe amd64 libhwloc-dev amd64 1.8-1ubuntu1.14.04.1 [129 kB]
Get:9 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty-updates/main amd64 libibverbs-dev amd64 1.1.7-1ubuntu1.1 [70.0 kB]
Get:10 http://us-central1.gce.archive.ubuntu.com/ubuntu trusty/main amd64 librdmacm-dev amd64 1.0.16-1 [87.1 kB]
Fetched 737 kB in 0s (5,231 kB/s)
Selecting previously unselected package libnl-route-3-200:amd64.
(Reading database ... 93696 files and directories currently installed.)
Preparing to unpack .../libnl-route-3-200_3.2.21-1ubuntu4.1_amd64.deb ...
Unpacking libnl-route-3-200:amd64 (3.2.21-1ubuntu4.1) ...
Selecting previously unselected package libhwloc5:amd64.
Preparing to unpack .../libhwloc5_1.8-1ubuntu1.14.04.1_amd64.deb ...
Unpacking libhwloc5:amd64 (1.8-1ubuntu1.14.04.1) ...
Selecting previously unselected package libibverbs1.
Preparing to unpack .../libibverbs1_1.1.7-1ubuntu1.1_amd64.deb ...
Unpacking libibverbs1 (1.1.7-1ubuntu1.1) ...
Selecting previously unselected package librdmacm1.
Preparing to unpack .../librdmacm1_1.0.16-1_amd64.deb ...
Unpacking librdmacm1 (1.0.16-1) ...
Selecting previously unselected package libnl-3-dev.
Preparing to unpack .../libnl-3-dev_3.2.21-1ubuntu4.1_amd64.deb ...
Unpacking libnl-3-dev (3.2.21-1ubuntu4.1) ...
Selecting previously unselected package libnl-route-3-dev.
Preparing to unpack .../libnl-route-3-dev_3.2.21-1ubuntu4.1_amd64.deb ...
Unpacking libnl-route-3-dev (3.2.21-1ubuntu4.1) ...
Selecting previously unselected package libpci-dev.
Preparing to unpack .../libpci-dev_1%3a3.2.1-1ubuntu5.1_amd64.deb ...
Unpacking libpci-dev (1:3.2.1-1ubuntu5.1) ...
Selecting previously unselected package libhwloc-dev:amd64.
Preparing to unpack .../libhwloc-dev_1.8-1ubuntu1.14.04.1_amd64.deb ...
Unpacking libhwloc-dev:amd64 (1.8-1ubuntu1.14.04.1) ...
Selecting previously unselected package libibverbs-dev.
Preparing to unpack .../libibverbs-dev_1.1.7-1ubuntu1.1_amd64.deb ...
Unpacking libibverbs-dev (1.1.7-1ubuntu1.1) ...
Selecting previously unselected package librdmacm-dev.
Preparing to unpack .../librdmacm-dev_1.0.16-1_amd64.deb ...
Unpacking librdmacm-dev (1.0.16-1) ...
Processing triggers for man-db (2.6.7.1-1ubuntu1) ...
Setting up libnl-route-3-200:amd64 (3.2.21-1ubuntu4.1) ...
Setting up libhwloc5:amd64 (1.8-1ubuntu1.14.04.1) ...
Setting up libibverbs1 (1.1.7-1ubuntu1.1) ...
Setting up librdmacm1 (1.0.16-1) ...
Setting up libnl-3-dev (3.2.21-1ubuntu4.1) ...
Setting up libnl-route-3-dev (3.2.21-1ubuntu4.1) ...
Setting up libpci-dev (1:3.2.1-1ubuntu5.1) ...
Setting up libhwloc-dev:amd64 (1.8-1ubuntu1.14.04.1) ...
Setting up libibverbs-dev (1.1.7-1ubuntu1.1) ...
Setting up librdmacm-dev (1.0.16-1) ...
Processing triggers for libc-bin (2.19-0ubuntu6.13) ...
W: --force-yes is deprecated, use one of the options starting with --allow instead.
Setting environment variables from .travis.yml
$ export AM_MAKEFLAGS="-j4"
$ export CPPFLAGS="-I$HOME/bogus/include"
$ export LDFLAGS="-L$HOME/bogus/lib"
$ export LD_LIBRARY_PATH="$HOME/bogus/lib"
$ export GCC_VERSION=6
$ export CC=gcc
$ gcc --version
gcc (Ubuntu 4.8.4-2ubuntu1~14.04.3) 4.8.4
Copyright (C) 2013 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
before_install.1
0.00s$ if [[ "GCC_VERSION" == "6" ]]; then COMPILERS="CC=gcc-6 CXX=g++-6 FC=gfortran-6"; fi
before_install.2
0.00s$ export CONFIGURE_ARGS="--prefix=$HOME/bogus --enable-orterun-prefix-by-default $COMPILERS" DISTCHECK_CONFIGURE_FLAGS="$CONFIGURE_ARGS"
before_install.3
0.00s$ export DISTCHECK_CONFIGURE_FLAGS="$CONFIGURE_ARGS"
0.43s$ if [[ "$GCC_VERSION" == "6" ]] ; then sudo apt-get --assume-yes install gcc-6 g++-6 gfortran-6; fi
Reading package lists... Done
Building dependency tree       
Reading state information... Done
E: Unable to locate package gcc-6
E: Unable to locate package g++-6
E: Couldn't find any package by regex 'g++-6'
E: Unable to locate package gfortran-6
The command "if [[ "$GCC_VERSION" == "6" ]] ; then sudo apt-get --assume-yes install gcc-6 g++-6 gfortran-6; fi" failed and exited with 100 during .

@rhc54 rhc54 merged commit 6190e2c into openpmix:master Jan 12, 2018
@rhc54 rhc54 deleted the topic/sync branch January 12, 2018 19:30
hppritcha referenced this pull request in hppritcha/prrte Oct 1, 2024
Use the PMIx functions to check params
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