ports/openmpi
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Автор SHA1 Сообщение Дата
Gilles Gouaillardet
1a8a276914 coll/libnbc: use zero-size messages in ibarrier 
and silence a valgrind warning

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-12-01 13:59:25 +09:00
Gilles Gouaillardet
2eec6a08b5 coll/base: fix ompi_coll_base_reduce_scatter_intra_nonoverlapping() with MPI_IN_PLACE 
invoke underlying scatterv with MPI_IN_PLACE when appropriate

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-12-01 13:59:24 +09:00
Gilles Gouaillardet
8b7999469b coll/base: fix MPI_IN_PLACE in ompi_coll_base_reduce_generic() 
avoid copying data to itself when MPI_IN_PLACE is used

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-12-01 13:59:24 +09:00
Gilles Gouaillardet
3f1486a508 pml/ob1: initialize one more field in mca_pml_ob1_recv_request_progress_rget() 
always initialize recvreq->req_rdma_offset to zero.

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-12-01 13:14:23 +09:00
Jeff Squyres
756d09fd6f Merge pull request #2457 from OMGtechy/master 
Fixed -Werror=unused-result warnings in comm_cid.c by adding error checking
 2016-11-30 20:41:55 -05:00
Gilles Gouaillardet
15098161a3 coll/libnbc: add some comments on how locks are used 
no code change

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-30 17:29:51 +09:00
rhc54
d31f173744 Merge pull request #2476 from rhc54/topic/dbgupdate 
Bring forward the debugger-related changes
 2016-11-29 19:10:32 -08:00
Ralph Castain
d5fd635efe Bring forward the debugger-related changes 
Refs https://github.com/open-mpi/ompi/pull/2425

Signed-off-by: Ralph Castain <rhc@open-mpi.org>
 2016-11-29 13:15:20 -08:00
Joshua Gerrard
7cf5de12b9 Fixed -Werror=unused-result warnings in comm_cid.c by adding error checking 
Signed-off-by: Joshua Gerrard <enquiries@joshuagerrard.com>
 2016-11-29 21:08:12 +00:00
Ralph Castain
114e20ad66 Never collect data when doing the fence at the end of MPI_Init 
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
 2016-11-29 08:31:35 -08:00
Valentin Petrov
4cdb8ecaad coll/hcoll: hcoll_context_free 
Adds the new API hcoll_conetxt_free that resolves the issues
    observed with the ctx cache and group_destroy_notify.

Signed-off-by: Valentin Petrov <valentinp@mellanox.com>
 2016-11-29 07:33:05 +02:00
Jeff Squyres
34ea3ce25a Merge pull request #1946 from thananon/romio-add-notes 
romio: update REFRESH_NOTES to accommodate the random() patch.
 2016-11-28 16:37:23 -05:00
KAWASHIMA Takahiro
9bfca8b274 pml/ob1: Reduce per-rank memory footprint slightly 
`sturct mca_pml_ob1_comm_proc_t`, which is allocated per
connected rank in a communicator, had two paddings after
`expected_sequence` and `send_sequence` by alignments.
By changing the order of the members, the size of
`mca_pml_ob1_comm_proc_t` is reduced by 8 bytes on 64-bit
architectures.

Signed-off-by: KAWASHIMA Takahiro <t-kawashima@jp.fujitsu.com>
 2016-11-28 19:20:48 +09:00
Edgar Gabriel
ebcfbbc045 Merge pull request #2456 from edgargabriel/pr/dynamic_gen2_uneven_distro_bug 
fcoll/dynamic_gen2: fix bug exposed by uneven distribution of data
 2016-11-24 16:34:19 -06:00
Edgar Gabriel
b10558c3da fcoll/dynamic_gen2: fix bug exposed by uneven distribution of data 
This fixes a bug reported in-house occuring with this component. It is triggered if the data assigned to different aggregators is highly differing, leading to different number of internal iterations required to handle it.

Signed-off-by: Edgar Gabriel <egabriel@central.uh.edu>
 2016-11-24 13:02:19 -06:00
Artem Polyakov
c660b9b445 Merge pull request #2401 from artpol84/lazy_wait_fix 
ompi/init: always lazy-wait in ompi_mpi_init
 2016-11-23 08:53:02 -08:00
Ralph Castain
1e2019ce2a Revert "Update to sync with OMPI master and cleanup to build" 
This reverts commit cb55c88a8b7817d5891ff06a447ea190b0e77479.
 2016-11-22 15:03:20 -08:00
Ralph Castain
cb55c88a8b Update to sync with OMPI master and cleanup to build 
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
 2016-11-22 14:24:54 -08:00
Gilles Gouaillardet
2c94a3a6f3 coll/libnbc: fix race condition with multi threaded apps 
protect the mca_coll_libnbc_component.active_requests list with
the new mca_coll_libnbc_component.lock mutex.

Thanks Jie Hu for the report

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-21 10:21:47 +09:00
Jijo Varghese
25e138ea1d error correction to the MPI_file operations thread safety lock 
Signed-off-by: Jijo Varghese <jijo733@gmail.com>
 2016-11-17 08:18:49 -05:00
Gilles Gouaillardet
bd364d29f7 osc/sm: plug an other memory leak in ompi_osc_sm_free 
Fixes open-mpi/ompi@f1b473ee63

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-14 23:19:07 -07:00
Gilles Gouaillardet
f1b473ee63 osc/sm: plug a memory leak in ompi_osc_sm_free 
Thanks Joseph Schuchart for the report.

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-14 22:22:43 -07:00
Josh Hursey
bcc8230501 Merge pull request #2410 from jjhursey/topic/fix-dist-graph-coll 
topo/base: Fix module reference in collective call
 2016-11-14 14:29:00 -06:00
Howard Pritchard
fb5ccd3618 Merge pull request #2404 from osvegis/topic/java_paper 
Update java paper reference.
 2016-11-14 11:35:45 -07:00
Joshua Hursey
5a8b2f7431 topo/base: Fix module reference in collective call 
Signed-off-by: Joshua Hursey <jhursey@us.ibm.com>
 2016-11-14 11:34:54 -06:00
Jeff Squyres
8d2c98e616 Merge pull request #2408 from hppritcha/manpage_typo 
fix minor typo in MPI_Comm_connect man page
 2016-11-14 09:38:38 -07:00
Howard Pritchard
3923bf8151 fix minor type in MPI_Comm_connect man page 
Signed-off-by: Howard Pritchard <howardp@lanl.gov>
 2016-11-14 05:52:45 -07:00
Gilles Gouaillardet
fc776e3fa5 coll: code cleanup 
- instead of coll_base_comm_get_reqs(2) for irecv/isend, use only
   one request allocated in the stack and do a irecv/send

 - instead of ompi_request_wait_all(2), simpy ompi_request_wait

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-13 22:35:33 -07:00
Gilles Gouaillardet
99d30353af coll: Don't allocate space for zero requests 
Refs #2402

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-13 22:20:58 -07:00
Oscar Vega-Gisbert
891272f556 Update java paper reference. 
Signed-off-by: Oscar Vega-Gisbert
 2016-11-13 22:05:18 +01:00
George Bosilca
725277bc26 Don't allocate space for the requests if the 
underlying topology has no neighbors.

This commit fixes issue #2402.

Signed-off-by: George Bosilca <bosilca@icl.utk.edu>
 2016-11-12 18:01:09 -05:00
Artem Polyakov
06a73da5ea ompi/init: always lazy-wait in ompi_mpi_init 
According to discussion in #2181 we don't need MCA
parameter any more.

Signed-off-by: Artem Polyakov <artpol84@gmail.com>
 2016-11-12 07:54:48 +07:00
Gilles Gouaillardet
11dc86f26b cleanup: always #include <pthread.h> 
pthreads are now mandatory, so there is no more need to

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-08 13:07:45 +09:00
Gilles Gouaillardet
023d18abae pml/ob1: mca_pml_ob1_recv must have memchecker mark the buffer as defined upon success 
this is generally done in mca_pml_ob1_recv_request_free(), but this is not invoked
in via mca_pml_ob1_recv(), so do it manually

Thanks Yvan Fournier for the report

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-11-07 13:10:15 +09:00
Jeff Squyres
f11b0c7edf Merge pull request #2330 from jjhursey/topic/ibcast-non-uniform-dt-wa 
coll/libnbc: Work around for non-uniform data types in ibcast
 2016-11-05 10:26:04 -04:00
Joshua Hursey
350ef67fe0 coll/libnbc: Work around for non-uniform data types in ibcast 
* If (legal) non-uniform data type signatures are used in ibcast
   then the chosen algorithm may fail on the request, and worst case
   it could produce wrong answers.
 * Add an MCA parameter that, by default, protects the user from this
   scenario. If the user really wants to use it then they have to
   'opt-in' by setting the following parameter to false:
   - `-mca coll_libnbc_ibcast_skip_dt_decision f`
 * Once the following Issues are resolved then this parameter can
   be removed.
   - https://github.com/open-mpi/ompi/issues/2256
   - https://github.com/open-mpi/ompi/issues/1763

Signed-off-by: Joshua Hursey <jhursey@us.ibm.com>
 2016-11-01 13:33:23 -05:00
Yossi Itigin
17c8f76411 pml_ucx: fix uninitialized field req_status->_cancelled. 
Signed-off-by: Yossi Itigin <yosefe@mellanox.com>
 2016-11-01 17:02:22 +02:00
Thananon Patinyasakdikul
ea2d38de14 romio: update REFRESH_NOTES to accommodate the random() patch. 
From patch: open-mpi/ompi@23b27c510c
Signed-off-by: Thananon Patinyasakdikul <tpatinya@utk.edu>
 2016-10-31 16:08:08 -04:00
Joshua Ladd
d27b680de2 Merge pull request #2305 from vspetrov/hcoll_fortran_pair_types 
coll/hcoll fortran pair types
 2016-10-28 12:05:00 -04:00
Gilles Gouaillardet
efac15e9a1 ompi: use opal_setenv instead of putenv 
this fixes a memory leak at finalize

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-28 09:32:30 +09:00
Gilles Gouaillardet
981dccab8d ompi: cleanup environment at finalize 
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-28 09:32:30 +09:00
Gilles Gouaillardet
af67183e2f pml/v: fix a memory leak 
close the framework if no more component should be used

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-28 09:32:30 +09:00
Jeff Squyres
e9aab634af Merge pull request #2294 from ggouaillardet/topic/fortran_use_mpi_tkr 
fortran/use-mpi-tkr misc fixes
 2016-10-27 13:09:06 -04:00
Valentin Petrov
2b7e362e56 coll/hcoll fortran pair types 
Adds mapping of the MPI Fortran pair types (2INTEGER, 2REAL, 2DBLPREC)
    to the corresponding hcoll dtypes.

Signed-off-by: Valentin Petrov <valentinp@mellanox.com>
 2016-10-27 18:24:07 +03:00
Gilles Gouaillardet
ad7f3f93b0 mpi: support MPI_Dims_create(..., ndims=0, ...) 
this is a bozo case, but it should not fail with MPI_ERR_DIMS

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-27 14:13:51 +09:00
Gilles Gouaillardet
bf789762a7 fortran/use-mpi-tkr: fix MPI_Sizeof handling 
MPI_Sizeof related stuff has been moved to their own files.
Remove MPI_Sizeof from Fortran interfaces when it cannot be built
(e.g. stock gcc 4.8 on CentOS 7)

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-27 08:54:28 +09:00
Gilles Gouaillardet
1a16e68c26 fortran/use-mpi-trk: add PMPI_* interfaces in mpi module 
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-27 08:54:07 +09:00
Gilles Gouaillardet
8e26e78728 fortran/use-mpi-tkr: only build MPI_File support if requested 
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-27 08:54:07 +09:00
Gilles Gouaillardet
5543b19e9a fortran/use-mpi-tkr: rename mpi-f90-cptr-interfaces.F90 into mpi-f90-cptr-interfaces.h 
this file is meant to be included and not compiled, so use a consistent naming

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
 2016-10-27 08:54:07 +09:00
Edgar Gabriel
2076622924 Merge pull request #2238 from edgargabriel/pr/delete-error-codes 
update the error codes reported by file_delete
 2016-10-25 12:38:03 -05:00