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9434 Коммитов

Автор SHA1 Сообщение Дата
KAWASHIMA Takahiro
6510800c16 ompi/request: Fix a persistent request creation bug
According to the MPI-3.1 p.52 and p.53 (cited below), a request
created by `MPI_*_INIT` but not yet started by `MPI_START` or
`MPI_STARTALL` is inactive therefore `MPI_WAIT` or its friends
must return immediately if such a request is passed.

The current implementation hangs in `MPI_WAIT` and its friends
in such case because a persistent request is initialized as
`req_complete = REQUEST_PENDING`. This commit fixes the
initialization.

Also, this commit fixes internal requests used in `MPI_PROBE`
and `MPI_IPROBE` which was marked wrongly as persistent.

MPI-3.1 p.52:

We shall use the following terminology: A null handle is a handle
with value MPI_REQUEST_NULL. A persistent request and the handle
to it are inactive if the request is not associated with any ongoing
communication (see Section 3.9). A handle is active if it is neither
null nor inactive. An empty status is a status which is set to return
tag = MPI_ANY_TAG, source = MPI_ANY_SOURCE, error = MPI_SUCCESS, and
is also internally configured so that calls to MPI_GET_COUNT,
MPI_GET_ELEMENTS, and MPI_GET_ELEMENTS_X return count = 0 and
MPI_TEST_CANCELLED returns false. We set a status variable to empty
when the value returned by it is not significant. Status is set in
this way so as to prevent errors due to accesses of stale information.

MPI-3.1 p.53:

One is allowed to call MPI_WAIT with a null or inactive request
argument. In this case the operation returns immediately with empty
status.

Signed-off-by: KAWASHIMA Takahiro <t-kawashima@jp.fujitsu.com>
2016-12-08 21:42:05 +09:00
Alina Sklarevich
e9d2d029c6 PML/SPML/UCX: Adapt to the API changes in the UCX lib.
Signed-off-by: Alina Sklarevich <alinas@mellanox.com>
2016-12-08 11:33:29 +02:00
Gilles Gouaillardet
4d8f606420 ompi/debuggers: make the binary bit reproducible
instead of compilation date __DATE__, use a MPI_Get_library_version() like string

Thanks Alastair McKinstry for the report

Fixes open-mpi/ompi#2518

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-08 13:46:43 +09:00
Joshua Ladd
59f40e7cc5 Merge pull request #2500 from vspetrov/hcoll_ctx_free_detection
Detect hcoll_context_free at config
2016-12-05 22:39:40 -05:00
Jeff Squyres
40d94fdc5a Merge pull request #2422 from edgargabriel/pr/cycle-buf-default-val
io/ompio: change the default value of mca parameter
2016-12-05 15:33:52 -05:00
Jeff Squyres
6319332258 Merge pull request #2491 from OMGtechy/master
Swapped use of fprintf for opal_output_verbose
2016-12-03 07:32:03 -05:00
Valentin Petrov
e13e264185 Detect hcoll_context_free at config
Needed for better flexibility with versioning

Signed-off-by: Valentin Petrov <valentinp@mellanox.com>
2016-12-02 22:09:20 +02:00
Jeff Squyres
1504ffb18d ompi_file_delete: output a better error message
Signed-off-by: Jeff Squyres <jsquyres@cisco.com>
2016-12-02 11:08:04 -05:00
Joshua Gerrard
d5a45bc12e Swapped use of fprintf for opal_output_verbose
Signed-off-by: Joshua Gerrard <enquiries@joshuagerrard.com>
2016-12-01 19:56:06 +00:00
Gilles Gouaillardet
188b9668e4 ompi/attribute: plug a memory leak in set_value()
OBJ_RELEASE() the previous attribute value if any

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-01 14:24:30 +09:00
Gilles Gouaillardet
d94e8c97a0 ompi/runtime: release F90 types in ompi_mpi_finalize()
F90 types cannot be freed by the enduser as specified by the standard.
but since they are ompi_datatype_dup'ed from predefined datatypes,
they have to be explicitly free'd at finalize time in order
to avoid a memory leak.

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-01 14:24:30 +09:00
Gilles Gouaillardet
b2aca6c753 ompi/proc: plug a memory leak in ompi_proc_unpack()
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-01 14:24:29 +09:00
Gilles Gouaillardet
ae278fd5df ompi/runtime: plug a memory leak
declare ompi_mpi_show_mca_params_file as NULL
so MPI_T_Init_thread() can be invoked without leaking memory

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-01 14:24:29 +09:00
Gilles Gouaillardet
43ee08b20e ompi/c: remove unused variable in [i]gatherv
Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-01 13:59:25 +09:00
Gilles Gouaillardet
fe4c4e95eb coll/libnbc: fix MPI_IN_PLACE handling in i{gather,scatter}[v]
MPI_IN_PLACE is only relevant on the root task, so only test is there

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2016-12-01 13:59:25 +09:00
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
Thananon Patinyasakdikul
6c5553c23c Removed the unused ompi_request_[waiting, completed, failed, poll] variable.
Signed-off-by: Thananon Patinyasakdikul <tpatinya@utk.edu>
2016-11-23 10:39:45 -05:00
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
Thananon Patinyasakdikul
b25a8c3fa5 Completely removed ompi_request_lock and ompi_request_cond as we dont need them anymore.
Signed-off-by: Thananon Patinyasakdikul <tpatinya@utk.edu>
2016-11-22 17:58:31 -05:00
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
Edgar Gabriel
26e9210b15 io/ompio: change the default value of mca parameter
change the default value of the mca_io_ompio_cycle_buffer_size parameter in order to avoid accidental truncation of a file for very large individual operations.
Thanks to @cniethammer for reporting it.

Signed-off-by: Edgar Gabriel <egabriel@central.uh.edu>
2016-11-15 10:09:43 -06:00
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