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Mark Allen
eec1d5bf2e osc/pt2pt: Fix hang with Put and Win_lock_all
* When using `MPI_Put` with `MPI_Win_lock_all` a hang is possible since
   the `put` is waiting on `eager_send_active` to become `true` but
   that variable might not be reset in the case of `MPI_Win_lock_all`
   depending on other incoming events (e.g., `post` or ACKs of lock
   requests.

Signed-off-by: Joshua Hursey <jhursey@us.ibm.com>
2016-12-16 11:52:53 -05:00
Mark Allen
0d1336b4a8 osc/pt2pt: Fix Lock/Unlock and Get wrong answer
* When using `MPI_Lock`/`MPI_Unlock` with `MPI_Get` and non-contiguous
   datatypes is is possible that the unlock finishes too early before
   the data is actually present in the recv buffer.
 * We need to wait for the irecv to complete before unlocking the target.
   This commit waits for the outgoing fragment counts to become equal
   before unlocking.

Signed-off-by: Joshua Hursey <jhursey@us.ibm.com>
2016-12-16 11:52:51 -05:00
Mark Allen
1ebf9fd3a4 osc/pt2pt: Fix PSCW after Fence wrong answer.
* If the user uses PSCW synchronization after a Fence then the previous
   epoch is not reset which can cause the PSCW to transfer data before
   it is ready leading to wrong answers.
 * This commit resets the `eager_send_active` in the start call.

Signed-off-by: Joshua Hursey <jhursey@us.ibm.com>
2016-12-16 11:52:49 -05:00
Xin Zhao
0ecf3c951c PML/SPML/UCX: add UCX MT support to PML and SPML.
Signed-off-by: Xin Zhao <xinz@mellanox.com>
2016-12-15 23:59:15 +02:00
Ralph Castain
585540bcee Reduce the flood of warnings due to uninitialized variables, mismatched types, and unused things to a more bearable trickle
Signed-off-by: Ralph Castain <rhc@open-mpi.org>
2016-12-14 16:33:50 -08:00
Yossi
fa6e263821 Merge pull request #2537 from alinask/topic/pml-spml-ucx-api
PML/SPML/UCX: Adapt to the API changes in the UCX lib.
2016-12-13 20:01:47 +02:00
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
George Bosilca
028e747470 Do not alter ompi_coll_tuned_use_dynamic_rules.
This is set globally as an MCA parameter and should be never
altered based on a single communicator setting.
2016-10-25 12:17:25 -04:00
George Bosilca
253eb80e26 Code cleaning of the tuned module. 2016-10-25 12:17:25 -04:00
Edgar Gabriel
74441b960b update the error codes reported by file_delete 2016-10-25 10:15:14 -05:00
Gilles Gouaillardet
8e788b5aee pml/ob1: refactor append_recv_req_to_queue() to improve readability
and fix a typo in a comment

Thanks George for the patch
2016-10-25 10:50:40 +09:00
Gilles Gouaillardet
4a886ac4cc pml/ob1: correctly reset receive request type before init
recvreq->req_recv.req_base.req_type should always be set before invoking
MCA_PML_OB1_RECV_REQUEST_INIT(recvreq, ...) otherwise, the previous type
might be set, and you could end up with MPC_PML_REQUEST_IMPROBE when
MCA_PML_REQUEST_RECV is expected.

Thanks Chris Pattison for the report and test case.

Fixes open-mpi/ompi#2275
2016-10-24 16:50:23 +09:00
Gilles Gouaillardet
6714f6aee7 coll/libnbc: fix MPI_Ialltoallv with MPI_IN_PLACE and without MPI param check 2016-10-24 09:29:06 +09:00