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gnu: hdf5: Remove use of deprecated MPI1 symbols.

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* gnu/packages/patches/hdf5-1.8-mpi-deprecations.patch,
  gnu/packages/patches/hdf5-mpi-deprecations.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/maths.scm (hdf5, hdf5-1.10)[source]: Use them.
This commit is contained in:
Eric Bavier 2019-02-06 15:32:22 -06:00
parent 2bdf26f1c8
commit 7fedc3fdfb
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GPG key ID: FD73CAC719D32566
4 changed files with 236 additions and 2 deletions
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61
gnu/packages/patches/hdf5-mpi-deprecations.patch Normal file
View file

@ -0,0 +1,61 @@
--- a/src/H5.c
+++ b/src/H5.c
@@ -138,7 +138,7 @@
if (mpi_initialized && !mpi_finalized) {
int key_val;
- if(MPI_SUCCESS != (mpi_code = MPI_Comm_create_keyval(MPI_NULL_COPY_FN,
+ if(MPI_SUCCESS != (mpi_code = MPI_Comm_create_keyval(MPI_COMM_NULL_COPY_FN,
(MPI_Comm_delete_attr_function *)H5_mpi_delete_cb,
&key_val, NULL)))
HMPI_GOTO_ERROR(FAIL, "MPI_Comm_create_keyval failed", mpi_code)
--- hdf5-1.10.4/testpar/t_cache.c
+++ hdf5-1.10.4/testpar/t_cache.c
@@ -1217,20 +1217,20 @@
struct mssg_t sample; /* used to compute displacements */
/* setup the displacements array */
- if ( ( MPI_SUCCESS != MPI_Address(&sample.req, &displs[0]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.src, &displs[1]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.dest, &displs[2]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.mssg_num, &displs[3]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.base_addr, &displs[4]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.len, &displs[5]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.ver, &displs[6]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.count, &displs[7]) ) ||
- ( MPI_SUCCESS != MPI_Address(&sample.magic, &displs[8]) ) ) {
+ if ( ( MPI_SUCCESS != MPI_Get_address(&sample.req, &displs[0]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.src, &displs[1]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.dest, &displs[2]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.mssg_num, &displs[3]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.base_addr, &displs[4]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.len, &displs[5]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.ver, &displs[6]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.count, &displs[7]) ) ||
+ ( MPI_SUCCESS != MPI_Get_address(&sample.magic, &displs[8]) ) ) {
nerrors++;
success = FALSE;
if ( verbose ) {
- HDfprintf(stdout, "%d:%s: MPI_Address() call failed.\n",
+ HDfprintf(stdout, "%d:%s: MPI_Get_address() call failed.\n",
world_mpi_rank, FUNC);
}
@@ -1245,14 +1245,14 @@
if ( success ) {
- result = MPI_Type_struct(9, block_len, displs, mpi_types, &mpi_mssg_t);
+ result = MPI_Type_create_struct(9, block_len, displs, mpi_types, &mpi_mssg_t);
if ( result != MPI_SUCCESS ) {
nerrors++;
success = FALSE;
if ( verbose ) {
- HDfprintf(stdout, "%d:%s: MPI_Type_struct() call failed.\n",
+ HDfprintf(stdout, "%d:%s: MPI_Type_create_struct() call failed.\n",
world_mpi_rank, FUNC);
}
}