guix/gnu/packages/patches/hdf5-1.8-mpi-deprecations.patch

--- 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)
--- hdf5-1.8.19/testpar/t_cache.c
+++ hdf5-1.8.19/testpar/t_cache.c
@@ -1187,20 +1187,20 @@
     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, fcn_name);
         }
 
@@ -1215,14 +1215,14 @@
 
     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, fcn_name);
             }
         }
--- hdf5-1.8.19/testpar/t_mpi.c
+++ hdf5-1.8.19/testpar/t_mpi.c
@@ -279,7 +279,7 @@
 	printf("Skipped GB file range test "
 		"because MPI_Offset cannot support it\n");
     }else{
-	buf = HDmalloc(MB);
+	buf = (char *)HDmalloc(MB);
 	VRFY((buf!=NULL), "malloc succeed");
 
 	/* open a new file. Remove it first in case it exists. */
@@ -624,7 +624,7 @@
 and this platform.
 
 1. Details for the test:
-1) Create two derived datatypes with MPI_Type_hindexed:
+1) Create two derived datatypes with MPI_Type_create_hindexed:
         datatype1:
 	count = 1, blocklens = 1, offsets = 0,
 	base type = MPI_BYTE(essentially a char)
@@ -633,7 +633,7 @@
 	base type = MPI_BYTE
 
 2) Using these two derived datatypes,
-   Build another derived datatype with MPI_Type_struct:
+   Build another derived datatype with MPI_Type_create_struct:
         advtype: derived from datatype1 and datatype2
         advtype:
 	count = 2, blocklens[0] = 1, blocklens[1]=1,
@@ -676,10 +676,9 @@
     int  mpi_err_strlen;
     int  mpi_err;
     int  i;
-    int  nerrors = 0;		/* number of errors */
     MPI_Datatype  etype,filetype;
     MPI_Datatype  adv_filetype,bas_filetype[2];
-    MPI_Datatype  etypenew, filetypenew;
+    MPI_Datatype  filetypenew;
     MPI_Offset    disp;
     MPI_Status    Status;
     MPI_Aint      adv_disp[2];
@@ -715,7 +714,7 @@
     blocklens[0] = 1;
     offsets[0]   = 0;
 
-    if((mpi_err= MPI_Type_hindexed(count,blocklens,offsets,MPI_BYTE,&filetype))
+    if((mpi_err= MPI_Type_create_hindexed(count,blocklens,offsets,MPI_BYTE,&filetype))
        != MPI_SUCCESS){
       	MPI_Error_string(mpi_err, mpi_err_str, &mpi_err_strlen);
 	printf("MPI_Type_contiguous failed (%s)\n", mpi_err_str);
@@ -731,7 +730,7 @@
     count = 1;
     blocklens[0]=1;
     offsets[0] = 1;
-    if((mpi_err= MPI_Type_hindexed(count,blocklens,offsets,MPI_BYTE,&filetypenew))
+    if((mpi_err= MPI_Type_create_hindexed(count,blocklens,offsets,MPI_BYTE,&filetypenew))
        != MPI_SUCCESS){
       	MPI_Error_string(mpi_err, mpi_err_str, &mpi_err_strlen);
 	printf("MPI_Type_contiguous failed (%s)\n", mpi_err_str);
@@ -752,10 +751,10 @@
     bas_filetype[0]  = filetype;
     bas_filetype[1]  = filetypenew;
 
-    if((mpi_err= MPI_Type_struct(outcount,adv_blocklens,adv_disp,bas_filetype,&adv_filetype))
+    if((mpi_err= MPI_Type_create_struct(outcount,adv_blocklens,adv_disp,bas_filetype,&adv_filetype))
        != MPI_SUCCESS){
       	MPI_Error_string(mpi_err, mpi_err_str, &mpi_err_strlen);
-	printf("MPI_Type_struct failed (%s)\n", mpi_err_str);
+	printf("MPI_Type_create_struct failed (%s)\n", mpi_err_str);
 	return 1;
     }
     if((mpi_err=MPI_Type_commit(&adv_filetype))!=MPI_SUCCESS){
@@ -842,7 +841,7 @@
 processes are needed.
 
 1. Details for the test:
-1) Create one derived datatype with MPI_Type_hindexed:
+1) Create one derived datatype with MPI_Type_create_hindexed:
 
 2) Choosing at least two processes to contribute none for IO with
    the buf size inside MPI_Write_at_all to 0.
@@ -898,7 +897,7 @@
     offsets[1] = (mpi_size+mpi_rank)*count;
 
     if(count !=0) {
-        if((mpi_err = MPI_Type_hindexed(2,
+        if((mpi_err = MPI_Type_create_hindexed(2,
                                         blocklens,
                                         offsets,
                                         etype,
@@ -914,7 +913,7 @@
             return 1;
         } /* end if */
 
-        if((mpi_err = MPI_Type_hindexed(2,
+        if((mpi_err = MPI_Type_create_hindexed(2,
                                         blocklens,
                                         offsets,
                                         etype,
@@ -1098,7 +1097,7 @@
      * calls.  By then, MPI calls may not work.
      */
     if (H5dont_atexit() < 0){
-	printf("Failed to turn off atexit processing. Continue.\n", mpi_rank);
+	printf("Failed to turn off atexit processing. Continue.\n");
     };
     H5open();
     if (parse_options(argc, argv) != 0){