bug_ebuild/gentoo/sci-libs/netcdf/files/netcdf-4.3.2-HDF5-1.8.13+-compat.patch

From 435d8a03ed28bb5ad63aff12cbc6ab91531b6bc8 Mon Sep 17 00:00:00 2001
From: Quincey Koziol <quincey@koziol.cc>
Date: Wed, 7 May 2014 08:45:15 -0500
Subject: [PATCH] Account for the HDF5 library not having the MPI-POSIX VFD
 configured in.

---
 RELEASE_NOTES.md         |  2 ++
 libsrc4/nc4file.c        | 40 ++++++++++++++++++++++++++++++++++++++++
 nc_test4/tst_nc4perf.c   |  5 +++++
 nc_test4/tst_parallel3.c |  5 +++++
 4 files changed, 52 insertions(+)

diff --git a/RELEASE_NOTES.md b/RELEASE_NOTES.md
index 27f228c..1a69d17 100644
--- a/RELEASE_NOTES.md
+++ b/RELEASE_NOTES.md
@@ -9,6 +9,8 @@ This file contains a high-level description of this package's evolution. Release
 
 ### 4.3.3-rc1 Released TBD
 
+* When the NC_MPIPOSIX flag is given for parallel I/O access and the HDF5 library does not have the MPI-POSIX VFD configured in, the NC_MPIPOSIX flag is transparently aliased to the NC_MPIIO flag within the netCDF-4 library.
+
 ## 4.3.2 Released 2014-04-23
 
 * As part of an ongoing project, the Doxygen-generated netcdf documentation has been reorganized.  The goal is to make the documentation easier to parse, and to eliminate redundant material.  This project is ongoing.
diff --git a/libsrc4/nc4file.c b/libsrc4/nc4file.c
index ec3bb0c..5c957be 100644
--- a/libsrc4/nc4file.c
+++ b/libsrc4/nc4file.c
@@ -308,12 +308,21 @@ nc4_create_file(const char *path, int cmode, MPI_Comm comm, MPI_Info info,
 	 if (H5Pset_fapl_mpio(fapl_id, comm, info) < 0)
 	    BAIL(NC_EPARINIT);
       }
+#ifdef USE_PARALLEL_POSIX
       else /* MPI/POSIX */
       {
 	 LOG((4, "creating parallel file with MPI/posix"));
 	 if (H5Pset_fapl_mpiposix(fapl_id, comm, 0) < 0)
 	    BAIL(NC_EPARINIT);
       }
+#else /* USE_PARALLEL_POSIX */
+      /* Should not happen! Code in NC4_create/NC4_open should alias the
+       *        NC_MPIPOSIX flag to NC_MPIIO, if the MPI-POSIX VFD is not
+       *        available in HDF5. -QAK
+       */
+      else /* MPI/POSIX */
+         BAIL(NC_EPARINIT);
+#endif /* USE_PARALLEL_POSIX */
 
       /* Keep copies of the MPI Comm & Info objects */
       if (MPI_SUCCESS != MPI_Comm_dup(comm, &nc4_info->comm))
@@ -465,6 +474,17 @@ NC4_create(const char* path, int cmode, size_t initialsz, int basepe,
       )
       return NC_EINVAL;
 
+#ifndef USE_PARALLEL_POSIX
+/* If the HDF5 library has been compiled without the MPI-POSIX VFD, alias
+ *      the NC_MPIPOSIX flag to NC_MPIIO. -QAK
+ */
+   if(cmode & NC_MPIPOSIX)
+   {
+      cmode &= ~NC_MPIPOSIX;
+      cmode |= NC_MPIIO;
+   }
+#endif /* USE_PARALLEL_POSIX */
+
    cmode |= NC_NETCDF4;
 
    /* Apply default create format. */
@@ -2168,12 +2188,21 @@ nc4_open_file(const char *path, int mode, MPI_Comm comm,
 	 if (H5Pset_fapl_mpio(fapl_id, comm, info) < 0)
 	    BAIL(NC_EPARINIT);
       }
+#ifdef USE_PARALLEL_POSIX
       else /* MPI/POSIX */
       {
 	 LOG((4, "opening parallel file with MPI/posix"));
 	 if (H5Pset_fapl_mpiposix(fapl_id, comm, 0) < 0)
 	    BAIL(NC_EPARINIT);
       }
+#else /* USE_PARALLEL_POSIX */
+      /* Should not happen! Code in NC4_create/NC4_open should alias the
+       *        NC_MPIPOSIX flag to NC_MPIIO, if the MPI-POSIX VFD is not
+       *        available in HDF5. -QAK
+       */
+      else /* MPI/POSIX */
+         BAIL(NC_EPARINIT);
+#endif /* USE_PARALLEL_POSIX */
 
       /* Keep copies of the MPI Comm & Info objects */
       if (MPI_SUCCESS != MPI_Comm_dup(comm, &nc4_info->comm))
@@ -2640,6 +2669,17 @@ NC4_open(const char *path, int mode, int basepe, size_t *chunksizehintp,
        (mode & NC_MPIIO && mode & NC_MPIPOSIX))
       return NC_EINVAL;
 
+#ifndef USE_PARALLEL_POSIX
+/* If the HDF5 library has been compiled without the MPI-POSIX VFD, alias
+ *      the NC_MPIPOSIX flag to NC_MPIIO. -QAK
+ */
+   if(mode & NC_MPIPOSIX)
+   {
+      mode &= ~NC_MPIPOSIX;
+      mode |= NC_MPIIO;
+   }
+#endif /* USE_PARALLEL_POSIX */
+
 
    /* Depending on the type of file, open it. */
 
diff --git a/nc_test4/tst_nc4perf.c b/nc_test4/tst_nc4perf.c
index 47af70e..3528b82 100644
--- a/nc_test4/tst_nc4perf.c
+++ b/nc_test4/tst_nc4perf.c
@@ -244,6 +244,11 @@ int test_pio_4d(size_t cache_size, int facc_type, int access_flag, MPI_Comm comm
    return 0;
 }
 
+/* Note: When the MPI-POSIX VFD is not compiled in to HDF5, the NC_MPIPOSIX
+ *      flag will be aliased to the NC_MPIIO flag within the library, and
+ *      therefore this test will exercise the aliasing, with the MPI-IO VFD,
+ *      under that configuration. -QAK
+ */
 #define NUM_MODES 2
 #define NUM_FACC 2
 #define NUM_CHUNK_COMBOS_2D 3
diff --git a/nc_test4/tst_parallel3.c b/nc_test4/tst_parallel3.c
index 27f9c98..9fa534f 100644
--- a/nc_test4/tst_parallel3.c
+++ b/nc_test4/tst_parallel3.c
@@ -129,6 +129,11 @@ int main(int argc, char **argv)
    if (mpi_rank == 0)
       SUMMARIZE_ERR;
 
+/* Note: When the MPI-POSIX VFD is not compiled in to HDF5, the NC_MPIPOSIX
+ *      flag will be aliased to the NC_MPIIO flag within the library, and
+ *      therefore this test will exercise the aliasing, with the MPI-IO VFD,
+ *      under that configuration. -QAK
+ */
    if (mpi_rank == 0)
       printf("*** Testing parallel IO for raw-data with MPIPOSIX-IO (driver)...");
    facc_type = NC_NETCDF4|NC_MPIPOSIX;
-- 
2.0.3