add hdf5 and pnetcdf stubs library

darshan-runtime/Makefile.in

-all: lib/libdarshan.a lib/darshan-null.o
+all: lib/libdarshan.a lib/libdarshan-stubs.a lib/darshan-null.o
 
 DESTDIR =
 srcdir = @srcdir@
@@ -75,12 +75,18 @@ lib/darshan-hdf5.o: lib/darshan-hdf5.c darshan.h $(DARSHAN_LOG_FORMAT) $(srcdir)
 lib/darshan-hdf5.po: lib/darshan-hdf5.c darshan.h $(DARSHAN_LOG_FORMAT) $(srcdir)/../darshan-hdf5-log-format.h | lib
 	$(CC) $(CFLAGS_SHARED) -c $< -o $@
 
+lib/darshan-hdf5-stubs.o: lib/darshan-hdf5-stubs.c darshan.h $(DARSHAN_LOG_FORMAT) | lib
+	$(CC) $(CFLAGS) -c $< -o $@
+
 lib/darshan-pnetcdf.o: lib/darshan-pnetcdf.c darshan.h $(DARSHAN_LOG_FORMAT) $(srcdir)/../darshan-pnetcdf-log-format.h | lib
 	$(CC) $(CFLAGS) -c $< -o $@
 
 lib/darshan-pnetcdf.po: lib/darshan-pnetcdf.c darshan.h $(DARSHAN_LOG_FORMAT) $(srcdir)/../darshan-pnetcdf-log-format.h | lib
 	$(CC) $(CFLAGS_SHARED) -c $< -o $@
 
+lib/darshan-pnetcdf-stubs.o: lib/darshan-pnetcdf-stubs.c darshan.h $(DARSHAN_LOG_FORMAT) | lib
+	$(CC) $(CFLAGS) -c $< -o $@
+
 lib/lookup3.o: lib/lookup3.c
 	$(CC) $(CFLAGS) -c $< -o $@
 
@@ -96,12 +102,16 @@ lib/lookup8.po: lib/lookup8.c
 lib/libdarshan.a: lib/darshan-core-init-finalize.o lib/darshan-core.o lib/darshan-common.o lib/darshan-posix.o lib/darshan-mpiio.o lib/darshan-hdf5.o lib/darshan-pnetcdf.o lib/lookup3.o lib/lookup8.o
 	ar rcs $@ $^
 
+lib/libdarshan-stubs.a: lib/darshan-hdf5-stubs.o lib/darshan-pnetcdf-stubs.o
+	ar rcs $@ $^
+
 lib/libdarshan.so: lib/darshan-core-init-finalize.po lib/darshan-core.po lib/darshan-common.po lib/darshan-posix.po lib/darshan-mpiio.po lib/darshan-hdf5.po lib/darshan-pnetcdf.po lib/lookup3.po lib/lookup8.po
 	$(CC) $(CFLAGS_SHARED) $(LDFLAGS) -o $@ $^ -lpthread -lrt -lz -ldl
 
 install:: all
 	install -d $(libdir)
 	install -m 755 lib/libdarshan.a $(libdir)
+	install -m 755 lib/libdarshan-stubs.a $(libdir)
 ifndef DISABLE_LDPRELOAD
 	install -m 755 lib/libdarshan.so $(libdir)
 endif

darshan-runtime/lib/darshan-hdf5-stubs.c

+/*
+ * Copyright (C) 2015 University of Chicago.
+ * See COPYRIGHT notice in top-level directory.
+ *
+ */
+
+/* This file contains stubs for the H5F functions intercepted by Darshan.
+ * They are defined as weak symbols in order to satisfy dependencies of the
+ * hdf5 wrappers in cases where hdf5 is not being used.
+ */
+
+
+#include "darshan-runtime-config.h"
+#include <stdio.h>
+#include <pthread.h>
+#include <string.h>
+#include "mpi.h"
+#include "darshan.h"
+
+/* hope this doesn't change any time soon */
+typedef int hid_t; 
+typedef int herr_t;
+
+hid_t H5Fcreate(const char *filename, unsigned flags,
+    hid_t create_plist, hid_t access_plist) __attribute__((weak));
+
+hid_t H5Fcreate(const char *filename, unsigned flags,
+    hid_t create_plist, hid_t access_plist)
+{
+    int rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &rank);
+    if(rank == 0)
+    {
+        fprintf(stderr, "WARNING: Darshan H5Fcreate() stub called; this is probably the result of a link-time problem.\n");
+    }
+
+    return(-1);
+}
+
+hid_t H5Fopen(const char *filename, unsigned flags,
+    hid_t access_plist) __attribute__((weak));
+
+hid_t H5Fopen(const char *filename, unsigned flags,
+    hid_t access_plist)
+{
+    int rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &rank);
+    if(rank == 0)
+    {
+        fprintf(stderr, "WARNING: Darshan H5Fopen() stub called; this is probably the result of a link-time problem.\n");
+    }
+
+    return(-1);
+}
+
+herr_t H5Fclose(hid_t file_id) __attribute__((weak));
+
+herr_t H5Fclose(hid_t file_id)
+{
+    int rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &rank);
+    if(rank == 0)
+    {
+        fprintf(stderr, "WARNING: Darshan H5Fclose() stub called; this is probably the result of a link-time problem.\n");
+    }
+
+    return(-1);
+}
+
+/*
+ * Local variables:
+ *  c-indent-level: 4
+ *  c-basic-offset: 4
+ * End:
+ *
+ * vim: ts=8 sts=4 sw=4 expandtab
+ */

darshan-runtime/lib/darshan-pnetcdf-stubs.c

+/*
+ * Copyright (C) 2015 University of Chicago.
+ * See COPYRIGHT notice in top-level directory.
+ *
+ */
+
+/* This file contains stubs for the ncmpi functions intercepted by Darshan.
+ * They are defined as weak symbols in order to satisfy dependencies of the
+ * pnetcdf wrappers in cases where pnetcdf is not being used.
+ */
+
+#include "darshan-runtime-config.h"
+#include <stdio.h>
+#include <pthread.h>
+#include <string.h>
+#include "mpi.h"
+#include "darshan.h"
+
+int ncmpi_create(MPI_Comm comm, const char *path, 
+    int cmode, MPI_Info info, int *ncidp) __attribute__((weak));
+
+int ncmpi_create(MPI_Comm comm, const char *path, 
+    int cmode, MPI_Info info, int *ncidp)
+{
+    int rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &rank);
+    if(rank == 0)
+    {
+        fprintf(stderr, "WARNING: Darshan ncmpi_create() stub called; this is probably the result of a link-time problem.\n");
+    }
+
+    return(-1);
+}
+
+int ncmpi_open(MPI_Comm comm, const char *path, 
+    int omode, MPI_Info info, int *ncidp) __attribute__((weak));
+
+int ncmpi_open(MPI_Comm comm, const char *path, 
+    int omode, MPI_Info info, int *ncidp)
+{
+    int rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &rank);
+    if(rank == 0)
+    {
+        fprintf(stderr, "WARNING: Darshan ncmpi_open() stub called; this is probably the result of a link-time problem.\n");
+    }
+
+    return(-1);
+}
+
+int ncmpi_close(int ncid) __attribute__((weak));
+
+int ncmpi_close(int ncid)
+{
+    int rank;
+
+    MPI_Comm_rank(MPI_COMM_WORLD, &rank);
+    if(rank == 0)
+    {
+        fprintf(stderr, "WARNING: Darshan ncmpi_close() stub called; this is probably the result of a link-time problem.\n");
+    }
+
+    return(-1);
+
+}
+
+
+/*
+ * Local variables:
+ *  c-indent-level: 4
+ *  c-basic-offset: 4
+ * End:
+ *
+ * vim: ts=8 sts=4 sw=4 expandtab
+ */