summaryrefslogtreecommitdiffstats
diff options
context:
space:
mode:
-rw-r--r--MANIFEST1
-rw-r--r--examples/Makefile.am5
-rw-r--r--examples/Makefile.in5
-rw-r--r--examples/h5_shared_mesg.c325
-rw-r--r--src/H5Ppublic.h1
5 files changed, 332 insertions, 5 deletions
diff --git a/MANIFEST b/MANIFEST
index f541cc5..2fd9b74 100644
--- a/MANIFEST
+++ b/MANIFEST
@@ -137,6 +137,7 @@
./examples/h5_mount.c
./examples/h5_reference.c
./examples/h5_ref2reg.c
+./examples/h5_shared_mesg.c
./examples/ph5example.c
diff --git a/examples/Makefile.am b/examples/Makefile.am
index faf6940..b6f4b8d 100644
--- a/examples/Makefile.am
+++ b/examples/Makefile.am
@@ -30,14 +30,14 @@ endif
# Use the boilerplate in config/examples.am instead.
TEST_PROG = h5_write h5_read h5_extend_write h5_chunk_read h5_compound \
h5_group h5_select h5_attribute h5_mount h5_reference h5_drivers \
- h5_ref2reg h5_extlink h5_elink_unix2win
+ h5_ref2reg h5_extlink h5_elink_unix2win h5_shared_mesg
# Install files
# List all file that should be installed in examples directory
INSTALL_FILES = h5_write.c h5_read.c h5_extend_write.c h5_chunk_read.c \
h5_compound.c h5_group.c h5_select.c h5_attribute.c h5_mount.c \
h5_reference.c h5_drivers.c h5_extlink.c h5_elink_unix2win.c \
- h5_ref2reg.c ph5example.c
+ h5_ref2reg.c h5_shared_mesg.c ph5example.c
# Additional dependencies for each program are listed below.
$(EXTRA_PROG): $(LIBHDF5)
@@ -86,6 +86,7 @@ ph5example: $(srcdir)/ph5example.c
h5_dtransform: $(srcdir)/h5_dtransform.c
h5_extlink: $(srcdir)/h5_extlink.c $(EXTLINK_DIRS)
h5_elink_unix2win: $(srcdir)/h5_elink_unix2win.c $(EXTLINK_DIRS)
+h5_shared_mesg: $(srcdir)/h5_shared_mesg.c
include $(top_srcdir)/config/examples.am
include $(top_srcdir)/config/conclude.am
diff --git a/examples/Makefile.in b/examples/Makefile.in
index 68b1a26..ef7cdd9 100644
--- a/examples/Makefile.in
+++ b/examples/Makefile.in
@@ -314,7 +314,7 @@ CHECK_CLEANFILES = *.chkexe *.chklog *.clog $(EXTLINK_DIRS) *.h5
# Use the boilerplate in config/examples.am instead.
TEST_PROG = h5_write h5_read h5_extend_write h5_chunk_read h5_compound \
h5_group h5_select h5_attribute h5_mount h5_reference h5_drivers \
- h5_ref2reg h5_extlink h5_elink_unix2win
+ h5_ref2reg h5_extlink h5_elink_unix2win h5_shared_mesg
# Install files
@@ -322,7 +322,7 @@ TEST_PROG = h5_write h5_read h5_extend_write h5_chunk_read h5_compound \
INSTALL_FILES = h5_write.c h5_read.c h5_extend_write.c h5_chunk_read.c \
h5_compound.c h5_group.c h5_select.c h5_attribute.c h5_mount.c \
h5_reference.c h5_drivers.c h5_extlink.c h5_elink_unix2win.c \
- h5_ref2reg.c ph5example.c
+ h5_ref2reg.c h5_shared_mesg.c ph5example.c
# The external link examples demonstrate how to use paths; they need
@@ -568,6 +568,7 @@ ph5example: $(srcdir)/ph5example.c
h5_dtransform: $(srcdir)/h5_dtransform.c
h5_extlink: $(srcdir)/h5_extlink.c $(EXTLINK_DIRS)
h5_elink_unix2win: $(srcdir)/h5_elink_unix2win.c $(EXTLINK_DIRS)
+h5_shared_mesg: $(srcdir)/h5_shared_mesg.c
# How to create EXAMPLEDIR if it doesn't already exist
$(EXAMPLEDIR):
diff --git a/examples/h5_shared_mesg.c b/examples/h5_shared_mesg.c
new file mode 100644
index 0000000..f6e806c
--- /dev/null
+++ b/examples/h5_shared_mesg.c
@@ -0,0 +1,325 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by the Board of Trustees of the University of Illinois. *
+ * All rights reserved. *
+ * *
+ * This file is part of HDF5. The full HDF5 copyright notice, including *
+ * terms governing use, modification, and redistribution, is contained in *
+ * the files COPYING and Copyright.html. COPYING can be found at the root *
+ * of the source code distribution tree; Copyright.html can be found at the *
+ * root level of an installed copy of the electronic HDF5 document set and *
+ * is linked from the top-level documents page. It can also be found at *
+ * http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html. If you do not have *
+ * access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+/*
+ * This program illustrates the usage of HDF5's implicit message sharing
+ * feature, which can be used to save space when the same messages are
+ * used many times in a file.
+ *
+ * This example creates a standard file using file creation property lists
+ * to control which messages are shared. Messages that can be shared are
+ * datatypes, dataspaces, attributes, fill values, and filter pipelines.
+ *
+ */
+
+#include <stdlib.h>
+
+#include "hdf5.h"
+
+#define NUM_DATASETS 40
+const char* DSETNAME[] = {
+ "dataset0", "dataset1",
+ "dataset2", "dataset3",
+ "dataset4", "dataset5",
+ "dataset6", "dataset7",
+ "dataset8", "dataset9",
+ "dataset10", "dataset11",
+ "dataset12", "dataset13",
+ "dataset14", "dataset15",
+ "dataset16", "dataset17",
+ "dataset18", "dataset19",
+ "dataset20", "dataset21",
+ "dataset22", "dataset23",
+ "dataset24", "dataset25",
+ "dataset26", "dataset27",
+ "dataset28", "dataset29",
+ "dataset30", "dataset31",
+ "dataset32", "dataset33",
+ "dataset34", "dataset35",
+ "dataset36", "dataset37",
+ "dataset38", "dataset39",
+ NULL
+};
+
+herr_t create_standard_file(const char *filename, hid_t fcpl);
+
+/*-------------------------------------------------------------------------
+ * Function: main
+ *
+ * Purpose: Enables shared messages using File Creation Property Lists
+ * and creates files using these settings.
+ *
+ *-------------------------------------------------------------------------
+ */
+int main(void)
+{
+ hid_t fcpl_id;
+ herr_t ret;
+
+ /* Create a file creation property list */
+ fcpl_id = H5Pcreate(H5P_FILE_CREATE);
+ if(fcpl_id < 0) goto error;
+
+ /* The file creation property list is the default list right now.
+ * Create a file using it (this is the same as creating a file with
+ * H5P_DEFAULT). Implicit shared messages will be disabled.
+ */
+ ret = create_standard_file("default_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+ /* There are five kinds of messages that can be shared: datatypes,
+ * dataspaces, attributes, fill values, and filter pipelines.
+ * Shared messages are stored in up to five "indexes," where each
+ * index can contain one or more types of message. Using more indexes
+ * will result in more overhead for sharing, but can also provide
+ * more "tunability" and may affect caching performance.
+ */
+ /* To begin with, use only one index. */
+ ret = H5Pset_shared_mesg_nindexes(fcpl_id, 1);
+ if(ret < 0) goto error;
+
+ /* Each index has a "minimum message size" for a message of that
+ * type to be shared. Since sharing a message creates some overhead,
+ * this is to prevent this overhead for very small messages when little
+ * space would be saved by sharing them anyway.
+ * If the content of the file isn't known beforehand, it's probably best
+ * to set the minimum size "high"; over 100 or 200 bytes. If the content
+ * of the file is known, this value can be used to trade space saved for
+ * performance lost. The smaller this value is, the more messages will
+ * be shared, so the more overhead will be incurred.
+ * This value is in bytes. A shared message involves about 30 bytes of
+ * overhead. Note that even messages that are only written once will
+ * require this overhead (since they "might" be shared in the future),
+ * so setting the minimum size too low may result in a file actually growing
+ * in size.
+ * For this example case, we'll set the minimum sharing size to be small
+ * since we know that every message the "standard" file uses will be
+ * repeated many times.
+ */
+ /* The other property that each index has is the kinds of messages that
+ * it holds. For the simple case, we'll put every message that could be
+ * shared in this single index.
+ */
+ ret = H5Pset_shared_mesg_index(fcpl_id, 1, H5O_MESG_ALL_FLAG, 40);
+ if(ret < 0) goto error;
+
+ /* The other property that can be set for shared messages is the
+ * list/B-tree cutoff for the indexes.
+ * Each shared message index beins life as a simple list of messages
+ * and becomes a B-tree when "too many" messages are written to it.
+ * This keeps the indexes simple when only a few messages are shared,
+ * but allows them to scale for many messages. If many messages are
+ * deleted from the B-tree, it scales back down into a list.
+ * A "resonable" setting for maximum list size and minimum btree size
+ * depends on what kinds of messages will be stored in the file.
+ * These numbers are the same for all indexes in a file.
+ * We'll guess at some numbers, though we could just as easily have kept
+ * the default values. The first value is the maximum list size, the
+ * second the minimum B-tree size.
+ */
+ ret = H5Pset_shared_mesg_phase_change(fcpl_id, 30, 20);
+ if(ret < 0) goto error;
+
+ /* Now create a file with this property list. After the FCPL is used,
+ * everything is automatic; messages will be shared and this will be
+ * completely transparent to the user. Even if the file is closed
+ * and re-opened, this settings will be saved and applied to messages
+ * written later.
+ */
+ ret = create_standard_file("one_index_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+ /* Now try some variations on this. The FCPL hasn't been closed, so
+ * we don't need to re-create it.
+ * For instance, if we set the index to only share very large
+ * messages, none of the messages we write will qualify and the file
+ * will be about the same size as a normal file (with just a little extra
+ * overhead).
+ */
+ ret = H5Pset_shared_mesg_index(fcpl_id, 1, H5O_MESG_ALL_FLAG, 1000);
+ if(ret < 0) goto error;
+
+ ret = create_standard_file("only_huge_mesgs_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+
+ /* Or, suppose we only wanted to shared dataspaces and
+ * attributes (which might make sense if we were going to use committed
+ * datatypes). We could change the flags on the index:
+ */
+ ret = H5Pset_shared_mesg_index(fcpl_id, 1, H5O_MESG_SDSPACE_FLAG | H5O_MESG_ATTR_FLAG, 40);
+ if(ret < 0) goto error;
+
+ ret = create_standard_file("only_dspaces_and_attrs_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+
+ /* We create a second index and put attributes in it to separate them from
+ * datatypes and dataspaces (and then run some performance metrics to
+ * see whether this improved caching performance).
+ */
+ ret = H5Pset_shared_mesg_nindexes(fcpl_id, 2);
+ if(ret < 0) goto error;
+ ret = H5Pset_shared_mesg_index(fcpl_id, 1, H5O_MESG_DTYPE_FLAG | H5O_MESG_SDSPACE_FLAG, 40);
+ if(ret < 0) goto error;
+ ret = H5Pset_shared_mesg_index(fcpl_id, 2, H5O_MESG_ATTR_FLAG, 40);
+ if(ret < 0) goto error;
+
+ ret = create_standard_file("separate_indexes_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+ /* We can try twiddling the "phase change" values and see what it does to
+ * the file size. Since there's only a few different messages (two
+ * datatypes, two dataspaces, and one attribute), using smaller lists will
+ * save some space.
+ */
+ ret = H5Pset_shared_mesg_nindexes(fcpl_id, 1);
+ if(ret < 0) goto error;
+ ret = H5Pset_shared_mesg_index(fcpl_id, 1, H5O_MESG_ALL_FLAG, 40);
+ if(ret < 0) goto error;
+
+ ret = H5Pset_shared_mesg_phase_change(fcpl_id, 5, 0);
+ if(ret < 0) goto error;
+
+ ret = create_standard_file("small_lists_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+ /* Or we could create indexes that are never lists, but are created as
+ * B-trees. We do this by setting the "maximum list size" to zero.
+ */
+ ret = H5Pset_shared_mesg_phase_change(fcpl_id, 0, 0);
+ if(ret < 0) goto error;
+
+ ret = create_standard_file("btrees_file.h5", fcpl_id);
+ if(ret < 0) goto error;
+
+
+ /* Obviously there are a lot more permutations of these options possible.
+ * Performance will often be a tradeoff of speed for space, but will
+ * depend a great deal on the specific application. If performance is
+ * important, the best thing to do is to play with these settings to find
+ * the ones that work best for you.
+ * Please let The HDF Group (help@hdfgroup.org) know what you find!
+ */
+
+
+ /* Close the property list */
+ ret = H5Pclose(fcpl_id);
+ if(ret < 0) goto error;
+ return 0;
+
+error:
+ return -1;
+}
+
+/*-------------------------------------------------------------------------
+ * Function: create_standard_file
+ *
+ * Purpose: A helper functon for the example. Creates an HDF5 file
+ * with many repeated messages using the file creation
+ * property list FCPL.
+ *
+ * This function only uses datatypes, dataspaces, and
+ * attributes. Fill values and filter pipelines can also
+ * be shared in the same way (i.e., by enabling sharing in
+ * the FCPL and writing the same message more than once).
+ *-------------------------------------------------------------------------
+ */
+herr_t
+create_standard_file(const char *filename, hid_t fcpl_id)
+{
+ hid_t file_id=-1;
+ hid_t type_id=-1, temp_type_id=-1;
+ hsize_t dims[] = {10, 9, 8, 7, 6, 5, 4, 3, 2, 1};
+ hid_t space_id=-1;
+ hid_t attr_type_id = -1;
+ hid_t attr_space_id = -1;
+ int attr_data[] = {1,2,3,4,5,6,7,8,9,0};
+ hid_t dset_id=-1;
+ hid_t attr_id=-1;
+ int x;
+ herr_t ret;
+
+ /* Create the file */
+ file_id = H5Fcreate(filename, H5F_ACC_TRUNC, fcpl_id, H5P_DEFAULT);
+ if(file_id < 0) goto error;
+
+ /* Create the datatype we'll be using. Generally, sharing messages
+ * is most useful when the message is complex and takes more space on
+ * disk, so this type will be an array type rather than an atomic type.
+ * However, any type can be shared.
+ */
+ temp_type_id = H5Tarray_create(H5T_NATIVE_INT, 10, dims, NULL);
+ if(temp_type_id < 0) goto error;
+ type_id = H5Tarray_create(temp_type_id, 10, dims, NULL);
+ if(type_id < 0) goto error;
+ ret = H5Tclose(temp_type_id);
+ if(ret < 0) goto error;
+
+ /* Create the dataspace we'll be using.
+ * Again, create a more complex dataspace so that more space will
+ * be saved when we share it.
+ */
+ space_id = H5Screate_simple(10, dims, dims);
+ if(space_id < 0) goto error;
+
+ /* Create a datatype and dataspace for the attributes we'll be creating.
+ * The datatype will be a single integer, and each attribute will hold
+ * 10 integers.
+ */
+ attr_type_id = H5Tcopy(H5T_NATIVE_INT);
+ if(attr_type_id < 0) goto error;
+ attr_space_id = H5Screate_simple(1, dims, dims);
+ if(attr_space_id < 0) goto error;
+
+
+ /* Begin using the messages many times. Do this by creating datasets
+ * that use this datatype, dataspace, and have this attribute.
+ */
+ for(x=0; x<NUM_DATASETS; ++x) {
+ /* Create a dataset */
+ dset_id = H5Dcreate(file_id, DSETNAME[x], type_id, space_id, H5P_DEFAULT);
+ if(dset_id < 0) goto error;
+
+ /* Create an attribute on the dataset */
+ attr_id = H5Acreate(dset_id, "attr_name", attr_type_id, attr_space_id, H5P_DEFAULT);
+ if(attr_id < 0) goto error;
+ /* Write data to the attribute */
+ ret = H5Awrite(attr_id, H5T_NATIVE_INT, attr_data);
+ if(ret < 0) goto error;
+
+ ret = H5Aclose(attr_id);
+ if(ret < 0) goto error;
+ ret = H5Dclose(dset_id);
+ if(ret < 0) goto error;
+ }
+
+ /* Close all open IDs */
+ ret = H5Tclose(attr_type_id);
+ if(ret < 0) goto error;
+ ret = H5Sclose(attr_space_id);
+ if(ret < 0) goto error;
+ ret = H5Tclose(type_id);
+ if(ret < 0) goto error;
+ ret = H5Sclose(space_id);
+ if(ret < 0) goto error;
+ ret = H5Fclose(file_id);
+ if(ret < 0) goto error;
+
+ return 0;
+
+error:
+ return -1;
+}
+
diff --git a/src/H5Ppublic.h b/src/H5Ppublic.h
index 83ae330..515120b 100644
--- a/src/H5Ppublic.h
+++ b/src/H5Ppublic.h
@@ -236,7 +236,6 @@ H5_DLL herr_t H5Pset_sym_k(hid_t plist_id, unsigned ik, unsigned lk);
H5_DLL herr_t H5Pget_sym_k(hid_t plist_id, unsigned *ik/*out*/, unsigned *lk/*out*/);
H5_DLL herr_t H5Pset_istore_k(hid_t plist_id, unsigned ik);
H5_DLL herr_t H5Pget_istore_k(hid_t plist_id, unsigned *ik/*out*/);
-H5_DLL herr_t H5Pset_shared_mesgs(hid_t plist_id, unsigned nindexes, const unsigned mesg_type_flags[]);
H5_DLL herr_t H5Pset_shared_mesg_nindexes(hid_t plist_id, unsigned nindexes);
H5_DLL herr_t H5Pget_shared_mesg_nindexes(hid_t plist_id, unsigned *nindexes);
H5_DLL herr_t H5Pset_shared_mesg_index(hid_t plist_id, unsigned index_num, unsigned mesg_type_flags, unsigned min_mesg_size);