Split tools into src and test - add folders

1 files changed, 510 insertions, 0 deletions

diff --git a/tools/src/misc/h5repart.c b/tools/src/misc/h5repart.c
new file mode 100644
index 0000000..e44c957
--- /dev/null
+++ b/tools/src/misc/h5repart.c
@@ -0,0 +1,510 @@
+/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
+ * Copyright by The HDF Group.                                               *
+ * 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://hdfgroup.org/HDF5/doc/Copyright.html.  If you do not have          *
+ * access to either file, you may request a copy from help@hdfgroup.org.     *
+ * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */
+
+/*
+ * Programmer:  Robb Matzke <matzke@llnl.gov>
+ *              Wednesday, May 13, 1998
+ *
+ * Purpose:	Repartitions a file family.  This program can be used to
+ *		split a single file into a family of files, join a family of
+ *		files into a single file, or copy one family to another while
+ *		changing the size of the family members.  It can also be used
+ *		to copy a single file to a single file with holes.
+ */
+
+/* See H5private.h for how to include system headers */
+#include "hdf5.h"
+#include "H5private.h"
+#ifdef H5_STDC_HEADERS
+#   include <ctype.h>
+#   include <errno.h>
+#   include <fcntl.h>
+#   include <stdio.h>
+#   include <stdlib.h>
+#   include <string.h>
+#endif
+
+#ifdef H5_HAVE_UNISTD_H
+#   include <sys/types.h>
+#   include <unistd.h>
+#endif
+
+#ifdef H5_HAVE_SYS_STAT_H
+#   include <sys/stat.h>
+#endif
+
+#ifndef FALSE
+#   define FALSE	0
+#endif
+#ifndef TRUE
+#   define TRUE 	1
+#endif
+#   define NAMELEN	4096
+#define GB	*1024*1024*1024
+
+#ifndef MIN
+#   define MIN(X,Y)	((X)<(Y)?(X):(Y))
+#endif
+#ifndef MIN3
+#   define MIN3(X,Y,Z)	MIN(MIN(X,Y),Z)
+#endif
+
+/*Make these 2 private properties(defined in H5Fprivate.h) available to h5repart.
+ *The first one updates the member file size in the superblock.  The second one
+ *change file driver from family to sec2. */
+#define H5F_ACS_FAMILY_NEWSIZE_NAME            "family_newsize"
+#define H5F_ACS_FAMILY_TO_SEC2_NAME            "family_to_sec2"
+
+
+/*-------------------------------------------------------------------------
+ * Function:	usage
+ *
+ * Purpose:	Prints a usage message.
+ *
+ * Return:	void
+ *
+ * Programmer:	Robb Matzke
+ *              Wednesday, May 13, 1998
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+static void
+usage (const char *progname)
+{
+    fprintf(stderr, "usage: %s [-v] [-V] [-[b|m] N[g|m|k]] [-family_to_sec2] SRC DST\n",
+	    progname);
+    fprintf(stderr, "   -v     Produce verbose output\n");
+    fprintf(stderr, "   -V     Print a version number and exit\n");
+    fprintf(stderr, "   -b N   The I/O block size, defaults to 1kB\n");
+    fprintf(stderr, "   -m N   The destination member size or 1GB\n");
+    fprintf(stderr, "   -family_to_sec2   Change file driver from family to sec2\n");
+    fprintf(stderr, "   SRC    The name of the source file\n");
+    fprintf(stderr, "   DST	The name of the destination files\n");
+    fprintf(stderr, "Sizes may be suffixed with `g' for GB, `m' for MB or "
+	    "`k' for kB.\n");
+    fprintf(stderr, "File family names include an integer printf "
+	    "format such as `%%d'\n");
+    exit (EXIT_FAILURE);
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function:	get_size
+ *
+ * Purpose:	Reads a size option of the form `-XNS' where `X' is any
+ *		letter, `N' is a multi-character positive decimal number, and
+ *		`S' is an optional suffix letter in the set [GgMmk].  The
+ *		option may also be split among two arguments as: `-X NS'.
+ *		The input value of ARGNO is the argument number for the
+ *		switch in the ARGV vector and ARGC is the number of entries
+ *		in that vector.
+ *
+ * Return:	Success:	The value N multiplied according to the
+ *				suffix S.  On return ARGNO will be the number
+ *				of the next argument to process.
+ *
+ *		Failure:	Calls usage() which exits with a non-zero
+ *				status.
+ *
+ * Programmer:	Robb Matzke
+ *              Wednesday, May 13, 1998
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+static off_t
+get_size (const char *progname, int *argno, int argc, char *argv[])
+{
+    off_t	retval=-1;
+    char	*suffix;
+
+    if (isdigit ((int)(argv[*argno][2]))) {
+	retval = strtol (argv[*argno]+2, &suffix, 10);
+	(*argno)++;
+    } else if (argv[*argno][2] || *argno+1>=argc) {
+	usage (progname);
+    } else {
+	retval = strtol (argv[*argno+1], &suffix, 0);
+	if (suffix==argv[*argno+1]) usage (progname);
+	*argno += 2;
+    }
+    if (suffix && suffix[0] && !suffix[1]) {
+	switch (*suffix) {
+	case 'G':
+	case 'g':
+	    retval *= 1024 * 1024 * 1024;
+	    break;
+	case 'M':
+	case 'm':
+	    retval *= 1024 * 1024;
+	    break;
+	case 'k':
+	    retval *= 1024;
+	    break;
+	default:
+	    usage (progname);
+	}
+    } else if (suffix && suffix[0]) {
+	usage (progname);
+    }
+    return retval;
+}
+
+
+/*-------------------------------------------------------------------------
+ * Function:	main
+ *
+ * Purpose:	Split an hdf5 file
+ *
+ * Return:	Success:
+ *
+ *		Failure:
+ *
+ * Programmer:	Robb Matzke
+ *              Wednesday, May 13, 1998
+ *
+ * Modifications:
+ *
+ *-------------------------------------------------------------------------
+ */
+int
+main (int argc, char *argv[])
+{
+    const char	*prog_name;		/*program name			*/
+    size_t	blk_size=1024;		/*size of each I/O block	*/
+    char	*buf=NULL;		/*I/O block buffer		*/
+    size_t	n, i;			/*counters			*/
+    ssize_t	nio;			/*I/O return value		*/
+    int		argno=1;		/*program argument number	*/
+    int		src, dst=-1;		/*source & destination files	*/
+    int		need_seek=FALSE;	/*destination needs to seek?	*/
+    int		need_write;		/*data needs to be written?	*/
+    h5_stat_t sb;                       /*temporary file stat buffer	*/
+
+    int		verbose=FALSE;		/*display file names?		*/
+
+    const char	*src_gen_name;  /*general source name		*/
+    char	*src_name=NULL;	    /*source member name		*/
+
+    int		src_is_family;		/*is source name a family name?	*/
+    int		src_membno=0;		/*source member number		*/
+
+    const char	*dst_gen_name;	/*general destination name	*/
+    char	*dst_name=NULL;	    /*destination member name	*/
+    int		dst_is_family;		/*is dst name a family name?	*/
+    int		dst_membno=0;		/*destination member number	*/
+
+    off_t	left_overs=0;		/*amount of zeros left over	*/
+    off_t	src_offset=0;		/*offset in source member	*/
+    off_t	dst_offset=0;		/*offset in destination member	*/
+    off_t	src_size;           /*source logical member size	*/
+    off_t	src_act_size;		/*source actual member size	*/
+    off_t	dst_size=1 GB;		/*destination logical memb size	*/
+    hid_t       fapl;                   /*file access property list     */
+    hid_t       file;
+    hsize_t     hdsize;                 /*destination logical memb size */
+    hbool_t     family_to_sec2=FALSE;   /*change family to sec2 driver? */
+
+    /*
+     * Get the program name from argv[0]. Use only the last component.
+     */
+    if ((prog_name=strrchr (argv[0], '/'))) prog_name++;
+    else prog_name = argv[0];
+
+    /*
+     * Parse switches.
+     */
+    while (argno<argc && '-'==argv[argno][0]) {
+        if (!strcmp (argv[argno], "-v")) {
+            verbose = TRUE;
+            argno++;
+        } else if (!strcmp(argv[argno], "-V")) {
+            printf("This is %s version %u.%u release %u\n",
+                prog_name, H5_VERS_MAJOR, H5_VERS_MINOR, H5_VERS_RELEASE);
+            exit(EXIT_SUCCESS);
+        } else if (!strcmp (argv[argno], "-family_to_sec2")) {
+            family_to_sec2 = TRUE;
+            argno++;
+        } else if ('b'==argv[argno][1]) {
+            blk_size = (size_t)get_size (prog_name, &argno, argc, argv);
+        } else if ('m'==argv[argno][1]) {
+            dst_size = get_size (prog_name, &argno, argc, argv);
+        } else {
+            usage (prog_name);
+        } /* end if */
+    } /* end while */
+
+    /* allocate names */
+    if(NULL == (src_name = (char *)HDcalloc((size_t)NAMELEN, sizeof(char))))
+        exit(EXIT_FAILURE);
+    if(NULL == (dst_name = (char *)HDcalloc((size_t)NAMELEN, sizeof(char))))
+        exit(EXIT_FAILURE);
+
+    /*
+     * Get the name for the source file and open the first member.  The size
+     * of the first member determines the logical size of all the members.
+     */
+    if (argno>=argc) usage (prog_name);
+    src_gen_name = argv[argno++];
+    sprintf (src_name, src_gen_name, src_membno);
+    src_is_family = strcmp (src_name, src_gen_name);
+
+    if ((src=HDopen(src_name, O_RDONLY,0))<0) {
+        perror (src_name);
+        exit (EXIT_FAILURE);
+    }
+
+    if (HDfstat(src, &sb)<0) {
+        perror ("fstat");
+        exit (EXIT_FAILURE);
+    }
+    src_size = src_act_size = sb.st_size;
+    if (verbose) fprintf (stderr, "< %s\n", src_name);
+
+    /*
+     * Get the name for the destination file and open the first member.
+     */
+    if (argno>=argc) usage (prog_name);
+    dst_gen_name = argv[argno++];
+    sprintf (dst_name, dst_gen_name, dst_membno);
+    dst_is_family = strcmp (dst_name, dst_gen_name);
+
+    if ((dst=HDopen (dst_name, O_RDWR|O_CREAT|O_TRUNC, 0666))<0) {
+	perror (dst_name);
+	exit (EXIT_FAILURE);
+    }
+    if (verbose) fprintf (stderr, "> %s\n", dst_name);
+
+    /* No more arguments */
+    if (argno<argc) usage (prog_name);
+
+    /* Now the real work, split the file */
+    buf = (char *)HDmalloc(blk_size);
+    while (src_offset<src_size) {
+
+	/* Read a block.  The amount to read is the minimum of:
+	 *    1. The I/O block size
+	 *    2. What's left to write in the destination member
+	 *    3. Left over zeros or what's left in the source member.
+	 */
+	n = blk_size;
+	if (dst_is_family) n = (size_t)MIN((off_t)n, dst_size-dst_offset);
+	if (left_overs) {
+	    n = (size_t)MIN ((off_t)n, left_overs);
+	    left_overs = left_overs - (off_t)n;
+	    need_write = FALSE;
+	} else if (src_offset<src_act_size) {
+	    n = (size_t)MIN ((off_t)n, src_act_size-src_offset);
+	    if ((nio=HDread (src, buf, n))<0) {
+		perror ("read");
+		exit (EXIT_FAILURE);
+	    } else if ((size_t)nio!=n) {
+		fprintf (stderr, "%s: short read\n", src_name);
+		exit (EXIT_FAILURE);
+	    }
+	    for (i=0; i<n; i++) {
+		if (buf[i]) break;
+	    }
+	    need_write = (i<n);
+	} else {
+	    n = 0;
+	    left_overs = src_size - src_act_size;
+	    need_write = FALSE;
+	}
+
+	/*
+	 * If the block contains non-zero data then write it to the
+	 * destination, otherwise just remember that we'll have to do a seek
+	 * later in the destination when we finally get non-zero data.
+	 */
+	if (need_write) {
+	    if (need_seek && HDlseek (dst, dst_offset, SEEK_SET)<0) {
+		perror ("HDlseek");
+		exit (EXIT_FAILURE);
+	    }
+	    if ((nio=HDwrite (dst, buf, n))<0) {
+		perror ("write");
+		exit (EXIT_FAILURE);
+	    } else if ((size_t)nio!=n) {
+		fprintf (stderr, "%s: short write\n", dst_name);
+		exit (EXIT_FAILURE);
+	    }
+	    need_seek = FALSE;
+	} else {
+	    need_seek = TRUE;
+	}
+
+	/*
+	 * Update the source offset and open the next source family member if
+	 * necessary.  The source stream ends at the first member which
+	 * cannot be opened because it doesn't exist.  At the end of the
+	 * source stream, update the destination offset and break out of the
+	 * loop.   The destination offset must be updated so we can fix
+	 * trailing holes.
+	 */
+	src_offset = src_offset + (off_t)n;
+	if (src_offset==src_act_size) {
+	    HDclose (src);
+	    if (!src_is_family) {
+                dst_offset = dst_offset + (off_t)n;
+		break;
+	    }
+	    sprintf (src_name, src_gen_name, ++src_membno);
+	    if ((src=HDopen (src_name, O_RDONLY,0))<0 && ENOENT==errno) {
+                dst_offset = dst_offset + (off_t)n;
+		break;
+	    } else if (src<0) {
+		perror (src_name);
+		exit (EXIT_FAILURE);
+	    }
+	    if (HDfstat (src, &sb)<0) {
+		perror ("fstat");
+		exit (EXIT_FAILURE);
+	    }
+	    src_act_size = sb.st_size;
+	    if (src_act_size>src_size) {
+		fprintf (stderr, "%s: member truncated to %lu bytes\n",
+			 src_name, (unsigned long)src_size);
+	    }
+	    src_offset = 0;
+	    if (verbose) fprintf (stderr, "< %s\n", src_name);
+	}
+
+	/*
+	 * Update the destination offset, opening a new member if one will be
+	 * needed. The first member is extended to the logical member size
+	 * but other members might be smaller if they end with a hole.
+	 */
+        dst_offset = dst_offset + (off_t)n;
+	if (dst_is_family && dst_offset==dst_size) {
+	    if (0==dst_membno) {
+		if (HDlseek (dst, dst_size-1, SEEK_SET)<0) {
+		    perror ("HDHDlseek");
+		    exit (EXIT_FAILURE);
+		}
+		if (HDread (dst, buf, 1)<0) {
+		    perror ("read");
+		    exit (EXIT_FAILURE);
+		}
+		if (HDlseek (dst, dst_size-1, SEEK_SET)<0) {
+		    perror ("HDlseek");
+		    exit (EXIT_FAILURE);
+		}
+		if (HDwrite (dst, buf, 1)<0) {
+		    perror ("write");
+		    exit (EXIT_FAILURE);
+		}
+	    }
+	    HDclose (dst);
+	    sprintf (dst_name, dst_gen_name, ++dst_membno);
+	    if ((dst=HDopen (dst_name, O_RDWR|O_CREAT|O_TRUNC, 0666))<0) {
+		perror (dst_name);
+		exit (EXIT_FAILURE);
+	    }
+	    dst_offset = 0;
+	    need_seek = FALSE;
+	    if (verbose) fprintf (stderr, "> %s\n", dst_name);
+	}
+    }
+
+    /*
+     * Make sure the last family member is the right size and then close it.
+     * The last member can't end with a hole or hdf5 will think that the
+     * family has been truncated.
+     */
+    if (need_seek) {
+	if (HDlseek (dst, dst_offset-1, SEEK_SET)<0) {
+	    perror ("HDlseek");
+	    exit (EXIT_FAILURE);
+	}
+	if (HDread (dst, buf, 1)<0) {
+	    perror ("read");
+	    exit (EXIT_FAILURE);
+	}
+	if (HDlseek (dst, dst_offset-1, SEEK_SET)<0) {
+	    perror ("HDlseek");
+	    exit (EXIT_FAILURE);
+	}
+	if (HDwrite (dst, buf, 1)<0) {
+	    perror ("write");
+	    exit (EXIT_FAILURE);
+	}
+    }
+    HDclose (dst);
+
+    /* Modify family driver information saved in superblock through private property.
+     * These private properties are for this tool only. */
+    if ((fapl=H5Pcreate(H5P_FILE_ACCESS))<0) {
+        perror ("H5Pcreate");
+        exit (EXIT_FAILURE);
+    }
+
+    if(family_to_sec2) {
+        /* The user wants to change file driver from family to sec2. Open the file
+         * with sec2 driver.  This property signals the library to ignore the family
+         * driver information saved in the superblock. */
+        if(H5Pset(fapl, H5F_ACS_FAMILY_TO_SEC2_NAME, &family_to_sec2) < 0) {
+            perror ("H5Pset");
+            exit (EXIT_FAILURE);
+        }
+    } else {
+        /* Modify family size saved in superblock through private property. It signals
+         * library to save the new member size(specified in command line) in superblock.
+         * This private property is for this tool only. */
+        if(H5Pset_fapl_family(fapl, H5F_FAMILY_DEFAULT, H5P_DEFAULT) < 0) {
+            perror ("H5Pset_fapl_family");
+            exit (EXIT_FAILURE);
+        }
+
+        /* Set the property of the new member size as hsize_t */
+        hdsize = (hsize_t)dst_size;
+        if(H5Pset(fapl, H5F_ACS_FAMILY_NEWSIZE_NAME, &hdsize) < 0) {
+            perror ("H5Pset");
+            exit (EXIT_FAILURE);
+        }
+    }
+
+    /* If the new file is a family file, try to open file for "read and write" to
+     * flush metadata. Flushing metadata will update the superblock to the new
+     * member size.  If the original file is a family file and the new file is a sec2
+     * file, the property FAMILY_TO_SEC2 will signal the library to switch to sec2
+     * driver when the new file is opened.  If the original file is a sec2 file and the
+     * new file can only be a sec2 file, reopen the new file should fail.  There's
+     * nothing to do in this case. */
+    H5E_BEGIN_TRY {
+        file=H5Fopen(dst_gen_name, H5F_ACC_RDWR, fapl);
+    } H5E_END_TRY;
+
+    if(file>=0) {
+        if(H5Fclose(file)<0) {
+            perror ("H5Fclose");
+            exit (EXIT_FAILURE);
+        } /* end if */
+    } /* end if */
+
+    if(H5Pclose(fapl)<0) {
+        perror ("H5Pclose");
+        exit (EXIT_FAILURE);
+    } /* end if */
+
+    /* Free resources and return */
+    HDfree(src_name);
+    HDfree(dst_name);
+    HDfree(buf);
+    return EXIT_SUCCESS;
+} /* end main */