Merge pull request #811 in HDFFV/hdf5 from hdf5_1_8_20 to 1.8/masterhdf5-1_8_20

* commit '60f76980aab92f0e0730170b99a2363acd3c97fa': (108 commits)
  Update version numbers and remove empty sections in RELEASE.txt.
  Restore line 1154: C2Cppfunction_map.mht to HTML_EXTRA_FILES.
  Update version for 1.8.20 release.
  Fixed documentation warnings
  HDFFV-10329 Correct LINK INTERFACE and VS20013 compile
  Switch default build mode from development to production. Increment version string to pre2.
  Add RELEASE.txt note for HDFFV-10274. (cherry picked from commit f7a7d0a00613cba997212fa8032091629a678797)
  Initialize hid_t variables in test_Attr_bug9. (cherry picked from commit 97bc393449f3fe02c5992872ab2842e12f611ef0)
  Fix HDFFV-10274.  When deleting all (or almost all) of the messages in an object header chunk, where the total amount deleted was greater than 64K, an error would occur due to an off by one error in the code that handled that case.  Fixed this and added a test case. (cherry picked from commit 1b2c2ca9a6a7d7e1fcd5c3302e203f2e2dabf0af)
  Fix linking of libs
  Changed file path to relative.
  iAdd NAG to supported compilers in RELEASE.txt.
  Add description to RELEASE.txt for HDFFV-10323
  Correct issue number
  Set version to 1.8.20-pre1
  Update supported and tested platforms in RELEASE.txt.
  HDFFV-10321 Merge from 1.8
  Incremented lib file .so numbers: revision for all except c++ for code change; current incremented, revision and age set to 0 for c++ due to symbols added and removed.
  updated issues related to Fortran
  Incremented lib file .so numbers: revision for all except c++ for dcode change; current incremented, revision and age set to 0 for c++ due to symbols added and removed.
  ...

1 files changed, 54 insertions, 53 deletions

diff --git a/tools/h5repack/h5repack.h b/tools/h5repack/h5repack.h
index 9049472..5b7bb0b 100644
--- a/tools/h5repack/h5repack.h
+++ b/tools/h5repack/h5repack.h
@@ -35,7 +35,7 @@
 
 /* a list of names */
 typedef struct {
- char obj[MAX_NC_NAME];
+    char         obj[MAX_NC_NAME];
 } obj_list_t;
 
 /*
@@ -53,15 +53,16 @@ typedef struct {
 #define CD_VALUES 20
 
 typedef struct {
- H5Z_filter_t filtn;                           /* filter identification number */
- unsigned     cd_values[CD_VALUES];            /* filter client data values */
- size_t       cd_nelmts;                       /* filter client number of values */
+    H5Z_filter_t filtn;                           /* filter identification number */
+    unsigned     filt_flag;                       /* filter definition flag */
+    unsigned     cd_values[CD_VALUES];            /* filter client data values */
+    size_t       cd_nelmts;                       /* filter client number of values */
 } filter_info_t;
 
 /* chunk lengths along each dimension and rank */
 typedef struct {
- hsize_t chunk_lengths[MAX_VAR_DIMS];
- int     rank;
+    hsize_t      chunk_lengths[MAX_VAR_DIMS];
+    int          rank;
 } chunk_info_t;
 
 /* we currently define a maximum value for the filters array,
@@ -70,19 +71,19 @@ typedef struct {
 
 /* information for one object, contains PATH, CHUNK info and FILTER info */
 typedef struct {
- char          path[MAX_NC_NAME];               /* name of object */
- filter_info_t filter[H5_REPACK_MAX_NFILTERS];  /* filter array */
- int           nfilters;                        /* current number of filters */
- H5D_layout_t  layout;                          /* layout information */
- chunk_info_t  chunk;                           /* chunk information */
- hid_t         refobj_id;                       /* object ID, references */
+    char          path[MAX_NC_NAME];               /* name of object */
+    filter_info_t filter[H5_REPACK_MAX_NFILTERS];  /* filter array */
+    int           nfilters;                        /* current number of filters */
+    H5D_layout_t  layout;                          /* layout information */
+    chunk_info_t  chunk;                           /* chunk information */
+    hid_t         refobj_id;                       /* object ID, references */
 } pack_info_t;
 
 /* store a table of all objects */
 typedef struct {
-    unsigned int size;
-    unsigned int nelems;
-    pack_info_t  *objs;
+    unsigned int  size;
+    unsigned int  nelems;
+    pack_info_t   *objs;
 } pack_opttbl_t;
 
 
@@ -93,26 +94,26 @@ typedef struct {
 
 /* all the above, ready to go to the hrepack call */
 typedef struct {
- pack_opttbl_t   *op_tbl;     /*table with all -c and -f options */
- int             all_layout;  /*apply the layout to all objects */
- int             all_filter;  /*apply the filter to all objects */
- filter_info_t   filter_g[H5_REPACK_MAX_NFILTERS];    /*global filter array for the ALL case */
- int             n_filter_g;  /*number of global filters */
- chunk_info_t    chunk_g;     /*global chunk INFO for the ALL case */
- H5D_layout_t    layout_g;    /*global layout information for the ALL case */
- int             verbose;     /*verbose mode */
- hsize_t         min_comp;    /*minimum size to compress, in bytes */
- int             use_native;  /*use a native type in write */
- int             latest;      /*pack file with the latest file format */
- int             grp_compact; /* Set the maximum number of links to store as header messages in the group */
- int             grp_indexed; /* Set the minimum number of links to store in the indexed format */
- int             msg_size[8]; /* Minimum size of shared messages: dataspace,
-                                 datatype, fill value, filter pipleline, attribute */
- const char      *ublock_filename; /* user block file name */
- hsize_t         ublock_size;      /* user block size */
- hsize_t         meta_block_size;  /* metadata aggregation block size (for H5Pset_meta_block_size) */
- hsize_t         threshold;        /* alignment threshold for H5Pset_alignment */
- hsize_t         alignment ;       /* alignment for H5Pset_alignment */
+    pack_opttbl_t   *op_tbl;     /*table with all -c and -f options */
+    int             all_layout;  /*apply the layout to all objects */
+    int             all_filter;  /*apply the filter to all objects */
+    filter_info_t   filter_g[H5_REPACK_MAX_NFILTERS];    /*global filter array for the ALL case */
+    int             n_filter_g;  /*number of global filters */
+    chunk_info_t    chunk_g;     /*global chunk INFO for the ALL case */
+    H5D_layout_t    layout_g;    /*global layout information for the ALL case */
+    int             verbose;     /*verbose mode */
+    hsize_t         min_comp;    /*minimum size to compress, in bytes */
+    int             use_native;  /*use a native type in write */
+    int             latest;      /*pack file with the latest file format */
+    int             grp_compact; /* Set the maximum number of links to store as header messages in the group */
+    int             grp_indexed; /* Set the minimum number of links to store in the indexed format */
+    int             msg_size[8]; /* Minimum size of shared messages: dataspace,
+                                    datatype, fill value, filter pipleline, attribute */
+    const char      *ublock_filename;  /* user block file name */
+    hsize_t         ublock_size;       /* user block size */
+    hsize_t         meta_block_size;   /* metadata aggregation block size (for H5Pset_meta_block_size) */
+    hsize_t         threshold;         /* alignment threshold for H5Pset_alignment */
+    hsize_t         alignment;         /* alignment for H5Pset_alignment */
 } pack_opt_t;
 
 
@@ -134,15 +135,15 @@ extern "C" {
 int h5repack(const char* infile, const char* outfile, pack_opt_t *options);
 int h5repack_addfilter(const char* str, pack_opt_t *options);
 int h5repack_addlayout(const char* str, pack_opt_t *options);
-int h5repack_init(pack_opt_t *options, int verbose);
+int h5repack_init(pack_opt_t *options, int verbose, hbool_t latest);
 int h5repack_end(pack_opt_t *options);
-int h5repack_verify(const char *out_fname, pack_opt_t *options);
+int h5repack_verify(const char *in_fname, const char *out_fname, pack_opt_t *options);
 int h5repack_cmp_pl(const char *fname1, const char *fname2);
 
-/* Note: The below copy_named_datatype(), named_datatype_free(), copy_attr() 
- * and struct named_dt_t were located in h5repack_copy.c as static prior to 
- * bugfix1726. 
- * Made shared functions as copy_attr() was needed in h5repack_refs.c. 
+/* Note: The below copy_named_datatype(), named_datatype_free(), copy_attr()
+ * and struct named_dt_t were located in h5repack_copy.c as static prior to
+ * bugfix1726.
+ * Made shared functions as copy_attr() was needed in h5repack_refs.c.
  * However copy_attr() may be obsoleted when H5Acopy is available and put back
  * others to static in h5repack_copy.c.
  */
@@ -202,18 +203,18 @@ int apply_filters(const char* name,    /* object name from traverse list */
  * options table
  *-------------------------------------------------------------------------
  */
-int          options_table_init( pack_opttbl_t **tbl );
-int          options_table_free( pack_opttbl_t *table );
-int          options_add_layout( obj_list_t *obj_list,
-                                 unsigned n_objs,
-                                 pack_info_t *pack,
-                                 pack_opttbl_t *table );
-int          options_add_filter ( obj_list_t *obj_list,
-                                 unsigned n_objs,
-                                 filter_info_t filt,
-                                 pack_opttbl_t *table );
-pack_info_t* options_get_object( const char *path,
-                                 pack_opttbl_t *table);
+int          options_table_init(pack_opttbl_t **tbl);
+int          options_table_free(pack_opttbl_t *table);
+int          options_add_layout(obj_list_t *obj_list,
+                                unsigned n_objs,
+                                pack_info_t *pack,
+                                pack_opttbl_t *table);
+int          options_add_filter(obj_list_t *obj_list,
+                                unsigned n_objs,
+                                filter_info_t filt,
+                                pack_opttbl_t *table);
+pack_info_t* options_get_object(const char *path,
+                                pack_opttbl_t *table);
 
 /*-------------------------------------------------------------------------
  * parse functions