diff options
Diffstat (limited to 'tools/h5repack/h5repack_list.c')
| -rw-r--r-- | tools/h5repack/h5repack_list.c | 257 |
1 files changed, 236 insertions, 21 deletions
diff --git a/tools/h5repack/h5repack_list.c b/tools/h5repack/h5repack_list.c index f444218..8358221 100644 --- a/tools/h5repack/h5repack_list.c +++ b/tools/h5repack/h5repack_list.c @@ -193,15 +193,14 @@ int copy_file(char* fnamein, return -1; } + + /*------------------------------------------------------------------------- * do the copy *------------------------------------------------------------------------- */ do_copy_file(fidin,fidout,nobjects,info,options); - - - /*------------------------------------------------------------------------- * free @@ -241,19 +240,19 @@ void print_objlist(char *filename, switch ( info[i].type ) { case H5G_GROUP: - printf("%s %20s\n", info[i].name, "group" ); + printf(" %-10s %s\n", "group", info[i].name ); break; case H5G_DATASET: - printf("%s %20s\n", info[i].name, "dataset" ); + printf(" %-10s %s\n", "dataset", info[i].name ); break; case H5G_TYPE: - printf("%s %20s\n", info[i].name, "datatype" ); + printf(" %-10s %s\n", "datatype", info[i].name ); break; case H5G_LINK: - printf("%s %20s\n", info[i].name, "link" ); + printf(" %-10s %s\n", "link", info[i].name ); break; default: - printf("%s %20s\n", info[i].name, "User defined object" ); + printf(" %-10s %s\n", "User defined object", info[i].name ); break; } } @@ -281,18 +280,21 @@ int do_copy_file(hid_t fidin, trav_info_t *info, pack_opt_t *options) { - hid_t grp_id; /* group ID */ + hid_t grp_in; /* group ID */ + hid_t grp_out; /* group ID */ hid_t dset_in; /* read dataset ID */ hid_t dset_out; /* write dataset ID */ + hid_t type_in; /* named type ID */ + hid_t type_out; /* named type ID */ hid_t dcpl_id; /* dataset creation property list ID */ hid_t space_id; /* space ID */ hid_t ftype_id; /* file data type ID */ hid_t mtype_id; /* memory data type ID */ size_t msize; /* memory size of memory type */ void *buf=NULL; /* data buffer */ - hsize_t nelmts; /* number of elements in dataaset */ + hsize_t nelmts; /* number of elements in dataset */ int rank; /* rank of dataset */ - hsize_t dims[32]; /* dimansions of dataset */ + hsize_t dims[H5S_MAX_RANK];/* dimensions of dataset */ int i, j; for ( i = 0; i < nobjects; i++) @@ -305,11 +307,26 @@ int do_copy_file(hid_t fidin, */ case H5G_GROUP: if (options->verbose) - printf("%s %20s\n", info[i].name, "group" ); + printf(" %-10s %s\n", "group",info[i].name ); - if ((grp_id=H5Gcreate(fidout, info[i].name, 0))<0) + if ((grp_out=H5Gcreate(fidout, info[i].name, 0))<0) goto error; - if (H5Gclose(grp_id)<0) + + if((grp_in = H5Gopen (fidin, info[i].name))<0) + goto error; + +/*------------------------------------------------------------------------- + * copy attrs + *------------------------------------------------------------------------- + */ + + copy_attr(grp_in, + grp_out, + options); + + if (H5Gclose(grp_out)<0) + goto error; + if (H5Gclose(grp_in)<0) goto error; break; @@ -320,7 +337,7 @@ int do_copy_file(hid_t fidin, */ case H5G_DATASET: if (options->verbose) - printf("%s %20s\n", info[i].name, "dataset" ); + printf(" %-10s %s\n", "dataset",info[i].name ); if ((dset_in=H5Dopen(fidin,info[i].name))<0) goto error; @@ -363,6 +380,22 @@ int do_copy_file(hid_t fidin, if (H5Dwrite(dset_out,mtype_id,H5S_ALL,H5S_ALL,H5P_DEFAULT,buf)<0) goto error; + +/*------------------------------------------------------------------------- + * copy attrs + *------------------------------------------------------------------------- + */ + + copy_attr(dset_in, + dset_out, + options); + + +/*------------------------------------------------------------------------- + * close + *------------------------------------------------------------------------- + */ + if (H5Tclose(ftype_id)<0) goto error; if (H5Tclose(mtype_id)<0) @@ -375,7 +408,9 @@ int do_copy_file(hid_t fidin, goto error; if (H5Dclose(dset_out)<0) goto error; - + + if (buf) + free(buf); break; @@ -384,18 +419,68 @@ int do_copy_file(hid_t fidin, *------------------------------------------------------------------------- */ case H5G_TYPE: + + if ((type_in = H5Topen (fidin, info[i].name))<0) + goto error; + + if ((type_out = H5Tcopy(type_in))<0) + goto error; + + if ((H5Tcommit(fidout, info[i].name, type_out))<0) + goto error; + +/*------------------------------------------------------------------------- + * copy attrs + *------------------------------------------------------------------------- + */ + + copy_attr(type_in, + type_out, + options); + + if (H5Tclose(type_in)<0) + goto error; + if (H5Tclose(type_out)<0) + goto error; + if (options->verbose) - printf("%s %20s\n", info[i].name, "datatype" ); + printf(" %-10s %s\n", "datatype",info[i].name ); + break; case H5G_LINK: - if (options->verbose) - printf("%s %20s\n", info[i].name, "link" ); + + { + + H5G_stat_t statbuf; + char *targbuf=NULL; + + if (H5Gget_objinfo(fidin,info[i].name,FALSE,&statbuf)<0) + goto error; + + targbuf = malloc(statbuf.linklen); + + if (H5Gget_linkval(fidin,info[i].name,statbuf.linklen,targbuf)<0) + goto error; + + if (H5Glink(fidout, + H5G_LINK_SOFT, + targbuf, /* current name of object */ + info[i].name /* new name of object */ + )<0) + goto error; + + free(targbuf); + + if (options->verbose) + printf(" %-10s %s\n", "link",info[i].name ); + + } break; default: if (options->verbose) - printf("%s %20s\n", info[i].name, "User defined object" ); + printf(" %-10s %s\n", "User defined object", info[i].name); break; } } @@ -404,16 +489,146 @@ int do_copy_file(hid_t fidin, error: H5E_BEGIN_TRY { - H5Gclose(grp_id); + H5Gclose(grp_in); + H5Gclose(grp_out); H5Pclose(dcpl_id); H5Sclose(space_id); H5Dclose(dset_in); H5Dclose(dset_out); H5Tclose(ftype_id); H5Tclose(mtype_id); + H5Tclose(type_in); + H5Tclose(type_out); + if (buf) + free(buf); } H5E_END_TRY; return -1; } +/*------------------------------------------------------------------------- + * Function: copy_attr + * + * Purpose: copy attributes located in LOC_IN, which is obtained either from + * loc_id = H5Gopen( fid, name); + * loc_id = H5Dopen( fid, name); + * loc_id = H5Topen( fid, name); + * + * Return: 0, ok, -1 no + * + * Programmer: Pedro Vicente, pvn@ncsa.uiuc.edu + * + * Date: October, 28, 2003 + * + *------------------------------------------------------------------------- + */ + +int copy_attr(hid_t loc_in, + hid_t loc_out, + pack_opt_t *options + ) +{ + hid_t attr_id; /* attr ID */ + hid_t attr_out; /* attr ID */ + hid_t space_id; /* space ID */ + hid_t ftype_id; /* file data type ID */ + hid_t mtype_id; /* memory data type ID */ + size_t msize; /* memory size of memory type */ + void *buf=NULL; /* data buffer */ + hsize_t nelmts; /* number of elements in dataset */ + int rank; /* rank of dataset */ + hsize_t dims[H5S_MAX_RANK];/* dimensions of dataset */ + char name[255]; + int n, i, j; + + if ((n = H5Aget_num_attrs(loc_in))<0) + goto error; + + for ( i = 0; i < n; i++) + { +/*------------------------------------------------------------------------- + * open + *------------------------------------------------------------------------- + */ + /* open attribute */ + if ((attr_id = H5Aopen_idx(loc_in, i))<0) + goto error; + + /* get name */ + if (H5Aget_name( attr_id, 255, name )<0) + goto error; + + /* get the file datatype */ + if ((ftype_id = H5Aget_type( attr_id )) < 0 ) + goto error; + + /* get the dataspace handle */ + if ((space_id = H5Aget_space( attr_id )) < 0 ) + goto error; + + /* get dimensions */ + if ( (rank = H5Sget_simple_extent_dims(space_id, dims, NULL)) < 0 ) + goto error; + +/*------------------------------------------------------------------------- + * read to memory + *------------------------------------------------------------------------- + */ + nelmts=1; + for (j=0; j<rank; j++) + nelmts*=dims[j]; + if ((mtype_id=H5Tget_native_type(ftype_id,H5T_DIR_DEFAULT))<0) + goto error; + if ((msize=H5Tget_size(mtype_id))<0) + goto error; + buf=(void *) HDmalloc((unsigned)(nelmts*msize)); + if ( buf==NULL){ + printf( "cannot read into memory\n" ); + goto error; + } + if (H5Aread(attr_id,mtype_id,buf)<0) + goto error; + + +/*------------------------------------------------------------------------- + * copy + *------------------------------------------------------------------------- + */ + + if ((attr_out=H5Acreate(loc_out,name,ftype_id,space_id,H5P_DEFAULT))<0) + goto error; + if(H5Awrite(attr_out,mtype_id,buf)<0) + goto error; + + if (options->verbose) + printf(" %-13s %s\n", "attr", name); + +/*------------------------------------------------------------------------- + * close + *------------------------------------------------------------------------- + */ + + if (H5Tclose(ftype_id)<0) goto error; + if (H5Tclose(mtype_id)<0) goto error; + if (H5Sclose(space_id)<0) goto error; + if (H5Aclose(attr_id)<0) goto error; + if (H5Aclose(attr_out)<0) goto error; + if (buf) + free(buf); + } /* i */ + + return 0; + +error: + H5E_BEGIN_TRY { + H5Tclose(ftype_id); + H5Tclose(mtype_id); + H5Sclose(space_id); + H5Aclose(attr_id); + H5Aclose(attr_out); + if (buf) + free(buf); + } H5E_END_TRY; + return -1; +} |