/* * Copyright © 1998 NCSA * All rights reserved. * * Programmer: Robb Matzke * Thursday, July 23, 1998 * * Purpose: A library for displaying the values of a dataset in a human * readable format. */ #include #include #include #include #include #include #include #include /* * The output functions need a temporary buffer to hold a piece of the * dataset while it's being printed. This constant sets the limit on the * size of that temporary buffer in bytes. For efficiency's sake, choose the * largest value suitable for your machine (for testing use a small value). */ #if 1 #define H5DUMP_BUFSIZE (1024*1024) #else #define H5DUMP_BUFSIZE (1024) #endif #define OPT(X,S) ((X)?(X):(S)) #define ALIGN(A,Z) ((((A)+(Z)-1)/(Z))*(Z)) /*------------------------------------------------------------------------- * Function: h5dump_prefix * * Purpose: Prints the prefix to show up at the begining of the line. * * Return: void * * Programmer: Robb Matzke * Thursday, July 23, 1998 * * Modifications: * *------------------------------------------------------------------------- */ static void h5dump_prefix(char *s/*out*/, const h5dump_t *info, hsize_t elmtno, int ndims, hsize_t min_idx[], hsize_t max_idx[]) { hsize_t p_prod[H5S_MAX_RANK], p_idx[H5S_MAX_RANK]; hsize_t n, i=0; char temp[1024]; if (ndims>0) { /* * Calculate the number of elements represented by a unit change in a * certain index position. */ for (i=ndims-1, p_prod[ndims-1]=1; i>0; --i) { p_prod[i-1] = (max_idx[i]-min_idx[i]) * p_prod[i]; } /* * Calculate the index values from the element number. */ for (i=0, n=elmtno; i<(hsize_t)ndims; i++) { p_idx[i] = n / p_prod[i] + min_idx[i]; n %= p_prod[i]; } /* * Print the index values. */ *temp = '\0'; for (i=0; i<(hsize_t)ndims; i++) { if (i) strcat(temp, OPT(info->idx_sep, ",")); sprintf(temp+strlen(temp), OPT(info->idx_n_fmt, "%lu"), (unsigned long)p_idx[i]); } } else { /* Scalar */ sprintf(temp, OPT(info->idx_n_fmt, "%lu"), (unsigned long)0); } /* * Add prefix and suffix to the index. */ sprintf(s, OPT(info->idx_fmt, "%s: "), temp); } /*------------------------------------------------------------------------- * Function: h5dump_sprint * * Purpose: Prints the value pointed to by VP into the string S assuming * the data type of VP is TYPE. * * Return: void * * Programmer: Robb Matzke * Thursday, July 23, 1998 * * Modifications: * *------------------------------------------------------------------------- */ static void h5dump_sprint(char *s/*out*/, const h5dump_t *info, hid_t type, void *vp) { size_t i, n, offset, size, dims[H5S_MAX_RANK], nelmts; unsigned overflow = 0xaaaaaaaa; char temp[8192]; char *name, quote='\0'; hid_t memb; int nmembs, j, k, ndims; const int repeat_threshold = 8; if (H5Tequal(type, H5T_NATIVE_DOUBLE)) { sprintf(temp, "%g", *((double*)vp)); } else if (H5Tequal(type, H5T_NATIVE_FLOAT)) { sprintf(temp, "%g", *((float*)vp)); } else if (info->ascii && (H5Tequal(type, H5T_NATIVE_SCHAR) || H5Tequal(type, H5T_NATIVE_UCHAR))) { switch (*((char*)vp)) { case '"': strcpy(temp, "\\\""); break; case '\\': strcpy(temp, "\\\\"); break; case '\b': strcpy(temp, "\\b"); break; case '\f': strcpy(temp, "\\f"); break; case '\n': strcpy(temp, "\\n"); break; case '\r': strcpy(temp, "\\r"); break; case '\t': strcpy(temp, "\\t"); break; default: if (isprint(*((char*)vp))) sprintf(temp, "%c", *((char*)vp)); else sprintf(temp, "\\%03o", *((unsigned char*)vp)); break; } } else if (H5T_STRING==H5Tget_class(type)) { size = H5Tget_size(type); temp[0] = '\0'; quote = '\0'; for (i=0; irepeat_threshold) { if (quote) sprintf(temp+strlen(temp), "%c", quote); quote = '\''; sprintf(temp+strlen(temp), "%s%c", i?" ":"", quote); } else if (!quote) { quote = '"'; sprintf(temp+strlen(temp), "%s%c", i?" ":"", quote); } /* Print the character */ switch (((char*)vp)[i]) { case '"': strcat(temp, "\\\""); break; case '\\': strcat(temp, "\\\\"); break; case '\b': strcat(temp, "\\b"); break; case '\f': strcat(temp, "\\f"); break; case '\n': strcat(temp, "\\n"); break; case '\r': strcat(temp, "\\r"); break; case '\t': strcat(temp, "\\t"); break; default: if (isprint(((char*)vp)[i])) { sprintf(temp+strlen(temp), "%c", ((char*)vp)[i]); } else { sprintf(temp+strlen(temp), "\\%03o", ((unsigned char*)vp)[i]); } break; } /* Print the repeat count */ if (j>repeat_threshold) { sprintf(temp+strlen(temp), "%c repeats %d times", quote, j-1); quote = '\0'; i += j-1; } } if (quote) sprintf(temp+strlen(temp), "%c", quote); } else if (H5Tequal(type, H5T_NATIVE_SCHAR)) { sprintf(temp, "%d", *((signed char*)vp)); } else if (H5Tequal(type, H5T_NATIVE_UCHAR)) { sprintf(temp, "%u", *((unsigned char*)vp)); } else if (H5Tequal(type, H5T_NATIVE_SHORT)) { sprintf(temp, "%d", *((short*)vp)); } else if (H5Tequal(type, H5T_NATIVE_USHORT)) { sprintf(temp, "%u", *((unsigned short*)vp)); } else if (H5Tequal(type, H5T_NATIVE_INT)) { sprintf(temp, "%d", *((int*)vp)); } else if (H5Tequal(type, H5T_NATIVE_UINT)) { sprintf(temp, "%u", *((unsigned*)vp)); } else if (H5Tequal(type, H5T_NATIVE_LONG)) { sprintf(temp, "%ld", *((long*)vp)); } else if (H5Tequal(type, H5T_NATIVE_ULONG)) { sprintf(temp, "%lu", *((unsigned long*)vp)); } else if (H5Tequal(type, H5T_NATIVE_HSSIZE)) { if (sizeof(hssize_t)==sizeof(int)) { sprintf(temp, "%d", *((int*)vp)); } else if (sizeof(hssize_t)==sizeof(long)) { sprintf(temp, "%ld", *((long*)vp)); } else { char fmt[8]; strcpy(fmt, "%"); strcat(fmt, PRINTF_LL_WIDTH); strcat(fmt, "d"); sprintf(temp, fmt, *((int64_t*)vp)); } } else if (H5Tequal(type, H5T_NATIVE_HSIZE)) { if (sizeof(hsize_t)==sizeof(int)) { sprintf(temp, "%u", *((unsigned*)vp)); } else if (sizeof(hsize_t)==sizeof(long)) { sprintf(temp, "%lu", *((unsigned long*)vp)); } else { char fmt[8]; strcpy(fmt, "%"); strcat(fmt, PRINTF_LL_WIDTH); strcat(fmt, "u"); sprintf(temp, fmt, *((uint64_t*)vp)); } } else if (H5T_COMPOUND==H5Tget_class(type)) { nmembs = H5Tget_nmembers(type); strcpy(temp, OPT(info->cmpd_pre, "{")); for (j=0; jcmpd_sep, ",")); /* The name */ name = H5Tget_member_name(type, j); sprintf(temp+strlen(temp), OPT(info->cmpd_name, ""), name); free(name); /* The value */ offset = H5Tget_member_offset(type, j); memb = H5Tget_member_type(type, j); size = H5Tget_size(memb); ndims = H5Tget_member_dims(type, j, dims, NULL); assert(ndims>=0 && ndims<=H5S_MAX_RANK); for (k=0, nelmts=1; k1) strcat(temp, OPT(info->arr_pre, "[")); for (i=0; iarr_sep, ",")); h5dump_sprint(temp+strlen(temp), info, memb, (char*)vp+offset+i*size); } if (nelmts>1) strcat(temp, OPT(info->arr_suf, "]")); H5Tclose(memb); } strcat(temp, OPT(info->cmpd_suf, "}")); } else if (H5T_ENUM==H5Tget_class(type)) { if (H5Tenum_nameof(type, vp, temp, sizeof temp)<0) { strcpy(temp, "0x"); n = H5Tget_size(type); for (i=0; ielmt_fmt, "%s"), temp); /* * We should really fix this so it's not possible to overflow the `temp' * buffer. */ assert(overflow==0xaaaaaaaa); } /*------------------------------------------------------------------------- * Function: h5dump_simple * * Purpose: Print some values from a dataset with a simple data space. * This is a special case of h5dump(). * * Return: Success: 0 * * Failure: -1 * * Programmer: Robb Matzke * Thursday, July 23, 1998 * * Modifications: * *------------------------------------------------------------------------- */ static int h5dump_simple(FILE *stream, const h5dump_t *info, hid_t dset, hid_t p_type) { hid_t f_space; /*file data space */ int ndims; /*dimensionality */ hsize_t elmtno, i; /*counters */ int carry; /*counter carry value */ hssize_t zero[8]; /*vector of zeros */ int need_prefix=1; /*indices need printing */ /* Print info */ hsize_t p_min_idx[H5S_MAX_RANK];/*min selected index */ hsize_t p_max_idx[H5S_MAX_RANK];/*max selected index */ size_t p_type_nbytes; /*size of memory type */ hsize_t p_nelmts; /*total selected elmts */ char p_buf[8192]; /*output string */ size_t p_column=0; /*output column */ size_t p_ncolumns=80; /*default num columns */ char p_prefix[1024]; /*line prefix string */ /* Stripmine info */ hsize_t sm_size[H5S_MAX_RANK]; /*stripmine size */ hsize_t sm_nbytes; /*bytes per stripmine */ hsize_t sm_nelmts; /*elements per stripmine*/ unsigned char *sm_buf=NULL; /*buffer for raw data */ hid_t sm_space; /*stripmine data space */ /* Hyperslab info */ hssize_t hs_offset[H5S_MAX_RANK];/*starting offset */ hsize_t hs_size[H5S_MAX_RANK]; /*size this pass */ hsize_t hs_nelmts; /*elements in request */ /* * Check that everything looks okay. The dimensionality must not be too * great and the dimensionality of the items selected for printing must * match the dimensionality of the dataset. */ f_space = H5Dget_space(dset); ndims = H5Sget_simple_extent_ndims(f_space); if ((size_t)ndims>NELMTS(sm_size)) return -1; /* Assume entire data space to be printed */ for (i=0; i<(hsize_t)ndims; i++) p_min_idx[i] = 0; H5Sget_simple_extent_dims(f_space, p_max_idx, NULL); for (i=0, p_nelmts=1; i<(hsize_t)ndims; i++) { p_nelmts *= p_max_idx[i]-p_min_idx[i]; } if (0==p_nelmts) return 0; /*nothing to print*/ /* * Determine the strip mine size and allocate a buffer. The strip mine is * a hyperslab whose size is manageable. */ p_type_nbytes = H5Tget_size(p_type); for (i=ndims, sm_nbytes=p_type_nbytes; i>0; --i) { sm_size[i-1] = MIN (p_max_idx[i-1]-p_min_idx[i-1], H5DUMP_BUFSIZE/sm_nbytes); sm_nbytes *= sm_size[i-1]; assert(sm_nbytes>0); } sm_buf = malloc(sm_nbytes); sm_nelmts = sm_nbytes/p_type_nbytes; sm_space = H5Screate_simple(1, &sm_nelmts, NULL); /* Local things */ if (info->line_ncols>0) p_ncolumns = info->line_ncols; /* The stripmine loop */ memset(hs_offset, 0, sizeof hs_offset); memset(zero, 0, sizeof zero); for (elmtno=0; elmtno0) { for (i=0, hs_nelmts=1; i<(hsize_t)ndims; i++) { hs_size[i] = MIN(sm_size[i], p_max_idx[i]-hs_offset[i]); hs_nelmts *= hs_size[i]; } H5Sselect_hyperslab(f_space, H5S_SELECT_SET, hs_offset, NULL, hs_size, NULL); H5Sselect_hyperslab(sm_space, H5S_SELECT_SET, zero, NULL, &hs_nelmts, NULL); } else { H5Sselect_all(f_space); H5Sselect_all(sm_space); hs_nelmts = 1; } /* Read the data */ if (H5Dread(dset, p_type, sm_space, f_space, H5P_DEFAULT, sm_buf)<0) { return -1; } /* Print the data */ for (i=0; ielmt_suf1, ",")); } /* Print the prefix */ if ((p_column + strlen(p_buf) + strlen(OPT(info->elmt_suf2, " ")) + strlen(OPT(info->line_suf, ""))) > p_ncolumns) { need_prefix = 1; } if (need_prefix) { h5dump_prefix(p_prefix, info, elmtno+i, ndims, p_min_idx, p_max_idx); if (p_column) { fputs(OPT(info->line_suf, ""), stream); putc('\n', stream); fputs(OPT(info->line_sep, ""), stream); } fputs(p_prefix, stream); p_column = strlen(p_prefix); need_prefix = 0; } else { fputs(OPT(info->elmt_suf2, " "), stream); p_column += strlen(OPT(info->elmt_suf2, " ")); } fputs(p_buf, stream); p_column += strlen(p_buf); } /* Calculate the next hyperslab offset */ for (i=ndims, carry=1; i>0 && carry; --i) { hs_offset[i-1] += hs_size[i-1]; if (hs_offset[i-1]==(hssize_t)p_max_idx[i-1]) { hs_offset[i-1] = p_min_idx[i-1]; } else { carry = 0; } } } if (p_column) { fputs(OPT(info->line_suf, ""), stream); putc('\n', stream); fputs(OPT(info->line_sep, ""), stream); } H5Sclose(sm_space); H5Sclose(f_space); if (sm_buf) free(sm_buf); return 0; } /*------------------------------------------------------------------------- * Function: h5dump_fixtype * * Purpose: Given a file data type choose a memory data type which is * appropriate for printing the data. * * Return: Success: Memory data type * * Failure: FAIL * * Programmer: Robb Matzke * Thursday, July 23, 1998 * * Modifications: * *------------------------------------------------------------------------- */ static hid_t h5dump_fixtype(hid_t f_type) { hid_t m_type=-1, f_memb; hid_t *memb=NULL; char **name=NULL; int nmembs=0, i, j, *ndims=NULL; size_t size, offset, *dims=NULL, nelmts; size = H5Tget_size(f_type); switch (H5Tget_class(f_type)) { case H5T_INTEGER: /* * Use the smallest native integer type of the same sign as the file * such that the memory type is at least as large as the file type. * If there is no memory type large enough then use the largest * memory type available. */ if (size<=sizeof(char)) { m_type = H5Tcopy(H5T_NATIVE_SCHAR); } else if (size<=sizeof(short)) { m_type = H5Tcopy(H5T_NATIVE_SHORT); } else if (size<=sizeof(int)) { m_type = H5Tcopy(H5T_NATIVE_INT); } else if (size<=sizeof(long)) { m_type = H5Tcopy(H5T_NATIVE_LONG); } else { m_type = H5Tcopy(H5T_NATIVE_LLONG); } H5Tset_sign(m_type, H5Tget_sign(f_type)); break; case H5T_FLOAT: /* * Use the smallest native floating point type available such that * its size is at least as large as the file type. If there is not * native type large enough then use the largest native type. */ if (size<=sizeof(float)) { m_type = H5Tcopy(H5T_NATIVE_FLOAT); } else if (size<=sizeof(double)) { m_type = H5Tcopy(H5T_NATIVE_DOUBLE); } else { m_type = H5Tcopy(H5T_NATIVE_LDOUBLE); } break; case H5T_STRING: m_type = H5Tcopy(f_type); H5Tset_cset(m_type, H5T_CSET_ASCII); H5Tset_strpad(m_type, H5T_STR_NULLPAD); break; case H5T_COMPOUND: /* * We have to do this in two steps. The first step scans the file * type and converts the members to native types and remembers all * their names and sizes, computing the size of the memory compound * type at the same time. Then we create the memory compound type * and add the members. */ nmembs = H5Tget_nmembers(f_type); memb = calloc(nmembs, sizeof(hid_t)); name = calloc(nmembs, sizeof(char*)); ndims = calloc(nmembs, sizeof(int)); dims = calloc(nmembs*4, sizeof(size_t)); for (i=0, size=0; i=0 && ndims[i]<=4); for (j=0, nelmts=1; j=0) H5Tclose(memb[i]); if (name[i]) free(name[i]); } free(memb); free(name); free(ndims); free(dims); } return m_type; } /*------------------------------------------------------------------------- * Function: h5dump * * Purpose: Print some values from a dataset DSET to the file STREAM * after converting all types to P_TYPE (which should be a * native type). If P_TYPE is a negative value then it will be * computed from the dataset type using only native types. * * Return: Success: 0 * * Failure: -1 * * Programmer: Robb Matzke * Thursday, July 23, 1998 * * Modifications: * *------------------------------------------------------------------------- */ int h5dump(FILE *stream, const h5dump_t *info, hid_t dset, hid_t _p_type) { hid_t f_space; hid_t p_type = _p_type; hid_t f_type; int status; h5dump_t info_dflt; /* Use default values */ if (!stream) stream = stdout; if (!info) { memset(&info_dflt, 0, sizeof info_dflt); info = &info_dflt; } if (p_type<0) { f_type = H5Dget_type(dset); p_type = h5dump_fixtype(f_type); H5Tclose(f_type); if (p_type<0) return -1; } /* Check the data space */ f_space = H5Dget_space(dset); if (H5Sis_simple(f_space)<=0) return -1; H5Sclose(f_space); /* Print the data */ status = h5dump_simple(stream, info, dset, p_type); if (p_type!=_p_type) H5Tclose(p_type); return status; }