[409] | 1 | /* |
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| 2 | This file is part of netcdf-4, a netCDF-like interface for HDF5, or a |
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| 3 | HDF5 backend for netCDF, depending on your point of view. |
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| 4 | |
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| 5 | This file contains functions internal to the netcdf4 library. None of |
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| 6 | the functions in this file are exposed in the exetnal API. These |
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| 7 | functions handle the HDF interface. |
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| 8 | |
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| 9 | Copyright 2003, University Corporation for Atmospheric |
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| 10 | Research. See the COPYRIGHT file for copying and redistribution |
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| 11 | conditions. |
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| 12 | |
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| 13 | $Id: nc4hdf.c,v 1.273 2010/05/27 21:34:14 dmh Exp $ |
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| 14 | */ |
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| 15 | |
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| 16 | #include "config.h" |
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| 17 | #include "nc4internal.h" |
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| 18 | #include <H5DSpublic.h> |
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| 19 | #include <math.h> |
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| 20 | |
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| 21 | #ifdef IGNORE |
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| 22 | extern NC_FILE_INFO_T *nc_file; |
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| 23 | #endif |
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| 24 | |
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| 25 | #define NC3_STRICT_ATT_NAME "_nc3_strict" |
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| 26 | |
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| 27 | /* This is to track opened HDF5 objects to make sure they are |
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| 28 | * closed. */ |
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| 29 | #ifdef EXTRA_TESTS |
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| 30 | int num_plists; |
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| 31 | int num_spaces; |
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| 32 | #endif /* EXTRA_TESTS */ |
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| 33 | |
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| 34 | /* This function is needed to handle one special case: what if the |
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| 35 | * user defines a dim, writes metadata, then goes back into define |
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| 36 | * mode and adds a coordinate var for the already existing dim. In |
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| 37 | * that case, I need to recreate the dim's dimension scale dataset, |
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| 38 | * and then I need to go to every var in the file which uses that |
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| 39 | * dimension, and attach the new dimension scale. */ |
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| 40 | static int |
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| 41 | rec_reattach_scales(NC_GRP_INFO_T *grp, int dimid, hid_t dimscaleid) |
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| 42 | { |
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| 43 | NC_VAR_INFO_T *var; |
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| 44 | NC_GRP_INFO_T *child_grp; |
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| 45 | int d; |
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| 46 | int retval; |
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| 47 | |
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| 48 | assert(grp && grp->name && dimid >= 0 && dimscaleid >= 0); |
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| 49 | LOG((3, "rec_reattach_scales: grp->name %s", grp->name)); |
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| 50 | |
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| 51 | /* If there are any child groups, attach dimscale there, if needed. */ |
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| 52 | for (child_grp = grp->children; child_grp; child_grp = child_grp->next) |
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| 53 | if ((retval = rec_reattach_scales(child_grp, dimid, dimscaleid))) |
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| 54 | return retval; |
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| 55 | |
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| 56 | /* Find any vars that use this dimension id. */ |
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| 57 | for (var = grp->var; var; var = var->next) |
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| 58 | for (d = 0; d < var->ndims; d++) |
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| 59 | if (var->dimids[d] == dimid && !var->dimscale) |
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| 60 | { |
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| 61 | LOG((2, "rec_reattach_scaled: attaching scale for dimid %d to var %s", |
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| 62 | var->dimids[d], var->name)); |
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| 63 | if (var->created) |
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| 64 | { |
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| 65 | if (H5DSattach_scale(var->hdf_datasetid, dimscaleid, d) < 0) |
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| 66 | return NC_EHDFERR; |
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| 67 | var->dimscale_attached[d]++; |
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| 68 | } |
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| 69 | } |
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| 70 | |
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| 71 | return NC_NOERR; |
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| 72 | } |
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| 73 | |
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| 74 | /* This function is needed to handle one special case: what if the |
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| 75 | * user defines a dim, writes metadata, then goes back into define |
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| 76 | * mode and adds a coordinate var for the already existing dim. In |
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| 77 | * that case, I need to recreate the dim's dimension scale dataset, |
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| 78 | * and then I need to go to every var in the file which uses that |
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| 79 | * dimension, and attach the new dimension scale. */ |
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| 80 | static int |
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| 81 | rec_detach_scales(NC_GRP_INFO_T *grp, int dimid, hid_t dimscaleid) |
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| 82 | { |
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| 83 | NC_VAR_INFO_T *var; |
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| 84 | NC_GRP_INFO_T *child_grp; |
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| 85 | int d; |
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| 86 | int retval; |
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| 87 | |
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| 88 | assert(grp && grp->name && dimid >= 0 && dimscaleid >= 0); |
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| 89 | LOG((3, "rec_detach_scales: grp->name %s", grp->name)); |
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| 90 | |
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| 91 | /* If there are any child groups, attach dimscale there, if needed. */ |
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| 92 | for (child_grp = grp->children; child_grp; child_grp = child_grp->next) |
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| 93 | if ((retval = rec_detach_scales(child_grp, dimid, dimscaleid))) |
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| 94 | return retval; |
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| 95 | |
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| 96 | /* If there are no vars, we are done. */ |
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| 97 | if (!grp->var) |
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| 98 | return NC_NOERR; |
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| 99 | |
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| 100 | /* Find any (already created) vars that use this dimension id. Go |
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| 101 | * through the list backwards to accomdate a HDF5 bug. */ |
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| 102 | for (var = grp->var; var->next; var = var->next) |
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| 103 | ; |
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| 104 | |
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| 105 | for ( ; var; var = var->prev) |
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| 106 | for (d = 0; d < var->ndims; d++) |
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| 107 | if (var->dimids[d] == dimid && !var->dimscale) |
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| 108 | { |
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| 109 | LOG((2, "rec_detach_scales: detaching scale for dimid %d to var %s", |
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| 110 | var->dimids[d], var->name)); |
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| 111 | if (var->created) |
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| 112 | { |
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| 113 | if (var->dimscale_attached[d]) |
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| 114 | { |
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| 115 | if (H5DSdetach_scale(var->hdf_datasetid, dimscaleid, d) < 0) |
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| 116 | return NC_EHDFERR; |
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| 117 | var->dimscale_attached[d] = 0; |
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| 118 | } |
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| 119 | } |
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| 120 | } |
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| 121 | |
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| 122 | return NC_NOERR; |
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| 123 | } |
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| 124 | |
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| 125 | /* Open the dataset and leave it open. */ |
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| 126 | int |
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| 127 | nc4_open_var_grp2(NC_GRP_INFO_T *grp, int varid, hid_t *dataset) |
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| 128 | { |
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| 129 | NC_VAR_INFO_T *var; |
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| 130 | |
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| 131 | /* Find the requested varid. */ |
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| 132 | for (var = grp->var; var; var = var->next) |
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| 133 | if (var->varid == varid) |
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| 134 | break; |
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| 135 | if (!var) |
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| 136 | return NC_ENOTVAR; |
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| 137 | |
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| 138 | /* Open this dataset if necessary. */ |
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| 139 | if (!var->hdf_datasetid) |
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| 140 | if ((var->hdf_datasetid = H5Dopen2(grp->hdf_grpid, var->name, |
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| 141 | H5P_DEFAULT)) < 0) |
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| 142 | return NC_ENOTVAR; |
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| 143 | |
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| 144 | *dataset = var->hdf_datasetid; |
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| 145 | |
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| 146 | return NC_NOERR; |
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| 147 | } |
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| 148 | |
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| 149 | /* Write or read one element of data. |
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| 150 | |
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| 151 | Oh, better far to live and die |
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| 152 | Under the brave black flag I fly, |
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| 153 | Than play a sanctimonious part, |
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| 154 | With a pirate head and a pirate heart. |
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| 155 | |
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| 156 | Away to the cheating world go you, |
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| 157 | Where pirates all are well-to-do. |
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| 158 | But I'll be true to the song I sing, |
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| 159 | And live and die a Pirate king. |
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| 160 | */ |
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| 161 | int |
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| 162 | nc4_pg_var1(NC_PG_T pg, NC_FILE_INFO_T *nc, int ncid, int varid, |
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| 163 | const size_t *indexp, nc_type xtype, int is_long, void *ip) |
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| 164 | { |
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| 165 | NC_GRP_INFO_T *grp; |
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| 166 | NC_VAR_INFO_T *var; |
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| 167 | int i; |
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| 168 | size_t start[NC_MAX_VAR_DIMS], count[NC_MAX_VAR_DIMS]; |
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| 169 | int retval; |
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| 170 | |
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| 171 | /* Find file and var, cause I need the number of dims. */ |
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| 172 | assert(nc); |
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| 173 | if ((retval = nc4_find_g_var_nc(nc, ncid, varid, &grp, &var))) |
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| 174 | return retval; |
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| 175 | assert(grp && var && var->name); |
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| 176 | |
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| 177 | /* Set up the count and start arrays. */ |
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| 178 | for (i=0; i<var->ndims; i++) |
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| 179 | { |
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| 180 | start[i] = indexp[i]; |
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| 181 | count[i] = 1; |
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| 182 | } |
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| 183 | |
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| 184 | /* Get or put this data. */ |
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| 185 | if (pg == GET) |
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| 186 | return nc4_get_vara(nc, ncid, varid, start, count, xtype, |
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| 187 | is_long, ip); |
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| 188 | else |
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| 189 | return nc4_put_vara(nc, ncid, varid, start, count, xtype, |
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| 190 | is_long, ip); |
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| 191 | } |
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| 192 | |
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| 193 | /* Get the default fill value for an atomic type. Memory for |
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| 194 | * fill_value must already be allocated, or you are DOOMED!!!*/ |
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| 195 | int |
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| 196 | nc4_get_default_fill_value(NC_TYPE_INFO_T *type_info, void *fill_value) |
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| 197 | { |
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| 198 | switch (type_info->nc_typeid) |
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| 199 | { |
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| 200 | case NC_BYTE: |
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| 201 | *(signed char *)fill_value = NC_FILL_BYTE; |
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| 202 | break; |
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| 203 | case NC_CHAR: |
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| 204 | *(char *)fill_value = NC_FILL_CHAR; |
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| 205 | break; |
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| 206 | case NC_SHORT: |
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| 207 | *(short *)fill_value = NC_FILL_SHORT; |
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| 208 | break; |
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| 209 | case NC_INT: |
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| 210 | *(int *)fill_value = NC_FILL_INT; |
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| 211 | break; |
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| 212 | case NC_FLOAT: |
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| 213 | *(float *)fill_value = NC_FILL_FLOAT; |
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| 214 | break; |
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| 215 | case NC_DOUBLE: |
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| 216 | *(double *)fill_value = NC_FILL_DOUBLE; |
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| 217 | break; |
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| 218 | case NC_UBYTE: |
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| 219 | *(unsigned char *)fill_value = NC_FILL_UBYTE; |
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| 220 | break; |
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| 221 | case NC_USHORT: |
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| 222 | *(unsigned short *)fill_value = NC_FILL_USHORT; |
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| 223 | break; |
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| 224 | case NC_UINT: |
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| 225 | *(unsigned int *)fill_value = NC_FILL_UINT; |
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| 226 | break; |
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| 227 | case NC_INT64: |
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| 228 | *(long long *)fill_value = NC_FILL_INT64; |
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| 229 | break; |
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| 230 | case NC_UINT64: |
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| 231 | *(unsigned long long *)fill_value = NC_FILL_UINT64; |
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| 232 | break; |
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| 233 | case NC_STRING: |
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| 234 | strcpy((char *)fill_value, ""); |
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| 235 | break; |
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| 236 | default: |
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| 237 | return NC_EINVAL; |
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| 238 | } |
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| 239 | |
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| 240 | return NC_NOERR; |
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| 241 | } |
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| 242 | |
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| 243 | /* What fill value should be used for a variable? */ |
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| 244 | static int |
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| 245 | get_fill_value(NC_HDF5_FILE_INFO_T *h5, NC_VAR_INFO_T *var, void **fillp) |
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| 246 | { |
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| 247 | size_t size; |
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| 248 | int retval; |
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| 249 | |
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| 250 | /* Find out how much space we need for this type's fill value. */ |
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| 251 | if ((retval = nc4_get_typelen_mem(h5, var->xtype, 0, &size))) |
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| 252 | return retval; |
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| 253 | |
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| 254 | /* Strings have a size of one for the empty sting (to hold the |
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| 255 | * null), otherwise the length of the users fill_value string, plus |
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| 256 | * one. */ |
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| 257 | if (var->xtype == NC_STRING) |
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| 258 | { |
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| 259 | size = 1; |
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| 260 | } |
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| 261 | |
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| 262 | /* Allocate the space. VLENS are different, of course. */ |
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| 263 | if (var->type_info->class == NC_VLEN) |
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| 264 | { |
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| 265 | if (!((*fillp) = malloc(sizeof(nc_vlen_t)))) |
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| 266 | return NC_ENOMEM; |
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| 267 | } |
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| 268 | else |
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| 269 | { |
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| 270 | if (!((*fillp) = malloc(size))) |
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| 271 | return NC_ENOMEM; |
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| 272 | } |
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| 273 | |
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| 274 | /* If the user has set a fill_value for this var, use, otherwise |
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| 275 | * find the default fill value. */ |
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| 276 | if (var->fill_value) |
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| 277 | { |
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| 278 | LOG((4, "Found a fill value for var %s", var->name)); |
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| 279 | if (var->type_info->class == NC_VLEN) |
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| 280 | { |
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| 281 | nc_vlen_t *in_vlen = (nc_vlen_t *)(var->fill_value), *fv_vlen = (nc_vlen_t *)(*fillp); |
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| 282 | fv_vlen->len = in_vlen->len; |
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| 283 | if (!(fv_vlen->p = malloc(size * in_vlen->len))) |
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| 284 | return NC_ENOMEM; |
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| 285 | memcpy(fv_vlen->p, in_vlen->p, in_vlen->len * size); |
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| 286 | } |
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| 287 | else if (var->xtype == NC_STRING) |
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| 288 | { |
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| 289 | if (!(*(char **)fillp = malloc((strlen((char *)var->fill_value) + 1) * |
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| 290 | sizeof(char)))) |
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| 291 | return NC_ENOMEM; |
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| 292 | strcpy(*(char **)fillp, (char *)var->fill_value); |
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| 293 | } |
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| 294 | else |
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| 295 | memcpy((*fillp), var->fill_value, size); |
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| 296 | } |
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| 297 | else |
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| 298 | { |
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| 299 | if ((nc4_get_default_fill_value(var->type_info, *fillp))) |
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| 300 | { |
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| 301 | free(*fillp); |
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| 302 | *fillp = NULL; |
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| 303 | } |
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| 304 | } |
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| 305 | |
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| 306 | return NC_NOERR; |
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| 307 | } |
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| 308 | |
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| 309 | /* Given a netcdf type, return appropriate HDF typeid. */ |
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| 310 | int |
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| 311 | nc4_get_hdf_typeid(NC_HDF5_FILE_INFO_T *h5, nc_type xtype, |
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| 312 | hid_t *hdf_typeid, int endianness) |
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| 313 | { |
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| 314 | NC_TYPE_INFO_T *type; |
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| 315 | hid_t typeid = 0; |
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| 316 | int retval = NC_NOERR; |
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| 317 | |
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| 318 | assert(hdf_typeid && h5); |
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| 319 | |
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| 320 | *hdf_typeid = -1; |
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| 321 | switch (xtype) |
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| 322 | { |
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| 323 | case NC_NAT: /* NAT = 'Not A Type' (c.f. NaN) */ |
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| 324 | return NC_EBADTYPE; |
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| 325 | case NC_BYTE: /* signed 1 byte integer */ |
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| 326 | if (endianness == NC_ENDIAN_LITTLE) |
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| 327 | *hdf_typeid = H5T_STD_I8LE; |
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| 328 | else if (endianness == NC_ENDIAN_BIG) |
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| 329 | *hdf_typeid = H5T_STD_I8BE; |
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| 330 | else |
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| 331 | *hdf_typeid = H5T_NATIVE_SCHAR; |
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| 332 | break; |
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| 333 | case NC_CHAR: /* ISO/ASCII character */ |
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| 334 | if ((typeid = H5Tcopy(H5T_C_S1)) < 0) |
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| 335 | return NC_EHDFERR; |
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| 336 | if (H5Tset_strpad(typeid, H5T_STR_NULLTERM) < 0) |
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| 337 | BAIL(NC_EVARMETA); |
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| 338 | *hdf_typeid = typeid; |
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| 339 | break; |
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| 340 | case NC_SHORT: /* signed 2 byte integer */ |
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| 341 | if (endianness == NC_ENDIAN_LITTLE) |
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| 342 | *hdf_typeid = H5T_STD_I16LE; |
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| 343 | else if (endianness == NC_ENDIAN_BIG) |
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| 344 | *hdf_typeid = H5T_STD_I16BE; |
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| 345 | else |
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| 346 | *hdf_typeid = H5T_NATIVE_SHORT; |
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| 347 | break; |
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| 348 | case NC_INT: |
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| 349 | if (endianness == NC_ENDIAN_LITTLE) |
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| 350 | *hdf_typeid = H5T_STD_I32LE; |
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| 351 | else if (endianness == NC_ENDIAN_BIG) |
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| 352 | *hdf_typeid = H5T_STD_I32BE; |
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| 353 | else |
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| 354 | *hdf_typeid = H5T_NATIVE_INT; |
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| 355 | break; |
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| 356 | case NC_FLOAT: |
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| 357 | if (endianness == NC_ENDIAN_LITTLE) |
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| 358 | *hdf_typeid = H5T_IEEE_F32LE; |
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| 359 | else if (endianness == NC_ENDIAN_BIG) |
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| 360 | *hdf_typeid = H5T_IEEE_F32BE; |
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| 361 | else |
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| 362 | *hdf_typeid = H5T_NATIVE_FLOAT; |
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| 363 | break; |
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| 364 | case NC_DOUBLE: |
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| 365 | if (endianness == NC_ENDIAN_LITTLE) |
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| 366 | *hdf_typeid = H5T_IEEE_F64LE; |
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| 367 | else if (endianness == NC_ENDIAN_BIG) |
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| 368 | *hdf_typeid = H5T_IEEE_F64BE; |
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| 369 | else |
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| 370 | *hdf_typeid = H5T_NATIVE_DOUBLE; |
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| 371 | break; |
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| 372 | case NC_UBYTE: |
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| 373 | if (endianness == NC_ENDIAN_LITTLE) |
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| 374 | *hdf_typeid = H5T_STD_U8LE; |
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| 375 | else if (endianness == NC_ENDIAN_BIG) |
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| 376 | *hdf_typeid = H5T_STD_U8BE; |
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| 377 | else |
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| 378 | *hdf_typeid = H5T_NATIVE_UCHAR; |
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| 379 | break; |
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| 380 | case NC_USHORT: |
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| 381 | if (endianness == NC_ENDIAN_LITTLE) |
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| 382 | *hdf_typeid = H5T_STD_U16LE; |
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| 383 | else if (endianness == NC_ENDIAN_BIG) |
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| 384 | *hdf_typeid = H5T_STD_U16BE; |
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| 385 | else |
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| 386 | *hdf_typeid = H5T_NATIVE_USHORT; |
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| 387 | break; |
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| 388 | case NC_UINT: |
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| 389 | if (endianness == NC_ENDIAN_LITTLE) |
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| 390 | *hdf_typeid = H5T_STD_U32LE; |
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| 391 | else if (endianness == NC_ENDIAN_BIG) |
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| 392 | *hdf_typeid = H5T_STD_U32BE; |
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| 393 | else |
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| 394 | *hdf_typeid = H5T_NATIVE_UINT; |
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| 395 | break; |
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| 396 | case NC_INT64: |
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| 397 | if (endianness == NC_ENDIAN_LITTLE) |
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| 398 | *hdf_typeid = H5T_STD_I64LE; |
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| 399 | else if (endianness == NC_ENDIAN_BIG) |
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| 400 | *hdf_typeid = H5T_STD_I64BE; |
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| 401 | else |
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| 402 | *hdf_typeid = H5T_NATIVE_LLONG; |
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| 403 | break; |
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| 404 | case NC_UINT64: |
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| 405 | if (endianness == NC_ENDIAN_LITTLE) |
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| 406 | *hdf_typeid = H5T_STD_U64LE; |
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| 407 | else if (endianness == NC_ENDIAN_BIG) |
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| 408 | *hdf_typeid = H5T_STD_U64BE; |
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| 409 | else |
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| 410 | *hdf_typeid = H5T_NATIVE_ULLONG; |
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| 411 | break; |
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| 412 | case NC_STRING: |
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| 413 | if ((typeid = H5Tcopy(H5T_C_S1)) < 0) |
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| 414 | return NC_EHDFERR; |
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| 415 | if (H5Tset_size(typeid, H5T_VARIABLE) < 0) |
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| 416 | return NC_EHDFERR; |
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| 417 | *hdf_typeid = typeid; |
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| 418 | break; |
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| 419 | default: |
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| 420 | /* Maybe this is a user defined type? */ |
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| 421 | if (!nc4_find_type(h5, xtype, &type)) |
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| 422 | { |
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| 423 | if (!type) |
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| 424 | return NC_EBADTYPE; |
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| 425 | *hdf_typeid = type->hdf_typeid; |
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| 426 | } |
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| 427 | } |
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| 428 | |
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| 429 | if (*hdf_typeid == -1) |
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| 430 | return NC_EBADTYPE; |
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| 431 | |
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| 432 | return NC_NOERR; |
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| 433 | |
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| 434 | exit: |
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| 435 | if (xtype == NC_CHAR && typeid > 0 && H5Tclose(typeid) < 0) |
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| 436 | BAIL2(NC_EHDFERR); |
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| 437 | return retval; |
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| 438 | } |
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| 439 | |
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| 440 | /* Do some common check for nc4_put_vara and nc4_get_vara. These |
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| 441 | * checks have to be done when both reading and writing data. */ |
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| 442 | static int |
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| 443 | check_for_vara(nc_type *mem_nc_type, NC_VAR_INFO_T *var, NC_HDF5_FILE_INFO_T *h5) |
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| 444 | { |
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| 445 | int retval; |
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| 446 | |
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| 447 | /* If mem_nc_type is NC_NAT, it means we want to use the file type |
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| 448 | * as the mem type as well. */ |
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| 449 | assert(mem_nc_type); |
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| 450 | if (*mem_nc_type == NC_NAT) |
---|
| 451 | *mem_nc_type = var->xtype; |
---|
| 452 | assert(*mem_nc_type); |
---|
| 453 | |
---|
| 454 | /* No NC_CHAR conversions, you pervert! */ |
---|
| 455 | if (var->xtype != *mem_nc_type && |
---|
| 456 | (var->xtype == NC_CHAR || *mem_nc_type == NC_CHAR)) |
---|
| 457 | return NC_ECHAR; |
---|
| 458 | |
---|
| 459 | /* If we're in define mode, we can't read or write data. */ |
---|
| 460 | if (h5->flags & NC_INDEF) |
---|
| 461 | { |
---|
| 462 | if (h5->cmode & NC_CLASSIC_MODEL) |
---|
| 463 | return NC_EINDEFINE; |
---|
| 464 | if ((retval = nc4_enddef_netcdf4_file(h5))) |
---|
| 465 | return retval; |
---|
| 466 | } |
---|
| 467 | |
---|
| 468 | return NC_NOERR; |
---|
| 469 | } |
---|
| 470 | |
---|
| 471 | #ifdef LOGGING |
---|
| 472 | /* Print some debug info about dimensions to the log. */ |
---|
| 473 | static void |
---|
| 474 | log_dim_info(NC_VAR_INFO_T *var, hsize_t *fdims, hsize_t *fmaxdims, |
---|
| 475 | hsize_t *start, hsize_t *count) |
---|
| 476 | { |
---|
| 477 | int d2; |
---|
| 478 | |
---|
| 479 | /* Print some debugging info... */ |
---|
| 480 | LOG((4, "nc4_put_vara: var name %s ndims %d", var->name, var->ndims)); |
---|
| 481 | LOG((4, "File space, and requested:")); |
---|
| 482 | for (d2 = 0; d2 < var->ndims; d2++) |
---|
| 483 | { |
---|
| 484 | LOG((4, "fdims[%d]=%Ld fmaxdims[%d]=%Ld", d2, fdims[d2], d2, |
---|
| 485 | fmaxdims[d2])); |
---|
| 486 | LOG((4, "start[%d]=%Ld count[%d]=%Ld", d2, start[d2], d2, count[d2])); |
---|
| 487 | } |
---|
| 488 | } |
---|
| 489 | #endif /* LOGGING */ |
---|
| 490 | |
---|
| 491 | #ifdef USE_PARALLEL |
---|
| 492 | static int |
---|
| 493 | set_par_access(NC_HDF5_FILE_INFO_T *h5, NC_VAR_INFO_T *var, hid_t xfer_plistid) |
---|
| 494 | { |
---|
| 495 | H5FD_mpio_xfer_t hdf5_xfer_mode; |
---|
| 496 | |
---|
| 497 | /* If netcdf is built with parallel I/O, then parallel access can |
---|
| 498 | * be used, and, if this file was opened or created for parallel |
---|
| 499 | * access, we need to set the transfer mode. */ |
---|
| 500 | if (h5->parallel) |
---|
| 501 | { |
---|
| 502 | /* Decide on collective or independent. */ |
---|
| 503 | hdf5_xfer_mode = (var->parallel_access != NC_INDEPENDENT) ? |
---|
| 504 | H5FD_MPIO_COLLECTIVE : H5FD_MPIO_INDEPENDENT; |
---|
| 505 | |
---|
| 506 | /* Set the mode in the transfer property list. */ |
---|
| 507 | if (H5Pset_dxpl_mpio(xfer_plistid, hdf5_xfer_mode) < 0) |
---|
| 508 | return NC_EPARINIT; |
---|
| 509 | |
---|
| 510 | LOG((4, "hdf5_xfer_mode: %d H5FD_MPIO_COLLECTIVE: %d H5FD_MPIO_INDEPENDENT: %d", |
---|
| 511 | (int)hdf5_xfer_mode, H5FD_MPIO_COLLECTIVE, H5FD_MPIO_INDEPENDENT)); |
---|
| 512 | } |
---|
| 513 | return NC_NOERR; |
---|
| 514 | } |
---|
| 515 | #endif |
---|
| 516 | |
---|
| 517 | /* Write an array of data to a variable. When it comes right down to |
---|
| 518 | * it, this is what netCDF-4 is all about, this is *the* function, the |
---|
| 519 | * big enchilda, the grand poo-bah, the alpha dog, the head honcho, |
---|
| 520 | * the big cheese, the mighty kahuna, the top bananna, the high |
---|
| 521 | * muckity-muck, numero uno. Well, you get the idea. */ |
---|
| 522 | int |
---|
| 523 | nc4_put_vara(NC_FILE_INFO_T *nc, int ncid, int varid, const size_t *startp, |
---|
| 524 | const size_t *countp, nc_type mem_nc_type, int is_long, void *data) |
---|
| 525 | { |
---|
| 526 | NC_GRP_INFO_T *grp; |
---|
| 527 | NC_HDF5_FILE_INFO_T *h5; |
---|
| 528 | NC_VAR_INFO_T *var; |
---|
| 529 | NC_DIM_INFO_T *dim; |
---|
| 530 | |
---|
| 531 | hid_t file_spaceid = 0, mem_spaceid = 0, xfer_plistid = 0; |
---|
| 532 | size_t file_type_size; |
---|
| 533 | |
---|
| 534 | hsize_t *xtend_size = NULL, count[NC_MAX_VAR_DIMS]; |
---|
| 535 | hsize_t fdims[NC_MAX_VAR_DIMS], fmaxdims[NC_MAX_VAR_DIMS]; |
---|
| 536 | hsize_t start[NC_MAX_VAR_DIMS]; |
---|
| 537 | int need_to_extend = 0; |
---|
| 538 | int scalar = 0, retval = NC_NOERR, range_error = 0, i, d2; |
---|
| 539 | void *bufr = NULL; |
---|
| 540 | #ifndef HDF5_CONVERT |
---|
| 541 | int need_to_convert = 0; |
---|
| 542 | size_t len = 1; |
---|
| 543 | #endif |
---|
| 544 | #ifdef HDF5_CONVERT |
---|
| 545 | hid_t mem_typeid = 0; |
---|
| 546 | #endif |
---|
| 547 | int no_data=0 ; |
---|
| 548 | |
---|
| 549 | /* Find our metadata for this file, group, and var. */ |
---|
| 550 | assert(nc); |
---|
| 551 | if ((retval = nc4_find_g_var_nc(nc, ncid, varid, &grp, &var))) |
---|
| 552 | return retval; |
---|
| 553 | h5 = nc->nc4_info; |
---|
| 554 | assert(grp && h5 && var && var->name); |
---|
| 555 | |
---|
| 556 | LOG((3, "nc4_put_vara: var->name %s mem_nc_type %d is_long %d", |
---|
| 557 | var->name, mem_nc_type, is_long)); |
---|
| 558 | |
---|
| 559 | /* Check some stuff about the type and the file. If the file must |
---|
| 560 | * be switched from define mode, it happens here. */ |
---|
| 561 | if ((retval = check_for_vara(&mem_nc_type, var, h5))) |
---|
| 562 | return retval; |
---|
| 563 | |
---|
| 564 | /* Convert from size_t and ptrdiff_t to hssize_t, and hsize_t. */ |
---|
| 565 | for (i = 0; i < var->ndims; i++) |
---|
| 566 | { |
---|
| 567 | start[i] = startp[i]; |
---|
| 568 | count[i] = countp[i]; |
---|
| 569 | } |
---|
| 570 | |
---|
| 571 | /* Open this dataset if necessary, also checking for a weird case: |
---|
| 572 | * a non-coordinate (and non-scalar) variable that has the same |
---|
| 573 | * name as a dimension. */ |
---|
| 574 | if (var->hdf5_name && strlen(var->hdf5_name) >= strlen(NON_COORD_PREPEND) && |
---|
| 575 | strncmp(var->hdf5_name, NON_COORD_PREPEND, strlen(NON_COORD_PREPEND)) == 0 && |
---|
| 576 | var->ndims) |
---|
| 577 | if ((var->hdf_datasetid = H5Dopen2(grp->hdf_grpid, var->hdf5_name, |
---|
| 578 | H5P_DEFAULT)) < 0) |
---|
| 579 | return NC_ENOTVAR; |
---|
| 580 | if (!var->hdf_datasetid) |
---|
| 581 | if ((var->hdf_datasetid = H5Dopen2(grp->hdf_grpid, var->name, |
---|
| 582 | H5P_DEFAULT)) < 0) |
---|
| 583 | return NC_ENOTVAR; |
---|
| 584 | |
---|
| 585 | /* Get file space of data. */ |
---|
| 586 | if ((file_spaceid = H5Dget_space(var->hdf_datasetid)) < 0) |
---|
| 587 | BAIL(NC_EHDFERR); |
---|
| 588 | #ifdef EXTRA_TESTS |
---|
| 589 | num_spaces++; |
---|
| 590 | #endif |
---|
| 591 | |
---|
| 592 | /* Check to ensure the user selection is |
---|
| 593 | * valid. H5Sget_simple_extent_dims gets the sizes of all the dims |
---|
| 594 | * and put them in fdims. */ |
---|
| 595 | if (H5Sget_simple_extent_dims(file_spaceid, fdims, fmaxdims) < 0) |
---|
| 596 | BAIL(NC_EHDFERR); |
---|
| 597 | |
---|
| 598 | #ifdef LOGGING |
---|
| 599 | log_dim_info(var, fdims, fmaxdims, start, count); |
---|
| 600 | #endif |
---|
| 601 | |
---|
| 602 | /* Check dimension bounds. Remember that unlimited dimnsions can |
---|
| 603 | * put data beyond their current length. */ |
---|
| 604 | for (d2 = 0; d2 < var->ndims; d2++) |
---|
| 605 | { |
---|
| 606 | for (dim = grp->dim; dim; dim = dim->next) |
---|
| 607 | { |
---|
| 608 | if (dim->dimid == var->dimids[d2]) |
---|
| 609 | { |
---|
| 610 | if (!dim->unlimited) |
---|
| 611 | { |
---|
| 612 | if (start[d2] >= (hssize_t)fdims[d2]) |
---|
| 613 | BAIL_QUIET(NC_EINVALCOORDS); |
---|
| 614 | if (start[d2] + count[d2] > fdims[d2]) |
---|
| 615 | BAIL_QUIET(NC_EEDGE); |
---|
| 616 | } |
---|
| 617 | } |
---|
| 618 | } |
---|
| 619 | } |
---|
| 620 | |
---|
| 621 | |
---|
| 622 | /* A little quirk: if any of the count values are zero, then |
---|
| 623 | return success and forget about it. */ |
---|
| 624 | |
---|
| 625 | for (d2 = 0; d2 < var->ndims; d2++) |
---|
| 626 | if (count[d2] != 0) no_data++ ; |
---|
| 627 | /* goto exit; */ |
---|
| 628 | |
---|
| 629 | /* Now you would think that no one would be crazy enough to write |
---|
| 630 | a scalar dataspace with one of the array function calls, but you |
---|
| 631 | would be wrong. So let's check to see if the dataset is |
---|
| 632 | scalar. If it is, we won't try to set up a hyperslab. */ |
---|
| 633 | if (H5Sget_simple_extent_type(file_spaceid) == H5S_SCALAR) |
---|
| 634 | { |
---|
| 635 | if ((mem_spaceid = H5Screate(H5S_SCALAR)) < 0) |
---|
| 636 | BAIL(NC_EHDFERR); |
---|
| 637 | #ifdef EXTRA_TESTS |
---|
| 638 | num_spaces++; |
---|
| 639 | #endif |
---|
| 640 | scalar++; |
---|
| 641 | } |
---|
| 642 | else |
---|
| 643 | { |
---|
| 644 | if (H5Sselect_hyperslab(file_spaceid, H5S_SELECT_SET, start, NULL, |
---|
| 645 | count, NULL) < 0) |
---|
| 646 | BAIL(NC_EHDFERR); |
---|
| 647 | |
---|
| 648 | /* Create a space for the memory, just big enough to hold the slab |
---|
| 649 | we want. */ |
---|
| 650 | if ((mem_spaceid = H5Screate_simple(var->ndims, count, NULL)) < 0) |
---|
| 651 | BAIL(NC_EHDFERR); |
---|
| 652 | #ifdef EXTRA_TESTS |
---|
| 653 | num_spaces++; |
---|
| 654 | #endif |
---|
| 655 | } |
---|
| 656 | |
---|
| 657 | /* Later on, we will need to know the size of this type in the |
---|
| 658 | * file. */ |
---|
| 659 | if ((retval = nc4_get_typelen_mem(h5, var->xtype, 0, &file_type_size))) |
---|
| 660 | return retval; |
---|
| 661 | |
---|
| 662 | #ifndef HDF5_CONVERT |
---|
| 663 | /* Are we going to convert any data? (No converting of compound or |
---|
| 664 | * opaque types.) */ |
---|
| 665 | if ((mem_nc_type != var->xtype || (var->xtype == NC_INT && is_long)) && |
---|
| 666 | mem_nc_type != NC_COMPOUND && mem_nc_type != NC_OPAQUE) |
---|
| 667 | { |
---|
| 668 | /* We must convert - allocate a buffer. */ |
---|
| 669 | need_to_convert++; |
---|
| 670 | if (var->ndims) |
---|
| 671 | for (d2=0; d2<var->ndims; d2++) |
---|
| 672 | len *= countp[d2]; |
---|
| 673 | LOG((4, "converting data for var %s type=%d len=%d", var->name, |
---|
| 674 | var->xtype, len)); |
---|
| 675 | |
---|
| 676 | /* If we're reading, we need bufr to have enough memory to store |
---|
| 677 | * the data in the file. If we're writing, we need bufr to be |
---|
| 678 | * big enough to hold all the data in the file's type. */ |
---|
| 679 | if (!(bufr = malloc(len * file_type_size))) |
---|
| 680 | BAIL(NC_ENOMEM); |
---|
| 681 | } |
---|
| 682 | else |
---|
| 683 | #endif /* ifndef HDF5_CONVERT */ |
---|
| 684 | bufr = data; |
---|
| 685 | |
---|
| 686 | #ifdef HDF5_CONVERT |
---|
| 687 | /* Get the HDF type of the data in memory. */ |
---|
| 688 | if ((retval = nc4_get_hdf_typeid(h5, mem_nc_type, &mem_typeid, |
---|
| 689 | var->type_info->endianness))) |
---|
| 690 | BAIL(retval); |
---|
| 691 | #endif |
---|
| 692 | |
---|
| 693 | /* Create the data transfer property list. */ |
---|
| 694 | if ((xfer_plistid = H5Pcreate(H5P_DATASET_XFER)) < 0) |
---|
| 695 | BAIL(NC_EHDFERR); |
---|
| 696 | #ifdef EXTRA_TESTS |
---|
| 697 | num_plists++; |
---|
| 698 | #endif |
---|
| 699 | |
---|
| 700 | /* Apply the callback function which will detect range |
---|
| 701 | * errors. Which one to call depends on the length of the |
---|
| 702 | * destination buffer type. */ |
---|
| 703 | #ifdef HDF5_CONVERT |
---|
| 704 | if (H5Pset_type_conv_cb(xfer_plistid, except_func, &range_error) < 0) |
---|
| 705 | BAIL(NC_EHDFERR); |
---|
| 706 | #endif |
---|
| 707 | |
---|
| 708 | #ifdef USE_PARALLEL |
---|
| 709 | /* Set up parallel I/O, if needed. */ |
---|
| 710 | if ((retval = set_par_access(h5, var, xfer_plistid))) |
---|
| 711 | BAIL(retval); |
---|
| 712 | #endif |
---|
| 713 | |
---|
| 714 | /* Read/write this hyperslab into memory. */ |
---|
| 715 | /* Does the dataset have to be extended? If it's already |
---|
| 716 | extended to the required size, it will do no harm to reextend |
---|
| 717 | it to that size. */ |
---|
| 718 | if (var->ndims) |
---|
| 719 | { |
---|
| 720 | if (!(xtend_size = malloc(var->ndims * sizeof(hsize_t)))) |
---|
| 721 | BAIL(NC_ENOMEM); |
---|
| 722 | for (d2 = 0; d2 < var->ndims; d2++) |
---|
| 723 | { |
---|
| 724 | if ((retval = nc4_find_dim(grp, var->dimids[d2], &dim, NULL))) |
---|
| 725 | BAIL(retval); |
---|
| 726 | if (dim->unlimited) |
---|
| 727 | { |
---|
| 728 | if (start[d2] + count[d2] > fdims[d2]) |
---|
| 729 | { |
---|
| 730 | xtend_size[d2] = start[d2] + count[d2]; |
---|
| 731 | need_to_extend++; |
---|
| 732 | } |
---|
| 733 | else |
---|
| 734 | xtend_size[d2] = fdims[d2]; |
---|
| 735 | |
---|
| 736 | if (start[d2] + count[d2] > dim->len) |
---|
| 737 | { |
---|
| 738 | dim->len = start[d2] + count[d2]; |
---|
| 739 | dim->extended++; |
---|
| 740 | } |
---|
| 741 | } |
---|
| 742 | else |
---|
| 743 | { |
---|
| 744 | xtend_size[d2] = dim->len; |
---|
| 745 | } |
---|
| 746 | } |
---|
| 747 | |
---|
| 748 | /* If we need to extend it, we also need a new file_spaceid |
---|
| 749 | to reflect the new size of the space. */ |
---|
| 750 | if (need_to_extend) |
---|
| 751 | { |
---|
| 752 | LOG((4, "extending dataset")); |
---|
| 753 | if (H5Dextend(var->hdf_datasetid, xtend_size) < 0) |
---|
| 754 | BAIL(NC_EHDFERR); |
---|
| 755 | if (file_spaceid > 0 && H5Sclose(file_spaceid) < 0) |
---|
| 756 | BAIL2(NC_EHDFERR); |
---|
| 757 | if ((file_spaceid = H5Dget_space(var->hdf_datasetid)) < 0) |
---|
| 758 | BAIL(NC_EHDFERR); |
---|
| 759 | #ifdef EXTRA_TESTS |
---|
| 760 | num_spaces++; |
---|
| 761 | #endif |
---|
| 762 | if (H5Sselect_hyperslab(file_spaceid, H5S_SELECT_SET, |
---|
| 763 | start, NULL, count, NULL) < 0) |
---|
| 764 | BAIL(NC_EHDFERR); |
---|
| 765 | } |
---|
| 766 | } |
---|
| 767 | |
---|
| 768 | #ifndef HDF5_CONVERT |
---|
| 769 | /* Do we need to convert the data? */ |
---|
| 770 | if (need_to_convert) |
---|
| 771 | { |
---|
| 772 | if ((retval = nc4_convert_type(data, bufr, mem_nc_type, var->xtype, |
---|
| 773 | len, &range_error, var->fill_value, |
---|
| 774 | (h5->cmode & NC_CLASSIC_MODEL), is_long, 0))) |
---|
| 775 | BAIL(retval); |
---|
| 776 | } |
---|
| 777 | #endif |
---|
| 778 | |
---|
| 779 | /* Write the data. At last! */ |
---|
| 780 | LOG((4, "about to H5Dwrite datasetid 0x%x mem_spaceid 0x%x " |
---|
| 781 | "file_spaceid 0x%x", var->hdf_datasetid, mem_spaceid, file_spaceid)); |
---|
| 782 | /* |
---|
| 783 | if (no_data==0) |
---|
| 784 | { |
---|
| 785 | H5Sselect_none(mem_spaceid); |
---|
| 786 | H5Sselect_none(file_spaceid); |
---|
| 787 | bufr=NULL ; |
---|
| 788 | } |
---|
| 789 | */ |
---|
| 790 | /* if (no_data!=0) */ |
---|
| 791 | if (H5Dwrite(var->hdf_datasetid, var->type_info->hdf_typeid, |
---|
| 792 | mem_spaceid, file_spaceid, xfer_plistid, bufr) < 0) |
---|
| 793 | BAIL(NC_EHDFERR); |
---|
| 794 | |
---|
| 795 | |
---|
| 796 | /* Remember that we have written to this var so that Fill Value |
---|
| 797 | * can't be set for it. */ |
---|
| 798 | if (!var->written_to) |
---|
| 799 | var->written_to++; |
---|
| 800 | |
---|
| 801 | /* For strict netcdf-3 rules, ignore erange errors between UBYTE |
---|
| 802 | * and BYTE types. */ |
---|
| 803 | if ((h5->cmode & NC_CLASSIC_MODEL) && |
---|
| 804 | (var->xtype == NC_UBYTE || var->xtype == NC_BYTE) && |
---|
| 805 | (mem_nc_type == NC_UBYTE || mem_nc_type == NC_BYTE) && |
---|
| 806 | range_error) |
---|
| 807 | range_error = 0; |
---|
| 808 | |
---|
| 809 | exit: |
---|
| 810 | if (file_spaceid > 0 && H5Sclose(file_spaceid) < 0) |
---|
| 811 | BAIL2(NC_EHDFERR); |
---|
| 812 | #ifdef EXTRA_TESTS |
---|
| 813 | num_spaces--; |
---|
| 814 | #endif |
---|
| 815 | if (mem_spaceid > 0 && H5Sclose(mem_spaceid) < 0) |
---|
| 816 | BAIL2(NC_EHDFERR); |
---|
| 817 | #ifdef EXTRA_TESTS |
---|
| 818 | num_spaces--; |
---|
| 819 | #endif |
---|
| 820 | if (xfer_plistid && (H5Pclose(xfer_plistid) < 0)) |
---|
| 821 | BAIL2(NC_EPARINIT); |
---|
| 822 | #ifdef EXTRA_TESTS |
---|
| 823 | num_plists--; |
---|
| 824 | #endif |
---|
| 825 | #ifndef HDF5_CONVERT |
---|
| 826 | if (need_to_convert) free(bufr); |
---|
| 827 | #endif |
---|
| 828 | if (xtend_size) free(xtend_size); |
---|
| 829 | |
---|
| 830 | /* If there was an error return it, otherwise return any potential |
---|
| 831 | range error value. If none, return NC_NOERR as usual.*/ |
---|
| 832 | if (retval) |
---|
| 833 | return retval; |
---|
| 834 | if (range_error) |
---|
| 835 | return NC_ERANGE; |
---|
| 836 | return NC_NOERR; |
---|
| 837 | } |
---|
| 838 | |
---|
| 839 | int |
---|
| 840 | nc4_get_vara(NC_FILE_INFO_T *nc, int ncid, int varid, const size_t *startp, |
---|
| 841 | const size_t *countp, nc_type mem_nc_type, int is_long, void *data) |
---|
| 842 | { |
---|
| 843 | NC_GRP_INFO_T *grp, *g; |
---|
| 844 | NC_HDF5_FILE_INFO_T *h5; |
---|
| 845 | NC_VAR_INFO_T *var; |
---|
| 846 | NC_DIM_INFO_T *dim; |
---|
| 847 | |
---|
| 848 | hid_t file_spaceid = 0, mem_spaceid = 0; |
---|
| 849 | hid_t xfer_plistid = 0; |
---|
| 850 | hid_t hdf_datasetid; |
---|
| 851 | size_t file_type_size; |
---|
| 852 | |
---|
| 853 | hsize_t *xtend_size = NULL, count[NC_MAX_VAR_DIMS]; |
---|
| 854 | hsize_t fdims[NC_MAX_VAR_DIMS], fmaxdims[NC_MAX_VAR_DIMS]; |
---|
| 855 | hsize_t start[NC_MAX_VAR_DIMS]; |
---|
| 856 | void *fillvalue = NULL; |
---|
| 857 | int no_read = 0, provide_fill = 0; |
---|
| 858 | int fill_value_size[NC_MAX_VAR_DIMS]; |
---|
| 859 | int scalar = 0, retval = NC_NOERR, range_error = 0, i, d2; |
---|
| 860 | void *bufr = NULL; |
---|
| 861 | int break_it; |
---|
| 862 | #ifndef HDF5_CONVERT |
---|
| 863 | int need_to_convert = 0; |
---|
| 864 | size_t len = 1; |
---|
| 865 | #endif |
---|
| 866 | |
---|
| 867 | /* Find our metadata for this file, group, and var. */ |
---|
| 868 | assert(nc); |
---|
| 869 | if ((retval = nc4_find_g_var_nc(nc, ncid, varid, &grp, &var))) |
---|
| 870 | return retval; |
---|
| 871 | h5 = nc->nc4_info; |
---|
| 872 | assert(grp && h5 && var && var->name); |
---|
| 873 | |
---|
| 874 | LOG((3, "nc4_get_vara: var->name %s mem_nc_type %d is_long %d", |
---|
| 875 | var->name, mem_nc_type, is_long)); |
---|
| 876 | |
---|
| 877 | /* Check some stuff about the type and the file. */ |
---|
| 878 | if ((retval = check_for_vara(&mem_nc_type, var, h5))) |
---|
| 879 | return retval; |
---|
| 880 | |
---|
| 881 | /* Convert from size_t and ptrdiff_t to hssize_t, and hsize_t. */ |
---|
| 882 | for (i = 0; i < var->ndims; i++) |
---|
| 883 | { |
---|
| 884 | start[i] = startp[i]; |
---|
| 885 | count[i] = countp[i]; |
---|
| 886 | } |
---|
| 887 | |
---|
| 888 | /* Open this dataset if necessary, also checking for a weird case: |
---|
| 889 | * a non-coordinate (and non-scalar) variable that has the same |
---|
| 890 | * name as a dimension. */ |
---|
| 891 | if (var->hdf5_name && strlen(var->hdf5_name) >= strlen(NON_COORD_PREPEND) && |
---|
| 892 | strncmp(var->hdf5_name, NON_COORD_PREPEND, strlen(NON_COORD_PREPEND)) == 0 && |
---|
| 893 | var->ndims) |
---|
| 894 | if ((var->hdf_datasetid = H5Dopen2(grp->hdf_grpid, var->hdf5_name, |
---|
| 895 | H5P_DEFAULT)) < 0) |
---|
| 896 | return NC_ENOTVAR; |
---|
| 897 | if (!var->hdf_datasetid) |
---|
| 898 | if ((var->hdf_datasetid = H5Dopen2(grp->hdf_grpid, var->name, |
---|
| 899 | H5P_DEFAULT)) < 0) |
---|
| 900 | return NC_ENOTVAR; |
---|
| 901 | |
---|
| 902 | /* Get file space of data. */ |
---|
| 903 | if ((file_spaceid = H5Dget_space(var->hdf_datasetid)) < 0) |
---|
| 904 | BAIL(NC_EHDFERR); |
---|
| 905 | #ifdef EXTRA_TESTS |
---|
| 906 | num_spaces++; |
---|
| 907 | #endif |
---|
| 908 | |
---|
| 909 | /* Check to ensure the user selection is |
---|
| 910 | * valid. H5Sget_simple_extent_dims gets the sizes of all the dims |
---|
| 911 | * and put them in fdims. */ |
---|
| 912 | if (H5Sget_simple_extent_dims(file_spaceid, fdims, fmaxdims) < 0) |
---|
| 913 | BAIL(NC_EHDFERR); |
---|
| 914 | |
---|
| 915 | #ifdef LOGGING |
---|
| 916 | log_dim_info(var, fdims, fmaxdims, start, count); |
---|
| 917 | #endif |
---|
| 918 | |
---|
| 919 | /* Check dimension bounds. Remember that unlimited dimnsions can |
---|
| 920 | * put data beyond their current length. */ |
---|
| 921 | for (d2 = 0, break_it = 0; d2 < var->ndims; d2++) |
---|
| 922 | { |
---|
| 923 | for (g = grp; g && !break_it; g = g->parent) |
---|
| 924 | for (dim = g->dim; dim; dim = dim->next) |
---|
| 925 | { |
---|
| 926 | if (dim->dimid == var->dimids[d2]) |
---|
| 927 | { |
---|
| 928 | if (!dim->unlimited) |
---|
| 929 | { |
---|
| 930 | if (start[d2] >= (hssize_t)fdims[d2]) |
---|
| 931 | BAIL_QUIET(NC_EINVALCOORDS); |
---|
| 932 | if (start[d2] + count[d2] > fdims[d2]) |
---|
| 933 | BAIL_QUIET(NC_EEDGE); |
---|
| 934 | } |
---|
| 935 | if (dim->unlimited) |
---|
| 936 | { |
---|
| 937 | size_t ulen; |
---|
| 938 | |
---|
| 939 | /* We can't go beyond the latgest current extent of |
---|
| 940 | the unlimited dim. */ |
---|
| 941 | if ((retval = nc_inq_dimlen(ncid, dim->dimid, &ulen))) |
---|
| 942 | BAIL(retval); |
---|
| 943 | |
---|
| 944 | /* Check for out of bound requests. */ |
---|
| 945 | if (start[d2] >= (hssize_t)ulen && count[d2]) |
---|
| 946 | BAIL_QUIET(NC_EINVALCOORDS); |
---|
| 947 | if (start[d2] + count[d2] > ulen) |
---|
| 948 | BAIL_QUIET(NC_EEDGE); |
---|
| 949 | |
---|
| 950 | /* THings get a little tricky here. If we're getting |
---|
| 951 | a GET request beyond the end of this var's |
---|
| 952 | current length in an unlimited dimension, we'll |
---|
| 953 | later need to return the fill value for the |
---|
| 954 | variable. */ |
---|
| 955 | if (start[d2] >= (hssize_t)fdims[d2]) |
---|
| 956 | fill_value_size[d2] = count[d2]; |
---|
| 957 | else if (start[d2] + count[d2] > fdims[d2]) |
---|
| 958 | fill_value_size[d2] = count[d2] - (fdims[d2] - start[d2]); |
---|
| 959 | else |
---|
| 960 | fill_value_size[d2] = 0; |
---|
| 961 | count[d2] -= fill_value_size[d2]; |
---|
| 962 | if (fill_value_size[d2]) |
---|
| 963 | provide_fill++; |
---|
| 964 | } |
---|
| 965 | else |
---|
| 966 | fill_value_size[d2] = count[d2]; |
---|
| 967 | } |
---|
| 968 | } |
---|
| 969 | } |
---|
| 970 | |
---|
| 971 | /* A little quirk: if any of the count values are zero, don't |
---|
| 972 | * read. */ |
---|
| 973 | for (d2 = 0; d2 < var->ndims; d2++) |
---|
| 974 | if (count[d2] == 0) |
---|
| 975 | no_read++; |
---|
| 976 | |
---|
| 977 | /* Later on, we will need to know the size of this type in the |
---|
| 978 | * file. */ |
---|
| 979 | if ((retval = nc4_get_typelen_mem(h5, var->xtype, 0, &file_type_size))) |
---|
| 980 | return retval; |
---|
| 981 | |
---|
| 982 | if (!no_read) |
---|
| 983 | { |
---|
| 984 | /* Now you would think that no one would be crazy enough to write |
---|
| 985 | a scalar dataspace with one of the array function calls, but you |
---|
| 986 | would be wrong. So let's check to see if the dataset is |
---|
| 987 | scalar. If it is, we won't try to set up a hyperslab. */ |
---|
| 988 | if (H5Sget_simple_extent_type(file_spaceid) == H5S_SCALAR) |
---|
| 989 | { |
---|
| 990 | if ((mem_spaceid = H5Screate(H5S_SCALAR)) < 0) |
---|
| 991 | BAIL(NC_EHDFERR); |
---|
| 992 | scalar++; |
---|
| 993 | #ifdef EXTRA_TESTS |
---|
| 994 | num_spaces++; |
---|
| 995 | #endif |
---|
| 996 | } |
---|
| 997 | else |
---|
| 998 | { |
---|
| 999 | if (H5Sselect_hyperslab(file_spaceid, H5S_SELECT_SET, |
---|
| 1000 | start, NULL, count, NULL) < 0) |
---|
| 1001 | BAIL(NC_EHDFERR); |
---|
| 1002 | /* Create a space for the memory, just big enough to hold the slab |
---|
| 1003 | we want. */ |
---|
| 1004 | if ((mem_spaceid = H5Screate_simple(var->ndims, count, NULL)) < 0) |
---|
| 1005 | BAIL(NC_EHDFERR); |
---|
| 1006 | #ifdef EXTRA_TESTS |
---|
| 1007 | num_spaces++; |
---|
| 1008 | #endif |
---|
| 1009 | } |
---|
| 1010 | |
---|
| 1011 | /* Fix bug when reading HDF5 files with variable of type |
---|
| 1012 | * fixed-length string. We need to make it look like a |
---|
| 1013 | * variable-length string, because that's all netCDF-4 data |
---|
| 1014 | * model supports, lacking anonymous dimensions. So |
---|
| 1015 | * variable-length strings are in allocated memory that user has |
---|
| 1016 | * to free, which we allocate here. */ |
---|
| 1017 | if(var->type_info->class == H5T_STRING && |
---|
| 1018 | H5Tget_size(var->type_info->hdf_typeid) > 1 && |
---|
| 1019 | !H5Tis_variable_str(var->type_info->hdf_typeid)) { |
---|
| 1020 | hsize_t fstring_len; |
---|
| 1021 | if ((fstring_len = H5Tget_size(var->type_info->hdf_typeid)) < 0) |
---|
| 1022 | BAIL(NC_EHDFERR); |
---|
| 1023 | if (!(*(char **)data = malloc(1 + fstring_len))) |
---|
| 1024 | BAIL(NC_ENOMEM); |
---|
| 1025 | bufr = *(char **)data; |
---|
| 1026 | } |
---|
| 1027 | |
---|
| 1028 | #ifndef HDF5_CONVERT |
---|
| 1029 | /* Are we going to convert any data? (No converting of compound or |
---|
| 1030 | * opaque types.) */ |
---|
| 1031 | if ((mem_nc_type != var->xtype || (var->xtype == NC_INT && is_long)) && |
---|
| 1032 | mem_nc_type != NC_COMPOUND && mem_nc_type != NC_OPAQUE) |
---|
| 1033 | { |
---|
| 1034 | /* We must convert - allocate a buffer. */ |
---|
| 1035 | need_to_convert++; |
---|
| 1036 | if (var->ndims) |
---|
| 1037 | for (d2 = 0; d2 < var->ndims; d2++) |
---|
| 1038 | len *= countp[d2]; |
---|
| 1039 | LOG((4, "converting data for var %s type=%d len=%d", var->name, |
---|
| 1040 | var->xtype, len)); |
---|
| 1041 | |
---|
| 1042 | /* If we're reading, we need bufr to have enough memory to store |
---|
| 1043 | * the data in the file. If we're writing, we need bufr to be |
---|
| 1044 | * big enough to hold all the data in the file's type. */ |
---|
| 1045 | if (!(bufr = malloc(len * file_type_size))) |
---|
| 1046 | BAIL(NC_ENOMEM); |
---|
| 1047 | } |
---|
| 1048 | else |
---|
| 1049 | #endif /* ifndef HDF5_CONVERT */ |
---|
| 1050 | if(!bufr) |
---|
| 1051 | bufr = data; |
---|
| 1052 | |
---|
| 1053 | /* Get the HDF type of the data in memory. */ |
---|
| 1054 | #ifdef HDF5_CONVERT |
---|
| 1055 | if ((retval = nc4_get_hdf_typeid(h5, mem_nc_type, &mem_typeid, |
---|
| 1056 | var->type_info->endianness))) |
---|
| 1057 | BAIL(retval); |
---|
| 1058 | #endif |
---|
| 1059 | |
---|
| 1060 | /* Create the data transfer property list. */ |
---|
| 1061 | if ((xfer_plistid = H5Pcreate(H5P_DATASET_XFER)) < 0) |
---|
| 1062 | BAIL(NC_EHDFERR); |
---|
| 1063 | #ifdef EXTRA_TESTS |
---|
| 1064 | num_plists++; |
---|
| 1065 | #endif |
---|
| 1066 | |
---|
| 1067 | #ifdef HDF5_CONVERT |
---|
| 1068 | /* Apply the callback function which will detect range |
---|
| 1069 | * errors. Which one to call depends on the length of the |
---|
| 1070 | * destination buffer type. */ |
---|
| 1071 | if (H5Pset_type_conv_cb(xfer_plistid, except_func, &range_error) < 0) |
---|
| 1072 | BAIL(NC_EHDFERR); |
---|
| 1073 | #endif |
---|
| 1074 | |
---|
| 1075 | #ifdef USE_PARALLEL |
---|
| 1076 | /* Set up parallel I/O, if needed. */ |
---|
| 1077 | if ((retval = set_par_access(h5, var, xfer_plistid))) |
---|
| 1078 | BAIL(retval); |
---|
| 1079 | #endif |
---|
| 1080 | |
---|
| 1081 | /* Read this hyperslab into memory. */ |
---|
| 1082 | LOG((5, "About to H5Dread some data...")); |
---|
| 1083 | if (H5Dread(var->hdf_datasetid, var->type_info->native_typeid, |
---|
| 1084 | mem_spaceid, file_spaceid, xfer_plistid, bufr) < 0) |
---|
| 1085 | BAIL(NC_EHDFERR); |
---|
| 1086 | |
---|
| 1087 | #ifndef HDF5_CONVERT |
---|
| 1088 | /* Eventually the block below will go away. Right now it's |
---|
| 1089 | needed to support conversions between int/float, and range |
---|
| 1090 | checking converted data in the netcdf way. These features are |
---|
| 1091 | being added to HDF5 at the HDF5 World Hall of Coding right |
---|
| 1092 | now, by a staff of thousands of programming gnomes. */ |
---|
| 1093 | if (need_to_convert) |
---|
| 1094 | { |
---|
| 1095 | if ((retval = nc4_convert_type(bufr, data, var->xtype, mem_nc_type, |
---|
| 1096 | len, &range_error, var->fill_value, |
---|
| 1097 | (h5->cmode & NC_CLASSIC_MODEL), 0, is_long))) |
---|
| 1098 | BAIL(retval); |
---|
| 1099 | |
---|
| 1100 | /* For strict netcdf-3 rules, ignore erange errors between UBYTE |
---|
| 1101 | * and BYTE types. */ |
---|
| 1102 | if ((h5->cmode & NC_CLASSIC_MODEL) && |
---|
| 1103 | (var->xtype == NC_UBYTE || var->xtype == NC_BYTE) && |
---|
| 1104 | (mem_nc_type == NC_UBYTE || mem_nc_type == NC_BYTE) && |
---|
| 1105 | range_error) |
---|
| 1106 | range_error = 0; |
---|
| 1107 | } |
---|
| 1108 | #endif |
---|
| 1109 | |
---|
| 1110 | /* For strict netcdf-3 rules, ignore erange errors between UBYTE |
---|
| 1111 | * and BYTE types. */ |
---|
| 1112 | if ((h5->cmode & NC_CLASSIC_MODEL) && |
---|
| 1113 | (var->xtype == NC_UBYTE || var->xtype == NC_BYTE) && |
---|
| 1114 | (mem_nc_type == NC_UBYTE || mem_nc_type == NC_BYTE) && |
---|
| 1115 | range_error) |
---|
| 1116 | range_error = 0; |
---|
| 1117 | |
---|
| 1118 | } /* endif ! no_read */ |
---|
| 1119 | |
---|
| 1120 | /* Now we need to fake up any further data that was asked for, |
---|
| 1121 | using the fill values instead. First skip past the data we |
---|
| 1122 | just read, if any. */ |
---|
| 1123 | if (!scalar && provide_fill) |
---|
| 1124 | { |
---|
| 1125 | void *filldata; |
---|
| 1126 | size_t real_data_size = 0; |
---|
| 1127 | size_t fill_len; |
---|
| 1128 | |
---|
| 1129 | /* Skip past the real data we've already read. */ |
---|
| 1130 | if (!no_read) |
---|
| 1131 | for (real_data_size = file_type_size, d2 = 0; d2 < var->ndims; d2++) |
---|
| 1132 | real_data_size *= (count[d2] - start[d2]); |
---|
| 1133 | |
---|
| 1134 | /* Get the fill value from the HDF5 variable. Memory will be |
---|
| 1135 | * allocated. */ |
---|
| 1136 | if (get_fill_value(h5, var, &fillvalue) < 0) |
---|
| 1137 | BAIL(NC_EHDFERR); |
---|
| 1138 | |
---|
| 1139 | /* How many fill values do we need? */ |
---|
| 1140 | for (fill_len = 1, d2 = 0; d2 < var->ndims; d2++) |
---|
| 1141 | fill_len *= (fill_value_size[d2] ? fill_value_size[d2] : 1); |
---|
| 1142 | |
---|
| 1143 | /* Copy the fill value into the rest of the data buffer. */ |
---|
| 1144 | filldata = (char *)data + real_data_size; |
---|
| 1145 | for (i = 0; i < fill_len; i++) |
---|
| 1146 | { |
---|
| 1147 | if (var->xtype == NC_STRING) |
---|
| 1148 | { |
---|
| 1149 | if (!(*(char **)filldata = malloc(sizeof(*(char **)fillvalue)))) |
---|
| 1150 | return NC_ENOMEM; |
---|
| 1151 | strcpy(*(char **)filldata, *(char **)fillvalue); |
---|
| 1152 | } |
---|
| 1153 | else |
---|
| 1154 | { |
---|
| 1155 | memcpy(filldata, fillvalue, file_type_size); |
---|
| 1156 | filldata = (char *)filldata + file_type_size; |
---|
| 1157 | } |
---|
| 1158 | } |
---|
| 1159 | } |
---|
| 1160 | |
---|
| 1161 | exit: |
---|
| 1162 | /** if (var->xtype == NC_CHAR && mem_typeid > 0 && H5Tclose(mem_typeid) < 0) |
---|
| 1163 | BAIL2(NC_EHDFERR);*/ |
---|
| 1164 | if (file_spaceid > 0) |
---|
| 1165 | { |
---|
| 1166 | if (H5Sclose(file_spaceid) < 0) |
---|
| 1167 | BAIL2(NC_EHDFERR); |
---|
| 1168 | #ifdef EXTRA_TESTS |
---|
| 1169 | num_spaces--; |
---|
| 1170 | #endif |
---|
| 1171 | } |
---|
| 1172 | if (mem_spaceid > 0) |
---|
| 1173 | { |
---|
| 1174 | if (H5Sclose(mem_spaceid) < 0) |
---|
| 1175 | BAIL2(NC_EHDFERR); |
---|
| 1176 | #ifdef EXTRA_TESTS |
---|
| 1177 | num_spaces--; |
---|
| 1178 | #endif |
---|
| 1179 | } |
---|
| 1180 | if (xfer_plistid > 0) |
---|
| 1181 | { |
---|
| 1182 | if (H5Pclose(xfer_plistid) < 0) |
---|
| 1183 | BAIL2(NC_EHDFERR); |
---|
| 1184 | #ifdef EXTRA_TESTS |
---|
| 1185 | num_plists--; |
---|
| 1186 | #endif |
---|
| 1187 | } |
---|
| 1188 | #ifndef HDF5_CONVERT |
---|
| 1189 | if (need_to_convert) |
---|
| 1190 | free(bufr); |
---|
| 1191 | #endif |
---|
| 1192 | if (xtend_size) |
---|
| 1193 | free(xtend_size); |
---|
| 1194 | if (fillvalue) |
---|
| 1195 | { |
---|
| 1196 | if (var->xtype == NC_STRING) |
---|
| 1197 | { |
---|
| 1198 | if (nc_free_string(1, (char **)fillvalue)) |
---|
| 1199 | return NC_ENOMEM; |
---|
| 1200 | } |
---|
| 1201 | else |
---|
| 1202 | free(fillvalue); |
---|
| 1203 | } |
---|
| 1204 | |
---|
| 1205 | /* If there was an error return it, otherwise return any potential |
---|
| 1206 | range error value. If none, return NC_NOERR as usual.*/ |
---|
| 1207 | if (retval) |
---|
| 1208 | return retval; |
---|
| 1209 | if (range_error) |
---|
| 1210 | return NC_ERANGE; |
---|
| 1211 | return NC_NOERR; |
---|
| 1212 | } |
---|
| 1213 | |
---|
| 1214 | /* This function is a bit of a hack. Turns out that HDF5 dimension |
---|
| 1215 | * scales cannot themselves have scales attached. This leaves |
---|
| 1216 | * multidimensional coordinate variables hosed. So this function |
---|
| 1217 | * writes a special attribute for such a variable, which has the ids |
---|
| 1218 | * of all the dimensions for that coordinate variable. This sucks, |
---|
| 1219 | * really. But that's the way the cookie crumbles. Better luck next |
---|
| 1220 | * time. This function also contains a new way of dealing with HDF5 |
---|
| 1221 | * error handling, abandoning the BAIL macros for a more organic and |
---|
| 1222 | * natural approach, made with whole grains, and locally-grown |
---|
| 1223 | * vegetables. */ |
---|
| 1224 | static int |
---|
| 1225 | write_coord_dimids(NC_VAR_INFO_T *var) |
---|
| 1226 | { |
---|
| 1227 | hsize_t coords_len[1]; |
---|
| 1228 | hid_t c_spaceid = -1, c_attid = -1; |
---|
| 1229 | int ret = 0; |
---|
| 1230 | |
---|
| 1231 | /* Write our attribute. */ |
---|
| 1232 | coords_len[0] = var->ndims; |
---|
| 1233 | if ((c_spaceid = H5Screate_simple(1, coords_len, coords_len)) < 0) ret++; |
---|
| 1234 | #ifdef EXTRA_TESTS |
---|
| 1235 | num_spaces++; |
---|
| 1236 | #endif |
---|
| 1237 | if (!ret && (c_attid = H5Acreate(var->hdf_datasetid, COORDINATES, H5T_NATIVE_INT, |
---|
| 1238 | c_spaceid, H5P_DEFAULT)) < 0) ret++; |
---|
| 1239 | if (!ret && H5Awrite(c_attid, H5T_NATIVE_INT, var->dimids) < 0) ret++; |
---|
| 1240 | |
---|
| 1241 | /* Close up shop. */ |
---|
| 1242 | if (c_spaceid > 0 && H5Sclose(c_spaceid) < 0) ret++; |
---|
| 1243 | #ifdef EXTRA_TESTS |
---|
| 1244 | num_spaces--; |
---|
| 1245 | #endif |
---|
| 1246 | if (c_attid > 0 && H5Aclose(c_attid) < 0) ret++; |
---|
| 1247 | return ret ? NC_EHDFERR : 0; |
---|
| 1248 | } |
---|
| 1249 | |
---|
| 1250 | /* Write a special attribute for the netCDF-4 dimension ID. */ |
---|
| 1251 | static int |
---|
| 1252 | write_netcdf4_dimid(hid_t datasetid, int dimid) |
---|
| 1253 | { |
---|
| 1254 | hid_t dimid_spaceid, dimid_attid; |
---|
| 1255 | |
---|
| 1256 | /* Create the space. */ |
---|
| 1257 | if ((dimid_spaceid = H5Screate(H5S_SCALAR)) < 0) |
---|
| 1258 | return NC_EHDFERR; |
---|
| 1259 | #ifdef EXTRA_TESTS |
---|
| 1260 | num_spaces++; |
---|
| 1261 | #endif |
---|
| 1262 | |
---|
| 1263 | /* Does the attribute already exist? If so, don't try to create it. */ |
---|
| 1264 | H5E_BEGIN_TRY { |
---|
| 1265 | dimid_attid = H5Aopen_by_name(datasetid, ".", NC_DIMID_ATT_NAME, |
---|
| 1266 | H5P_DEFAULT, H5P_DEFAULT); |
---|
| 1267 | } H5E_END_TRY; |
---|
| 1268 | |
---|
| 1269 | /* Create the attribute if needed. */ |
---|
| 1270 | if (dimid_attid < 0) |
---|
| 1271 | if ((dimid_attid = H5Acreate(datasetid, NC_DIMID_ATT_NAME, |
---|
| 1272 | H5T_NATIVE_INT, dimid_spaceid, H5P_DEFAULT)) < 0) |
---|
| 1273 | return NC_EHDFERR; |
---|
| 1274 | |
---|
| 1275 | /* Write it. */ |
---|
| 1276 | LOG((4, "write_netcdf4_dimid: writting secret dimid %d", dimid)); |
---|
| 1277 | if (H5Awrite(dimid_attid, H5T_NATIVE_INT, &dimid) < 0) |
---|
| 1278 | return NC_EHDFERR; |
---|
| 1279 | |
---|
| 1280 | /* Close stuff*/ |
---|
| 1281 | if (H5Sclose(dimid_spaceid) < 0) |
---|
| 1282 | return NC_EHDFERR; |
---|
| 1283 | #ifdef EXTRA_TESTS |
---|
| 1284 | num_spaces--; |
---|
| 1285 | #endif |
---|
| 1286 | if (H5Aclose(dimid_attid) < 0) |
---|
| 1287 | return NC_EHDFERR; |
---|
| 1288 | |
---|
| 1289 | return NC_NOERR; |
---|
| 1290 | } |
---|
| 1291 | |
---|
| 1292 | /* This function creates the HDF5 dataset for a variabale. */ |
---|
| 1293 | static int |
---|
| 1294 | var_create_dataset(NC_GRP_INFO_T *grp, NC_VAR_INFO_T *var, int write_dimid) |
---|
| 1295 | { |
---|
| 1296 | NC_GRP_INFO_T *g; |
---|
| 1297 | hid_t plistid = 0, access_plistid = 0, typeid = 0, spaceid = 0; |
---|
| 1298 | hsize_t *chunksize = NULL, *dimsize = NULL, *maxdimsize = NULL; |
---|
| 1299 | int d; |
---|
| 1300 | NC_DIM_INFO_T *dim = NULL; |
---|
| 1301 | void *fillp = NULL; |
---|
| 1302 | int dims_found = 0; |
---|
| 1303 | int set_chunksizes = 0; |
---|
| 1304 | char *name_to_use; |
---|
| 1305 | int retval = NC_NOERR; |
---|
| 1306 | |
---|
| 1307 | LOG((3, "var_create_dataset: name %s", var->name)); |
---|
| 1308 | |
---|
| 1309 | /* Scalar or not, we need a creation property list. */ |
---|
| 1310 | if ((plistid = H5Pcreate(H5P_DATASET_CREATE)) < 0) |
---|
| 1311 | BAIL(NC_EHDFERR); |
---|
| 1312 | #ifdef EXTRA_TESTS |
---|
| 1313 | num_plists++; |
---|
| 1314 | #endif |
---|
| 1315 | if ((access_plistid = H5Pcreate(H5P_DATASET_ACCESS)) < 0) |
---|
| 1316 | BAIL(NC_EHDFERR); |
---|
| 1317 | #ifdef EXTRA_TESTS |
---|
| 1318 | num_plists++; |
---|
| 1319 | #endif |
---|
| 1320 | |
---|
| 1321 | /* Find the HDF5 type of the dataset. */ |
---|
| 1322 | if ((retval = nc4_get_hdf_typeid(grp->file->nc4_info, var->xtype, &typeid, |
---|
| 1323 | var->type_info->endianness))) |
---|
| 1324 | BAIL(retval); |
---|
| 1325 | |
---|
| 1326 | /* Figure out what fill value to set, if any. */ |
---|
| 1327 | if (!var->no_fill) |
---|
| 1328 | { |
---|
| 1329 | if ((retval = get_fill_value(grp->file->nc4_info, var, &fillp))) |
---|
| 1330 | BAIL(retval); |
---|
| 1331 | |
---|
| 1332 | /* If there is a fill value, set it. */ |
---|
| 1333 | if (fillp) |
---|
| 1334 | { |
---|
| 1335 | if (var->xtype == NC_STRING) |
---|
| 1336 | { |
---|
| 1337 | if (H5Pset_fill_value(plistid, typeid, &fillp) < 0) |
---|
| 1338 | BAIL(NC_EHDFERR); |
---|
| 1339 | free((char *)fillp); |
---|
| 1340 | } |
---|
| 1341 | else |
---|
| 1342 | { |
---|
| 1343 | /* The fill value set in HDF5 must always be presented as |
---|
| 1344 | * a native type, even if the endianness for this dataset |
---|
| 1345 | * is non-native. HDF5 will translate the fill value to |
---|
| 1346 | * the target endiannesss. */ |
---|
| 1347 | hid_t fill_typeid; |
---|
| 1348 | if ((retval = nc4_get_hdf_typeid(grp->file->nc4_info, var->xtype, &fill_typeid, |
---|
| 1349 | NC_ENDIAN_NATIVE))) |
---|
| 1350 | BAIL(retval); |
---|
| 1351 | if (H5Pset_fill_value(plistid, fill_typeid, fillp) < 0) |
---|
| 1352 | BAIL(NC_EHDFERR); |
---|
| 1353 | if (var->type_info->class == NC_VLEN) |
---|
| 1354 | nc_free_vlen((nc_vlen_t *)fillp); |
---|
| 1355 | else |
---|
| 1356 | free(fillp); |
---|
| 1357 | if (var->type_info->nc_typeid == NC_STRING || var->type_info->nc_typeid == NC_CHAR) |
---|
| 1358 | if (H5Tclose(fill_typeid) < 0) |
---|
| 1359 | BAIL(NC_EHDFERR); |
---|
| 1360 | } |
---|
| 1361 | } |
---|
| 1362 | } else { |
---|
| 1363 | /* Required to truly turn HDF5 fill values off */ |
---|
| 1364 | if(H5Pset_fill_time(plistid,H5D_FILL_TIME_NEVER) < 0) |
---|
| 1365 | BAIL(NC_EHDFERR); |
---|
| 1366 | } |
---|
| 1367 | |
---|
| 1368 | /* If the user wants to shuffle the data, set that up now. */ |
---|
| 1369 | if (var->shuffle) |
---|
| 1370 | if (H5Pset_shuffle(plistid) < 0) |
---|
| 1371 | BAIL(NC_EHDFERR); |
---|
| 1372 | |
---|
| 1373 | /* If the user wants to deflate the data, set that up now. */ |
---|
| 1374 | if (var->deflate) |
---|
| 1375 | if (H5Pset_deflate(plistid, var->deflate_level) < 0) |
---|
| 1376 | BAIL(NC_EHDFERR); |
---|
| 1377 | |
---|
| 1378 | /* Szip? NO! We don't want anyone to produce szipped netCDF files! */ |
---|
| 1379 | /* #ifdef USE_SZIP */ |
---|
| 1380 | /* if (var->options_mask) */ |
---|
| 1381 | /* if (H5Pset_szip(plistid, var->options_mask, var->bits_per_pixel) < 0) */ |
---|
| 1382 | /* BAIL(NC_EHDFERR); */ |
---|
| 1383 | /* #endif */ |
---|
| 1384 | |
---|
| 1385 | /* If the user wants to fletcher error correcton, set that up now. */ |
---|
| 1386 | if (var->fletcher32) |
---|
| 1387 | if (H5Pset_fletcher32(plistid) < 0) |
---|
| 1388 | BAIL(NC_EHDFERR); |
---|
| 1389 | |
---|
| 1390 | /* If ndims non-zero, get info for all dimensions. We look up the |
---|
| 1391 | dimids and get the len of each dimension. We need this to create |
---|
| 1392 | the space for the dataset. In netCDF a dimension length of zero |
---|
| 1393 | means an unlimited dimension. */ |
---|
| 1394 | if (var->ndims) |
---|
| 1395 | { |
---|
| 1396 | int unlimdim = 0; |
---|
| 1397 | |
---|
| 1398 | /* Check to see if any unlimited dimensions are used in this var. */ |
---|
| 1399 | for (d = 0; d < var->ndims; d++) |
---|
| 1400 | if (var->dim[d]->unlimited) |
---|
| 1401 | unlimdim++; |
---|
| 1402 | |
---|
| 1403 | /* If there are no unlimited dims, and no filters, and the user |
---|
| 1404 | * has not specified chunksizes, use contiguous variable for |
---|
| 1405 | * better performance. */ |
---|
| 1406 | if (!unlimdim && !var->shuffle && !var->deflate && !var->options_mask && |
---|
| 1407 | !var->fletcher32 && !var->chunksizes[0]) |
---|
| 1408 | var->contiguous = 1; |
---|
| 1409 | |
---|
| 1410 | if (!(dimsize = malloc(var->ndims * sizeof(hsize_t)))) |
---|
| 1411 | BAIL(NC_ENOMEM); |
---|
| 1412 | if (!(maxdimsize = malloc(var->ndims * sizeof(hsize_t)))) |
---|
| 1413 | BAIL(NC_ENOMEM); |
---|
| 1414 | if (!(chunksize = malloc(var->ndims * sizeof(hsize_t)))) |
---|
| 1415 | BAIL(NC_ENOMEM); |
---|
| 1416 | /* for (d = 0; d < var->ndims; d++) |
---|
| 1417 | dimsize[d] = var->dim[d]->unlimited ? NC_HDF5_UNLIMITED_DIMSIZE : var->dim[d]->len; |
---|
| 1418 | maxdimsize[d] = var->dim[d]->unlimited ? H5S_UNLIMITED : (hsize_t)var->dim[d]->len; |
---|
| 1419 | chunksize[d] = var->chunksizes[d];*/ |
---|
| 1420 | |
---|
| 1421 | for (d = 0; d < var->ndims; d++) |
---|
| 1422 | for (g = grp; g && (dims_found < var->ndims); g = g->parent) |
---|
| 1423 | for (dim = g->dim; dim; dim = dim->next) |
---|
| 1424 | if (dim->dimid == var->dimids[d]) |
---|
| 1425 | { |
---|
| 1426 | dimsize[d] = dim->unlimited ? NC_HDF5_UNLIMITED_DIMSIZE : dim->len; |
---|
| 1427 | maxdimsize[d] = dim->unlimited ? H5S_UNLIMITED : (hsize_t)dim->len; |
---|
| 1428 | if (var->chunksizes[d]) |
---|
| 1429 | chunksize[d] = var->chunksizes[d]; |
---|
| 1430 | else |
---|
| 1431 | { |
---|
| 1432 | size_t type_size; |
---|
| 1433 | if (var->type_info->nc_typeid == NC_STRING) |
---|
| 1434 | type_size = sizeof(char *); |
---|
| 1435 | else |
---|
| 1436 | type_size = var->type_info->size; |
---|
| 1437 | |
---|
| 1438 | /* Unlimited dim always gets chunksize of 1. */ |
---|
| 1439 | if (dim->unlimited) |
---|
| 1440 | chunksize[d] = 1; |
---|
| 1441 | else |
---|
| 1442 | chunksize[d] = pow((double)DEFAULT_CHUNK_SIZE/type_size, |
---|
| 1443 | 1/(double)(var->ndims - unlimdim)); |
---|
| 1444 | |
---|
| 1445 | /* If the chunksize is greater than the dim |
---|
| 1446 | * length, make it the dim length. */ |
---|
| 1447 | if (!dim->unlimited && chunksize[d] > dim->len) |
---|
| 1448 | chunksize[d] = dim->len; |
---|
| 1449 | set_chunksizes++; |
---|
| 1450 | } |
---|
| 1451 | |
---|
| 1452 | if (!var->contiguous && !var->chunksizes[d]) |
---|
| 1453 | var->chunksizes[d] = chunksize[d]; |
---|
| 1454 | dims_found++; |
---|
| 1455 | break; |
---|
| 1456 | } |
---|
| 1457 | |
---|
| 1458 | if (var->contiguous) |
---|
| 1459 | { |
---|
| 1460 | if (H5Pset_layout(plistid, H5D_CONTIGUOUS) < 0) |
---|
| 1461 | BAIL(NC_EHDFERR); |
---|
| 1462 | } |
---|
| 1463 | else |
---|
| 1464 | { |
---|
| 1465 | if (H5Pset_chunk(plistid, var->ndims, chunksize) < 0) |
---|
| 1466 | BAIL(NC_EHDFERR); |
---|
| 1467 | } |
---|
| 1468 | |
---|
| 1469 | /* Create the dataspace. */ |
---|
| 1470 | if ((spaceid = H5Screate_simple(var->ndims, dimsize, maxdimsize)) < 0) |
---|
| 1471 | BAIL(NC_EHDFERR); |
---|
| 1472 | #ifdef EXTRA_TESTS |
---|
| 1473 | num_spaces++; |
---|
| 1474 | #endif |
---|
| 1475 | } |
---|
| 1476 | else |
---|
| 1477 | { |
---|
| 1478 | if ((spaceid = H5Screate(H5S_SCALAR)) < 0) |
---|
| 1479 | BAIL(NC_EHDFERR); |
---|
| 1480 | #ifdef EXTRA_TESTS |
---|
| 1481 | num_spaces++; |
---|
| 1482 | #endif |
---|
| 1483 | } |
---|
| 1484 | |
---|
| 1485 | /* Turn on creation order tracking. */ |
---|
| 1486 | if (H5Pset_attr_creation_order(plistid, H5P_CRT_ORDER_TRACKED| |
---|
| 1487 | H5P_CRT_ORDER_INDEXED) < 0) |
---|
| 1488 | BAIL(NC_EHDFERR); |
---|
| 1489 | |
---|
| 1490 | /* Set per-var chunk cache. */ |
---|
| 1491 | if (var->chunk_cache_size) |
---|
| 1492 | if (H5Pset_chunk_cache(access_plistid, var->chunk_cache_nelems, |
---|
| 1493 | var->chunk_cache_size, var->chunk_cache_preemption) < 0) |
---|
| 1494 | BAIL(NC_EHDFERR); |
---|
| 1495 | |
---|
| 1496 | /* At long last, create the dataset. */ |
---|
| 1497 | name_to_use = var->hdf5_name ? var->hdf5_name : var->name; |
---|
| 1498 | LOG((4, "var_create_dataset: about to H5Dcreate dataset %s of type 0x%x", |
---|
| 1499 | name_to_use, typeid)); |
---|
| 1500 | if ((var->hdf_datasetid = H5Dcreate2(grp->hdf_grpid, name_to_use, typeid, |
---|
| 1501 | spaceid, H5P_DEFAULT, plistid, access_plistid)) < 0) |
---|
| 1502 | BAIL(NC_EHDFERR); |
---|
| 1503 | var->created++; |
---|
| 1504 | var->dirty = 0; |
---|
| 1505 | |
---|
| 1506 | /* If this is a dimscale, mark it as such in the HDF5 file. Also |
---|
| 1507 | * find the dimension info and store the dataset id of the dimscale |
---|
| 1508 | * dataset. */ |
---|
| 1509 | if (var->dimscale) |
---|
| 1510 | { |
---|
| 1511 | if (H5DSset_scale(var->hdf_datasetid, var->name) < 0) |
---|
| 1512 | BAIL(NC_EHDFERR); |
---|
| 1513 | for (dim = grp->dim; dim; dim = dim->next) |
---|
| 1514 | if (strcmp(dim->name, var->name) == 0) |
---|
| 1515 | { |
---|
| 1516 | dim->hdf_dimscaleid = var->hdf_datasetid; |
---|
| 1517 | break; |
---|
| 1518 | } |
---|
| 1519 | |
---|
| 1520 | /* Make sure we found a dimension, and gave it a dimscale id. */ |
---|
| 1521 | if (!dim || !dim->hdf_dimscaleid) |
---|
| 1522 | BAIL(NC_EDIMMETA); |
---|
| 1523 | |
---|
| 1524 | /* If this is a multidimensional coordinate variable, write a |
---|
| 1525 | * coordinates attribute. */ |
---|
| 1526 | if (var->ndims > 1) |
---|
| 1527 | if ((retval = write_coord_dimids(var))) |
---|
| 1528 | BAIL(retval); |
---|
| 1529 | |
---|
| 1530 | /* If desired, write the netCDF dimid. */ |
---|
| 1531 | if (write_dimid) |
---|
| 1532 | if ((retval = write_netcdf4_dimid(var->hdf_datasetid, |
---|
| 1533 | var->dimids[0]))) |
---|
| 1534 | BAIL(retval); |
---|
| 1535 | |
---|
| 1536 | } |
---|
| 1537 | |
---|
| 1538 | exit: |
---|
| 1539 | if (var->type_info->nc_typeid == NC_STRING || var->type_info->nc_typeid == NC_CHAR) |
---|
| 1540 | if (typeid > 0 && H5Tclose(typeid) < 0) |
---|
| 1541 | BAIL2(NC_EHDFERR); |
---|
| 1542 | if (plistid > 0 && H5Pclose(plistid) < 0) |
---|
| 1543 | BAIL2(NC_EHDFERR); |
---|
| 1544 | #ifdef EXTRA_TESTS |
---|
| 1545 | num_plists--; |
---|
| 1546 | #endif |
---|
| 1547 | if (access_plistid > 0 && H5Pclose(access_plistid) < 0) |
---|
| 1548 | BAIL2(NC_EHDFERR); |
---|
| 1549 | #ifdef EXTRA_TESTS |
---|
| 1550 | num_plists--; |
---|
| 1551 | #endif |
---|
| 1552 | if (spaceid > 0 && H5Sclose(spaceid) < 0) |
---|
| 1553 | BAIL2(NC_EHDFERR); |
---|
| 1554 | #ifdef EXTRA_TESTS |
---|
| 1555 | num_spaces--; |
---|
| 1556 | #endif |
---|
| 1557 | if (maxdimsize) free(maxdimsize); |
---|
| 1558 | if (dimsize) free(dimsize); |
---|
| 1559 | if (chunksize) free(chunksize); |
---|
| 1560 | return retval; |
---|
| 1561 | } |
---|
| 1562 | |
---|
| 1563 | /* Adjust the chunk cache of a var for better performance. */ |
---|
| 1564 | int |
---|
| 1565 | nc4_adjust_var_cache(NC_GRP_INFO_T *grp, NC_VAR_INFO_T * var) |
---|
| 1566 | { |
---|
| 1567 | size_t chunk_size_bytes = 1; |
---|
| 1568 | int d; |
---|
| 1569 | int retval; |
---|
| 1570 | |
---|
| 1571 | /* Nothing to be done. */ |
---|
| 1572 | if (var->contiguous) |
---|
| 1573 | return NC_NOERR; |
---|
| 1574 | #ifdef USE_PARALLEL |
---|
| 1575 | return NC_NOERR; |
---|
| 1576 | #endif |
---|
| 1577 | |
---|
| 1578 | /* How many bytes in the chunk? */ |
---|
| 1579 | for (d = 0; d < var->ndims; d++) |
---|
| 1580 | chunk_size_bytes *= var->chunksizes[d]; |
---|
| 1581 | if (var->type_info->size) |
---|
| 1582 | chunk_size_bytes *= var->type_info->size; |
---|
| 1583 | else |
---|
| 1584 | chunk_size_bytes *= sizeof(char *); |
---|
| 1585 | |
---|
| 1586 | /* If the chunk cache is too small, and the user has not changed |
---|
| 1587 | * the default value of the chunk cache size, then increase the |
---|
| 1588 | * size of the cache. */ |
---|
| 1589 | if (var->chunk_cache_size == CHUNK_CACHE_SIZE) |
---|
| 1590 | if (chunk_size_bytes > var->chunk_cache_size) |
---|
| 1591 | { |
---|
| 1592 | var->chunk_cache_size = chunk_size_bytes * DEFAULT_CHUNKS_IN_CACHE; |
---|
| 1593 | if (var->chunk_cache_size > MAX_DEFAULT_CACHE_SIZE) |
---|
| 1594 | var->chunk_cache_size = MAX_DEFAULT_CACHE_SIZE; |
---|
| 1595 | if ((retval = nc4_reopen_dataset(grp, var))) |
---|
| 1596 | return retval; |
---|
| 1597 | } |
---|
| 1598 | |
---|
| 1599 | return NC_NOERR; |
---|
| 1600 | } |
---|
| 1601 | |
---|
| 1602 | /* Read or write an attribute. */ |
---|
| 1603 | static int |
---|
| 1604 | put_att_grpa(NC_GRP_INFO_T *grp, int varid, NC_ATT_INFO_T *att) |
---|
| 1605 | { |
---|
| 1606 | hid_t datasetid = 0, locid; |
---|
| 1607 | hid_t attid = 0, spaceid = 0, file_typeid = 0; |
---|
| 1608 | hsize_t dims[1]; /* netcdf attributes always 1-D. */ |
---|
| 1609 | int retval = NC_NOERR; |
---|
| 1610 | void *data; |
---|
| 1611 | int phoney_data = 99; |
---|
| 1612 | |
---|
| 1613 | assert(att->name); |
---|
| 1614 | LOG((3, "put_att_grpa: varid %d att->attnum %d att->name %s " |
---|
| 1615 | "att->xtype %d att->len %d", varid, att->attnum, att->name, |
---|
| 1616 | att->xtype, att->len)); |
---|
| 1617 | |
---|
| 1618 | /* If the file is read-only, return an error. */ |
---|
| 1619 | if (grp->file->nc4_info->no_write) |
---|
| 1620 | return NC_EPERM; |
---|
| 1621 | |
---|
| 1622 | /* Get the hid to attach the attribute to, or read it from. */ |
---|
| 1623 | if (varid == NC_GLOBAL) |
---|
| 1624 | locid = grp->hdf_grpid; |
---|
| 1625 | else |
---|
| 1626 | { |
---|
| 1627 | if ((retval = nc4_open_var_grp2(grp, varid, &datasetid))) |
---|
| 1628 | BAIL(retval); |
---|
| 1629 | locid = datasetid; |
---|
| 1630 | } |
---|
| 1631 | |
---|
| 1632 | /* Delete the att if it exists already. */ |
---|
| 1633 | H5E_BEGIN_TRY { |
---|
| 1634 | H5Adelete(locid, att->name); |
---|
| 1635 | } H5E_END_TRY; |
---|
| 1636 | |
---|
| 1637 | /* Get the length ready, and find the HDF type we'll be |
---|
| 1638 | * writing. */ |
---|
| 1639 | dims[0] = att->len; |
---|
| 1640 | if ((retval = nc4_get_hdf_typeid(grp->file->nc4_info, att->xtype, |
---|
| 1641 | &file_typeid, 0))) |
---|
| 1642 | BAIL(retval); |
---|
| 1643 | |
---|
| 1644 | /* Even if the length is zero, HDF5 won't let me write with a |
---|
| 1645 | * NULL pointer. So if the length of the att is zero, point to |
---|
| 1646 | * some phoney data (which won't be written anyway.)*/ |
---|
| 1647 | if (!dims[0]) |
---|
| 1648 | data = &phoney_data; |
---|
| 1649 | else if (att->data) |
---|
| 1650 | data = att->data; |
---|
| 1651 | else if (att->stdata) |
---|
| 1652 | data = att->stdata; |
---|
| 1653 | else |
---|
| 1654 | data = att->vldata; |
---|
| 1655 | |
---|
| 1656 | /* NC_CHAR types require some extra work. The space ID is set to |
---|
| 1657 | * scalar, and the type is told how long the string is. If it's |
---|
| 1658 | * really zero length, set the size to 1. (The fact that it's |
---|
| 1659 | * really zero will be marked by the NULL dataspace, but HDF5 |
---|
| 1660 | * doesn't allow me to set the size of the type to zero.)*/ |
---|
| 1661 | if (att->xtype == NC_CHAR) |
---|
| 1662 | { |
---|
| 1663 | size_t string_size = dims[0]; |
---|
| 1664 | if (!string_size) |
---|
| 1665 | { |
---|
| 1666 | string_size = 1; |
---|
| 1667 | if ((spaceid = H5Screate(H5S_NULL)) < 0) |
---|
| 1668 | BAIL(NC_EATTMETA); |
---|
| 1669 | #ifdef EXTRA_TESTS |
---|
| 1670 | num_spaces++; |
---|
| 1671 | #endif |
---|
| 1672 | } |
---|
| 1673 | else |
---|
| 1674 | { |
---|
| 1675 | if ((spaceid = H5Screate(H5S_SCALAR)) < 0) |
---|
| 1676 | BAIL(NC_EATTMETA); |
---|
| 1677 | #ifdef EXTRA_TESTS |
---|
| 1678 | num_spaces++; |
---|
| 1679 | #endif |
---|
| 1680 | } |
---|
| 1681 | if (H5Tset_size(file_typeid, string_size) < 0) |
---|
| 1682 | BAIL(NC_EATTMETA); |
---|
| 1683 | if (H5Tset_strpad(file_typeid, H5T_STR_NULLTERM) < 0) |
---|
| 1684 | BAIL(NC_EATTMETA); |
---|
| 1685 | } |
---|
| 1686 | else |
---|
| 1687 | { |
---|
| 1688 | if (!att->len) |
---|
| 1689 | { |
---|
| 1690 | if ((spaceid = H5Screate(H5S_NULL)) < 0) |
---|
| 1691 | BAIL(NC_EATTMETA); |
---|
| 1692 | #ifdef EXTRA_TESTS |
---|
| 1693 | num_spaces++; |
---|
| 1694 | #endif |
---|
| 1695 | } |
---|
| 1696 | else |
---|
| 1697 | { |
---|
| 1698 | if ((spaceid = H5Screate_simple(1, dims, NULL)) < 0) |
---|
| 1699 | BAIL(NC_EATTMETA); |
---|
| 1700 | #ifdef EXTRA_TESTS |
---|
| 1701 | num_spaces++; |
---|
| 1702 | #endif |
---|
| 1703 | } |
---|
| 1704 | } |
---|
| 1705 | if ((attid = H5Acreate(locid, att->name, file_typeid, spaceid, |
---|
| 1706 | H5P_DEFAULT)) < 0) |
---|
| 1707 | BAIL(NC_EATTMETA); |
---|
| 1708 | |
---|
| 1709 | /* Write the values, (even if length is zero). */ |
---|
| 1710 | if (H5Awrite(attid, file_typeid, data) < 0) |
---|
| 1711 | BAIL(NC_EATTMETA); |
---|
| 1712 | |
---|
| 1713 | exit: |
---|
| 1714 | if (att->xtype == NC_CHAR || att->xtype == NC_STRING) |
---|
| 1715 | if (file_typeid && H5Tclose(file_typeid)) |
---|
| 1716 | BAIL2(NC_EHDFERR); |
---|
| 1717 | if (attid > 0 && H5Aclose(attid) < 0) |
---|
| 1718 | BAIL2(NC_EHDFERR); |
---|
| 1719 | if (spaceid > 0 && H5Sclose(spaceid) < 0) |
---|
| 1720 | BAIL2(NC_EHDFERR); |
---|
| 1721 | #ifdef EXTRA_TESTS |
---|
| 1722 | num_spaces--; |
---|
| 1723 | #endif |
---|
| 1724 | return retval; |
---|
| 1725 | } |
---|
| 1726 | |
---|
| 1727 | /* Create a HDF5 defined type from a NC_TYPE_INFO_T struct, and commit |
---|
| 1728 | * it to the file. */ |
---|
| 1729 | static int |
---|
| 1730 | commit_type(NC_GRP_INFO_T *grp, NC_TYPE_INFO_T *type) |
---|
| 1731 | { |
---|
| 1732 | NC_FIELD_INFO_T *field; |
---|
| 1733 | NC_ENUM_MEMBER_INFO_T *enum_m; |
---|
| 1734 | hid_t hdf_base_typeid, hdf_typeid; |
---|
| 1735 | int retval; |
---|
| 1736 | |
---|
| 1737 | assert(grp && type); |
---|
| 1738 | |
---|
| 1739 | /* Did we already record this type? */ |
---|
| 1740 | if (type->committed) |
---|
| 1741 | return NC_NOERR; |
---|
| 1742 | |
---|
| 1743 | /* Is this a compound type? */ |
---|
| 1744 | if (type->class == NC_COMPOUND) |
---|
| 1745 | { |
---|
| 1746 | if ((type->hdf_typeid = H5Tcreate(H5T_COMPOUND, type->size)) < 0) |
---|
| 1747 | return NC_EHDFERR; |
---|
| 1748 | LOG((4, "creating compound type %s hdf_typeid 0x%x", type->name, |
---|
| 1749 | type->hdf_typeid)); |
---|
| 1750 | for (field = type->field; field; field = field->next) |
---|
| 1751 | { |
---|
| 1752 | if ((retval = nc4_get_hdf_typeid(grp->file->nc4_info, field->nctype, |
---|
| 1753 | &hdf_base_typeid, type->endianness))) |
---|
| 1754 | return retval; |
---|
| 1755 | /* If this is an array, create a special array type. */ |
---|
| 1756 | if (field->ndims) |
---|
| 1757 | { |
---|
| 1758 | int d; |
---|
| 1759 | hsize_t dims[NC_MAX_DIMS]; |
---|
| 1760 | for (d = 0; d < field->ndims; d++) |
---|
| 1761 | dims[d] = field->dim_size[d]; |
---|
| 1762 | if ((hdf_typeid = H5Tarray_create(hdf_base_typeid, field->ndims, |
---|
| 1763 | dims, NULL)) < 0) |
---|
| 1764 | return NC_EHDFERR; |
---|
| 1765 | } |
---|
| 1766 | else |
---|
| 1767 | hdf_typeid = hdf_base_typeid; |
---|
| 1768 | LOG((4, "inserting field %s offset %d hdf_typeid 0x%x", field->name, |
---|
| 1769 | field->offset, hdf_typeid)); |
---|
| 1770 | if (H5Tinsert(type->hdf_typeid, field->name, field->offset, |
---|
| 1771 | hdf_typeid) < 0) |
---|
| 1772 | return NC_EHDFERR; |
---|
| 1773 | if (field->ndims && H5Tclose(hdf_typeid) < 0) |
---|
| 1774 | return NC_EHDFERR; |
---|
| 1775 | } |
---|
| 1776 | } |
---|
| 1777 | else if (type->class == NC_VLEN) |
---|
| 1778 | { |
---|
| 1779 | /* Find the HDF typeid of the base type of this vlen. */ |
---|
| 1780 | if ((retval = nc4_get_hdf_typeid(grp->file->nc4_info, type->base_nc_type, |
---|
| 1781 | &type->base_hdf_typeid, type->endianness))) |
---|
| 1782 | return retval; |
---|
| 1783 | |
---|
| 1784 | /* Create a vlen type. */ |
---|
| 1785 | if ((type->hdf_typeid = H5Tvlen_create(type->base_hdf_typeid)) < 0) |
---|
| 1786 | return NC_EHDFERR; |
---|
| 1787 | } |
---|
| 1788 | else if (type->class == NC_OPAQUE) |
---|
| 1789 | { |
---|
| 1790 | /* Create the opaque type. */ |
---|
| 1791 | if ((type->hdf_typeid = H5Tcreate(H5T_OPAQUE, type->size)) < 0) |
---|
| 1792 | return NC_EHDFERR; |
---|
| 1793 | } |
---|
| 1794 | else if (type->class == NC_ENUM) |
---|
| 1795 | { |
---|
| 1796 | if (!type->enum_member) |
---|
| 1797 | return NC_EINVAL; |
---|
| 1798 | |
---|
| 1799 | /* Find the HDF typeid of the base type of this enum. */ |
---|
| 1800 | if ((retval = nc4_get_hdf_typeid(grp->file->nc4_info, type->base_nc_type, |
---|
| 1801 | &type->base_hdf_typeid, type->endianness))) |
---|
| 1802 | return retval; |
---|
| 1803 | |
---|
| 1804 | /* Create an enum type. */ |
---|
| 1805 | if ((type->hdf_typeid = H5Tenum_create(type->base_hdf_typeid)) < 0) |
---|
| 1806 | return NC_EHDFERR; |
---|
| 1807 | |
---|
| 1808 | /* Add all the members to the HDF5 type. */ |
---|
| 1809 | for (enum_m = type->enum_member; enum_m; enum_m = enum_m->next) |
---|
| 1810 | if (H5Tenum_insert(type->hdf_typeid, enum_m->name, |
---|
| 1811 | enum_m->value) < 0) |
---|
| 1812 | return NC_EHDFERR; |
---|
| 1813 | } |
---|
| 1814 | else |
---|
| 1815 | { |
---|
| 1816 | LOG((0, "Unknown class: %d", type->class)); |
---|
| 1817 | return NC_EBADTYPE; |
---|
| 1818 | } |
---|
| 1819 | |
---|
| 1820 | /* Commit the type. */ |
---|
| 1821 | if (H5Tcommit(grp->hdf_grpid, type->name, type->hdf_typeid) < 0) |
---|
| 1822 | return NC_EHDFERR; |
---|
| 1823 | type->committed++; |
---|
| 1824 | LOG((4, "just committed type %s, HDF typeid: 0x%x", type->name, |
---|
| 1825 | type->hdf_typeid)); |
---|
| 1826 | |
---|
| 1827 | /* Later we will always use the native typeid. In this case, it is |
---|
| 1828 | * a copy of the same type pointed to by hdf_typeid, but it's |
---|
| 1829 | * easier to maintain a copy. */ |
---|
| 1830 | if ((type->native_typeid = H5Tget_native_type(type->hdf_typeid, |
---|
| 1831 | H5T_DIR_DEFAULT)) < 0) |
---|
| 1832 | return NC_EHDFERR; |
---|
| 1833 | |
---|
| 1834 | return NC_NOERR; |
---|
| 1835 | } |
---|
| 1836 | |
---|
| 1837 | /* Write an attribute, with value 1, to indicate that strict NC3 rules |
---|
| 1838 | * apply to this file. */ |
---|
| 1839 | static int |
---|
| 1840 | write_nc3_strict_att(hid_t hdf_grpid) |
---|
| 1841 | { |
---|
| 1842 | hid_t attid = 0, spaceid = 0; |
---|
| 1843 | int one = 1, num, a; |
---|
| 1844 | char att_name[NC_MAX_NAME + 1]; |
---|
| 1845 | int retval = NC_NOERR; |
---|
| 1846 | |
---|
| 1847 | /* If the attribute already exists, call that a success and return |
---|
| 1848 | * NC_NOERR. */ |
---|
| 1849 | if ((num = H5Aget_num_attrs(hdf_grpid)) < 0) |
---|
| 1850 | return NC_EHDFERR; |
---|
| 1851 | for (a = 0; a < num; a++) |
---|
| 1852 | { |
---|
| 1853 | if ((attid = H5Aopen_idx(hdf_grpid, (unsigned int)a)) < 0) |
---|
| 1854 | BAIL(NC_EHDFERR); |
---|
| 1855 | if (H5Aget_name(attid, NC_MAX_HDF5_NAME, att_name) < 0) |
---|
| 1856 | BAIL(NC_EHDFERR); |
---|
| 1857 | if (!strcmp(att_name, NC3_STRICT_ATT_NAME)) |
---|
| 1858 | { |
---|
| 1859 | if (H5Aclose(attid) < 0) |
---|
| 1860 | return NC_EFILEMETA; |
---|
| 1861 | return NC_NOERR; |
---|
| 1862 | } |
---|
| 1863 | } |
---|
| 1864 | |
---|
| 1865 | /* Create the attribute to mark this as a file that needs to obey |
---|
| 1866 | * strict netcdf-3 rules. */ |
---|
| 1867 | if ((spaceid = H5Screate(H5S_SCALAR)) < 0) |
---|
| 1868 | BAIL(NC_EFILEMETA); |
---|
| 1869 | #ifdef EXTRA_TESTS |
---|
| 1870 | num_spaces++; |
---|
| 1871 | #endif |
---|
| 1872 | if ((attid = H5Acreate(hdf_grpid, NC3_STRICT_ATT_NAME, |
---|
| 1873 | H5T_NATIVE_INT, spaceid, H5P_DEFAULT)) < 0) |
---|
| 1874 | BAIL(NC_EFILEMETA); |
---|
| 1875 | if (H5Awrite(attid, H5T_NATIVE_INT, &one) < 0) |
---|
| 1876 | BAIL(NC_EFILEMETA); |
---|
| 1877 | |
---|
| 1878 | exit: |
---|
| 1879 | if (spaceid && (H5Sclose(spaceid) < 0)) |
---|
| 1880 | BAIL2(NC_EFILEMETA); |
---|
| 1881 | #ifdef EXTRA_TESTS |
---|
| 1882 | num_spaces--; |
---|
| 1883 | #endif |
---|
| 1884 | if (attid && (H5Aclose(attid) < 0)) |
---|
| 1885 | BAIL2(NC_EFILEMETA); |
---|
| 1886 | return retval; |
---|
| 1887 | } |
---|
| 1888 | |
---|
| 1889 | static int |
---|
| 1890 | create_group(NC_GRP_INFO_T *grp) |
---|
| 1891 | { |
---|
| 1892 | hid_t gcpl_id = 0; |
---|
| 1893 | int retval = NC_NOERR;; |
---|
| 1894 | |
---|
| 1895 | assert(grp); |
---|
| 1896 | |
---|
| 1897 | /* If this is not the root group, create it in the HDF5 file. */ |
---|
| 1898 | if (grp->parent) |
---|
| 1899 | { |
---|
| 1900 | /* Create group, with link_creation_order set in the group |
---|
| 1901 | * creation property list. */ |
---|
| 1902 | if ((gcpl_id = H5Pcreate(H5P_GROUP_CREATE)) < 0) |
---|
| 1903 | return NC_EHDFERR; |
---|
| 1904 | #ifdef EXTRA_TESTS |
---|
| 1905 | num_plists++; |
---|
| 1906 | #endif |
---|
| 1907 | if (H5Pset_link_creation_order(gcpl_id, H5P_CRT_ORDER_TRACKED|H5P_CRT_ORDER_INDEXED) < 0) |
---|
| 1908 | BAIL(NC_EHDFERR); |
---|
| 1909 | if (H5Pset_attr_creation_order(gcpl_id, H5P_CRT_ORDER_TRACKED|H5P_CRT_ORDER_INDEXED) < 0) |
---|
| 1910 | BAIL(NC_EHDFERR); |
---|
| 1911 | if ((grp->hdf_grpid = H5Gcreate2(grp->parent->hdf_grpid, grp->name, |
---|
| 1912 | H5P_DEFAULT, gcpl_id, H5P_DEFAULT)) < 0) |
---|
| 1913 | BAIL(NC_EHDFERR); |
---|
| 1914 | if (H5Pclose(gcpl_id) < 0) |
---|
| 1915 | BAIL(NC_EHDFERR); |
---|
| 1916 | #ifdef EXTRA_TESTS |
---|
| 1917 | num_plists--; |
---|
| 1918 | #endif |
---|
| 1919 | } |
---|
| 1920 | else |
---|
| 1921 | { |
---|
| 1922 | /* Since this is the root group, we have to open it. */ |
---|
| 1923 | if ((grp->hdf_grpid = H5Gopen2(grp->file->nc4_info->hdfid, "/", H5P_DEFAULT)) < 0) |
---|
| 1924 | BAIL(NC_EFILEMETA); |
---|
| 1925 | } |
---|
| 1926 | return NC_NOERR; |
---|
| 1927 | |
---|
| 1928 | exit: |
---|
| 1929 | if (gcpl_id > 0 && H5Pclose(gcpl_id) < 0) |
---|
| 1930 | BAIL2(NC_EHDFERR); |
---|
| 1931 | #ifdef EXTRA_TESTS |
---|
| 1932 | num_plists--; |
---|
| 1933 | #endif |
---|
| 1934 | if (grp->hdf_grpid > 0 && H5Gclose(grp->hdf_grpid) < 0) |
---|
| 1935 | BAIL2(NC_EHDFERR); |
---|
| 1936 | return retval; |
---|
| 1937 | } |
---|
| 1938 | |
---|
| 1939 | /* After all the datasets of the file have been read, it's time to |
---|
| 1940 | * sort the wheat from the chaff. Which of the datasets are netCDF |
---|
| 1941 | * dimensions, and which are coordinate variables, and which are |
---|
| 1942 | * non-coordinate variables. */ |
---|
| 1943 | static int |
---|
| 1944 | attach_dimscales(NC_GRP_INFO_T *grp) |
---|
| 1945 | { |
---|
| 1946 | NC_VAR_INFO_T *var; |
---|
| 1947 | NC_DIM_INFO_T *dim1; |
---|
| 1948 | NC_GRP_INFO_T *g; |
---|
| 1949 | int d; |
---|
| 1950 | int retval = NC_NOERR; |
---|
| 1951 | |
---|
| 1952 | /* Attach dimension scales. */ |
---|
| 1953 | for (var = grp->var; var; var = var->next) |
---|
| 1954 | { |
---|
| 1955 | /* Scales themselves do not attach. But I really wish they |
---|
| 1956 | * would. */ |
---|
| 1957 | if (var->dimscale) |
---|
| 1958 | { |
---|
| 1959 | /* If this is a multidimensional coordinate variable, it will |
---|
| 1960 | * have a special coords attribute (read earlier) with a list |
---|
| 1961 | * of the dimensions for this variable. */ |
---|
| 1962 | } |
---|
| 1963 | else /* not a dimscale... */ |
---|
| 1964 | { |
---|
| 1965 | /* Find the scale for each dimension and attach it. */ |
---|
| 1966 | for (d = 0; d < var->ndims; d++) |
---|
| 1967 | { |
---|
| 1968 | /* Is there a dimscale for this dimension? */ |
---|
| 1969 | if (var->dimscale_attached) |
---|
| 1970 | { |
---|
| 1971 | if (!var->dimscale_attached[d]) |
---|
| 1972 | { |
---|
| 1973 | for (g = grp; g && !var->dimscale_attached[d]; g = g->parent) |
---|
| 1974 | for (dim1 = g->dim; dim1; dim1 = dim1->next) |
---|
| 1975 | if (var->dimids[d] == dim1->dimid) |
---|
| 1976 | { |
---|
| 1977 | LOG((2, "attach_dimscales: attaching scale for dimid %d to var %s", |
---|
| 1978 | var->dimids[d], var->name)); |
---|
| 1979 | if (H5DSattach_scale(var->hdf_datasetid, dim1->hdf_dimscaleid, d) < 0) |
---|
| 1980 | BAIL(NC_EHDFERR); |
---|
| 1981 | var->dimscale_attached[d]++; |
---|
| 1982 | break; |
---|
| 1983 | } |
---|
| 1984 | } |
---|
| 1985 | |
---|
| 1986 | /* If we didn't find a dimscale to attach, that's a problem! */ |
---|
| 1987 | if (!var->dimscale_attached[d]) |
---|
| 1988 | { |
---|
| 1989 | LOG((0, "no dimscale found!")); |
---|
| 1990 | return NC_EDIMSCALE; |
---|
| 1991 | } |
---|
| 1992 | } |
---|
| 1993 | else |
---|
| 1994 | { |
---|
| 1995 | /* Create a phoney dimension! */ |
---|
| 1996 | |
---|
| 1997 | } |
---|
| 1998 | } |
---|
| 1999 | } /* next d */ |
---|
| 2000 | } |
---|
| 2001 | exit: |
---|
| 2002 | return retval; |
---|
| 2003 | } |
---|
| 2004 | |
---|
| 2005 | /* Write all the dirty atts in an attlist. */ |
---|
| 2006 | static int |
---|
| 2007 | write_attlist(NC_ATT_INFO_T *attlist, int varid, NC_GRP_INFO_T *grp) |
---|
| 2008 | { |
---|
| 2009 | NC_ATT_INFO_T *att; |
---|
| 2010 | int retval; |
---|
| 2011 | |
---|
| 2012 | for (att = attlist; att; att = att->next) |
---|
| 2013 | { |
---|
| 2014 | if (att->dirty) |
---|
| 2015 | { |
---|
| 2016 | LOG((4, "write_attlist: writing att %s to varid %d", att->name, varid)); |
---|
| 2017 | if ((retval = put_att_grpa(grp, varid, att))) |
---|
| 2018 | return retval; |
---|
| 2019 | att->dirty = 0; |
---|
| 2020 | att->created++; |
---|
| 2021 | } |
---|
| 2022 | } |
---|
| 2023 | return NC_NOERR; |
---|
| 2024 | } |
---|
| 2025 | |
---|
| 2026 | /* Using the HDF5 group iterator is more efficient than the original |
---|
| 2027 | * code (O(n) vs O(n**2) for n variables in the group) */ |
---|
| 2028 | #define USE_ITERATE_CODE |
---|
| 2029 | #ifdef USE_ITERATE_CODE |
---|
| 2030 | typedef struct { |
---|
| 2031 | char *name; /* The name of the object to searched*/ |
---|
| 2032 | int *exists; /* 1 if the object exists, 0 otherswise */ |
---|
| 2033 | } var_exists_iter_info; |
---|
| 2034 | |
---|
| 2035 | /*------------------------------------------------------------------------- |
---|
| 2036 | * Function: var_exists_cb |
---|
| 2037 | * |
---|
| 2038 | * Purpose: Callback routine for checking an object by its name |
---|
| 2039 | * |
---|
| 2040 | * Return: Exist: 1 |
---|
| 2041 | * Not exist: 0 |
---|
| 2042 | * Failure: -1 |
---|
| 2043 | * |
---|
| 2044 | * Programmer: Peter Cao |
---|
| 2045 | * 1/25/2012 |
---|
| 2046 | * |
---|
| 2047 | *------------------------------------------------------------------------- |
---|
| 2048 | */ |
---|
| 2049 | static int |
---|
| 2050 | var_exists_cb(hid_t grpid, const char *name, const H5L_info_t *info, |
---|
| 2051 | void *_op_data) |
---|
| 2052 | { |
---|
| 2053 | var_exists_iter_info *iter_info = (var_exists_iter_info *)_op_data; |
---|
| 2054 | H5I_type_t otype; |
---|
| 2055 | hid_t oid; |
---|
| 2056 | |
---|
| 2057 | if ((oid = H5Oopen(grpid, name, H5P_DEFAULT)) < 0) |
---|
| 2058 | return H5_ITER_STOP; |
---|
| 2059 | |
---|
| 2060 | if ((otype = H5Iget_type( oid ))<0) { |
---|
| 2061 | H5Oclose(oid); |
---|
| 2062 | return H5_ITER_STOP; |
---|
| 2063 | } |
---|
| 2064 | H5Oclose(oid); |
---|
| 2065 | |
---|
| 2066 | if (otype == H5I_DATASET) { |
---|
| 2067 | if (!strcmp(iter_info->name, name)) { |
---|
| 2068 | *(iter_info->exists) = 1; |
---|
| 2069 | return (H5_ITER_STOP); |
---|
| 2070 | } |
---|
| 2071 | } |
---|
| 2072 | |
---|
| 2073 | return (H5_ITER_CONT); |
---|
| 2074 | } /* end var_exists_cb() */ |
---|
| 2075 | |
---|
| 2076 | static int |
---|
| 2077 | var_exists(hid_t grpid, char *name, int *exists) |
---|
| 2078 | { |
---|
| 2079 | hsize_t num_obj; |
---|
| 2080 | var_exists_iter_info iter_info; |
---|
| 2081 | iter_info.name = name; |
---|
| 2082 | iter_info.exists = exists; |
---|
| 2083 | |
---|
| 2084 | if (H5Gget_num_objs(grpid, &num_obj) < 0) |
---|
| 2085 | return NC_EVARMETA; |
---|
| 2086 | |
---|
| 2087 | if (!name) |
---|
| 2088 | return NC_NOERR; |
---|
| 2089 | |
---|
| 2090 | *exists = 0; |
---|
| 2091 | if (H5Literate(grpid, H5_INDEX_CRT_ORDER, H5_ITER_INC, NULL, var_exists_cb, &iter_info) < 0) |
---|
| 2092 | return NC_EHDFERR; |
---|
| 2093 | |
---|
| 2094 | return NC_NOERR; |
---|
| 2095 | } |
---|
| 2096 | #else |
---|
| 2097 | static int |
---|
| 2098 | var_exists(hid_t grpid, char *name, int *exists) |
---|
| 2099 | { |
---|
| 2100 | hsize_t num_obj, i; |
---|
| 2101 | H5O_info_t obj_info; |
---|
| 2102 | int obj_class; |
---|
| 2103 | char obj_name[NC_MAX_NAME + 1]; |
---|
| 2104 | ssize_t size; |
---|
| 2105 | int retval = NC_NOERR; |
---|
| 2106 | |
---|
| 2107 | *exists = 0; |
---|
| 2108 | if (H5Gget_num_objs(grpid, &num_obj) < 0) |
---|
| 2109 | return NC_EVARMETA; |
---|
| 2110 | for (i = 0; i < num_obj; i++) |
---|
| 2111 | { |
---|
| 2112 | if (H5Oget_info_by_idx(grpid, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, i, &obj_info, H5P_DEFAULT) < 0) |
---|
| 2113 | return NC_EHDFERR; |
---|
| 2114 | obj_class = obj_info.type; |
---|
| 2115 | if ((size = H5Lget_name_by_idx(grpid, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, i, NULL, 0, H5P_DEFAULT)) < 0) |
---|
| 2116 | return NC_EHDFERR; |
---|
| 2117 | if (size > NC_MAX_NAME) |
---|
| 2118 | return NC_EMAXNAME; |
---|
| 2119 | if (H5Lget_name_by_idx(grpid, ".", H5_INDEX_CRT_ORDER, H5_ITER_INC, i, obj_name, size+1, H5P_DEFAULT) < 0) |
---|
| 2120 | return NC_EHDFERR; |
---|
| 2121 | if (obj_class == H5O_TYPE_DATASET) |
---|
| 2122 | { |
---|
| 2123 | if (!strncmp(name, obj_name, NC_MAX_NAME)) |
---|
| 2124 | { |
---|
| 2125 | *exists = 1; |
---|
| 2126 | return NC_NOERR; |
---|
| 2127 | } |
---|
| 2128 | } |
---|
| 2129 | } |
---|
| 2130 | |
---|
| 2131 | return retval; |
---|
| 2132 | } |
---|
| 2133 | #endif /* USE_ITERATE_CODE */ |
---|
| 2134 | |
---|
| 2135 | /* This function writes a variable. The principle difficulty comes |
---|
| 2136 | * from the possibility that this is a coordinate variable, and was |
---|
| 2137 | * already written to the file as a dimension-only dimscale. If this |
---|
| 2138 | * occurs, then it must be deleted and recreated. */ |
---|
| 2139 | static int |
---|
| 2140 | write_var(NC_VAR_INFO_T *var, NC_GRP_INFO_T *grp, int write_dimid) |
---|
| 2141 | { |
---|
| 2142 | NC_DIM_INFO_T *d1 = NULL; |
---|
| 2143 | int replace_existing_var = 0; |
---|
| 2144 | int exists; |
---|
| 2145 | int retval; |
---|
| 2146 | |
---|
| 2147 | if (!var->dirty) |
---|
| 2148 | { |
---|
| 2149 | if (write_dimid && var->ndims) |
---|
| 2150 | if ((retval = write_netcdf4_dimid(var->hdf_datasetid, |
---|
| 2151 | var->dimids[0]))) |
---|
| 2152 | BAIL(retval); |
---|
| 2153 | } |
---|
| 2154 | else |
---|
| 2155 | { |
---|
| 2156 | LOG((4, "write_var: writing var %s", var->name)); |
---|
| 2157 | |
---|
| 2158 | if (var->created) |
---|
| 2159 | replace_existing_var = 1; |
---|
| 2160 | |
---|
| 2161 | /* If this is a coordinate var, and a dataset has already |
---|
| 2162 | * been created for it, then delete that dataset and recreate |
---|
| 2163 | * it (because its type may be wrong anyway.) But then we |
---|
| 2164 | * have to reattach dimension scales for all vars! Oh well, |
---|
| 2165 | * this all only happens when the user defines a var, writes |
---|
| 2166 | * metadata, reenters define mode, and adds a coordinate |
---|
| 2167 | * var. Presumably this will happen rarely. */ |
---|
| 2168 | |
---|
| 2169 | /* Is this a coordinate var that has already been created in |
---|
| 2170 | * the HDF5 as a dimscale dataset? Check for dims with the |
---|
| 2171 | * same name in this group. If there is one, check to see if |
---|
| 2172 | * this object exists in the HDF group. */ |
---|
| 2173 | if (var->dimscale) |
---|
| 2174 | for (d1 = grp->dim; d1; d1 = d1->next) |
---|
| 2175 | if (!strcmp(d1->name, var->name)) |
---|
| 2176 | { |
---|
| 2177 | if ((retval = var_exists(grp->hdf_grpid, var->name, &exists))) |
---|
| 2178 | return retval; |
---|
| 2179 | if (exists) |
---|
| 2180 | { |
---|
| 2181 | replace_existing_var++; |
---|
| 2182 | |
---|
| 2183 | /* If we're replacing an existing dimscale dataset, go to |
---|
| 2184 | * every var in the file and detatch this dimension scale, |
---|
| 2185 | * because we have to delete it. */ |
---|
| 2186 | if ((retval = rec_detach_scales(grp->file->nc4_info->root_grp, |
---|
| 2187 | var->dimids[0], d1->hdf_dimscaleid))) |
---|
| 2188 | return retval; |
---|
| 2189 | break; |
---|
| 2190 | } |
---|
| 2191 | } |
---|
| 2192 | |
---|
| 2193 | /* Delete the HDF5 dataset that is to be replaced. */ |
---|
| 2194 | if (replace_existing_var) |
---|
| 2195 | { |
---|
| 2196 | /* If this is a dimension scale, do this stuff. */ |
---|
| 2197 | if (d1) |
---|
| 2198 | { |
---|
| 2199 | assert(d1 && d1->hdf_dimscaleid); |
---|
| 2200 | if (H5Dclose(d1->hdf_dimscaleid) < 0) |
---|
| 2201 | return NC_EDIMMETA; |
---|
| 2202 | } |
---|
| 2203 | else |
---|
| 2204 | { |
---|
| 2205 | int dims_detached = 0; |
---|
| 2206 | int finished = 0; |
---|
| 2207 | int d; |
---|
| 2208 | NC_DIM_INFO_T *dim1; |
---|
| 2209 | NC_GRP_INFO_T *g; |
---|
| 2210 | |
---|
| 2211 | /* If this is a regular var, detach all its dim scales. */ |
---|
| 2212 | for (d = 0; d < var->ndims; d++) |
---|
| 2213 | for (g = grp; g && !finished; g = g->parent) |
---|
| 2214 | for (dim1 = g->dim; dim1; dim1 = dim1->next) |
---|
| 2215 | if (var->dimids[d] == dim1->dimid) |
---|
| 2216 | { |
---|
| 2217 | if (H5DSdetach_scale(var->hdf_datasetid, dim1->hdf_dimscaleid, d) < 0) |
---|
| 2218 | BAIL(NC_EHDFERR); |
---|
| 2219 | var->dimscale_attached[d] = 0; |
---|
| 2220 | if (dims_detached++ == var->ndims) |
---|
| 2221 | finished++; |
---|
| 2222 | } |
---|
| 2223 | } |
---|
| 2224 | |
---|
| 2225 | /* Free the HDF5 dataset id. */ |
---|
| 2226 | if (var->hdf_datasetid && H5Dclose(var->hdf_datasetid)) |
---|
| 2227 | BAIL(NC_EHDFERR); |
---|
| 2228 | |
---|
| 2229 | /* Now delete the variable. */ |
---|
| 2230 | if (H5Gunlink(grp->hdf_grpid, var->name) < 0) |
---|
| 2231 | return NC_EDIMMETA; |
---|
| 2232 | } |
---|
| 2233 | |
---|
| 2234 | /* Create the dataset. */ |
---|
| 2235 | if ((retval = var_create_dataset(grp, var, write_dimid))) |
---|
| 2236 | return retval; |
---|
| 2237 | |
---|
| 2238 | /* Reattach this scale everywhere it is used. (Recall that |
---|
| 2239 | * netCDF dimscales are always 1-D). */ |
---|
| 2240 | if (d1 && replace_existing_var) |
---|
| 2241 | { |
---|
| 2242 | d1->hdf_dimscaleid = var->hdf_datasetid; |
---|
| 2243 | if ((retval = rec_reattach_scales(grp->file->nc4_info->root_grp, |
---|
| 2244 | var->dimids[0], d1->hdf_dimscaleid))) |
---|
| 2245 | return retval; |
---|
| 2246 | } |
---|
| 2247 | } |
---|
| 2248 | |
---|
| 2249 | /* Now check the atributes for this var. */ |
---|
| 2250 | /* Write attributes for this var. */ |
---|
| 2251 | if ((retval = write_attlist(var->att, var->varid, grp))) |
---|
| 2252 | BAIL(retval); |
---|
| 2253 | |
---|
| 2254 | return NC_NOERR; |
---|
| 2255 | exit: |
---|
| 2256 | return retval; |
---|
| 2257 | } |
---|
| 2258 | |
---|
| 2259 | static int |
---|
| 2260 | write_dim(NC_DIM_INFO_T *dim, NC_GRP_INFO_T *grp, int write_dimid) |
---|
| 2261 | { |
---|
| 2262 | hid_t spaceid, create_propid; |
---|
| 2263 | hsize_t dims[1], max_dims[1], chunk_dims[1] = {1}; |
---|
| 2264 | int dimscale_exists = 0; |
---|
| 2265 | char dimscale_wo_var[NC_MAX_NAME]; |
---|
| 2266 | int retval; |
---|
| 2267 | |
---|
| 2268 | if (dim->dirty) |
---|
| 2269 | { |
---|
| 2270 | /* If there's no dimscale dataset for this dim, create one, |
---|
| 2271 | * and mark that it should be hidden from netCDF as a |
---|
| 2272 | * variable. (That is, it should appear as a dimension |
---|
| 2273 | * without an associated variable.) */ |
---|
| 2274 | if (!dimscale_exists) |
---|
| 2275 | { |
---|
| 2276 | LOG((4, "write_dim: creating dim %s", dim->name)); |
---|
| 2277 | |
---|
| 2278 | /* Create a property list. If this dimension scale is |
---|
| 2279 | * unlimited (i.e. it's an unlimited dimension), then set |
---|
| 2280 | * up chunking, with a chunksize of 1. */ |
---|
| 2281 | if ((create_propid = H5Pcreate(H5P_DATASET_CREATE)) < 0) |
---|
| 2282 | BAIL(NC_EHDFERR); |
---|
| 2283 | #ifdef EXTRA_TESTS |
---|
| 2284 | num_plists++; |
---|
| 2285 | #endif |
---|
| 2286 | dims[0] = dim->len; |
---|
| 2287 | max_dims[0] = dim->len; |
---|
| 2288 | if (dim->unlimited) |
---|
| 2289 | { |
---|
| 2290 | max_dims[0] = H5S_UNLIMITED; |
---|
| 2291 | if (H5Pset_chunk(create_propid, 1, chunk_dims) < 0) |
---|
| 2292 | BAIL(NC_EHDFERR); |
---|
| 2293 | } |
---|
| 2294 | |
---|
| 2295 | /* Set up space. */ |
---|
| 2296 | if ((spaceid = H5Screate_simple(1, dims, max_dims)) < 0) |
---|
| 2297 | BAIL(NC_EHDFERR); |
---|
| 2298 | #ifdef EXTRA_TESTS |
---|
| 2299 | num_spaces++; |
---|
| 2300 | #endif |
---|
| 2301 | |
---|
| 2302 | /* If we define, and then rename this dimension before |
---|
| 2303 | * creation of the dimscale dataset, then we can throw |
---|
| 2304 | * away the old_name of the dimension. */ |
---|
| 2305 | if (dim->old_name && strlen(dim->old_name)) |
---|
| 2306 | strcpy(dim->old_name, ""); |
---|
| 2307 | |
---|
| 2308 | if (H5Pset_attr_creation_order(create_propid, H5P_CRT_ORDER_TRACKED| |
---|
| 2309 | H5P_CRT_ORDER_INDEXED) < 0) |
---|
| 2310 | BAIL(NC_EHDFERR); |
---|
| 2311 | |
---|
| 2312 | /* Create the dataset that will be the dimension scale. */ |
---|
| 2313 | LOG((4, "write_dim: about to H5Dcreate a dimscale dataset %s", dim->name)); |
---|
| 2314 | if ((dim->hdf_dimscaleid = H5Dcreate1(grp->hdf_grpid, dim->name, H5T_IEEE_F32BE, |
---|
| 2315 | spaceid, create_propid)) < 0) |
---|
| 2316 | BAIL(NC_EHDFERR); |
---|
| 2317 | |
---|
| 2318 | /* Close the spaceid and create_propid. */ |
---|
| 2319 | if (H5Sclose(spaceid) < 0) |
---|
| 2320 | BAIL(NC_EHDFERR); |
---|
| 2321 | #ifdef EXTRA_TESTS |
---|
| 2322 | num_spaces--; |
---|
| 2323 | #endif |
---|
| 2324 | if (H5Pclose(create_propid) < 0) |
---|
| 2325 | BAIL(NC_EHDFERR); |
---|
| 2326 | #ifdef EXTRA_TESTS |
---|
| 2327 | num_plists--; |
---|
| 2328 | #endif |
---|
| 2329 | |
---|
| 2330 | /* Indicate that this is a scale. Also indicate that not |
---|
| 2331 | * be shown to the user as a variable. It is hidden. It is |
---|
| 2332 | * a DIM WITHOUT A VARIABLE! */ |
---|
| 2333 | sprintf(dimscale_wo_var, "%s%10d", DIM_WITHOUT_VARIABLE, (int)dim->len); |
---|
| 2334 | if (H5DSset_scale(dim->hdf_dimscaleid, dimscale_wo_var) < 0) |
---|
| 2335 | BAIL(NC_EHDFERR); |
---|
| 2336 | |
---|
| 2337 | } |
---|
| 2338 | dim->dirty = 0; |
---|
| 2339 | } |
---|
| 2340 | |
---|
| 2341 | /* Did we extend an unlimited dimension? */ |
---|
| 2342 | if (dim->extended) |
---|
| 2343 | { |
---|
| 2344 | NC_VAR_INFO_T *v1; |
---|
| 2345 | |
---|
| 2346 | assert(dim->unlimited); |
---|
| 2347 | /* If this is a dimension without a variable, then update |
---|
| 2348 | * the secret length information at the end of the NAME |
---|
| 2349 | * attribute. */ |
---|
| 2350 | for (v1 = grp->var; v1; v1 = v1->next) |
---|
| 2351 | if (!strcmp(v1->name, dim->name)) |
---|
| 2352 | break; |
---|
| 2353 | |
---|
| 2354 | if (v1) |
---|
| 2355 | { |
---|
| 2356 | hsize_t *new_size; |
---|
| 2357 | NC_GRP_INFO_T *g; |
---|
| 2358 | NC_DIM_INFO_T *dim1; |
---|
| 2359 | int d1; |
---|
| 2360 | |
---|
| 2361 | /* Extend the dimension scale dataset to reflect the new |
---|
| 2362 | * length of the dimension. */ |
---|
| 2363 | if (!(new_size = malloc(v1->ndims * sizeof(hsize_t)))) |
---|
| 2364 | BAIL(NC_ENOMEM); |
---|
| 2365 | for (d1 = 0; d1 < v1->ndims; d1++) |
---|
| 2366 | { |
---|
| 2367 | if (v1->dimids[d1] == dim->dimid) |
---|
| 2368 | new_size[d1] = dim->len; |
---|
| 2369 | else |
---|
| 2370 | { |
---|
| 2371 | int break_it = 0; |
---|
| 2372 | for (g = grp; g && !break_it; g = g->parent) |
---|
| 2373 | for (dim1 = g->dim; dim1; dim1 = dim1->next) |
---|
| 2374 | if (dim1->dimid == v1->dimids[d1]) |
---|
| 2375 | { |
---|
| 2376 | new_size[d1] = dim1->len; |
---|
| 2377 | break_it++; |
---|
| 2378 | break; |
---|
| 2379 | } |
---|
| 2380 | } |
---|
| 2381 | } |
---|
| 2382 | if (H5Dextend(v1->hdf_datasetid, new_size) < 0) |
---|
| 2383 | BAIL(NC_EHDFERR); |
---|
| 2384 | free(new_size); |
---|
| 2385 | } |
---|
| 2386 | } |
---|
| 2387 | |
---|
| 2388 | /* Did we rename this dimension? */ |
---|
| 2389 | if (dim->old_name && strlen(dim->old_name)) |
---|
| 2390 | { |
---|
| 2391 | /* Rename the dimension's dataset in the HDF5 file. */ |
---|
| 2392 | if (H5Gmove2(grp->hdf_grpid, dim->old_name, grp->hdf_grpid, dim->name) < 0) |
---|
| 2393 | return NC_EHDFERR; |
---|
| 2394 | |
---|
| 2395 | /* Reset old_name. */ |
---|
| 2396 | strcpy(dim->old_name, ""); |
---|
| 2397 | } |
---|
| 2398 | |
---|
| 2399 | /* If desired, write the secret dimid. This will be used instead of |
---|
| 2400 | * the dimid that the dimension would otherwise receive based on |
---|
| 2401 | * creation order. This can be necessary when dims and their |
---|
| 2402 | * coordinate variables were created in different order. */ |
---|
| 2403 | if (write_dimid && dim->hdf_dimscaleid) |
---|
| 2404 | if ((retval = write_netcdf4_dimid(dim->hdf_dimscaleid, |
---|
| 2405 | dim->dimid))) |
---|
| 2406 | BAIL(retval); |
---|
| 2407 | |
---|
| 2408 | return NC_NOERR; |
---|
| 2409 | exit: |
---|
| 2410 | return retval; |
---|
| 2411 | } |
---|
| 2412 | |
---|
| 2413 | /* Recursively write all the metadata in a group. Groups and types |
---|
| 2414 | * have all already been written. */ |
---|
| 2415 | int |
---|
| 2416 | nc4_rec_write_metadata(NC_GRP_INFO_T *grp) |
---|
| 2417 | { |
---|
| 2418 | NC_DIM_INFO_T *dim; |
---|
| 2419 | NC_VAR_INFO_T *var; |
---|
| 2420 | NC_GRP_INFO_T *child_grp; |
---|
| 2421 | int found_coord, coord_varid = -1, wrote_coord; |
---|
| 2422 | int bad_coord_order = 0; |
---|
| 2423 | int last_dimid = -1; |
---|
| 2424 | int retval; |
---|
| 2425 | |
---|
| 2426 | assert(grp && grp->name && grp->hdf_grpid); |
---|
| 2427 | LOG((3, "nc4_rec_write_metadata: grp->name %s", grp->name)); |
---|
| 2428 | |
---|
| 2429 | /* Write global attributes for this group. */ |
---|
| 2430 | if ((retval = write_attlist(grp->att, NC_GLOBAL, grp))) |
---|
| 2431 | return retval; |
---|
| 2432 | |
---|
| 2433 | /* If the user writes coord vars in a different order then he |
---|
| 2434 | * defined their dimensions, then, when the file is reopened, the |
---|
| 2435 | * order of the dimids will change to match the order of the coord |
---|
| 2436 | * vars. Detect if this is about to happen. */ |
---|
| 2437 | for (var = grp->var; var; var = var->next) |
---|
| 2438 | { |
---|
| 2439 | LOG((5, "checking %s for out of order coord var", var->name)); |
---|
| 2440 | if (var->ndims && var->dimscale) |
---|
| 2441 | { |
---|
| 2442 | if (var->dimids[0] < last_dimid) |
---|
| 2443 | { |
---|
| 2444 | bad_coord_order++; |
---|
| 2445 | break; |
---|
| 2446 | } |
---|
| 2447 | last_dimid = var->dimids[0]; |
---|
| 2448 | } |
---|
| 2449 | } |
---|
| 2450 | |
---|
| 2451 | /* Did the user define a dimension, end define mode, reenter define |
---|
| 2452 | * mode, and then define a coordinate variable for that dimension? |
---|
| 2453 | * If so, dimensions will be out of order. */ |
---|
| 2454 | for (var = grp->var; var; var = var->next) |
---|
| 2455 | if (var->dirty && !var->created && var->ndims) |
---|
| 2456 | for (dim = grp->dim; dim && dim->next; dim = dim->next) |
---|
| 2457 | if (strcmp(dim->name, var->name) && !dim->dirty) |
---|
| 2458 | { |
---|
| 2459 | LOG((5, "coord var defined after enddef/redef")); |
---|
| 2460 | bad_coord_order++; |
---|
| 2461 | } |
---|
| 2462 | |
---|
| 2463 | |
---|
| 2464 | /* For some stupid reason, the dim list is stored backwards! Get to |
---|
| 2465 | * the back of the list. */ |
---|
| 2466 | for (dim = grp->dim; dim && dim->next; dim = dim->next) |
---|
| 2467 | ; |
---|
| 2468 | |
---|
| 2469 | /* Set the pointer to the beginning of the list of vars in this |
---|
| 2470 | * group. */ |
---|
| 2471 | var = grp->var; |
---|
| 2472 | |
---|
| 2473 | /* Because of HDF5 ordering the dims and vars have to be stored in |
---|
| 2474 | * this way to ensure that the dims and coordinate vars come out in |
---|
| 2475 | * the correct order. */ |
---|
| 2476 | while (dim || var) |
---|
| 2477 | { |
---|
| 2478 | /* Write non-coord dims in order, stopping at the first one that |
---|
| 2479 | * has an associated coord var. */ |
---|
| 2480 | for (found_coord = 0; dim && !found_coord; dim = dim->prev) |
---|
| 2481 | { |
---|
| 2482 | if (!dim->coord_var_in_grp) |
---|
| 2483 | { |
---|
| 2484 | if ((retval = write_dim(dim, grp, bad_coord_order))) |
---|
| 2485 | return retval; |
---|
| 2486 | } |
---|
| 2487 | else |
---|
| 2488 | { |
---|
| 2489 | found_coord++; |
---|
| 2490 | coord_varid = dim->coord_var->varid; |
---|
| 2491 | } |
---|
| 2492 | } |
---|
| 2493 | |
---|
| 2494 | /* Write each var. When we get to the coord var we are waiting |
---|
| 2495 | * for (if any), then we break after writing it. */ |
---|
| 2496 | for (wrote_coord = 0; var && !wrote_coord; var = var->next) |
---|
| 2497 | { |
---|
| 2498 | if ((retval = write_var(var, grp, bad_coord_order))) |
---|
| 2499 | return retval; |
---|
| 2500 | if (found_coord && var->varid == coord_varid) |
---|
| 2501 | wrote_coord++; |
---|
| 2502 | } |
---|
| 2503 | } /* end while */ |
---|
| 2504 | |
---|
| 2505 | if ((retval = attach_dimscales(grp))) |
---|
| 2506 | return retval; |
---|
| 2507 | |
---|
| 2508 | /* If there are any child groups, write their metadata. */ |
---|
| 2509 | for (child_grp = grp->children; child_grp; child_grp = child_grp->next) |
---|
| 2510 | if ((retval = nc4_rec_write_metadata(child_grp))) |
---|
| 2511 | return retval; |
---|
| 2512 | |
---|
| 2513 | return NC_NOERR; |
---|
| 2514 | } |
---|
| 2515 | |
---|
| 2516 | /* Recursively write all groups and types. */ |
---|
| 2517 | int |
---|
| 2518 | nc4_rec_write_types(NC_GRP_INFO_T *grp) |
---|
| 2519 | { |
---|
| 2520 | NC_GRP_INFO_T *child_grp; |
---|
| 2521 | NC_TYPE_INFO_T *type; |
---|
| 2522 | int retval; |
---|
| 2523 | |
---|
| 2524 | assert(grp && grp->name); |
---|
| 2525 | LOG((3, "nc4_rec_write_types: grp->name %s", grp->name)); |
---|
| 2526 | |
---|
| 2527 | /* Create the group in the HDF5 file if it doesn't exist. */ |
---|
| 2528 | if (!grp->hdf_grpid) |
---|
| 2529 | if ((retval = create_group(grp))) |
---|
| 2530 | return retval; |
---|
| 2531 | |
---|
| 2532 | /* If this is the root group of a file with strict NC3 rules, write |
---|
| 2533 | * an attribute. But don't leave the attribute open. */ |
---|
| 2534 | if (!grp->parent && (grp->file->nc4_info->cmode & NC_CLASSIC_MODEL)) |
---|
| 2535 | if ((retval = write_nc3_strict_att(grp->hdf_grpid))) |
---|
| 2536 | return retval; |
---|
| 2537 | |
---|
| 2538 | /* If there are any user-defined types, write them now. */ |
---|
| 2539 | for (type = grp->type; type; type = type->next) |
---|
| 2540 | if ((retval = commit_type(grp, type))) |
---|
| 2541 | return retval; |
---|
| 2542 | |
---|
| 2543 | /* If there are any child groups, write their groups and types. */ |
---|
| 2544 | for (child_grp = grp->children; child_grp; child_grp = child_grp->next) |
---|
| 2545 | if ((retval = nc4_rec_write_types(child_grp))) |
---|
| 2546 | return retval; |
---|
| 2547 | |
---|
| 2548 | return NC_NOERR; |
---|
| 2549 | } |
---|
| 2550 | |
---|
| 2551 | /* This reads/writes a whole var at a time. If the file has an |
---|
| 2552 | unlimited dimension, then we will look at the number of records |
---|
| 2553 | currently existing for this var, and read/write that many. This |
---|
| 2554 | this is not what the user intended, particularly with writing, then |
---|
| 2555 | that is there look-out! So we will not be extending datasets |
---|
| 2556 | here. */ |
---|
| 2557 | int |
---|
| 2558 | pg_var(NC_PG_T pg, NC_FILE_INFO_T *nc, int ncid, int varid, nc_type xtype, |
---|
| 2559 | int is_long, void *ip) |
---|
| 2560 | { |
---|
| 2561 | NC_GRP_INFO_T *grp; |
---|
| 2562 | NC_VAR_INFO_T *var; |
---|
| 2563 | size_t start[NC_MAX_VAR_DIMS], count[NC_MAX_VAR_DIMS]; |
---|
| 2564 | int i; |
---|
| 2565 | int retval; |
---|
| 2566 | |
---|
| 2567 | assert(nc); |
---|
| 2568 | if ((retval = nc4_find_g_var_nc(nc, ncid, varid, &grp, &var))) |
---|
| 2569 | return retval; |
---|
| 2570 | assert(grp && var && var->name); |
---|
| 2571 | |
---|
| 2572 | /* For each dimension, the start will be 0, and the count will be |
---|
| 2573 | * the length of the dimension. */ |
---|
| 2574 | for (i = 0; i < var->ndims; i++) |
---|
| 2575 | { |
---|
| 2576 | start[i] = 0; |
---|
| 2577 | if ((retval = nc_inq_dimlen(ncid, var->dimids[i], &(count[i])))) |
---|
| 2578 | return retval; |
---|
| 2579 | } |
---|
| 2580 | |
---|
| 2581 | /* Read or write the data. */ |
---|
| 2582 | if (pg == GET) |
---|
| 2583 | return nc4_get_vara(nc, ncid, varid, start, count, xtype, |
---|
| 2584 | is_long, ip); |
---|
| 2585 | else |
---|
| 2586 | return nc4_put_vara(nc, ncid, varid, start, count, xtype, |
---|
| 2587 | is_long, ip); |
---|
| 2588 | } |
---|
| 2589 | |
---|
| 2590 | /* Write or read some mapped data. Yea, like I even understand what it |
---|
| 2591 | is! |
---|
| 2592 | |
---|
| 2593 | I stole this code, lock, stock, and semicolons, from the netcdf |
---|
| 2594 | 3.5.1 beta release. It walks through the stride and map arrays, and |
---|
| 2595 | converts them to a series of calles to the varm function. |
---|
| 2596 | |
---|
| 2597 | I had to modify the code a little to fit it in, and generalize it |
---|
| 2598 | for all data types, and for both puts and gets. |
---|
| 2599 | |
---|
| 2600 | Ed Hartnett, 9/43/03 |
---|
| 2601 | */ |
---|
| 2602 | int |
---|
| 2603 | nc4_pg_varm(NC_PG_T pg, NC_FILE_INFO_T *nc, int ncid, int varid, const size_t *start, |
---|
| 2604 | const size_t *edges, const ptrdiff_t *stride, |
---|
| 2605 | const ptrdiff_t *map, nc_type xtype, int is_long, void *data) |
---|
| 2606 | { |
---|
| 2607 | NC_GRP_INFO_T *grp; |
---|
| 2608 | NC_HDF5_FILE_INFO_T *h5; |
---|
| 2609 | NC_VAR_INFO_T *var; |
---|
| 2610 | int maxidim; /* maximum dimensional index */ |
---|
| 2611 | size_t mem_type_size; |
---|
| 2612 | int convert_map = 0; |
---|
| 2613 | ptrdiff_t new_map[NC_MAX_VAR_DIMS]; |
---|
| 2614 | int i; |
---|
| 2615 | int retval = NC_NOERR; |
---|
| 2616 | |
---|
| 2617 | LOG((3, "nc4_pg_varm: ncid 0x%x varid %d xtype %d", ncid, varid, |
---|
| 2618 | xtype)); |
---|
| 2619 | |
---|
| 2620 | /* Find metadata for this file and var. */ |
---|
| 2621 | assert(nc && nc->nc4_info); |
---|
| 2622 | h5 = nc->nc4_info; |
---|
| 2623 | if ((retval = nc4_find_g_var_nc(nc, ncid, varid, &grp, &var))) |
---|
| 2624 | return retval; |
---|
| 2625 | assert(grp && var && var->name); |
---|
| 2626 | |
---|
| 2627 | /* If mem_nc_type is NC_NAT, it means we were called by |
---|
| 2628 | * nc_get|put_varm, the old V2 API call! In this case we want to |
---|
| 2629 | * use the file type as the mem type as well. Also, for these two |
---|
| 2630 | * functions only, we interpret the map array as referring to |
---|
| 2631 | * numbers of bytes rather than number of elements. (This is |
---|
| 2632 | * something that changed between V2 and V3.) Also we do not allow |
---|
| 2633 | * mapped access to user-defined vars in nc4. */ |
---|
| 2634 | if (xtype == NC_NAT) |
---|
| 2635 | { |
---|
| 2636 | if (var->xtype > NC_STRING) |
---|
| 2637 | return NC_EMAPTYPE; |
---|
| 2638 | xtype = var->xtype; |
---|
| 2639 | convert_map++; |
---|
| 2640 | } |
---|
| 2641 | assert(xtype); |
---|
| 2642 | |
---|
| 2643 | /* What is the size of this type? */ |
---|
| 2644 | if ((retval = nc4_get_typelen_mem(h5, xtype, is_long, &mem_type_size))) |
---|
| 2645 | return retval; |
---|
| 2646 | |
---|
| 2647 | if(map != NULL && var->ndims && convert_map) |
---|
| 2648 | { |
---|
| 2649 | /* convert map units from bytes to units of sizeof(type) */ |
---|
| 2650 | for(i = 0; i < var->ndims; i++) |
---|
| 2651 | { |
---|
| 2652 | if(map[i] % mem_type_size != 0) |
---|
| 2653 | return NC_EINVAL; |
---|
| 2654 | new_map[i] = map[i] / mem_type_size; |
---|
| 2655 | } |
---|
| 2656 | map = new_map; |
---|
| 2657 | } |
---|
| 2658 | |
---|
| 2659 | /* No text to number hanky-panky is allowed for those observing |
---|
| 2660 | * strict netcdf-3 rules! It's sick. */ |
---|
| 2661 | if ((h5->cmode & NC_CLASSIC_MODEL) && (xtype == NC_CHAR || var->xtype == NC_CHAR) && |
---|
| 2662 | (xtype != var->xtype)) |
---|
| 2663 | return NC_ECHAR; |
---|
| 2664 | |
---|
| 2665 | /* If the file is read-only, return an error. */ |
---|
| 2666 | if (pg == PUT && h5->no_write) |
---|
| 2667 | return NC_EPERM; |
---|
| 2668 | |
---|
| 2669 | /* If we're in define mode, we can't read or write data. If strict |
---|
| 2670 | * nc3 rules are in effect, return an error, otherwise leave define |
---|
| 2671 | * mode. */ |
---|
| 2672 | if (h5->flags & NC_INDEF) |
---|
| 2673 | { |
---|
| 2674 | if (h5->cmode & NC_CLASSIC_MODEL) |
---|
| 2675 | return NC_EINDEFINE; |
---|
| 2676 | if ((retval = nc_enddef(ncid))) |
---|
| 2677 | BAIL(retval); |
---|
| 2678 | } |
---|
| 2679 | |
---|
| 2680 | #ifdef LOGGING |
---|
| 2681 | { |
---|
| 2682 | int i; |
---|
| 2683 | if (start) |
---|
| 2684 | for (i=0; i<var->ndims; i++) |
---|
| 2685 | LOG((4, "start[%d] %d", i, start[i])); |
---|
| 2686 | if (edges) |
---|
| 2687 | for (i=0; i<var->ndims; i++) |
---|
| 2688 | LOG((4, "edges[%d] %d", i, edges[i])); |
---|
| 2689 | if (stride) |
---|
| 2690 | for (i=0; i<var->ndims; i++) |
---|
| 2691 | LOG((4, "stride[%d] %d", i, stride[i])); |
---|
| 2692 | if (map) |
---|
| 2693 | for (i=0; i<var->ndims; i++) |
---|
| 2694 | LOG((4, "map[%d] %d", i, map[i])); |
---|
| 2695 | } |
---|
| 2696 | #endif /* LOGGING */ |
---|
| 2697 | |
---|
| 2698 | /* The code below was stolen from netcdf-3. Some comments by Ed. */ |
---|
| 2699 | maxidim = (int) var->ndims - 1; |
---|
| 2700 | if (maxidim < 0) |
---|
| 2701 | { |
---|
| 2702 | /* The variable is a scalar; consequently, there is only one |
---|
| 2703 | thing to get and only one place to put it. (Why was I |
---|
| 2704 | called?) */ |
---|
| 2705 | return pg_var(pg, nc, ncid, varid, xtype, is_long, data); |
---|
| 2706 | } |
---|
| 2707 | |
---|
| 2708 | /* The variable is an array. */ |
---|
| 2709 | { |
---|
| 2710 | int idim; |
---|
| 2711 | size_t *mystart = NULL; |
---|
| 2712 | size_t *myedges; |
---|
| 2713 | size_t *iocount; /* count vector */ |
---|
| 2714 | size_t *stop; /* stop indexes */ |
---|
| 2715 | size_t *length; /* edge lengths in bytes */ |
---|
| 2716 | ptrdiff_t *mystride; |
---|
| 2717 | ptrdiff_t *mymap; |
---|
| 2718 | |
---|
| 2719 | /* Verify stride argument. */ |
---|
| 2720 | for (idim = 0; idim <= maxidim; ++idim) |
---|
| 2721 | { |
---|
| 2722 | if (stride != NULL |
---|
| 2723 | && (stride[idim] == 0 |
---|
| 2724 | /* cast needed for braindead systems with signed size_t */ |
---|
| 2725 | || (unsigned long) stride[idim] >= X_INT_MAX)) |
---|
| 2726 | { |
---|
| 2727 | return NC_ESTRIDE; |
---|
| 2728 | } |
---|
| 2729 | } |
---|
| 2730 | |
---|
| 2731 | /* The mystart array of pointer info is needed to walk our way |
---|
| 2732 | through the dimensions as specified by the start, edges, |
---|
| 2733 | stride and (gulp!) map parameters. */ |
---|
| 2734 | if (!(mystart = (size_t *)calloc((size_t)var->ndims * 7, sizeof(ptrdiff_t)))) |
---|
| 2735 | return NC_ENOMEM; |
---|
| 2736 | myedges = mystart + var->ndims; |
---|
| 2737 | iocount = myedges + var->ndims; |
---|
| 2738 | stop = iocount + var->ndims; |
---|
| 2739 | length = stop + var->ndims; |
---|
| 2740 | mystride = (ptrdiff_t *)(length + var->ndims); |
---|
| 2741 | mymap = mystride + var->ndims; |
---|
| 2742 | |
---|
| 2743 | /* Initialize I/O parameters. */ |
---|
| 2744 | for (idim = maxidim; idim >= 0; --idim) |
---|
| 2745 | { |
---|
| 2746 | /* Get start value, use 0 if non provided. */ |
---|
| 2747 | mystart[idim] = start != NULL ? start[idim] : 0; |
---|
| 2748 | |
---|
| 2749 | /* If any edges are 0, return NC_NOERR and forget it. */ |
---|
| 2750 | if (edges[idim] == 0) |
---|
| 2751 | { |
---|
| 2752 | retval = NC_NOERR; |
---|
| 2753 | goto done; |
---|
| 2754 | } |
---|
| 2755 | |
---|
| 2756 | /* If edges not provided, use the current dimlen. */ |
---|
| 2757 | if (edges) |
---|
| 2758 | myedges[idim] = edges[idim]; |
---|
| 2759 | else |
---|
| 2760 | { |
---|
| 2761 | size_t len; |
---|
| 2762 | if ((retval = nc_inq_dimlen(ncid, var->dimids[idim], &len))) |
---|
| 2763 | goto done; |
---|
| 2764 | myedges[idim] = len - mystart[idim]; |
---|
| 2765 | } |
---|
| 2766 | |
---|
| 2767 | /* If stride not provided, use 1. */ |
---|
| 2768 | mystride[idim] = stride != NULL ? stride[idim] : 1; |
---|
| 2769 | |
---|
| 2770 | /* If map is not provided, do something dark and |
---|
| 2771 | mysterious. */ |
---|
| 2772 | if (map) |
---|
| 2773 | mymap[idim] = map[idim]; |
---|
| 2774 | else |
---|
| 2775 | mymap[idim] = idim == maxidim ? 1 : |
---|
| 2776 | mymap[idim + 1] * (ptrdiff_t) myedges[idim + 1]; |
---|
| 2777 | |
---|
| 2778 | iocount[idim] = 1; |
---|
| 2779 | length[idim] = mymap[idim] * myedges[idim]; |
---|
| 2780 | stop[idim] = mystart[idim] + myedges[idim] * mystride[idim]; |
---|
| 2781 | } |
---|
| 2782 | |
---|
| 2783 | /* Check start, edges */ |
---|
| 2784 | for (idim = maxidim; idim >= 0; --idim) |
---|
| 2785 | { |
---|
| 2786 | size_t dimlen; |
---|
| 2787 | if ((retval = nc_inq_dimlen(ncid, var->dimids[idim], &dimlen))) |
---|
| 2788 | goto done; |
---|
| 2789 | /* Don't check unlimited dimension on PUTs. */ |
---|
| 2790 | if (pg == PUT) |
---|
| 2791 | { |
---|
| 2792 | int stop = 0, d, num_unlim_dim, unlim_dimids[NC_MAX_DIMS]; |
---|
| 2793 | if ((retval = nc_inq_unlimdims(ncid, &num_unlim_dim, unlim_dimids))) |
---|
| 2794 | goto done; |
---|
| 2795 | for (d = 0; d < num_unlim_dim; d++) |
---|
| 2796 | if (var->dimids[idim] == unlim_dimids[d]) |
---|
| 2797 | stop++; |
---|
| 2798 | if (stop) |
---|
| 2799 | break; |
---|
| 2800 | } |
---|
| 2801 | LOG((4, "idim=%d mystart[idim]=%d myedge[idim]=%d dimlen=%d", |
---|
| 2802 | idim, mystart[idim], myedges[idim], dimlen)); |
---|
| 2803 | if (mystart[idim] >= dimlen) |
---|
| 2804 | { |
---|
| 2805 | retval = NC_EINVALCOORDS; |
---|
| 2806 | goto done; |
---|
| 2807 | } |
---|
| 2808 | |
---|
| 2809 | if (mystart[idim] + myedges[idim] > dimlen) |
---|
| 2810 | { |
---|
| 2811 | retval = NC_EEDGE; |
---|
| 2812 | goto done; |
---|
| 2813 | } |
---|
| 2814 | } |
---|
| 2815 | |
---|
| 2816 | /* OK, now we're just getting too fancy... As an optimization, |
---|
| 2817 | adjust I/O parameters when the fastest dimension has unity |
---|
| 2818 | stride both externally and internally. In this case, the user |
---|
| 2819 | could have called a simpler routine |
---|
| 2820 | (i.e. ncvarnc_get_vara_text).*/ |
---|
| 2821 | if (mystride[maxidim] == 1 |
---|
| 2822 | && mymap[maxidim] == 1) |
---|
| 2823 | { |
---|
| 2824 | iocount[maxidim] = myedges[maxidim]; |
---|
| 2825 | mystride[maxidim] = (ptrdiff_t) myedges[maxidim]; |
---|
| 2826 | mymap[maxidim] = (ptrdiff_t) length[maxidim]; |
---|
| 2827 | } |
---|
| 2828 | |
---|
| 2829 | /* Perform I/O. Exit when done. */ |
---|
| 2830 | for (;;) |
---|
| 2831 | { |
---|
| 2832 | int lretval; |
---|
| 2833 | if (pg == GET) |
---|
| 2834 | lretval = nc4_get_vara(nc, ncid, varid, mystart, iocount, xtype, |
---|
| 2835 | is_long, data); |
---|
| 2836 | else |
---|
| 2837 | lretval = nc4_put_vara(nc, ncid, varid, mystart, iocount, xtype, |
---|
| 2838 | is_long, data); |
---|
| 2839 | if (lretval != NC_NOERR |
---|
| 2840 | && (retval == NC_NOERR || lretval != NC_ERANGE)) |
---|
| 2841 | retval = lretval; |
---|
| 2842 | |
---|
| 2843 | /* |
---|
| 2844 | * The following code permutes through the variable s |
---|
| 2845 | * external start-index space and it s internal address |
---|
| 2846 | * space. At the UPC, this algorithm is commonly |
---|
| 2847 | * called "odometer code". |
---|
| 2848 | */ |
---|
| 2849 | idim = maxidim; |
---|
| 2850 | carry: |
---|
| 2851 | data = (char *)data + (mymap[idim] * mem_type_size); |
---|
| 2852 | LOG((4, "data=0x%x mymap[%d]=%d", data, idim, (int)mymap[idim])); |
---|
| 2853 | mystart[idim] += mystride[idim]; |
---|
| 2854 | LOG((4, "mystart[%d]=%d length[%d]=%d", idim, (int)mystart[idim], |
---|
| 2855 | idim, (int)length[idim])); |
---|
| 2856 | if (mystart[idim] == stop[idim]) |
---|
| 2857 | { |
---|
| 2858 | mystart[idim] = start[idim]; |
---|
| 2859 | data = (char *)data - (length[idim] * mem_type_size); |
---|
| 2860 | if (--idim < 0) |
---|
| 2861 | break; /* normal return */ |
---|
| 2862 | goto carry; |
---|
| 2863 | } |
---|
| 2864 | } /* I/O loop */ |
---|
| 2865 | done: |
---|
| 2866 | free(mystart); |
---|
| 2867 | } /* variable is array */ |
---|
| 2868 | |
---|
| 2869 | exit: |
---|
| 2870 | return retval; |
---|
| 2871 | } |
---|
| 2872 | |
---|
| 2873 | /* This function will copy data from one buffer to another, in |
---|
| 2874 | accordance with the types. Range errors will be noted, and the fill |
---|
| 2875 | value used (or the default fill value if none is supplied) for |
---|
| 2876 | values that overflow the type. |
---|
| 2877 | |
---|
| 2878 | I should be able to take this out when HDF5 does the right thing |
---|
| 2879 | with data type conversion. |
---|
| 2880 | |
---|
| 2881 | Ed Hartnett, 11/15/3 |
---|
| 2882 | */ |
---|
| 2883 | |
---|
| 2884 | int |
---|
| 2885 | nc4_convert_type(const void *src, void *dest, |
---|
| 2886 | const nc_type src_type, const nc_type dest_type, |
---|
| 2887 | const size_t len, int *range_error, |
---|
| 2888 | const void *fill_value, int strict_nc3, int src_long, |
---|
| 2889 | int dest_long) |
---|
| 2890 | { |
---|
| 2891 | char *cp, *cp1; |
---|
| 2892 | float *fp, *fp1; |
---|
| 2893 | double *dp, *dp1; |
---|
| 2894 | int *ip, *ip1; |
---|
| 2895 | signed long *lp, *lp1; |
---|
| 2896 | short *sp, *sp1; |
---|
| 2897 | signed char *bp, *bp1; |
---|
| 2898 | unsigned char *ubp, *ubp1; |
---|
| 2899 | unsigned short *usp, *usp1; |
---|
| 2900 | unsigned int *uip, *uip1; |
---|
| 2901 | long long *lip, *lip1; |
---|
| 2902 | unsigned long long *ulip, *ulip1; |
---|
| 2903 | size_t count = 0; |
---|
| 2904 | |
---|
| 2905 | *range_error = 0; |
---|
| 2906 | LOG((3, "nc4_convert_type: len %d src_type %d dest_type %d src_long %d" |
---|
| 2907 | " dest_long %d", len, src_type, dest_type, src_long, dest_long)); |
---|
| 2908 | |
---|
| 2909 | /* OK, this is ugly. If you can think of anything better, I'm open |
---|
| 2910 | to suggestions! |
---|
| 2911 | |
---|
| 2912 | Note that we don't use a default fill value for type |
---|
| 2913 | NC_BYTE. This is because Lord Voldemort cast a nofilleramous spell |
---|
| 2914 | at Harry Potter, but it bounced off his scar and hit the netcdf-4 |
---|
| 2915 | code. |
---|
| 2916 | */ |
---|
| 2917 | switch (src_type) |
---|
| 2918 | { |
---|
| 2919 | case NC_CHAR: |
---|
| 2920 | switch (dest_type) |
---|
| 2921 | { |
---|
| 2922 | case NC_CHAR: |
---|
| 2923 | for (cp = (char *)src, cp1 = dest; count < len; count++) |
---|
| 2924 | *cp1++ = *cp++; |
---|
| 2925 | break; |
---|
| 2926 | default: |
---|
| 2927 | LOG((0, "nc4_convert_type: Uknown destination type.")); |
---|
| 2928 | } |
---|
| 2929 | break; |
---|
| 2930 | case NC_BYTE: |
---|
| 2931 | switch (dest_type) |
---|
| 2932 | { |
---|
| 2933 | case NC_BYTE: |
---|
| 2934 | for (bp = (signed char *)src, bp1 = dest; count < len; count++) |
---|
| 2935 | *bp1++ = *bp++; |
---|
| 2936 | break; |
---|
| 2937 | case NC_UBYTE: |
---|
| 2938 | for (bp = (signed char *)src, ubp = dest; count < len; count++) |
---|
| 2939 | { |
---|
| 2940 | if (*bp < 0) |
---|
| 2941 | (*range_error)++; |
---|
| 2942 | *ubp++ = *bp++; |
---|
| 2943 | } |
---|
| 2944 | break; |
---|
| 2945 | case NC_SHORT: |
---|
| 2946 | for (bp = (signed char *)src, sp = dest; count < len; count++) |
---|
| 2947 | *sp++ = *bp++; |
---|
| 2948 | break; |
---|
| 2949 | case NC_USHORT: |
---|
| 2950 | for (bp = (signed char *)src, usp = dest; count < len; count++) |
---|
| 2951 | { |
---|
| 2952 | if (*bp < 0) |
---|
| 2953 | (*range_error)++; |
---|
| 2954 | *usp++ = *bp++; |
---|
| 2955 | } |
---|
| 2956 | break; |
---|
| 2957 | case NC_INT: |
---|
| 2958 | if (dest_long) |
---|
| 2959 | { |
---|
| 2960 | for (bp = (signed char *)src, lp = dest; count < len; count++) |
---|
| 2961 | *lp++ = *bp++; |
---|
| 2962 | break; |
---|
| 2963 | } |
---|
| 2964 | else |
---|
| 2965 | { |
---|
| 2966 | for (bp = (signed char *)src, ip = dest; count < len; count++) |
---|
| 2967 | *ip++ = *bp++; |
---|
| 2968 | break; |
---|
| 2969 | } |
---|
| 2970 | case NC_UINT: |
---|
| 2971 | for (bp = (signed char *)src, uip = dest; count < len; count++) |
---|
| 2972 | { |
---|
| 2973 | if (*bp < 0) |
---|
| 2974 | (*range_error)++; |
---|
| 2975 | *uip++ = *bp++; |
---|
| 2976 | } |
---|
| 2977 | break; |
---|
| 2978 | case NC_INT64: |
---|
| 2979 | for (bp = (signed char *)src, lip = dest; count < len; count++) |
---|
| 2980 | *lip++ = *bp++; |
---|
| 2981 | break; |
---|
| 2982 | case NC_UINT64: |
---|
| 2983 | for (bp = (signed char *)src, ulip = dest; count < len; count++) |
---|
| 2984 | { |
---|
| 2985 | if (*bp < 0) |
---|
| 2986 | (*range_error)++; |
---|
| 2987 | *ulip++ = *bp++; |
---|
| 2988 | } |
---|
| 2989 | break; |
---|
| 2990 | case NC_FLOAT: |
---|
| 2991 | for (bp = (signed char *)src, fp = dest; count < len; count++) |
---|
| 2992 | *fp++ = *bp++; |
---|
| 2993 | break; |
---|
| 2994 | case NC_DOUBLE: |
---|
| 2995 | for (bp = (signed char *)src, dp = dest; count < len; count++) |
---|
| 2996 | *dp++ = *bp++; |
---|
| 2997 | break; |
---|
| 2998 | default: |
---|
| 2999 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3000 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3001 | return NC_EBADTYPE; |
---|
| 3002 | } |
---|
| 3003 | break; |
---|
| 3004 | case NC_UBYTE: |
---|
| 3005 | switch (dest_type) |
---|
| 3006 | { |
---|
| 3007 | case NC_BYTE: |
---|
| 3008 | for (ubp = (unsigned char *)src, bp = dest; count < len; count++) |
---|
| 3009 | { |
---|
| 3010 | if (!strict_nc3 && *ubp > X_SCHAR_MAX) |
---|
| 3011 | (*range_error)++; |
---|
| 3012 | *bp++ = *ubp++; |
---|
| 3013 | } |
---|
| 3014 | break; |
---|
| 3015 | case NC_SHORT: |
---|
| 3016 | for (ubp = (unsigned char *)src, sp = dest; count < len; count++) |
---|
| 3017 | *sp++ = *ubp++; |
---|
| 3018 | break; |
---|
| 3019 | case NC_UBYTE: |
---|
| 3020 | for (ubp = (unsigned char *)src, ubp1 = dest; count < len; count++) |
---|
| 3021 | *ubp1++ = *ubp++; |
---|
| 3022 | break; |
---|
| 3023 | case NC_USHORT: |
---|
| 3024 | for (ubp = (unsigned char *)src, usp = dest; count < len; count++) |
---|
| 3025 | *usp++ = *ubp++; |
---|
| 3026 | break; |
---|
| 3027 | case NC_INT: |
---|
| 3028 | if (dest_long) |
---|
| 3029 | { |
---|
| 3030 | for (ubp = (unsigned char *)src, lp = dest; count < len; count++) |
---|
| 3031 | *lp++ = *ubp++; |
---|
| 3032 | break; |
---|
| 3033 | } |
---|
| 3034 | else |
---|
| 3035 | { |
---|
| 3036 | for (ubp = (unsigned char *)src, ip = dest; count < len; count++) |
---|
| 3037 | *ip++ = *ubp++; |
---|
| 3038 | break; |
---|
| 3039 | } |
---|
| 3040 | case NC_UINT: |
---|
| 3041 | for (ubp = (unsigned char *)src, uip = dest; count < len; count++) |
---|
| 3042 | *uip++ = *ubp++; |
---|
| 3043 | break; |
---|
| 3044 | case NC_INT64: |
---|
| 3045 | for (ubp = (unsigned char *)src, lip = dest; count < len; count++) |
---|
| 3046 | *lip++ = *ubp++; |
---|
| 3047 | break; |
---|
| 3048 | case NC_UINT64: |
---|
| 3049 | for (ubp = (unsigned char *)src, ulip = dest; count < len; count++) |
---|
| 3050 | *ulip++ = *ubp++; |
---|
| 3051 | break; |
---|
| 3052 | case NC_FLOAT: |
---|
| 3053 | for (ubp = (unsigned char *)src, fp = dest; count < len; count++) |
---|
| 3054 | *fp++ = *ubp++; |
---|
| 3055 | break; |
---|
| 3056 | case NC_DOUBLE: |
---|
| 3057 | for (ubp = (unsigned char *)src, dp = dest; count < len; count++) |
---|
| 3058 | *dp++ = *ubp++; |
---|
| 3059 | break; |
---|
| 3060 | default: |
---|
| 3061 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3062 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3063 | return NC_EBADTYPE; |
---|
| 3064 | } |
---|
| 3065 | break; |
---|
| 3066 | case NC_SHORT: |
---|
| 3067 | switch (dest_type) |
---|
| 3068 | { |
---|
| 3069 | case NC_UBYTE: |
---|
| 3070 | for (sp = (short *)src, ubp = dest; count < len; count++) |
---|
| 3071 | { |
---|
| 3072 | if (*sp > X_UCHAR_MAX || *sp < 0) |
---|
| 3073 | (*range_error)++; |
---|
| 3074 | *ubp++ = *sp++; |
---|
| 3075 | } |
---|
| 3076 | break; |
---|
| 3077 | case NC_BYTE: |
---|
| 3078 | for (sp = (short *)src, bp = dest; count < len; count++) |
---|
| 3079 | { |
---|
| 3080 | if (*sp > X_SCHAR_MAX || *sp < X_SCHAR_MIN) |
---|
| 3081 | (*range_error)++; |
---|
| 3082 | *bp++ = *sp++; |
---|
| 3083 | } |
---|
| 3084 | break; |
---|
| 3085 | case NC_SHORT: |
---|
| 3086 | for (sp = (short *)src, sp1 = dest; count < len; count++) |
---|
| 3087 | *sp1++ = *sp++; |
---|
| 3088 | break; |
---|
| 3089 | case NC_USHORT: |
---|
| 3090 | for (sp = (short *)src, usp = dest; count < len; count++) |
---|
| 3091 | { |
---|
| 3092 | if (*sp < 0) |
---|
| 3093 | (*range_error)++; |
---|
| 3094 | *usp++ = *sp++; |
---|
| 3095 | } |
---|
| 3096 | break; |
---|
| 3097 | case NC_INT: |
---|
| 3098 | if (dest_long) |
---|
| 3099 | for (sp = (short *)src, lp = dest; count < len; count++) |
---|
| 3100 | *lp++ = *sp++; |
---|
| 3101 | else |
---|
| 3102 | for (sp = (short *)src, ip = dest; count < len; count++) |
---|
| 3103 | *ip++ = *sp++; |
---|
| 3104 | break; |
---|
| 3105 | case NC_UINT: |
---|
| 3106 | for (sp = (short *)src, uip = dest; count < len; count++) |
---|
| 3107 | { |
---|
| 3108 | if (*sp < 0) |
---|
| 3109 | (*range_error)++; |
---|
| 3110 | *uip++ = *sp++; |
---|
| 3111 | } |
---|
| 3112 | break; |
---|
| 3113 | case NC_INT64: |
---|
| 3114 | for (sp = (short *)src, lip = dest; count < len; count++) |
---|
| 3115 | *lip++ = *sp++; |
---|
| 3116 | break; |
---|
| 3117 | case NC_UINT64: |
---|
| 3118 | for (sp = (short *)src, ulip = dest; count < len; count++) |
---|
| 3119 | { |
---|
| 3120 | if (*sp < 0) |
---|
| 3121 | (*range_error)++; |
---|
| 3122 | *ulip++ = *sp++; |
---|
| 3123 | } |
---|
| 3124 | break; |
---|
| 3125 | case NC_FLOAT: |
---|
| 3126 | for (sp = (short *)src, fp = dest; count < len; count++) |
---|
| 3127 | *fp++ = *sp++; |
---|
| 3128 | break; |
---|
| 3129 | case NC_DOUBLE: |
---|
| 3130 | for (sp = (short *)src, dp = dest; count < len; count++) |
---|
| 3131 | *dp++ = *sp++; |
---|
| 3132 | break; |
---|
| 3133 | default: |
---|
| 3134 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3135 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3136 | return NC_EBADTYPE; |
---|
| 3137 | } |
---|
| 3138 | break; |
---|
| 3139 | case NC_USHORT: |
---|
| 3140 | switch (dest_type) |
---|
| 3141 | { |
---|
| 3142 | case NC_UBYTE: |
---|
| 3143 | for (usp = (unsigned short *)src, ubp = dest; count < len; count++) |
---|
| 3144 | { |
---|
| 3145 | if (*usp > X_UCHAR_MAX) |
---|
| 3146 | (*range_error)++; |
---|
| 3147 | *ubp++ = *usp++; |
---|
| 3148 | } |
---|
| 3149 | break; |
---|
| 3150 | case NC_BYTE: |
---|
| 3151 | for (usp = (unsigned short *)src, bp = dest; count < len; count++) |
---|
| 3152 | { |
---|
| 3153 | if (*usp > X_SCHAR_MAX) |
---|
| 3154 | (*range_error)++; |
---|
| 3155 | *bp++ = *usp++; |
---|
| 3156 | } |
---|
| 3157 | break; |
---|
| 3158 | case NC_SHORT: |
---|
| 3159 | for (usp = (unsigned short *)src, sp = dest; count < len; count++) |
---|
| 3160 | { |
---|
| 3161 | if (*usp > X_SHORT_MAX) |
---|
| 3162 | (*range_error)++; |
---|
| 3163 | *sp++ = *usp++; |
---|
| 3164 | } |
---|
| 3165 | break; |
---|
| 3166 | case NC_USHORT: |
---|
| 3167 | for (usp = (unsigned short *)src, usp1 = dest; count < len; count++) |
---|
| 3168 | *usp1++ = *usp++; |
---|
| 3169 | break; |
---|
| 3170 | case NC_INT: |
---|
| 3171 | if (dest_long) |
---|
| 3172 | for (usp = (unsigned short *)src, lp = dest; count < len; count++) |
---|
| 3173 | *lp++ = *usp++; |
---|
| 3174 | else |
---|
| 3175 | for (usp = (unsigned short *)src, ip = dest; count < len; count++) |
---|
| 3176 | *ip++ = *usp++; |
---|
| 3177 | break; |
---|
| 3178 | case NC_UINT: |
---|
| 3179 | for (usp = (unsigned short *)src, uip = dest; count < len; count++) |
---|
| 3180 | *uip++ = *usp++; |
---|
| 3181 | break; |
---|
| 3182 | case NC_INT64: |
---|
| 3183 | for (usp = (unsigned short *)src, lip = dest; count < len; count++) |
---|
| 3184 | *lip++ = *usp++; |
---|
| 3185 | break; |
---|
| 3186 | case NC_UINT64: |
---|
| 3187 | for (usp = (unsigned short *)src, ulip = dest; count < len; count++) |
---|
| 3188 | *ulip++ = *usp++; |
---|
| 3189 | break; |
---|
| 3190 | case NC_FLOAT: |
---|
| 3191 | for (usp = (unsigned short *)src, fp = dest; count < len; count++) |
---|
| 3192 | *fp++ = *usp++; |
---|
| 3193 | break; |
---|
| 3194 | case NC_DOUBLE: |
---|
| 3195 | for (usp = (unsigned short *)src, dp = dest; count < len; count++) |
---|
| 3196 | *dp++ = *usp++; |
---|
| 3197 | break; |
---|
| 3198 | default: |
---|
| 3199 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3200 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3201 | return NC_EBADTYPE; |
---|
| 3202 | } |
---|
| 3203 | break; |
---|
| 3204 | case NC_INT: |
---|
| 3205 | if (src_long) |
---|
| 3206 | { |
---|
| 3207 | switch (dest_type) |
---|
| 3208 | { |
---|
| 3209 | case NC_UBYTE: |
---|
| 3210 | for (lp = (long *)src, ubp = dest; count < len; count++) |
---|
| 3211 | { |
---|
| 3212 | if (*lp > X_UCHAR_MAX || *lp < 0) |
---|
| 3213 | (*range_error)++; |
---|
| 3214 | *ubp++ = *lp++; |
---|
| 3215 | } |
---|
| 3216 | break; |
---|
| 3217 | case NC_BYTE: |
---|
| 3218 | for (lp = (long *)src, bp = dest; count < len; count++) |
---|
| 3219 | { |
---|
| 3220 | if (*lp > X_SCHAR_MAX || *lp < X_SCHAR_MIN) |
---|
| 3221 | (*range_error)++; |
---|
| 3222 | *bp++ = *lp++; |
---|
| 3223 | } |
---|
| 3224 | break; |
---|
| 3225 | case NC_SHORT: |
---|
| 3226 | for (lp = (long *)src, sp = dest; count < len; count++) |
---|
| 3227 | { |
---|
| 3228 | if (*lp > X_SHORT_MAX || *lp < X_SHORT_MIN) |
---|
| 3229 | (*range_error)++; |
---|
| 3230 | *sp++ = *lp++; |
---|
| 3231 | } |
---|
| 3232 | break; |
---|
| 3233 | case NC_USHORT: |
---|
| 3234 | for (lp = (long *)src, usp = dest; count < len; count++) |
---|
| 3235 | { |
---|
| 3236 | if (*lp > X_USHORT_MAX || *lp < 0) |
---|
| 3237 | (*range_error)++; |
---|
| 3238 | *usp++ = *lp++; |
---|
| 3239 | } |
---|
| 3240 | break; |
---|
| 3241 | case NC_INT: /* src is long */ |
---|
| 3242 | if (dest_long) |
---|
| 3243 | { |
---|
| 3244 | for (lp = (long *)src, lp1 = dest; count < len; count++) |
---|
| 3245 | { |
---|
| 3246 | if (*lp > X_LONG_MAX || *lp < X_LONG_MIN) |
---|
| 3247 | (*range_error)++; |
---|
| 3248 | *lp1++ = *lp++; |
---|
| 3249 | } |
---|
| 3250 | } |
---|
| 3251 | else /* dest is int */ |
---|
| 3252 | { |
---|
| 3253 | for (lp = (long *)src, ip = dest; count < len; count++) |
---|
| 3254 | { |
---|
| 3255 | if (*lp > X_INT_MAX || *lp < X_INT_MIN) |
---|
| 3256 | (*range_error)++; |
---|
| 3257 | *ip++ = *lp++; |
---|
| 3258 | } |
---|
| 3259 | } |
---|
| 3260 | break; |
---|
| 3261 | case NC_UINT: |
---|
| 3262 | for (lp = (long *)src, uip = dest; count < len; count++) |
---|
| 3263 | { |
---|
| 3264 | if (*lp > X_UINT_MAX || *lp < 0) |
---|
| 3265 | (*range_error)++; |
---|
| 3266 | *uip++ = *lp++; |
---|
| 3267 | } |
---|
| 3268 | break; |
---|
| 3269 | case NC_INT64: |
---|
| 3270 | for (lp = (long *)src, lip = dest; count < len; count++) |
---|
| 3271 | *lip++ = *lp++; |
---|
| 3272 | break; |
---|
| 3273 | case NC_UINT64: |
---|
| 3274 | for (lp = (long *)src, ulip = dest; count < len; count++) |
---|
| 3275 | { |
---|
| 3276 | if (*lp < 0) |
---|
| 3277 | (*range_error)++; |
---|
| 3278 | *ulip++ = *lp++; |
---|
| 3279 | } |
---|
| 3280 | break; |
---|
| 3281 | case NC_FLOAT: |
---|
| 3282 | for (lp = (long *)src, fp = dest; count < len; count++) |
---|
| 3283 | *fp++ = *lp++; |
---|
| 3284 | break; |
---|
| 3285 | case NC_DOUBLE: |
---|
| 3286 | for (lp = (long *)src, dp = dest; count < len; count++) |
---|
| 3287 | *dp++ = *lp++; |
---|
| 3288 | break; |
---|
| 3289 | default: |
---|
| 3290 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3291 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3292 | return NC_EBADTYPE; |
---|
| 3293 | } |
---|
| 3294 | } |
---|
| 3295 | else |
---|
| 3296 | { |
---|
| 3297 | switch (dest_type) |
---|
| 3298 | { |
---|
| 3299 | case NC_UBYTE: |
---|
| 3300 | for (ip = (int *)src, ubp = dest; count < len; count++) |
---|
| 3301 | { |
---|
| 3302 | if (*ip > X_UCHAR_MAX || *ip < 0) |
---|
| 3303 | (*range_error)++; |
---|
| 3304 | *ubp++ = *ip++; |
---|
| 3305 | } |
---|
| 3306 | break; |
---|
| 3307 | case NC_BYTE: |
---|
| 3308 | for (ip = (int *)src, bp = dest; count < len; count++) |
---|
| 3309 | { |
---|
| 3310 | if (*ip > X_SCHAR_MAX || *ip < X_SCHAR_MIN) |
---|
| 3311 | (*range_error)++; |
---|
| 3312 | *bp++ = *ip++; |
---|
| 3313 | } |
---|
| 3314 | break; |
---|
| 3315 | case NC_SHORT: |
---|
| 3316 | for (ip = (int *)src, sp = dest; count < len; count++) |
---|
| 3317 | { |
---|
| 3318 | if (*ip > X_SHORT_MAX || *ip < X_SHORT_MIN) |
---|
| 3319 | (*range_error)++; |
---|
| 3320 | *sp++ = *ip++; |
---|
| 3321 | } |
---|
| 3322 | break; |
---|
| 3323 | case NC_USHORT: |
---|
| 3324 | for (ip = (int *)src, usp = dest; count < len; count++) |
---|
| 3325 | { |
---|
| 3326 | if (*ip > X_USHORT_MAX || *ip < 0) |
---|
| 3327 | (*range_error)++; |
---|
| 3328 | *usp++ = *ip++; |
---|
| 3329 | } |
---|
| 3330 | break; |
---|
| 3331 | case NC_INT: /* src is int */ |
---|
| 3332 | if (dest_long) |
---|
| 3333 | { |
---|
| 3334 | for (ip = (int *)src, lp1 = dest; count < len; count++) |
---|
| 3335 | { |
---|
| 3336 | if (*ip > X_LONG_MAX || *ip < X_LONG_MIN) |
---|
| 3337 | (*range_error)++; |
---|
| 3338 | *lp1++ = *ip++; |
---|
| 3339 | } |
---|
| 3340 | } |
---|
| 3341 | else /* dest is int */ |
---|
| 3342 | { |
---|
| 3343 | for (ip = (int *)src, ip1 = dest; count < len; count++) |
---|
| 3344 | { |
---|
| 3345 | if (*ip > X_INT_MAX || *ip < X_INT_MIN) |
---|
| 3346 | (*range_error)++; |
---|
| 3347 | *ip1++ = *ip++; |
---|
| 3348 | } |
---|
| 3349 | } |
---|
| 3350 | break; |
---|
| 3351 | case NC_UINT: |
---|
| 3352 | for (ip = (int *)src, uip = dest; count < len; count++) |
---|
| 3353 | { |
---|
| 3354 | if (*ip > X_UINT_MAX || *ip < 0) |
---|
| 3355 | (*range_error)++; |
---|
| 3356 | *uip++ = *ip++; |
---|
| 3357 | } |
---|
| 3358 | break; |
---|
| 3359 | case NC_INT64: |
---|
| 3360 | for (ip = (int *)src, lip = dest; count < len; count++) |
---|
| 3361 | *lip++ = *ip++; |
---|
| 3362 | break; |
---|
| 3363 | case NC_UINT64: |
---|
| 3364 | for (ip = (int *)src, ulip = dest; count < len; count++) |
---|
| 3365 | { |
---|
| 3366 | if (*ip < 0) |
---|
| 3367 | (*range_error)++; |
---|
| 3368 | *ulip++ = *ip++; |
---|
| 3369 | } |
---|
| 3370 | break; |
---|
| 3371 | case NC_FLOAT: |
---|
| 3372 | for (ip = (int *)src, fp = dest; count < len; count++) |
---|
| 3373 | *fp++ = *ip++; |
---|
| 3374 | break; |
---|
| 3375 | case NC_DOUBLE: |
---|
| 3376 | for (ip = (int *)src, dp = dest; count < len; count++) |
---|
| 3377 | *dp++ = *ip++; |
---|
| 3378 | break; |
---|
| 3379 | default: |
---|
| 3380 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3381 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3382 | return NC_EBADTYPE; |
---|
| 3383 | } |
---|
| 3384 | } |
---|
| 3385 | break; |
---|
| 3386 | case NC_UINT: |
---|
| 3387 | switch (dest_type) |
---|
| 3388 | { |
---|
| 3389 | case NC_UBYTE: |
---|
| 3390 | for (uip = (unsigned int *)src, ubp = dest; count < len; count++) |
---|
| 3391 | { |
---|
| 3392 | if (*uip > X_UCHAR_MAX) |
---|
| 3393 | (*range_error)++; |
---|
| 3394 | *ubp++ = *uip++; |
---|
| 3395 | } |
---|
| 3396 | break; |
---|
| 3397 | case NC_BYTE: |
---|
| 3398 | for (uip = (unsigned int *)src, bp = dest; count < len; count++) |
---|
| 3399 | { |
---|
| 3400 | if (*uip > X_SCHAR_MAX) |
---|
| 3401 | (*range_error)++; |
---|
| 3402 | *bp++ = *uip++; |
---|
| 3403 | } |
---|
| 3404 | break; |
---|
| 3405 | case NC_SHORT: |
---|
| 3406 | for (uip = (unsigned int *)src, sp = dest; count < len; count++) |
---|
| 3407 | { |
---|
| 3408 | if (*uip > X_SHORT_MAX) |
---|
| 3409 | (*range_error)++; |
---|
| 3410 | *sp++ = *uip++; |
---|
| 3411 | } |
---|
| 3412 | break; |
---|
| 3413 | case NC_USHORT: |
---|
| 3414 | for (uip = (unsigned int *)src, usp = dest; count < len; count++) |
---|
| 3415 | { |
---|
| 3416 | if (*uip > X_USHORT_MAX) |
---|
| 3417 | (*range_error)++; |
---|
| 3418 | *usp++ = *uip++; |
---|
| 3419 | } |
---|
| 3420 | break; |
---|
| 3421 | case NC_INT: |
---|
| 3422 | if (dest_long) |
---|
| 3423 | for (uip = (unsigned int *)src, lp = dest; count < len; count++) |
---|
| 3424 | { |
---|
| 3425 | if (*uip > X_LONG_MAX) |
---|
| 3426 | (*range_error)++; |
---|
| 3427 | *lp++ = *uip++; |
---|
| 3428 | } |
---|
| 3429 | else |
---|
| 3430 | for (uip = (unsigned int *)src, ip = dest; count < len; count++) |
---|
| 3431 | { |
---|
| 3432 | if (*uip > X_INT_MAX) |
---|
| 3433 | (*range_error)++; |
---|
| 3434 | *ip++ = *uip++; |
---|
| 3435 | } |
---|
| 3436 | break; |
---|
| 3437 | case NC_UINT: |
---|
| 3438 | for (uip = (unsigned int *)src, uip1 = dest; count < len; count++) |
---|
| 3439 | { |
---|
| 3440 | if (*uip > X_UINT_MAX) |
---|
| 3441 | (*range_error)++; |
---|
| 3442 | *uip1++ = *uip++; |
---|
| 3443 | } |
---|
| 3444 | break; |
---|
| 3445 | case NC_INT64: |
---|
| 3446 | for (uip = (unsigned int *)src, lip = dest; count < len; count++) |
---|
| 3447 | *lip++ = *uip++; |
---|
| 3448 | break; |
---|
| 3449 | case NC_UINT64: |
---|
| 3450 | for (uip = (unsigned int *)src, ulip = dest; count < len; count++) |
---|
| 3451 | *ulip++ = *uip++; |
---|
| 3452 | break; |
---|
| 3453 | case NC_FLOAT: |
---|
| 3454 | for (uip = (unsigned int *)src, fp = dest; count < len; count++) |
---|
| 3455 | *fp++ = *uip++; |
---|
| 3456 | break; |
---|
| 3457 | case NC_DOUBLE: |
---|
| 3458 | for (uip = (unsigned int *)src, dp = dest; count < len; count++) |
---|
| 3459 | *dp++ = *uip++; |
---|
| 3460 | break; |
---|
| 3461 | default: |
---|
| 3462 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3463 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3464 | return NC_EBADTYPE; |
---|
| 3465 | } |
---|
| 3466 | break; |
---|
| 3467 | case NC_INT64: |
---|
| 3468 | switch (dest_type) |
---|
| 3469 | { |
---|
| 3470 | case NC_UBYTE: |
---|
| 3471 | for (lip = (long long *)src, ubp = dest; count < len; count++) |
---|
| 3472 | { |
---|
| 3473 | if (*lip > X_UCHAR_MAX || *lip < 0) |
---|
| 3474 | (*range_error)++; |
---|
| 3475 | *ubp++ = *lip++; |
---|
| 3476 | } |
---|
| 3477 | break; |
---|
| 3478 | case NC_BYTE: |
---|
| 3479 | for (lip = (long long *)src, bp = dest; count < len; count++) |
---|
| 3480 | { |
---|
| 3481 | if (*lip > X_SCHAR_MAX || *lip < X_SCHAR_MIN) |
---|
| 3482 | (*range_error)++; |
---|
| 3483 | *bp++ = *lip++; |
---|
| 3484 | } |
---|
| 3485 | break; |
---|
| 3486 | case NC_SHORT: |
---|
| 3487 | for (lip = (long long *)src, sp = dest; count < len; count++) |
---|
| 3488 | { |
---|
| 3489 | if (*lip > X_SHORT_MAX || *lip < X_SHORT_MIN) |
---|
| 3490 | (*range_error)++; |
---|
| 3491 | *sp++ = *lip++; |
---|
| 3492 | } |
---|
| 3493 | break; |
---|
| 3494 | case NC_USHORT: |
---|
| 3495 | for (lip = (long long *)src, usp = dest; count < len; count++) |
---|
| 3496 | { |
---|
| 3497 | if (*lip > X_USHORT_MAX || *lip < 0) |
---|
| 3498 | (*range_error)++; |
---|
| 3499 | *usp++ = *lip++; |
---|
| 3500 | } |
---|
| 3501 | break; |
---|
| 3502 | case NC_UINT: |
---|
| 3503 | for (lip = (long long *)src, uip = dest; count < len; count++) |
---|
| 3504 | { |
---|
| 3505 | if (*lip > X_UINT_MAX || *lip < 0) |
---|
| 3506 | (*range_error)++; |
---|
| 3507 | *uip++ = *lip++; |
---|
| 3508 | } |
---|
| 3509 | break; |
---|
| 3510 | case NC_INT: |
---|
| 3511 | if (dest_long) |
---|
| 3512 | for (lip = (long long *)src, lp = dest; count < len; count++) |
---|
| 3513 | { |
---|
| 3514 | if (*lip > X_LONG_MAX || *lip < X_LONG_MIN) |
---|
| 3515 | (*range_error)++; |
---|
| 3516 | *lp++ = *lip++; |
---|
| 3517 | } |
---|
| 3518 | else |
---|
| 3519 | for (lip = (long long *)src, ip = dest; count < len; count++) |
---|
| 3520 | { |
---|
| 3521 | if (*lip > X_INT_MAX || *lip < X_INT_MIN) |
---|
| 3522 | (*range_error)++; |
---|
| 3523 | *ip++ = *lip++; |
---|
| 3524 | } |
---|
| 3525 | break; |
---|
| 3526 | case NC_INT64: |
---|
| 3527 | for (lip = (long long *)src, lip1 = dest; count < len; count++) |
---|
| 3528 | *lip1++ = *lip++; |
---|
| 3529 | break; |
---|
| 3530 | case NC_UINT64: |
---|
| 3531 | for (lip = (long long *)src, ulip = dest; count < len; count++) |
---|
| 3532 | { |
---|
| 3533 | if (*lip < 0) |
---|
| 3534 | (*range_error)++; |
---|
| 3535 | *ulip++ = *lip++; |
---|
| 3536 | } |
---|
| 3537 | break; |
---|
| 3538 | case NC_FLOAT: |
---|
| 3539 | for (lip = (long long *)src, fp = dest; count < len; count++) |
---|
| 3540 | *fp++ = *lip++; |
---|
| 3541 | break; |
---|
| 3542 | case NC_DOUBLE: |
---|
| 3543 | for (lip = (long long *)src, dp = dest; count < len; count++) |
---|
| 3544 | *dp++ = *lip++; |
---|
| 3545 | break; |
---|
| 3546 | default: |
---|
| 3547 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3548 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3549 | return NC_EBADTYPE; |
---|
| 3550 | } |
---|
| 3551 | break; |
---|
| 3552 | case NC_UINT64: |
---|
| 3553 | switch (dest_type) |
---|
| 3554 | { |
---|
| 3555 | case NC_UBYTE: |
---|
| 3556 | for (ulip = (unsigned long long *)src, ubp = dest; count < len; count++) |
---|
| 3557 | { |
---|
| 3558 | if (*ulip > X_UCHAR_MAX) |
---|
| 3559 | (*range_error)++; |
---|
| 3560 | *ubp++ = *ulip++; |
---|
| 3561 | } |
---|
| 3562 | break; |
---|
| 3563 | case NC_BYTE: |
---|
| 3564 | for (ulip = (unsigned long long *)src, bp = dest; count < len; count++) |
---|
| 3565 | { |
---|
| 3566 | if (*ulip > X_SCHAR_MAX) |
---|
| 3567 | (*range_error)++; |
---|
| 3568 | *bp++ = *ulip++; |
---|
| 3569 | } |
---|
| 3570 | break; |
---|
| 3571 | case NC_SHORT: |
---|
| 3572 | for (ulip = (unsigned long long *)src, sp = dest; count < len; count++) |
---|
| 3573 | { |
---|
| 3574 | if (*ulip > X_SHORT_MAX) |
---|
| 3575 | (*range_error)++; |
---|
| 3576 | *sp++ = *ulip++; |
---|
| 3577 | } |
---|
| 3578 | break; |
---|
| 3579 | case NC_USHORT: |
---|
| 3580 | for (ulip = (unsigned long long *)src, usp = dest; count < len; count++) |
---|
| 3581 | { |
---|
| 3582 | if (*ulip > X_USHORT_MAX) |
---|
| 3583 | (*range_error)++; |
---|
| 3584 | *usp++ = *ulip++; |
---|
| 3585 | } |
---|
| 3586 | break; |
---|
| 3587 | case NC_UINT: |
---|
| 3588 | for (ulip = (unsigned long long *)src, uip = dest; count < len; count++) |
---|
| 3589 | { |
---|
| 3590 | if (*ulip > X_UINT_MAX) |
---|
| 3591 | (*range_error)++; |
---|
| 3592 | *uip++ = *ulip++; |
---|
| 3593 | } |
---|
| 3594 | break; |
---|
| 3595 | case NC_INT: |
---|
| 3596 | if (dest_long) |
---|
| 3597 | for (ulip = (unsigned long long *)src, lp = dest; count < len; count++) |
---|
| 3598 | { |
---|
| 3599 | if (*ulip > X_LONG_MAX) |
---|
| 3600 | (*range_error)++; |
---|
| 3601 | *lp++ = *ulip++; |
---|
| 3602 | } |
---|
| 3603 | else |
---|
| 3604 | for (ulip = (unsigned long long *)src, ip = dest; count < len; count++) |
---|
| 3605 | { |
---|
| 3606 | if (*ulip > X_INT_MAX) |
---|
| 3607 | (*range_error)++; |
---|
| 3608 | *ip++ = *ulip++; |
---|
| 3609 | } |
---|
| 3610 | break; |
---|
| 3611 | case NC_INT64: |
---|
| 3612 | for (ulip = (unsigned long long *)src, lip = dest; count < len; count++) |
---|
| 3613 | { |
---|
| 3614 | if (*ulip > X_INT64_MAX) |
---|
| 3615 | (*range_error)++; |
---|
| 3616 | *lip++ = *ulip++; |
---|
| 3617 | } |
---|
| 3618 | break; |
---|
| 3619 | case NC_UINT64: |
---|
| 3620 | for (ulip = (unsigned long long *)src, ulip1 = dest; count < len; count++) |
---|
| 3621 | *ulip1++ = *ulip++; |
---|
| 3622 | break; |
---|
| 3623 | case NC_FLOAT: |
---|
| 3624 | for (ulip = (unsigned long long *)src, fp = dest; count < len; count++) |
---|
| 3625 | *fp++ = *ulip++; |
---|
| 3626 | break; |
---|
| 3627 | case NC_DOUBLE: |
---|
| 3628 | for (ulip = (unsigned long long *)src, dp = dest; count < len; count++) |
---|
| 3629 | *dp++ = *ulip++; |
---|
| 3630 | break; |
---|
| 3631 | default: |
---|
| 3632 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3633 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3634 | return NC_EBADTYPE; |
---|
| 3635 | } |
---|
| 3636 | break; |
---|
| 3637 | case NC_FLOAT: |
---|
| 3638 | switch (dest_type) |
---|
| 3639 | { |
---|
| 3640 | case NC_UBYTE: |
---|
| 3641 | for (fp = (float *)src, ubp = dest; count < len; count++) |
---|
| 3642 | { |
---|
| 3643 | if (*fp > X_UCHAR_MAX || *fp < 0) |
---|
| 3644 | (*range_error)++; |
---|
| 3645 | *ubp++ = *fp++; |
---|
| 3646 | } |
---|
| 3647 | break; |
---|
| 3648 | case NC_BYTE: |
---|
| 3649 | for (fp = (float *)src, bp = dest; count < len; count++) |
---|
| 3650 | { |
---|
| 3651 | if (*fp > (double)X_SCHAR_MAX || *fp < (double)X_SCHAR_MIN) |
---|
| 3652 | (*range_error)++; |
---|
| 3653 | *bp++ = *fp++; |
---|
| 3654 | } |
---|
| 3655 | break; |
---|
| 3656 | case NC_SHORT: |
---|
| 3657 | for (fp = (float *)src, sp = dest; count < len; count++) |
---|
| 3658 | { |
---|
| 3659 | if (*fp > (double)X_SHORT_MAX || *fp < (double)X_SHORT_MIN) |
---|
| 3660 | (*range_error)++; |
---|
| 3661 | *sp++ = *fp++; |
---|
| 3662 | } |
---|
| 3663 | break; |
---|
| 3664 | case NC_USHORT: |
---|
| 3665 | for (fp = (float *)src, usp = dest; count < len; count++) |
---|
| 3666 | { |
---|
| 3667 | if (*fp > X_USHORT_MAX || *fp < 0) |
---|
| 3668 | (*range_error)++; |
---|
| 3669 | *usp++ = *fp++; |
---|
| 3670 | } |
---|
| 3671 | break; |
---|
| 3672 | case NC_UINT: |
---|
| 3673 | for (fp = (float *)src, uip = dest; count < len; count++) |
---|
| 3674 | { |
---|
| 3675 | if (*fp > X_UINT_MAX || *fp < 0) |
---|
| 3676 | (*range_error)++; |
---|
| 3677 | *uip++ = *fp++; |
---|
| 3678 | } |
---|
| 3679 | break; |
---|
| 3680 | case NC_INT: |
---|
| 3681 | if (dest_long) |
---|
| 3682 | for (fp = (float *)src, lp = dest; count < len; count++) |
---|
| 3683 | { |
---|
| 3684 | if (*fp > (double)X_LONG_MAX || *fp < (double)X_LONG_MIN) |
---|
| 3685 | (*range_error)++; |
---|
| 3686 | *lp++ = *fp++; |
---|
| 3687 | } |
---|
| 3688 | else |
---|
| 3689 | for (fp = (float *)src, ip = dest; count < len; count++) |
---|
| 3690 | { |
---|
| 3691 | if (*fp > (double)X_INT_MAX || *fp < (double)X_INT_MIN) |
---|
| 3692 | (*range_error)++; |
---|
| 3693 | *ip++ = *fp++; |
---|
| 3694 | } |
---|
| 3695 | break; |
---|
| 3696 | case NC_INT64: |
---|
| 3697 | for (fp = (float *)src, lip = dest; count < len; count++) |
---|
| 3698 | { |
---|
| 3699 | if (*fp > X_INT64_MAX || *fp <X_INT64_MIN) |
---|
| 3700 | (*range_error)++; |
---|
| 3701 | *lip++ = *fp++; |
---|
| 3702 | } |
---|
| 3703 | break; |
---|
| 3704 | case NC_UINT64: |
---|
| 3705 | for (fp = (float *)src, lip = dest; count < len; count++) |
---|
| 3706 | { |
---|
| 3707 | if (*fp > X_UINT64_MAX || *fp < 0) |
---|
| 3708 | (*range_error)++; |
---|
| 3709 | *lip++ = *fp++; |
---|
| 3710 | } |
---|
| 3711 | break; |
---|
| 3712 | case NC_FLOAT: |
---|
| 3713 | for (fp = (float *)src, fp1 = dest; count < len; count++) |
---|
| 3714 | { |
---|
| 3715 | /* if (*fp > X_FLOAT_MAX || *fp < X_FLOAT_MIN) |
---|
| 3716 | (*range_error)++;*/ |
---|
| 3717 | *fp1++ = *fp++; |
---|
| 3718 | } |
---|
| 3719 | break; |
---|
| 3720 | case NC_DOUBLE: |
---|
| 3721 | for (fp = (float *)src, dp = dest; count < len; count++) |
---|
| 3722 | *dp++ = *fp++; |
---|
| 3723 | break; |
---|
| 3724 | default: |
---|
| 3725 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3726 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3727 | return NC_EBADTYPE; |
---|
| 3728 | } |
---|
| 3729 | break; |
---|
| 3730 | case NC_DOUBLE: |
---|
| 3731 | switch (dest_type) |
---|
| 3732 | { |
---|
| 3733 | case NC_UBYTE: |
---|
| 3734 | for (dp = (double *)src, ubp = dest; count < len; count++) |
---|
| 3735 | { |
---|
| 3736 | if (*dp > X_UCHAR_MAX || *dp < 0) |
---|
| 3737 | (*range_error)++; |
---|
| 3738 | *ubp++ = *dp++; |
---|
| 3739 | } |
---|
| 3740 | break; |
---|
| 3741 | case NC_BYTE: |
---|
| 3742 | for (dp = (double *)src, bp = dest; count < len; count++) |
---|
| 3743 | { |
---|
| 3744 | if (*dp > X_SCHAR_MAX || *dp < X_SCHAR_MIN) |
---|
| 3745 | (*range_error)++; |
---|
| 3746 | *bp++ = *dp++; |
---|
| 3747 | } |
---|
| 3748 | break; |
---|
| 3749 | case NC_SHORT: |
---|
| 3750 | for (dp = (double *)src, sp = dest; count < len; count++) |
---|
| 3751 | { |
---|
| 3752 | if (*dp > X_SHORT_MAX || *dp < X_SHORT_MIN) |
---|
| 3753 | (*range_error)++; |
---|
| 3754 | *sp++ = *dp++; |
---|
| 3755 | } |
---|
| 3756 | break; |
---|
| 3757 | case NC_USHORT: |
---|
| 3758 | for (dp = (double *)src, usp = dest; count < len; count++) |
---|
| 3759 | { |
---|
| 3760 | if (*dp > X_USHORT_MAX || *dp < 0) |
---|
| 3761 | (*range_error)++; |
---|
| 3762 | *usp++ = *dp++; |
---|
| 3763 | } |
---|
| 3764 | break; |
---|
| 3765 | case NC_UINT: |
---|
| 3766 | for (dp = (double *)src, uip = dest; count < len; count++) |
---|
| 3767 | { |
---|
| 3768 | if (*dp > X_UINT_MAX || *dp < 0) |
---|
| 3769 | (*range_error)++; |
---|
| 3770 | *uip++ = *dp++; |
---|
| 3771 | } |
---|
| 3772 | break; |
---|
| 3773 | case NC_INT: |
---|
| 3774 | if (dest_long) |
---|
| 3775 | for (dp = (double *)src, lp = dest; count < len; count++) |
---|
| 3776 | { |
---|
| 3777 | if (*dp > X_LONG_MAX || *dp < X_LONG_MIN) |
---|
| 3778 | (*range_error)++; |
---|
| 3779 | *lp++ = *dp++; |
---|
| 3780 | } |
---|
| 3781 | else |
---|
| 3782 | for (dp = (double *)src, ip = dest; count < len; count++) |
---|
| 3783 | { |
---|
| 3784 | if (*dp > X_INT_MAX || *dp < X_INT_MIN) |
---|
| 3785 | (*range_error)++; |
---|
| 3786 | *ip++ = *dp++; |
---|
| 3787 | } |
---|
| 3788 | break; |
---|
| 3789 | case NC_INT64: |
---|
| 3790 | for (dp = (double *)src, lip = dest; count < len; count++) |
---|
| 3791 | { |
---|
| 3792 | if (*dp > X_INT64_MAX || *dp < X_INT64_MIN) |
---|
| 3793 | (*range_error)++; |
---|
| 3794 | *lip++ = *dp++; |
---|
| 3795 | } |
---|
| 3796 | break; |
---|
| 3797 | case NC_UINT64: |
---|
| 3798 | for (dp = (double *)src, lip = dest; count < len; count++) |
---|
| 3799 | { |
---|
| 3800 | if (*dp > X_UINT64_MAX || *dp < 0) |
---|
| 3801 | (*range_error)++; |
---|
| 3802 | *lip++ = *dp++; |
---|
| 3803 | } |
---|
| 3804 | break; |
---|
| 3805 | case NC_FLOAT: |
---|
| 3806 | for (dp = (double *)src, fp = dest; count < len; count++) |
---|
| 3807 | { |
---|
| 3808 | if (*dp > X_FLOAT_MAX || *dp < X_FLOAT_MIN) |
---|
| 3809 | (*range_error)++; |
---|
| 3810 | *fp++ = *dp++; |
---|
| 3811 | } |
---|
| 3812 | break; |
---|
| 3813 | case NC_DOUBLE: |
---|
| 3814 | for (dp = (double *)src, dp1 = dest; count < len; count++) |
---|
| 3815 | { |
---|
| 3816 | /* if (*dp > X_DOUBLE_MAX || *dp < X_DOUBLE_MIN) */ |
---|
| 3817 | /* (*range_error)++; */ |
---|
| 3818 | *dp1++ = *dp++; |
---|
| 3819 | } |
---|
| 3820 | break; |
---|
| 3821 | default: |
---|
| 3822 | LOG((0, "nc4_convert_type: unexpected dest type. " |
---|
| 3823 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3824 | return NC_EBADTYPE; |
---|
| 3825 | } |
---|
| 3826 | break; |
---|
| 3827 | default: |
---|
| 3828 | LOG((0, "nc4_convert_type: unexpected src type. " |
---|
| 3829 | "src_type %d, dest_type %d", src_type, dest_type)); |
---|
| 3830 | return NC_EBADTYPE; |
---|
| 3831 | } |
---|
| 3832 | return NC_NOERR; |
---|
| 3833 | } |
---|
| 3834 | |
---|
| 3835 | /* In our first pass through the data, we may have encountered |
---|
| 3836 | * variables before encountering their dimscales, so go through the |
---|
| 3837 | * vars in this file and make sure we've got a dimid for each. */ |
---|
| 3838 | int |
---|
| 3839 | nc4_rec_match_dimscales(NC_GRP_INFO_T *grp) |
---|
| 3840 | { |
---|
| 3841 | NC_GRP_INFO_T *g; |
---|
| 3842 | NC_VAR_INFO_T *var; |
---|
| 3843 | NC_DIM_INFO_T *dim; |
---|
| 3844 | H5G_stat_t statbuf; |
---|
| 3845 | int d, finished; |
---|
| 3846 | int retval = NC_NOERR; |
---|
| 3847 | |
---|
| 3848 | assert(grp && grp->name); |
---|
| 3849 | LOG((4, "nc4_rec_match_dimscales: grp->name %s", grp->name)); |
---|
| 3850 | |
---|
| 3851 | /* Perform var dimscale match for child groups. */ |
---|
| 3852 | for (g = grp->children; g; g = g->next) |
---|
| 3853 | if ((retval = nc4_rec_match_dimscales(g))) |
---|
| 3854 | return retval; |
---|
| 3855 | |
---|
| 3856 | /* Check all the vars in this group. If they have dimscale info, |
---|
| 3857 | * try and find a dimension for them. */ |
---|
| 3858 | for (var = grp->var; var; var = var->next) |
---|
| 3859 | { |
---|
| 3860 | /* Are there dimscales for this variable? */ |
---|
| 3861 | if (var->dimscale_hdf5_objids) |
---|
| 3862 | { |
---|
| 3863 | for (d = 0; d < var->ndims; d++) |
---|
| 3864 | { |
---|
| 3865 | LOG((5, "nc4_rec_match_dimscales: var %s has dimscale info...", var->name)); |
---|
| 3866 | /* Look at all the dims in this group to see if they |
---|
| 3867 | * match. */ |
---|
| 3868 | finished = 0; |
---|
| 3869 | for (g = grp; g && !finished; g = g->parent) |
---|
| 3870 | { |
---|
| 3871 | for (dim = g->dim; dim; dim = dim->next) |
---|
| 3872 | { |
---|
| 3873 | if (!dim->hdf_dimscaleid) |
---|
| 3874 | return NC_EDIMMETA; |
---|
| 3875 | if (H5Gget_objinfo(dim->hdf_dimscaleid, ".", 1, &statbuf) < 0) |
---|
| 3876 | return NC_EHDFERR; |
---|
| 3877 | if (var->dimscale_hdf5_objids[d].fileno[0] == statbuf.fileno[0] && |
---|
| 3878 | var->dimscale_hdf5_objids[d].objno[0] == statbuf.objno[0] && |
---|
| 3879 | var->dimscale_hdf5_objids[d].fileno[1] == statbuf.fileno[1] && |
---|
| 3880 | var->dimscale_hdf5_objids[d].objno[1] == statbuf.objno[1]) |
---|
| 3881 | { |
---|
| 3882 | LOG((4, "nc4_rec_match_dimscales: for dimension %d, found dim %s", |
---|
| 3883 | d, dim->name)); |
---|
| 3884 | var->dimids[d] = dim->dimid; |
---|
| 3885 | finished++; |
---|
| 3886 | break; |
---|
| 3887 | } |
---|
| 3888 | } /* next dim */ |
---|
| 3889 | } /* next grp */ |
---|
| 3890 | LOG((5, "nc4_rec_match_dimscales: dimid for this dimscale is %d", var->xtype)); |
---|
| 3891 | } /* next var->dim */ |
---|
| 3892 | } |
---|
| 3893 | else |
---|
| 3894 | { |
---|
| 3895 | if (!var->dimscale) |
---|
| 3896 | { |
---|
| 3897 | hid_t spaceid = 0; |
---|
| 3898 | hsize_t *h5dimlen = NULL, *h5dimlenmax = NULL; |
---|
| 3899 | int dataset_ndims; |
---|
| 3900 | |
---|
| 3901 | /* No dimscales for this var! Invent phony dimensions. */ |
---|
| 3902 | |
---|
| 3903 | /* Find the space information for this dimension. */ |
---|
| 3904 | if ((spaceid = H5Dget_space(var->hdf_datasetid)) < 0) |
---|
| 3905 | return NC_EHDFERR; |
---|
| 3906 | #ifdef EXTRA_TESTS |
---|
| 3907 | num_spaces++; |
---|
| 3908 | #endif |
---|
| 3909 | |
---|
| 3910 | /* Get the len of each dim in the space. */ |
---|
| 3911 | if (var->ndims) |
---|
| 3912 | { |
---|
| 3913 | if (!(h5dimlen = malloc(var->ndims * sizeof(hsize_t)))) |
---|
| 3914 | return NC_ENOMEM; |
---|
| 3915 | if (!(h5dimlenmax = malloc(var->ndims * sizeof(hsize_t)))) |
---|
| 3916 | return NC_ENOMEM; |
---|
| 3917 | if ((dataset_ndims = H5Sget_simple_extent_dims(spaceid, h5dimlen, |
---|
| 3918 | h5dimlenmax)) < 0) |
---|
| 3919 | return NC_EHDFERR; |
---|
| 3920 | if (dataset_ndims != var->ndims) |
---|
| 3921 | return NC_EHDFERR; |
---|
| 3922 | } |
---|
| 3923 | else |
---|
| 3924 | { |
---|
| 3925 | /* Make sure it's scalar. */ |
---|
| 3926 | if (H5Sget_simple_extent_type(spaceid) != H5S_SCALAR) |
---|
| 3927 | return NC_EHDFERR; |
---|
| 3928 | } |
---|
| 3929 | |
---|
| 3930 | /* Release the space object. */ |
---|
| 3931 | if (H5Sclose(spaceid) < 0) |
---|
| 3932 | return NC_EHDFERR; |
---|
| 3933 | #ifdef EXTRA_TESTS |
---|
| 3934 | num_spaces--; |
---|
| 3935 | #endif |
---|
| 3936 | |
---|
| 3937 | /* Create a phony dimension for each dimension in the |
---|
| 3938 | * dataset, unless there already is one the correct |
---|
| 3939 | * size. */ |
---|
| 3940 | for (d = 0; d < var->ndims; d++) |
---|
| 3941 | { |
---|
| 3942 | NC_DIM_INFO_T *dim = NULL; |
---|
| 3943 | char phony_dim_name[NC_MAX_NAME + 1]; |
---|
| 3944 | |
---|
| 3945 | /* Is there already a phony dimension of the correct size? */ |
---|
| 3946 | for (dim = grp->dim; dim; dim = dim->next) |
---|
| 3947 | if ((dim->len == h5dimlen[d]) && |
---|
| 3948 | ((h5dimlenmax[d] == H5S_UNLIMITED && dim->unlimited) || |
---|
| 3949 | (h5dimlenmax[d] != H5S_UNLIMITED && !dim->unlimited))) |
---|
| 3950 | break; |
---|
| 3951 | |
---|
| 3952 | /* Didn't find a phony dim? Then create one. */ |
---|
| 3953 | if (!dim) |
---|
| 3954 | { |
---|
| 3955 | LOG((3, "nc4_rec_match_dimscales: creating phony dim for var %s", var->name)); |
---|
| 3956 | if ((retval = nc4_dim_list_add(&grp->dim))) |
---|
| 3957 | return retval; |
---|
| 3958 | grp->ndims++; |
---|
| 3959 | dim = grp->dim; |
---|
| 3960 | dim->dimid = grp->file->nc4_info->next_dimid++; |
---|
| 3961 | sprintf(phony_dim_name, "phony_dim_%d", dim->dimid); |
---|
| 3962 | if (!(dim->name = malloc((strlen(phony_dim_name) + 1) * sizeof(char)))) |
---|
| 3963 | return NC_ENOMEM; |
---|
| 3964 | strcpy(dim->name, phony_dim_name); |
---|
| 3965 | dim->len = h5dimlen[d]; |
---|
| 3966 | if (h5dimlenmax[d] == H5S_UNLIMITED) |
---|
| 3967 | dim->unlimited = 1; |
---|
| 3968 | } |
---|
| 3969 | |
---|
| 3970 | /* The variable must remember the dimid. */ |
---|
| 3971 | var->dimids[d] = dim->dimid; |
---|
| 3972 | } /* next dim */ |
---|
| 3973 | |
---|
| 3974 | /* Free the memory we malloced. */ |
---|
| 3975 | free(h5dimlen); |
---|
| 3976 | free(h5dimlenmax); |
---|
| 3977 | } |
---|
| 3978 | } |
---|
| 3979 | } |
---|
| 3980 | |
---|
| 3981 | return retval; |
---|
| 3982 | } |
---|
| 3983 | |
---|
| 3984 | /* Get the length, in bytes, of one element of a type in memory. */ |
---|
| 3985 | int |
---|
| 3986 | nc4_get_typelen_mem(NC_HDF5_FILE_INFO_T *h5, nc_type xtype, int is_long, |
---|
| 3987 | size_t *len) |
---|
| 3988 | { |
---|
| 3989 | NC_TYPE_INFO_T *type; |
---|
| 3990 | int retval; |
---|
| 3991 | |
---|
| 3992 | LOG((4, "nc4_get_typelen_mem xtype: %d", xtype)); |
---|
| 3993 | assert(len); |
---|
| 3994 | |
---|
| 3995 | /* If this is an atomic type, the answer is easy. */ |
---|
| 3996 | switch (xtype) |
---|
| 3997 | { |
---|
| 3998 | case NC_BYTE: |
---|
| 3999 | case NC_CHAR: |
---|
| 4000 | case NC_UBYTE: |
---|
| 4001 | *len = sizeof(char); |
---|
| 4002 | return NC_NOERR; |
---|
| 4003 | case NC_SHORT: |
---|
| 4004 | case NC_USHORT: |
---|
| 4005 | *len = sizeof(short); |
---|
| 4006 | return NC_NOERR; |
---|
| 4007 | case NC_INT: |
---|
| 4008 | case NC_UINT: |
---|
| 4009 | if (is_long) |
---|
| 4010 | *len = sizeof(long); |
---|
| 4011 | else |
---|
| 4012 | *len = sizeof(int); |
---|
| 4013 | return NC_NOERR; |
---|
| 4014 | case NC_FLOAT: |
---|
| 4015 | *len = sizeof(float); |
---|
| 4016 | return NC_NOERR; |
---|
| 4017 | case NC_DOUBLE: |
---|
| 4018 | *len = sizeof(double); |
---|
| 4019 | return NC_NOERR; |
---|
| 4020 | case NC_INT64: |
---|
| 4021 | case NC_UINT64: |
---|
| 4022 | *len = sizeof(long long); |
---|
| 4023 | return NC_NOERR; |
---|
| 4024 | case NC_STRING: |
---|
| 4025 | *len = 0; /* can't even guess! */ |
---|
| 4026 | return NC_NOERR; |
---|
| 4027 | } |
---|
| 4028 | |
---|
| 4029 | /* See if var is compound type. */ |
---|
| 4030 | if ((retval = nc4_find_type(h5, xtype, &type))) |
---|
| 4031 | return retval; |
---|
| 4032 | |
---|
| 4033 | if (!type) |
---|
| 4034 | return NC_EBADTYPE; |
---|
| 4035 | |
---|
| 4036 | *len = type->size; |
---|
| 4037 | |
---|
| 4038 | LOG((5, "type->size ", type->size)); |
---|
| 4039 | |
---|
| 4040 | return NC_NOERR; |
---|
| 4041 | } |
---|