604 lines
15 KiB
C
604 lines
15 KiB
C
/* Read a Analyze file. Old-style header (so called 7.5 format).
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*
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* 3/8/05
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* - dbh.h header from Ralph Myers
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* 22/8/05
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* - better byteswapper
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* 12/5/09
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* - fix signed/unsigned warning
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* 13/1/09
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* - try harder not to generate error messages in "isanalyze"
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* 4/2/10
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* - gtkdoc
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* 14/12/11
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* - redo as a set of fns ready for wrapping in a new-style class
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*/
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/*
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This file is part of VIPS.
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VIPS is free software; you can redistribute it and/or modify
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it under the terms of the GNU Lesser General Public License as published by
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the Free Software Foundation; either version 2 of the License, or
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(at your option) any later version.
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This program is distributed in the hope that it will be useful,
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but WITHOUT ANY WARRANTY; without even the implied warranty of
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MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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GNU Lesser General Public License for more details.
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You should have received a copy of the GNU Lesser General Public License
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along with this program; if not, write to the Free Software
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Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA
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02110-1301 USA
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*/
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/*
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These files are distributed with VIPS - http://www.vips.ecs.soton.ac.uk
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*/
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/*
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#define DEBUG
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*/
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#ifdef HAVE_CONFIG_H
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#include <config.h>
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#endif /*HAVE_CONFIG_H*/
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#include <glib/gi18n-lib.h>
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#ifdef HAVE_ANALYZE
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#include <ctype.h>
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#include <stdio.h>
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#include <string.h>
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#include <ctype.h>
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#include <stdlib.h>
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#include <vips/vips.h>
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#include <vips/internal.h>
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#include "dbh.h"
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#include "pforeign.h"
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/* The things we can have in header fields. Can't use GType, since we want a
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* static value we can use in a declaration.
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*/
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typedef enum {
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BYTE,
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SHORT,
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INT,
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FLOAT,
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STRING
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} Type;
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/* A field in the dsr header.
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*/
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typedef struct {
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const char *name; /* Eg. "header_key.sizeof_hdr" */
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Type type;
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glong offset; /* Offset in struct */
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int len; /* Sizeof ... useful for string types */
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} Field;
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static Field dsr_header[] = {
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{ "dsr-header_key.sizeof_hdr", INT,
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G_STRUCT_OFFSET( struct dsr, hk.sizeof_hdr ), 4 },
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{ "dsr-header_key.data_type", STRING,
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G_STRUCT_OFFSET( struct dsr, hk.data_type ), 10 },
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{ "dsr-header_key.db_name", STRING,
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G_STRUCT_OFFSET( struct dsr, hk.db_name ), 18 },
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{ "dsr-header_key.extents", INT,
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G_STRUCT_OFFSET( struct dsr, hk.extents ), 4 },
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{ "dsr-header_key.session_error", SHORT,
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G_STRUCT_OFFSET( struct dsr, hk.session_error ), 2 },
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{ "dsr-header_key.regular", BYTE,
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G_STRUCT_OFFSET( struct dsr, hk.regular ), 1 },
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{ "dsr-header_key.hkey_un0", BYTE,
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G_STRUCT_OFFSET( struct dsr, hk.hkey_un0 ), 1 },
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{ "dsr-image_dimension.dim[0]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[0] ), 2 },
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{ "dsr-image_dimension.dim[1]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[1] ), 2 },
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{ "dsr-image_dimension.dim[2]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[2] ), 2 },
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{ "dsr-image_dimension.dim[3]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[3] ), 2 },
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{ "dsr-image_dimension.dim[4]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[4] ), 2 },
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{ "dsr-image_dimension.dim[5]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[5] ), 2 },
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{ "dsr-image_dimension.dim[6]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[6] ), 2 },
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{ "dsr-image_dimension.dim[7]", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim[7] ), 2 },
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{ "dsr-image_dimension.vox_units[0]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.vox_units[0] ), 1 },
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{ "dsr-image_dimension.vox_units[1]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.vox_units[1] ), 1 },
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{ "dsr-image_dimension.vox_units[2]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.vox_units[2] ), 1 },
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{ "dsr-image_dimension.vox_units[3]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.vox_units[3] ), 1 },
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{ "dsr-image_dimension.cal_units[0]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[0] ), 1 },
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{ "dsr-image_dimension.cal_units[1]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[1] ), 1 },
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{ "dsr-image_dimension.cal_units[2]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[2] ), 1 },
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{ "dsr-image_dimension.cal_units[3]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[3] ), 1 },
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{ "dsr-image_dimension.cal_units[4]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[4] ), 1 },
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{ "dsr-image_dimension.cal_units[5]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[5] ), 1 },
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{ "dsr-image_dimension.cal_units[6]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[6] ), 1 },
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{ "dsr-image_dimension.cal_units[7]", BYTE,
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G_STRUCT_OFFSET( struct dsr, dime.cal_units[7] ), 1 },
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{ "dsr-image_dimension.data_type", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.datatype ), 2 },
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{ "dsr-image_dimension.bitpix", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.bitpix ), 2 },
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{ "dsr-image_dimension.dim_un0", SHORT,
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G_STRUCT_OFFSET( struct dsr, dime.dim_un0 ), 2 },
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{ "dsr-image_dimension.pixdim[0]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[0] ), 4 },
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{ "dsr-image_dimension.pixdim[1]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[1] ), 4 },
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{ "dsr-image_dimension.pixdim[2]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[2] ), 4 },
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{ "dsr-image_dimension.pixdim[3]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[3] ), 4 },
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{ "dsr-image_dimension.pixdim[4]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[4] ), 4 },
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{ "dsr-image_dimension.pixdim[5]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[5] ), 4 },
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{ "dsr-image_dimension.pixdim[6]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[6] ), 4 },
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{ "dsr-image_dimension.pixdim[7]", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.pixdim[7] ), 4 },
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{ "dsr-image_dimension.vox_offset", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.vox_offset ), 4 },
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{ "dsr-image_dimension.cal_max", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.cal_max ), 4 },
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{ "dsr-image_dimension.cal_min", FLOAT,
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G_STRUCT_OFFSET( struct dsr, dime.cal_min ), 4 },
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{ "dsr-image_dimension.compressed", INT,
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G_STRUCT_OFFSET( struct dsr, dime.compressed ), 4 },
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{ "dsr-image_dimension.verified", INT,
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G_STRUCT_OFFSET( struct dsr, dime.verified ), 4 },
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{ "dsr-image_dimension.glmax", INT,
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G_STRUCT_OFFSET( struct dsr, dime.glmax ), 4 },
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{ "dsr-image_dimension.glmin", INT,
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G_STRUCT_OFFSET( struct dsr, dime.glmin ), 4 },
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{ "dsr-data_history.descrip", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.descrip ), 80 },
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{ "dsr-data_history.aux_file", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.aux_file ), 24 },
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{ "dsr-data_history.orient", BYTE,
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G_STRUCT_OFFSET( struct dsr, hist.orient ), 1 },
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{ "dsr-data_history.originator", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.originator ), 10 },
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{ "dsr-data_history.generated", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.generated ), 10 },
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{ "dsr-data_history.scannum", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.scannum ), 10 },
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{ "dsr-data_history.patient_id", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.patient_id ), 10 },
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{ "dsr-data_history.exp_date", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.exp_date ), 10 },
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{ "dsr-data_history.exp_time", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.exp_time ), 10 },
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{ "dsr-data_history.hist_un0", STRING,
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G_STRUCT_OFFSET( struct dsr, hist.hist_un0 ), 3 },
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{ "dsr-data_history.views", INT,
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G_STRUCT_OFFSET( struct dsr, hist.views ), 4 },
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{ "dsr-data_history.vols_added", INT,
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G_STRUCT_OFFSET( struct dsr, hist.vols_added ), 4 },
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{ "dsr-data_history.start_field", INT,
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G_STRUCT_OFFSET( struct dsr, hist.start_field ), 4 },
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{ "dsr-data_history.field_skip", INT,
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G_STRUCT_OFFSET( struct dsr, hist.field_skip ), 4 },
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{ "dsr-data_history.omax", INT,
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G_STRUCT_OFFSET( struct dsr, hist.omax ), 4 },
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{ "dsr-data_history.omin", INT,
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G_STRUCT_OFFSET( struct dsr, hist.omin ), 4 },
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{ "dsr-data_history.smax", INT,
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G_STRUCT_OFFSET( struct dsr, hist.smax ), 4 },
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{ "dsr-data_history.smin", INT,
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G_STRUCT_OFFSET( struct dsr, hist.smin ), 4 }
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};
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/* Given a filename, generate the names for the header and the image data.
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*
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* Eg.
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* "fred" -> "fred.hdr", "fred.img"
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* "fred.img" -> "fred.hdr", "fred.img"
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*/
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static void
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generate_filenames( const char *path, char *header, char *image )
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{
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const char *olds[] = { ".img", ".hdr" };
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vips__change_suffix( path, header, FILENAME_MAX, ".hdr", olds, 2 );
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vips__change_suffix( path, image, FILENAME_MAX, ".img", olds, 2 );
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}
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/* str is a str which may not be NULL-terminated. Return a pointer to a static
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* buffer with a NULL-terminated version so we can safely printf() the string.
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* Also, make sure the string is plain ascii.
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*/
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static char *
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getstr( int mx, const char *str )
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{
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static char buf[256];
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int i;
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g_assert( mx < 256 );
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vips_strncpy( buf, str, mx );
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buf[mx]= '\0';
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/* How annoying, patient_id has some funny ctrlchars in that mess up
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* xml encode later.
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*/
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for( i = 0; i < mx && buf[i]; i++ )
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if( !isascii( buf[i] ) || buf[i] < 32 )
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buf[i] = '@';
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return( buf );
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}
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#ifdef DEBUG
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static void
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print_dsr( struct dsr *d )
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{
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int i;
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for( i = 0; i < VIPS_NUMBER( dsr_header ); i++ ) {
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printf( "%s = ", dsr_header[i].name );
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switch( dsr_header[i].type ) {
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case BYTE:
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printf( "%d\n", G_STRUCT_MEMBER( char, d,
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dsr_header[i].offset ) );
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break;
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case SHORT:
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printf( "%d\n", G_STRUCT_MEMBER( short, d,
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dsr_header[i].offset ) );
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break;
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case INT:
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printf( "%d\n", G_STRUCT_MEMBER( int, d,
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dsr_header[i].offset ) );
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break;
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case FLOAT:
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printf( "%g\n", G_STRUCT_MEMBER( float, d,
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dsr_header[i].offset ) );
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break;
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case STRING:
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printf( "\"%s\"\n", getstr( dsr_header[i].len,
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&G_STRUCT_MEMBER( char, d,
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dsr_header[i].offset ) ) );
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break;
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default:
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g_assert_not_reached();
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}
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}
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}
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#endif /*DEBUG*/
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static struct dsr *
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read_header( const char *header )
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{
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struct dsr *d;
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size_t len;
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if( !(d = (struct dsr *) vips__file_read_name( header, NULL, &len )) )
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return( NULL );
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if( len != sizeof( struct dsr ) ) {
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vips_error( "analyze2vips",
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"%s", _( "header file size incorrect" ) );
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g_free( d );
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return( NULL );
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}
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/* Ouch! Should check at configure time I guess.
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*/
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g_assert( sizeof( struct dsr ) == 348 );
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/* dsr headers are always SPARC byte order (MSB first). Do we need to
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* swap?
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*/
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if( !vips_amiMSBfirst() ) {
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int i;
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for( i = 0; i < VIPS_NUMBER( dsr_header ); i++ ) {
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unsigned char *p;
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switch( dsr_header[i].type ) {
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case SHORT:
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p = &G_STRUCT_MEMBER( unsigned char, d,
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dsr_header[i].offset );
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vips__copy_2byte( TRUE, p, p );
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break;
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case INT:
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case FLOAT:
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p = &G_STRUCT_MEMBER( unsigned char, d,
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dsr_header[i].offset );
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vips__copy_4byte( TRUE, p, p );
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break;
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case BYTE:
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case STRING:
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break;
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default:
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g_assert_not_reached();
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}
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}
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}
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if( (int) len != d->hk.sizeof_hdr ) {
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vips_error( "analyze2vips",
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"%s", _( "header size incorrect" ) );
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g_free( d );
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return( NULL );
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}
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return( d );
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}
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/* Try to get VIPS header properties from a dsr.
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*/
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static int
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get_vips_properties( struct dsr *d,
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int *width, int *height, int *bands, VipsBandFormat *fmt )
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{
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int i;
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if( d->dime.dim[0] < 2 || d->dime.dim[0] > 7 ) {
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vips_error( "analyze2vips",
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_( "%d-dimensional images not supported" ),
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d->dime.dim[0] );
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return( -1 );
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}
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/* Size of base 2d images.
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*/
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*width = d->dime.dim[1];
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*height = d->dime.dim[2];
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for( i = 3; i <= d->dime.dim[0]; i++ )
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*height *= d->dime.dim[i];
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/* Check it's a datatype we can handle.
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*/
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switch( d->dime.datatype ) {
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case DT_UNSIGNED_CHAR:
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*bands = 1;
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*fmt = VIPS_FORMAT_UCHAR;
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break;
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case DT_SIGNED_SHORT:
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*bands = 1;
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*fmt = VIPS_FORMAT_SHORT;
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break;
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case DT_SIGNED_INT:
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*bands = 1;
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*fmt = VIPS_FORMAT_INT;
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break;
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case DT_FLOAT:
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*bands = 1;
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*fmt = VIPS_FORMAT_FLOAT;
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break;
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case DT_COMPLEX:
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*bands = 1;
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*fmt = VIPS_FORMAT_COMPLEX;
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break;
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case DT_DOUBLE:
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*bands = 1;
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*fmt = VIPS_FORMAT_DOUBLE;
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break;
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case DT_RGB:
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*bands = 3;
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*fmt = VIPS_FORMAT_UCHAR;
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break;
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default:
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vips_error( "analyze2vips",
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_( "datatype %d not supported" ), d->dime.datatype );
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return( -1 );
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}
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#ifdef DEBUG
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printf( "get_vips_properties: width = %d\n", *width );
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printf( "get_vips_properties: height = %d\n", *height );
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printf( "get_vips_properties: bands = %d\n", *bands );
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printf( "get_vips_properties: fmt = %d\n", *fmt );
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#endif /*DEBUG*/
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return( 0 );
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}
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static void
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attach_meta( VipsImage *out, struct dsr *d )
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{
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int i;
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vips_image_set_blob( out, "dsr",
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(VipsCallbackFn) vips_area_free_cb, d, d->hk.sizeof_hdr );
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for( i = 0; i < VIPS_NUMBER( dsr_header ); i++ ) {
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switch( dsr_header[i].type ) {
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case BYTE:
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vips_image_set_int( out, dsr_header[i].name,
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G_STRUCT_MEMBER( char, d,
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dsr_header[i].offset ) );
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break;
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case SHORT:
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vips_image_set_int( out, dsr_header[i].name,
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G_STRUCT_MEMBER( short, d,
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dsr_header[i].offset ) );
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break;
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case INT:
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vips_image_set_int( out, dsr_header[i].name,
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G_STRUCT_MEMBER( int, d,
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dsr_header[i].offset ) );
|
|
break;
|
|
|
|
case FLOAT:
|
|
vips_image_set_double( out, dsr_header[i].name,
|
|
G_STRUCT_MEMBER( float, d,
|
|
dsr_header[i].offset ) );
|
|
break;
|
|
|
|
case STRING:
|
|
vips_image_set_string( out, dsr_header[i].name,
|
|
getstr( dsr_header[i].len,
|
|
&G_STRUCT_MEMBER( char, d,
|
|
dsr_header[i].offset ) ) );
|
|
break;
|
|
|
|
default:
|
|
g_assert_not_reached();
|
|
}
|
|
}
|
|
}
|
|
|
|
int
|
|
vips__isanalyze( const char *filename )
|
|
{
|
|
char header[FILENAME_MAX];
|
|
char image[FILENAME_MAX];
|
|
struct dsr *d;
|
|
int width, height;
|
|
int bands;
|
|
VipsBandFormat fmt;
|
|
int result;
|
|
|
|
generate_filenames( filename, header, image );
|
|
if( !vips_existsf( "%s", header ) )
|
|
return( 0 );
|
|
|
|
vips_error_freeze();
|
|
d = read_header( header );
|
|
vips_error_thaw();
|
|
if( !d )
|
|
return( 0 );
|
|
|
|
#ifdef DEBUG
|
|
print_dsr( d );
|
|
#endif /*DEBUG*/
|
|
|
|
vips_error_freeze();
|
|
result = get_vips_properties( d, &width, &height, &bands, &fmt );
|
|
vips_error_thaw();
|
|
|
|
g_free( d );
|
|
|
|
return( result == 0 );
|
|
}
|
|
|
|
int
|
|
vips__analyze_read_header( const char *filename, VipsImage *out )
|
|
{
|
|
char header[FILENAME_MAX];
|
|
char image[FILENAME_MAX];
|
|
struct dsr *d;
|
|
int width, height;
|
|
int bands;
|
|
VipsBandFormat fmt;
|
|
|
|
generate_filenames( filename, header, image );
|
|
if( !(d = read_header( header )) )
|
|
return( -1 );
|
|
|
|
#ifdef DEBUG
|
|
print_dsr( d );
|
|
#endif /*DEBUG*/
|
|
|
|
if( get_vips_properties( d, &width, &height, &bands, &fmt ) ) {
|
|
g_free( d );
|
|
return( -1 );
|
|
}
|
|
|
|
vips_image_init_fields( out,
|
|
width, height, bands, fmt,
|
|
VIPS_CODING_NONE,
|
|
bands == 1 ?
|
|
VIPS_INTERPRETATION_B_W : VIPS_INTERPRETATION_sRGB,
|
|
1.0, 1.0 );
|
|
|
|
attach_meta( out, d );
|
|
|
|
if( vips_image_pipelinev( out, VIPS_DEMAND_STYLE_THINSTRIP, NULL ) )
|
|
return( -1 );
|
|
|
|
return( 0 );
|
|
}
|
|
|
|
int
|
|
vips__analyze_read( const char *filename, VipsImage *out )
|
|
{
|
|
char header[FILENAME_MAX];
|
|
char image[FILENAME_MAX];
|
|
struct dsr *d;
|
|
VipsImage *x = vips_image_new();
|
|
VipsImage **t = (VipsImage **)
|
|
vips_object_local_array( VIPS_OBJECT( x ), 3 );
|
|
int width, height;
|
|
int bands;
|
|
VipsBandFormat fmt;
|
|
|
|
generate_filenames( filename, header, image );
|
|
if( !(d = read_header( header )) ) {
|
|
g_object_unref( x );
|
|
return( -1 );
|
|
}
|
|
attach_meta( out, d );
|
|
|
|
#ifdef DEBUG
|
|
print_dsr( d );
|
|
#endif /*DEBUG*/
|
|
|
|
if( get_vips_properties( d, &width, &height, &bands, &fmt ) ||
|
|
!(t[0] = vips_image_new_from_file_raw( image, width, height,
|
|
bands * vips_format_sizeof( fmt ), 0 )) ) {
|
|
g_object_unref( x );
|
|
return( -1 );
|
|
}
|
|
|
|
if( vips_copy( t[0], &t[1], "bands", bands, "format", fmt, NULL ) ||
|
|
vips__byteswap_bool( t[1], &t[2], !vips_amiMSBfirst() ) ||
|
|
vips_image_write( t[2], out ) ) {
|
|
g_object_unref( x );
|
|
return( -1 );
|
|
}
|
|
g_object_unref( x );
|
|
|
|
return( 0 );
|
|
}
|
|
|
|
#endif /*HAVE_ANALYZE*/
|