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/* zeisstopnm.c - convert a Zeiss confocal image into a portable anymap
**
** Copyright (C) 1993 by Oliver Trepte, oliver@fysik4.kth.se
**
** Derived from the pbmplus package,
** Copyright (C) 1989 by Jef Poskanzer.
**
** Permission to use, copy, modify, and distribute this software and its
** documentation for any purpose and without fee is hereby granted, provided
** that the above copyright notice appear in all copies and that both that
** copyright notice and this permission notice appear in supporting
** documentation. This software is provided "as is" without express or
** implied warranty.
**
**
** This conversion utility is based on a mail from Keith Bartels to
** the confocal mail group (confocal@ubvm.cc.buffalo.edu) in June 1993.
**
** I'm including here a description of the Zeiss confocal image format. I
** obtained this over the phone on 4-10-1991 form a Zeiss Engineer, and from
** what I hear, it is probably not correct for the new scopes.
** Zeiss puts its header information and the end of the file, so I call it
** a tailer. This is nice because most conversions programs that work with raw
** image files will read the image simply ignore the tailer. The file contains:
**
** The image data: NxN 1 byte pixels (where N is the number of pixels in a
** scan line) in a standard raw rastering order.
**
** The tailer contains:
** 256 bytes: the blue Look-Up-Table (LUT)
** 256 bytes: the red LUT
** 256 bytes: the green LUT
** 8 bytes: empty
** 2 bytes: no. of columns in the image. hi-byte, low-byte
** 2 bytes: no. of rows in the image.
** 2 bytes: x-position of upper left pixel (0 for 512x512 images)
** 2 bytes: y-position of upper left pixel (0 for 512x512 images)
** 16 bytes: empty
** 32 bytes: test from upper right corner of image, ASCII.
** 128 bytes: text from the bottom two rows of the screen, ASCII.
** 64 bytes: reserved
** -----------
** 1024 bytes TOTAL
**
** So, image files contain NxN + 1024 bytes.
**
** Keith Bartels
** keith@VISION.EE.UTEXAS.EDU
**
*/
#include "pnm.h"
int
main( argc, argv )
int argc;
char* argv[];
{
FILE* ifp;
int argn, row, i;
register int col;
int rows=0, cols=0;
int format = 0;
xel* xelrow;
register xel* xP;
char* buf = NULL;
unsigned char *lutr, *lutg, *lutb;
long nread = 0;
unsigned char* byteP;
const char* const usage = "[-pgm|-ppm] [Zeissfile]";
pnm_init( &argc, argv );
argn = 1;
while ( argn < argc && argv[argn][0] == '-' && argv[argn][1] != '\0' )
{
if ( pm_keymatch( argv[argn], "-pgm", 3 ) )
{
if ( argn >= argc )
pm_usage( usage );
format = PGM_TYPE;
}
else if ( pm_keymatch( argv[argn], "-ppm", 3 ) )
{
if ( argn >= argc )
pm_usage( usage );
format = PPM_TYPE;
}
else
pm_usage( usage );
++argn;
}
if ( argn < argc )
{
ifp = pm_openr( argv[argn] );
++argn;
}
else
ifp = stdin;
if ( argn != argc )
pm_usage( usage );
/* Read the image to a buffer */
buf = pm_read_unknown_size( ifp, &nread );
/* Check the format of the file */
if (nread <=1024)
pm_error( "Input file not in Zeiss format (too small)" );
lutg = (unsigned char *)buf+(nread-1024+512);
lutr = (unsigned char *)buf+(nread-1024+256);
lutb = (unsigned char *)buf+(nread-1024);
cols = ((unsigned char) buf[nread-1024+768+8]) +
(((unsigned char) buf[nread-1024+768+9]) << 8);
rows = ((unsigned char) buf[nread-1024+768+10]) +
(((unsigned char) buf[nread-1024+768+11]) << 8);
if ( cols <= 0 )
pm_error( "invalid cols: %d", cols );
if ( rows <= 0 )
pm_error( "invalid rows: %d", rows );
if (cols*rows != nread-1024)
pm_error( "Hmm, %d rows, %d cols, %ld total image size",
rows, cols, nread-1024);
/* Choose pgm or ppm */
/* If the LUTs all contain 0,1,2,3,4..255, it is a pgm file */
for (i=0; i<256 && format==0; i++)
if (lutr[i] != i || lutg[i] != i || lutb[i] != i)
format = PPM_TYPE;
if (format == 0)
format = PGM_TYPE;
pnm_writepnminit( stdout, cols, rows, 255, format, 0 );
xelrow = pnm_allocrow( cols );
byteP = (unsigned char *) buf;
switch ( PNM_FORMAT_TYPE(format) )
{
case PGM_TYPE:
pm_message( "writing PGM file, %d rows %d columns", rows, cols );
break;
case PPM_TYPE:
pm_message( "writing PPM file, %d rows %d columns", rows, cols );
break;
default:
pm_error( "shouldn't happen" );
}
for ( row = 0; row < rows; ++row )
{
switch ( PNM_FORMAT_TYPE(format) )
{
case PGM_TYPE:
for ( col = 0, xP = xelrow; col < cols; ++col, ++xP, ++byteP )
PNM_ASSIGN1( *xP, *byteP );
break;
case PPM_TYPE:
for ( col = 0, xP = xelrow; col < cols; ++col, ++xP, ++byteP )
PPM_ASSIGN( *xP, lutr[*byteP], lutg[*byteP], lutb[*byteP] );
break;
default:
pm_error( "shouldn't happen" );
}
pnm_writepnmrow( stdout, xelrow, cols, 255, format, 0 );
}
free( buf );
pm_close( stdout );
exit( 0 );
}
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