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Name

mar345xf - program for transforming mar research spiral files from a

345 mm scanner into Cartesian images

Synopsis

mar345rxf [ -h ] [ -rm ] [ -old ] [ -w ] [ -nb NB_CODE ] [ -e SUFFIX ] [ -sc FAC ] [ -nfrm NFRM ] spiral_root [ ffrm lfrm [SUFFIX] ]

Description

mar345xf is a standalone program for transforming raw spiral images collected on a 345 mm mar research Imaging Plate Detector System into images on a Cartesian grid. The program applies corrections for non-uniform response, etc.

Options

-rm
Removes spiral images after transformation. By default, spiral images are retained.
-old
Output format is old 300 mm scanner output (i.e. uncompressed ".image" ). The default is to use "PCK" compression, i.e. about 70 % compression as compared to uncompressed "image" files.
-w
Wait with transformation for next spiral image to become available. The image number will be increased after succesful transformation.
-e SUFFIX
The file name extension "SUFFIX" will be used. By default, extension "s2300" is used.
-sc FAC
Applies a multiplation factor to spiral data.
-nb NB_CODE
Uses correction file NB_CODE instead of the defaults ($MARTABLEDIR/mar2300.$MAR_SCANNER_NO or $MARTABLEDIR/mar3450.$MAR_SCANNER_NO).
-nfrm NFRM
A series of NFRM spiral images will be transformed starting with the spiral image spiral_root.
spiral_root [ffrm lfrm [SUFFIX]]
The root name of the spiral files can be entered in 2 ways: or the root name and a three-digit image number, e.g. "xtal_001", or just the root name, e.g. "xtal". In the first case, the optional argument -nfrm NFRM tells the program to transform NFRM spiral images starting with the one given by "spiral_root". In the latter case, two more arguments must be given: the starting ("ffrm") and ending ("lfrm") image number. If the last argument (normally lfrm) is not a number, it will be used as the filename SUFFIX.

Examples

mar345xf xtal 1 20
Transform files xtal_001.s2300 to xtal_020.s2300 into xtal_001.mar2300 to xtal_020.mar2300.
mar345xf xtal 1 20 s3450
Transform files xtal_001.s3450 to xtal_020.s3450 into xtal_001.mar3450 to xtal_020.mar3450.
mar345xf -rm -old -nfrm 11 xtal_005 s3450
Transform files xtal_005.s3450 to xtal_015.s3450 into xtal_005.image to xtal_015.image and remove spiral files after transformation.

Environment

The following logical names must be assigned:
MARTABLEDIR:
Location of scanner specific calibration and configuration files.
MAR_SCANNER_NO
Serial number of scanner.
MARLOGDIR
Directory where log file will go.

Input Files

The program requires the following input file:
$MARTABLEDIR/mar2300.$MAR_SCANNER_NO:
Scanner specific calibration table used for transformation (binary) of images collected with 0.15 mm pixelsize.
$MARTABLEDIR/mar3450.$MAR_SCANNER_NO:
Scanner specific calibration table used for transformation (binary) of images collected with 0.10 mm pixelsize.

Output Files

The program produces the following output file:
$MARLOGDIR/mar345xf.log:
Log file.

See Also

marView, marTools, mar345_formats,

mar300_formats

Author

Claudio Klein, marXperts GmbH, Norderstedt, Germany

Copyright

© Copyright 2000-2004 marXperts GmbH, Norderstedt, Germany

Address

marXperts GmbHPhone: +49 - (40) - 529 884-0
Werkstr. 3 FAX: +49 - (40) - 529 884-20
D-22844 Norderstedt - GERMANYinfo@marXperts.com
www.marXperts.com


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