batchboxer

This program is used for offline boxing of micrographs (MRC format ONLY!)

batchboxer [dbbox=<filespec>] [imgbox=<filespec>] [auto[=<refs>,<thr1>,<thr2>,<thr3>]] [xform=<dx>,<dy>,<da>] [newsize=<size>] [input=<filespec>] [output=<filespec>] [ctfout=<filespec>] [dbout=<filespec>] [invert]

Parameters:


[dbbox=<filespec>]Input box database
[imgbox=<filespec>]Read box database from particle image set headers
[auto[=<refs>,<thr1>,<thr2>,<thr3>]]Autobox with defined thresholds
[xform=<dx>,<dy>,<da>]Rotate and translate the box database before output (see alignhuge)
[newsize=<size>]New box size for all boxes (center preserved)
[input=<filespec>]Image to be boxed (MRC format only!!!)
[output=<filespec>]Output file for boxed images
[ctfout=<filespec>]File to put CTF curves into (if input is focal pair merged)
[dbout=<filespec>]Output box database file
[invert]Invert the particle image before output

Usage:

batchboxer dbbox=jj0441.box input=jj0441.mrc output=0441.hed

Description

This program does offline boxing of particles using a box database or an automatic boxing routine. Please note that it will work only on MRC images.


EMAN Manual page, generated Fri Feb 8 16:12:23 2002