Differences between revisions 5 and 9 (spanning 4 versions)

e2tomoboxer

This program is used for interactive tomographic single particle picking (locating and extracting subtomograms).

To see the entire list of command line options for e2tomoboxer.py (not many at this point), and an explanation of what they're for, type e2tomoboxer.py -h at the command line.

Options

-B	--boxsize	int	Box size in pixels
	--inmemory	bool	This will read the entire tomogram into memory. Much faster, but you must have enough ram !
	--yshort	bool	This means you have a file where y is the short axis
	--apix	float	Override the A/pix value stored in the tomogram header
-h	--help	bool	show this help message and exit
-v	--verbose	int	verbose level [0-9], higner number means higher level of verboseness

USAGE

e2tomoboxer.py tomogram.rec --yshort --inmemory

If you don't provide the --inmemory option, the data will be read from disk, opposed to being read from memory (which is faster).

Provide the --yshort option if the shortest dimension of your tomogram (the "ice thickness") is along the y axis (for example, 4096 x 500 x 4096).

-  ⇤ ← Revision 5 as of 2011-03-22 19:16:15 → 
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+   ← Revision 9 as of 2011-03-22 20:10:47 → ⇥
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  Editor: jgalaz
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+To see the entire list of command line options for e2tomoboxer.py (not many at this point), and an explanation of what they're for, type ''e2tomoboxer.py -h'' at the command line.
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+{{{
e2tomoboxer.py tomogram.rec --yshort --inmemory 
}}}
If you don't provide the ''--inmemory'' option, the data will be read from disk, opposed to being read from memory (which is faster).
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-{{{
e2tomoboxer.py tomogram.rec --yshort --inmemory }}}
If you don't provide the "inmemory" option, the data will be read from disk, opposed to being read from memory (which is faster).

Provide the "yshort" option if the shortest dimension of your tomogram (the "ice thickness") is along the y axis (for example, 4096 x 500 x 4096).
+Provide the ''--yshort'' option if the shortest dimension of your tomogram (the "ice thickness") is along the y axis (for example, 4096 x 500 x 4096).