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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).