Table 4.9:
e2proc2d.py Options
| Argument |
Description |
| |
|
| -version |
show program's version number and exit |
| -h, -help |
show this help message and exit |
| -apix=APIX |
A/pixel for S scaling |
| -average |
Averages all input images (without alignment) and writes a single (normalized) output image |
| -calcsf=n |
outputfile calculate a radial structure factor for the image and write it to the output file, must specify apix. divide into n angular bins |
| -clip=xsize |
ysize Define the output image size. CLIP=xsize ysize |
| -ctfsplit |
Splits the input file into output files with the same CTF parameters |
| -exclude=exclude-list-file |
Excludes image numbers in EXCLUDE file |
| -fftavg=filename |
Incoherent Fourier average of all images and write a single power spectrum image |
| -filter=filtername:param1=val1:param2=val2 |
apply a filter named 'filtername' with all its parameters/values. |
| -first=n |
the first image in the input to process [0 - n-1]) |
| -inplace |
Output overwrites input, USE SAME FILENAME, DO NOT 'clip' images. |
| -interlv=interleave-file |
Specifies a 2nd input file. Output will be 2 files interleaved. |
| -last=n |
the last image in the input to process |
| -list=listfile |
Works only on the image numbers in LIST file |
| -meanshrink=n |
Reduce an image size by an integral scaling factor using average. Clip is not required. |
| -mraprep |
this is an experimental option |
| -norefs |
Skip any input images which are marked as references (usually used with classes.*) |
| -outtype=image-type |
output image format, mrc, imagic, hdf, etc |
| -plt=plt-file |
output the orientations in IMAGIC .plt file format |
| -radon |
Do Radon transform |
| -rfp |
this is an experimental option |
| -scale=f |
Scale by specified scaling factor. Clip must also be specified to change the dimensions of the output map. |
| -selfcl=steps |
mode Output file will be a 180x180 self-common lines map for each image. |
| -setsfpairs |
Applies the radial structure factor of the 1st image to the 2nd, the 3rd to the 4th, etc |
| -shrink=n |
Reduce an image size by an integral scaling factor, uses median filter. Clip is not required. |
| -split=n |
Splits the input file into a set of n output files |
| -verbose=n |
verbose level [1-4] |
| |
|