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Options

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]
   


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Next: e2proc3d.py Up: e2proc2d.py Previous: Description   Contents   Index
2013-06-11