| --version |
None |
show program's version number and exit |
| --outtype |
str |
output image format, 'mrc', 'imagic', 'hdf', etc. if specify spidersingle will output single 2D image rather than 2D stack. |
| --outmode |
str |
All EMAN2 programs write images with 4-byte floating point values when possible by default. This allows specifying an alternate format when supported (float, int8, int16, int32, uint8, uint16, uint32). Values are rescaled to fill MIN-MAX range. |
| --fixintscaling |
str |
When writing to an 8 or 16 bit integer format the data must be scaled. 'noscale' will assume the pixel values are already correct, 'sane' will pick a good range, a number will set the range to mean+=sigma*number |
| --apix |
float |
A/pixel for S scaling |
| --clip |
str |
Specify the output size in pixels xsize,ysize[,xcenter,ycenter], images can be made larger or smaller. |
| --process |
str |
apply a processor named 'processorname' with all its parameters/values. |
| --mult |
float |
Multiply image by a constant. mult=-1 to invert contrast. |
| --add |
float |
Adds a constant 'f' to the densities |
| --meanshrink |
float |
Reduce an image size by an integral (1.5 also allowed) scaling factor using average. eg - 2 will reduce image size to 1/2. Clip is not required. |
| --medianshrink |
int |
Reduce an image size by an integral scaling factor, uses median filter. eg - 2 will reduce image size to 1/2. Clip is not required. |
| --fouriershrink |
float |
Reduce an image size by an arbitrary scaling factor by clipping in Fourier space. eg - 2 will reduce image size to 1/2. |
| --multfile |
str |
Multiplies the image by another image of identical size. This can be used to apply masks, etc. |
| --randomize |
str |
Randomly rotate/translate the image. Specify: da,dxy,flip da is a uniform distribution over +-da degrees, dxy is a uniform distribution on x/y, if flip is 1, random handedness changes will occur |
| --rotate |
float |
Rotate clockwise (in degrees) |
| --rfp |
None |
this is an experimental option |
| --fp |
int |
This generates rotational/translational 'footprints' for each input particle, the number indicates which algorithm to use (0-6) |
| --scale |
float |
Scale by specified scaling factor. Clip must also be specified to change the dimensions of the output map. |
| --anisotropic |
str |
Anisotropic scaling, stretches on one axis and compresses the orthogonal axis. Specify amount,angle. See e2evalrefine |
| --selfcl |
int |
Output file will be a 180x180 self-common lines map for each image. |
| --translate |
str |
Translate by x,y pixels |
| --ppid |
int |
Set the PID of the parent process, used for cross platform PPID |
| --verbose, -v |
int |
verbose level [0-9], higher number means higher level of verboseness |
| --parallel, -P |
str |
Run in parallel, only thread:n supported |
| --threads |
int |
Number of threads to run in parallel on a single computer when multi-computer parallelism isn't useful |