Name
copy_trans_angles: copy SPIDER format 3D alignment paramters(spider trans file and angles file), and store them into HDF file headers
Usage
copy_trans_angles_s(transtr,ptlstr,angstr,defo_fname,outstack,Pixel_size,voltage,cs=2,ctf_mul=1,symmetry="c1",deci=1,verify=1,m_radius=0,amp_contrast=.1)
Input
- transtr
- SPIDER trans file pattern, such as FINAL/def{***}/trans171.ttG
- ptlstr
- SPIDER particles of signle defocus stack file pattern, such as FINAL/def{***}/data.ttG
- angstr
- SPIDER angles file pattern, such as FINAL/def{***}/trans171.ttG
- defo_fname
- SPIDER defocus document file, such as "FINAL/ctfs.ttG"
- outstack
- output stack file, such as "data.hdf"
- Pixel_size
- image pixel size.
- voltage
- accelerating voltage. cs::2
- amp_contrast
- .1
Output
- outstack
- output stack file, such as "data.hdf"
Options
- ctf_mul
- set as 1 if the parameters-in-header particles are multiplied by CTF.
- symmetry
- c1, or else.
- deci
- 1 The output data is size-reduced or not. deci=2 gives two times size reduction.
- verify
- 1 Verify paramters are properly instored. set as 0 the program would skip the verification.
- m_radius
- 0, mask radius for calculating fsc of paramters verification 3D reconstruction. default is zero, the program will take int(nx/2)-10 as mask radius for FSC calculating.
Description
Method
Reference
Author / Maintainer
Zhong Huang
Keywords
- category 1
- UTILITIES
Files
utilities.py
See also
References to relevant other routines.
Maturity
- alpha
- crashes and nobody knows why, works but results are incorrect, works for author but noone else
- beta
- works for author, often works for others.
- stable
- works for most people, has been tested; test cases/examples available.
Bugs
None. It is perfect.