search

leschzinerlab / Motion-correction

Scripts for aligning cryo-electron microscopy direct electron detector movies on whole movies or individual particle trajectories
MIT License
11 stars 7 forks source link

CCP4 library signal library_file:Cannot open file (Error) #4

Open WolfgangLugmayr opened 8 years ago

WolfgangLugmayr commented 8 years ago

Using pixel size of 0.970000 Angstroms/pixel Running LM-BFGS ... Reading header from input .star file and writing header to output .star file

Number of .star file lines transferred: 911144 Number of outlying particles removed: 0 Number of movies processed that contained usable particles: 20189

real 1m24.770s user 0m56.668s sys 0m2.492s Preparing masks Generating weightmask FTs Planned Working on these files: Micrographs/20151224_hole3only_1_00034k2gr_00087k2sq_v02_00043 Micrographs/20151224_hole3only_1_00034k2gr_00087k2sq_v02_00043
CCP4 library signal library_file:Cannot open file (Error) raised in ccp4_file_open2 Can't open file Micrographs/20151224_hole3only_1_00034k2gr_00087k2sq_v02_00043 CCP4 library signal library_file:Cannot open file (FATAL ERROR) raised in COPEN2 real 0m0.357s user 0m0.276s sys 0m0.025s LM-BFGS finished.

mcianfrocco commented 8 years ago

Hi @WolfgangLugmayr - It seems that the script is not finding the exact paths to the coordinate or micrograph files.

To double check what's happening, could re-download the script and rerun it? I added more debugging help. And then, could you copy and paste the text within the file: align_lmbfgs.bash ? That'll track down this problem.

I swear it works on our machines : )