Hello,
I am trying to run motioncor2 on cryosparc 2.15.0. However, I run into the following error:
[CPU: 182.1 MB] Processed 0 of 2 movies in 0.01s
[CPU: 182.1 MB] Raw movie filepath located at: J1/imported/20jul30a_510sT_00003gr_00037sq_00002hl_00002es.frames.tif - creating MotionCor2 command string…
[CPU: 3.69 GB] Finished creating MotionCor2 command string in 8.19s
[CPU: 3.69 GB] Starting MotionCor2 process…
[CPU: 3.69 GB] Running MotionCor2 command: /apps/motioncor2/1.2.1/motioncor2 -InTiff /net/jiang/scratch/cryosparc/data/sun647/P216/J1/imported/20jul30a_510sT_00003gr_00037sq_00002hl_00002es.frames.tif -OutMrc /net/jiang/scratch/cryosparc/data/sun647/P216/J2/motioncorrected/1606766707880345660_20jul30a_510sT_00003gr_00037sq_00002hl_00002es.frames_motioncor2_aligned.mrc -Gain /net/jiang/scratch/cryosparc/data/sun647/P216/J1/imported/20jul30a_30153507_01_11520x8184_norm_0_mod.mrc -Patch 5.0 5.0 -FmRef 10 -Kv 300.0 -PixSize 0.539 -FmDose 1.11875 -FtBin 0.5 -Gpu 0 -GpuMemUsage 0.5 -LogFile /net/jiang/scratch/cryosparc/data/sun647/P216/J2/motioncor2_logs/0
[CPU: 3.69 GB] Running process 4065948
[CPU: 3.69 GB] ERROR motioncor2 failed to produce output file /net/jiang/scratch/cryosparc/data/sun647/P216/J2/motioncorrected/1606766707880345660_20jul30a_510sT_00003gr_00037sq_00002hl_00002es.frames_motioncor2_aligned.mrc
[CPU: 3.69 GB] Finished MotionCor2 process in 0.20s
[CPU: 3.69 GB] Traceback (most recent call last):
File “cryosparc2_worker/cryosparc2_compute/run.py”, line 85, in cryosparc2_compute.run.main
File “cryosparc2_compute/jobs/motioncorrection/run_motioncor2.py”, line 373, in run_motioncor2_wrapper
with open(output_path_abs) as mrc_file:
IOError: [Errno 2] No such file or directory: u’/net/jiang/scratch/cryosparc/data/sun647/P216/J2/motioncorrected/1606766707880345660_20jul30a_510sT_00003gr_00037sq_00002hl_00002es.frames_motioncor2_aligned.mrc’
It is not very informative of why the motioncor2 failed to output the file. Can anyone help me out?
Thanks,
Chen