When trying to generate 3d videos from volume stacks the processing sometimes fails with the following example log:
2023-02-13 13:41:08.977729: I tensorflow/stream_executor/platform/default/dso_loader.cc:48] Successfully opened dynamic library libcudart.so.10.1
Will run processing on the following flies:
['/mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3']
Will start task manager with the following tasks:
tif: /mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3
video_plot_3d: /mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3
Mon Feb 13 13:41:12 2023: starting tif task for fly /mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3
Mon Feb 13 13:41:12 2023 converting trial to tif: /mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3/010_vol_cc_t1
/home/hurtak/miniconda3/envs/twoppp37/lib/python3.7/site-packages/utils2p/external/tifffile/tifffile.py:1203: UserWarning: truncating ImageJ file
warnings.warn("truncating ImageJ file")
Mon Feb 13 13:46:13 2023: starting video_plot_3d task for fly /mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3
Could not find green_avg and red_avg files. Will compute from raw tif.
Killed
The processing worked on the previous stacks from the same fly. The only difference is the size of the images.
The _fly_dirs_to_process.txt files contains only the line:
/mnt/nas2/FH/230208_G13Ci1_3dpe/Fly3||010||tif,video_plot_3d
Could it be related to a memory problem? If so do you know how to get around it?
When trying to generate 3d videos from volume stacks the processing sometimes fails with the following example log:
The processing worked on the previous stacks from the same fly. The only difference is the size of the images.
The _fly_dirs_to_process.txt files contains only the line:
Could it be related to a memory problem? If so do you know how to get around it?