DeepDeWedge
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MLI-lab
Self-supervised deep learning for denoising and missing wedge reconstruction of cryo-ET tomograms
Running the second command returns this error. I am not clear on what is happening there. Command: ddw fit-model --unet-params-dict chans 32 drop_prob 0.0 num_downsample_layers --adam-params-dict lr 0.0004 --num-epochs 100...
Hi, I often get this error during training: ``` "/scicore/projects/scicore-p-structsoft/ubuntu/software/Miniconda3/miniconda3_py thon3.12.1/envs/DeepDeWedge-ub/lib/python3.10/site-packages/mrcfile/mrcinterpret er.py", line 192, in _read_header raise ValueError("Couldn't read enough bytes for MRC header") ValueError: Couldn't read enough bytes for...
Hi, Thank you for developing this tool—it's been working very well, especially in handling the organell missing wedge. However, its clear that most of the high-frequency side of data seems...
As pointed out by by @rdrighetto in https://github.com/MLI-lab/DeepDeWedge/issues/8#issuecomment-2334162057, model fitting on the same data with the same random seed yields fitting and validation curves that are very similar but not...
[WHAT] Vectorize 3D ramp weight map computation for reassembling tomograms. [WHY] A minor perf improvement.
Hi, Thank you for developing this software. I have a couple of questions: 1. Do you have any suggestions for the pixel size range that is needed? The manuscript bins...
> Hi Simon, > > Lately, I was using DDW again extensively and came across this "sporadic" error again... only for some of the many jobs but they are still...
I am trying to perform fit model in a high performance cluster. Each of the nodes in the cluster have around 40 CPUs. But however, when I execute the fit...
@NKUashin reported the following problem: [...] I meet the same bug that multi-GPU fitting not works on my own data, but it works well on tutorial data. My config.yaml file...
Deepdewedge training very often crashes due to random file read errors when running on multiple GPUs, for example: “Error loading .//subtomos/fitting_subtomos/subtomo0/229.pt Error message is: PytorchStreamReader failed reading file data.pkl: file...
