Comments (1)
davek44
commented on June 23, 2024
basset_motifs.py runs basset_motifs_predict.lua on the sequences first to generate model_out.h5. The option allows the user to specify that the torch code has already run and the file will already be there.
If the file isn't there, the torch code must have crashed. Could you run the torch command by itself and report any error information it produces? basset_motifs.py should print the torch command before running it here: https://github.com/davek44/Basset/blob/master/src/basset_motifs.py#L98
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Related Issues (20)
- Training aways converges after 2 or 3 epochs HOT 4
- Training takes too long HOT 3
- Pre-trained Weights? HOT 1
- Torch-HDF5 Failure during Writing Output by basset_motifs_predict.lua HOT 3
- First Epoch Loss is Bigger than Expected HOT 2
- Nucleotide Order in Motif Heatmap Reversed HOT 1
- how are filters combined HOT 2
- Error in running basset_sat_vcf.py HOT 1
- Convolutional layers - padding and bias HOT 1
- input and target size mismatch when running test.lua HOT 3
- Citation on README HOT 1
- Prediction tasks specification HOT 1
- install_data.py requires more than 30 GiB of memory HOT 2
- Docker image Lua and Python setups wrong
- how to install 'convnet' module HOT 1
- ENUM error when running basset_train.lua HOT 7
- preprocess_features.py file is generating empty output bed files HOT 2
- bedtools getfasta skipping problem HOT 1
- Used in non human species HOT 1
- Original dataset Basset is trained on HOT 1
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