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Dear authors, It seems there is coverage.h5 file missing in the output. What could be the reason?
Thank you in advance!
Best, Olena
coconet run --fasta ./contigs.fasta -bam ../*.bam --output binning_results_CoCoNet 11:24:09 (Mem: 0.5 GB) <CoCoNet> INFO: Using 5 threads 11:24:09 (Mem: 0.5 GB) <CoCoNet> INFO: Features: coverage, composition 11:24:09 (Mem: 0.5 GB) <preprocessing> INFO: Processing 4,455 contigs 11:24:09 (Mem: 0.5 GB) <preprocessing> INFO: Length filter (L>2048 bp) -> 10 contigs remaining 11:24:09 (Mem: 0.5 GB) <preprocessing> INFO: Complete contigs filtering (DTR > 10 bp) -> 10 contigs remaining 11:24:09 (Mem: 0.5 GB) <learning> INFO: Making train/test examples 11:24:09 (Mem: 0.5 GB) <learning> INFO: Parameters: fragment_step=128, fragment_length=1024, #training_samples=4000000, #test_samples=10000 Traceback (most recent call last): File "/home/olena/.local/bin/coconet", line 8, in <module> sys.exit(main()) File "/home/olena/.local/lib/python3.8/site-packages/coconet/coconet.py", line 62, in main learn(cfg) File "/home/olena/.local/lib/python3.8/site-packages/coconet/coconet.py", line 197, in learn model = load_model(cfg) File "/home/olena/.local/lib/python3.8/site-packages/coconet/dl.py", line 67, in load_model input_shapes = config.get_input_shapes() File "/home/olena/.local/lib/python3.8/site-packages/coconet/core/config.py", line 198, in get_input_shapes with h5py.File(self.io['h5'], 'r') as handle: File "/home/olena/anaconda3/lib/python3.8/site-packages/h5py/_hl/files.py", line 567, in __init__ fid = make_fid(name, mode, userblock_size, fapl, fcpl, swmr=swmr) File "/home/olena/anaconda3/lib/python3.8/site-packages/h5py/_hl/files.py", line 231, in make_fid fid = h5f.open(name, flags, fapl=fapl) File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper File "h5py/h5f.pyx", line 106, in h5py.h5f.open FileNotFoundError: [Errno 2] Unable to open file (unable to open file: name = '/home/olena/Projects/Metagenomic_Data/assembly/Virus_Discovery_for_Vietnam_Initiative_on_Zoonotic_Infections__VIZIONS_ERR3180356/Spades_output/binning_results_CoCoNet/coverage.h5', errno = 2, error message = 'No such file or directory', flags = 0, o_flags = 0)
The text was updated successfully, but these errors were encountered:
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Dear authors,
It seems there is coverage.h5 file missing in the output. What could be the reason?
Thank you in advance!
Best, Olena
The text was updated successfully, but these errors were encountered: