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skovaka / UNCALLED

Raw nanopore signal mapper that enables real-time targeted sequencing
MIT License
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ModuleNotFoundError: file_read_backwards #21

Closed marcus1487 closed 3 years ago

marcus1487 commented 3 years ago

I have installed uncalled into a new virtual environment using the pip install git+https://github.com/skovaka/UNCALLED.git installation method. When I then run uncalled index command I get the error text copied at the end of this issue indicating that the file_read_backwards module is not found. It looks like the use of the imported function, FileReadBackwards, is commented out in debug.py. It seems that the file-read-backwards package should be added as a dependency in setup.py or the import should be removed from debug.py.

Traceback (most recent call last):
  File "/venv/bin/uncalled", line 35, in <module>
    import uncalled as unc
  File "/venv/lib/python3.7/site-packages/uncalled/__init__.py", line 2, in <module>
    from uncalled import index, pafstats, sim_utils, args, debug, minknow_client
  File "/venv/lib/python3.7/site-packages/uncalled/debug.py", line 8, in <module>
    from file_read_backwards import FileReadBackwards
ModuleNotFoundError: No module named 'file_read_backwards'
skovaka commented 3 years ago

Sorry about that, I've removed the import statement. Thanks for pointing it out.