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ArtPoon / sc2rf

SARS-Cov-2 Recombinant Finder for fasta sequences
MIT License
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hard coded paths to data files #1

Open ArtPoon opened 2 years ago

ArtPoon commented 2 years ago

prevents user from calling main script from outside project directory

art@Wernstrom git % python3 sc2rf/sc2rf.py
Traceback (most recent call last):
  File "/Users/art/git/sc2rf/sc2rf.py", line 987, in <module>
    main()
  File "/Users/art/git/sc2rf/sc2rf.py", line 73, in main
    mappings = read_mappings('mapping.csv')
  File "/Users/art/git/sc2rf/sc2rf.py", line 875, in read_mappings
    with open(path, newline='') as csvfile:
FileNotFoundError: [Errno 2] No such file or directory: 'mapping.csv'
lenaschimmel commented 2 years ago

I'm currently working on this as part of lenaschimmel#3 in the resources branch.

It's mostly working, but since virus_properties.json is both a resource that's bundled with the program, and something the program can update itself, I still need to put it into a writable location. As soon as I fix this, I will merge that branch.