Merge monarch-initiative/ensembl_ensgal PR breaks testing

monarch-initiative / monarch-gene-mapping

Code for mapping source namespaces to preffered namespacing

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Merge monarch-initiative/ensembl_ensgal PR breaks testing #14

Closed amc-corey-cox closed 2 years ago

amc-corey-cox commented 2 years ago

Merge pull request #13 from monarch-initiative/ensembl_ensgal Generate Monarch Gene Mapping #9

fails testing on Run poetry run gene-mapping generate --download
this doesn't appear associated with the merge so I'm opening a new issue for a quick fix

FileNotFoundError: [Errno 2] No such file or directory: 'data/hgnc/hgnc_complete_set.txt'

amc-corey-cox commented 2 years ago

This is still broken. I think I still have some file format issues.

amc-corey-cox commented 2 years ago

Sorry for all the back and forth in the above. I'm a little confused by what is going on here. I'm re-adding the patch earlier which works on my system now. I believe this will fix the issue and the previous problem was something transient, like a failed file download.

amc-corey-cox commented 2 years ago

I'd like to implement the testing workflow for main on pull requests as well so we don't have to merge to main before we know if something is broken.