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Check files exists #2

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jamiemcg opened this issue Jan 26, 2023 · 1 comment

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jamiemcg commented Jan 26, 2023 •

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Common cause of pipeline crashing late into a run is that there is an error in the path to databases in the config file.

One way to improve this would be to check these files exist when the pipeline is launched (not within a rule)

Could also check that all of the input reads files exist

jamiemcg changed the title ~~Check databases exists~~ Check files exists

Collaborator Author

jamiemcg commented Feb 15, 2023

Paths to check:

busco_database
diamond_database
megablast_database
nodesdb
cat_database
taxonomy_dir
diamond_path
pr2_database

jamiemcg closed this as completed

jamiemcg reopened this

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