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polio-nanopore / piranha

GNU General Public License v3.0
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Process barcodes in order to show progress #137

Open rambaut opened 11 months ago

rambaut commented 11 months ago

Barcodes are currently processed in arbitrary order (python map/dictionary?). If they were processed in numerical order (or order in CSV) this would help show progress. Or a message saying 'processing sample X/N`? This may be a snakemake issue

aineniamh commented 10 months ago

it's a snakemake thing related to how it handles the DAG building and multithreading. If you wanted it in order and just wanted to run one job at once, I could modify the wildcard setup to only run one thing at a time, but it would remove the snakemake multithreading thing.