biocore / mg-scripts

Knight Lab internal Metagenomic processing scripts for demultiplexing, QC and host removal
BSD 3-Clause "New" or "Revised" License
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Update GenPrepFileJob() #131

Closed charles-cowart closed 6 months ago

charles-cowart commented 6 months ago

Change how GenPrepFileJob() obtains its list of projects to iterate over. Previously this was done by examining the states of other Job() objects. To recover state after a failed job, GenPrepFileJob() will now extract project information from fastq file paths.

coveralls commented 6 months ago

Pull Request Test Coverage Report for Build 8148860467

Warning: This coverage report may be inaccurate.

This pull request's base commit is no longer the HEAD commit of its target branch. This means it includes changes from outside the original pull request, including, potentially, unrelated coverage changes.

Details


Files with Coverage Reduction New Missed Lines %
sequence_processing_pipeline/Pipeline.py 8 86.67%
sequence_processing_pipeline/tests/test_Pipeline.py 14 89.11%
sequence_processing_pipeline/GenPrepFileJob.py 15 63.85%
<!-- Total: 37 -->
Totals Coverage Status
Change from base Build 8056475388: -0.3%
Covered Lines: 2422
Relevant Lines: 2752

💛 - Coveralls