biocore / mg-scripts

Knight Lab internal Metagenomic processing scripts for demultiplexing, QC and host removal
BSD 3-Clause "New" or "Revised" License
1 stars 5 forks source link

WIP: Add tellread #149

Open charles-cowart opened 2 months ago

charles-cowart commented 2 months ago

Pushed for testing on qiita-rc. Some hardcodes still exist. New test not added yet. Test in qp-klp will also need to be changed.

coveralls commented 2 months ago

Pull Request Test Coverage Report for Build 11645511067

Details


Changes Missing Coverage Covered Lines Changed/Added Lines %
sequence_processing_pipeline/NuQCJob.py 10 11 90.91%
sequence_processing_pipeline/tests/test_TellReadJob.py 45 46 97.83%
sequence_processing_pipeline/Job.py 13 15 86.67%
sequence_processing_pipeline/Pipeline.py 30 44 68.18%
sequence_processing_pipeline/TellReadJob.py 59 74 79.73%
sequence_processing_pipeline/TRIntegrateJob.py 14 65 21.54%
sequence_processing_pipeline/TRNormCountsJob.py 14 65 21.54%
<!-- Total: 203 338 60.06% -->
Files with Coverage Reduction New Missed Lines %
sequence_processing_pipeline/tests/test_NuQCJob.py 1 93.72%
sequence_processing_pipeline/NuQCJob.py 1 61.29%
sequence_processing_pipeline/Job.py 1 66.67%
<!-- Total: 3 -->
Totals Coverage Status
Change from base Build 11445222337: -3.1%
Covered Lines: 2242
Relevant Lines: 2662

💛 - Coveralls