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Updates based on testing in Qiita-RC #112

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merged 4 commits into from
Dec 7, 2023

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charles-cowart
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coveralls commented Dec 5, 2023

Pull Request Test Coverage Report for Build 7134107919

  • 22 of 27 (81.48%) changed or added relevant lines in 2 files are covered.
  • No unchanged relevant lines lost coverage.
  • Overall coverage decreased (-0.2%) to 82.599%

Changes Missing Coverage Covered Lines Changed/Added Lines %
sequence_processing_pipeline/NuQCJob.py 10 15 66.67%
Totals Coverage Status
Change from base Build 6875916122: -0.2%
Covered Lines: 2081
Relevant Lines: 2385

💛 - Coveralls

@charles-cowart
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Ready for review!

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@antgonza antgonza left a comment

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A few questions but looks good.

sequence_processing_pipeline/NuQCJob.py Show resolved Hide resolved

echo "${i} ${r1_name} ${r2_name} ${base}" >> ${TMPDIR}/id_map

fastp \
-l 45 \
-l 100 \
-i ${r1} \
-I ${r2} \
-w 7 \
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should this be {{cores_per_task}} ? Same for minimap2 threads?

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sure I can make it a param.

@antgonza antgonza merged commit b187513 into biocore:master Dec 7, 2023
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@charles-cowart charles-cowart deleted the updates branch December 21, 2023 03:47
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3 participants