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broadinstitute / viral-ngs / 5421
23%

Build:
DEFAULT BRANCH: master
Ran 25 Jan 2018 10:51PM UTC
Jobs 2
Files 45
Run time 6min
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5421

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tomkinsc
fixes to align_and_plot workflow (#766)

* change default align_and_plot.wdl workflow to use loose novoalign params, change both plot_coverage invocations to: not fail when mean_coverage is < 1, not fail when reads_aligned=0 (ie, output zero byte coverage plots and fastqc reports)

* run reports.py fastqc always, since its smart enough to defend against zero input

6074 of 8555 relevant lines covered (71.0%)

0.94 hits per line

Jobs
ID Job ID Ran Files Coverage
5 5421.5 (TRAVIS_JOB=test_py36 PYTEST_ADDOPTS="-rsxX -n 2 --durations=25 --fixture-durations=10 --junit-xml=pytest.xml --cov-report= --cov broad_utils --cov illumina --cov assembly --cov interhost --cov intrahost --cov metagenomics --cov ncbi --cov read_utils --cov reports --cov taxon_filter --cov tools --cov util" BUNDLE_SECRET=[secure]) 25 Jan 2018 10:57PM UTC 0
70.94
Travis Job 5421.5
6 5421.6 (TRAVIS_JOB=test_snakemake PYTEST_ADDOPTS="-rsxX -n 2 --durations=25 --fixture-durations=10 --junit-xml=pytest.xml --cov-report= --cov broad_utils --cov illumina --cov assembly --cov interhost --cov intrahost --cov metagenomics --cov ncbi --cov read_utils --cov reports --cov taxon_filter --cov tools --cov util" BUNDLE_SECRET=[secure]) 25 Jan 2018 10:51PM UTC 0
33.75
Travis Job 5421.6
Source Files on build 5421
Detailed source file information is not available for this build.
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