broadinstitute / viral-ngs / 743

Builds Branch Commit Type Ran Committer Via Coverage
743 ct-add-clumpify pass JVMmemory; add read_utils.rmdup_clumpify_bam; dedup_bam WDL task pass JVMmemory to bbmap and clumpify; add rmdup_clumpify_bam to read_utils.py; change TestRmdupUnaligned unit tests for bbmap to use read_utils.py::rmdup_clumpify_bam; add dedu... push tomkinsc travis-ci-com pending completion   set done
742 ct-add-clumpify add bbmap.BBMapTool().dedup_clumpify() add bbmap.BBMapTool().dedup_clumpify(), along with unit tests push tomkinsc travis-ci-com pending completion   set done
740 master add tool wrapper for BBMap (#969) * adding bbmap * adding tests for bbmap * adding branch info * updated bbmap to 38.22 * update bbmap to 38.51 * update bbmap to 38.56 * removed branch-info file push tomkinsc travis-ci-com pending completion   set done
739 is-1808081312-add-bbmap removed branch-info file Pull #969 web-flow travis-ci-com pending completion   set done
738 is-1808081312-add-bbmap removed branch-info file push notestaff travis-ci-com pending completion   set done
737 is-dx-benchmarks Merge remote-tracking branch 'remotes/origin/master' into is-dx-benchmarks push notestaff travis-ci-com pending completion   set done
736 is-1808081312-add-bbmap update bbmap to 38.56 push notestaff travis-ci-com pending completion   set done
735 master <a href="https://github.com/broadinstitute/viral-ngs/commit/0c51acb62">binned coverage plot option in align_and_plot (#957) * fixed indentation, repeated code in plot_coverage * added binning for large plots, on ... push tomkinsc travis-ci-com pending completion   set done
734 is-dx-benchmarks Merge remote-tracking branch 'origin/master' into is-dx-benchmarks push notestaff travis-ci-com pending completion   set done
733 is-1808081312-add-bbmap Merge remote-tracking branch 'remotes/origin/master' into is-1808081312-add-bbmap push notestaff travis-ci-com pending completion   set done
732 is-test-null-change Merge branch 'master' into is-test-null-change push notestaff travis-ci-com pending completion   set done
731 is-test-null-change update biopython to 1.73 push notestaff travis-ci-com pending completion   set done
730 lk-binned-coverage-plots Merge branch 'master' into lk-binned-coverage-plots Pull #957 web-flow travis-ci-com pending completion   set done
729 lk-binned-coverage-plots Merge branch 'master' into lk-binned-coverage-plots push web-flow travis-ci-com pending completion   set done
728 master add custom demux settings for NextSeq, more stringent barcode Q score threshold for all systems but NovaSeq (#967) * add custom demux settings for NextSeq, more stringent barcode Q score threshold for all systems but NovaSeq in WDL: raise min... push web-flow travis-ci-com pending completion   set done