broadinstitute / viral-ngs / 1158

Builds Branch Commit Type Ran Committer Via Coverage
1158 is-add-asm-improvability-metrics added wdl for assembly improv metrics push notestaff travis-ci-com pending completion   set done
1157 is-add-asm-improvability-metrics update kmc to 3.1.2rc1 push notestaff travis-ci-com pending completion   set done
1154 is-fix-gatk-mindepth tools/gatk: when determining gatk version, ignore stderr output to avoid Picked up _JAVA_OPTIONS message Pull #1004 web-flow travis-ci-com pending completion   set done
1153 is-fix-gatk-mindepth tools/gatk: when determining gatk version, ignore stderr output to avoid Picked up _JAVA_OPTIONS message push notestaff travis-ci-com pending completion   set done
1152 is-fix-gatk-mindepth tools/gatk: fix regexp for version string push notestaff travis-ci-com pending completion   set done
1151 is-fix-gatk-mindepth tools/gatk: better error message when cannot parse GATK version push notestaff travis-ci-com pending completion   set done
1150 is-fix-gatk-mindepth tools.gatk: use actual GATK version from GATK jar, rather than the version set in TOOL_VERSION_TUPLE in gatk.py, when picking version-specific options push notestaff travis-ci-com pending completion   set done
1149 is-fix-gatk-mindepth Merge remote-tracking branch 'origin/ct-update-gatk-source-url' into is-fix-gatk-mindepth push notestaff travis-ci-com pending completion   set done
1147 ct-update-gatk-source-url update source url for obtaining gatk 3.8 DSP has updated the GATK website, breaking links to older versions. Tarballs for the older versions are preserved on GS with public links: https://console.cloud.google.com/storage/browser/gatk-software/pac... Pull #1003 web-flow travis-ci-com pending completion   set done
1146 ct-update-gatk-source-url update source url for obtaining gatk 3.8 DSP has updated the GATK website, breaking links to older versions. Tarballs for the older versions are preserved on GS with public links: https://console.cloud.google.com/storage/browser/gatk-software/pac... push tomkinsc travis-ci-com pending completion   set done
1142 is-add-protein-taxon-filt taxon_filter: fixed typo in arg name push notestaff travis-ci-com pending completion   set done
1141 is-add-protein-taxon-filt travis/install-gatk.sh: fixed URL push notestaff travis-ci-com pending completion   set done
1135 is-add-protein-taxon-filt taxon_filter.py: added filter_kaiju_bam push notestaff travis-ci-com pending completion   set done
4336 sy-diamond-tax Merge from master Rename outLca to outReads Pull #2340 yesimon travis-ci pending completion   set done
1132 ct-1.25.0_kraken_hotfix kraken_library_ids push tomkinsc travis-ci-com pending completion   set done