Merge remote-tracking branch 'origin/develop' into sage

.github/PULL_REQUEST_TEMPLATE.md

.github/workflows/ci.yml

.travis.yml

CHANGELOG.md

CPAT.wdl

LICENSE

README.md

VERSION

bam2fastx.wdl

bcftools.wdl

bedtools.wdl

biopet/biopet.wdl

biopet/sampleconfig.wdl

biowdl.wdl

bowtie.wdl

bwa-mem2.wdl

bwa.wdl

ccs.wdl

centrifuge.wdl

chunked-scatter.wdl