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Created with Raphaël 2.2.020Feb1918141174121Jan8731Dec241312117654329Nov272623222115131298752129Oct2625242322191817169827Sep2625241817131210643231Aug2928272423222120171615109863231Jul30272625242319181716131153228Jun2120191814131211876530May29282422211714119874326Apr25181713121110654329Mar212019161514131298make output dirscorrectly use gatk4tabix container for bgzipMerge branch 'develop' into BIOWDL-199Merge pull request #89 from biowdl/BIOWDL-194remove redundant precommand stuffMerge branch 'develop' into BIOWDL-194Merge pull request #91 from biowdl/BIOWDL-200tabix uses its own containercreate the output dirmake sure scatters work correctlyadd hisat2 taskfix gatk imagesfix a few things in biopetfix orderscatterdir is a filemake scatterregions work in containercorrect nameadd tags to all samtools stuffdockerize scatterregionsrun python script in containeradd docker containers to gatkMerge pull request #90 from biowdl/BIOWDL-198add multicontainersfix typoremove redundant inputsenable containers for picardchange docker tagsadd docker containers for htseq and stringtie, escape $ in mergecountsallow for additional annotations to be added into mergecounts outputadd outFilterMatchNmin option to starSASC-835SASC-835Merge pull request #88 from biowdl/BIOWDL-192add docker for extract adapters, catadapt and fastqcMerge pull request #87 from biowdl/BIOWDL-178remove import from simple taskMerge pull request #86 from biowdl/add_dockeradd docker to other samtools tasksadd docker runtime for star and samtools indexMerge pull request #85 from biowdl/PYT-8use files not string
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