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Created with Raphaël 2.2.06Mar5432127Feb2624231918171615141312111096543230Jan2928Rename for consistencyFix picard version, only work with a picard jarChange getVersion to Option[String]Update formattingInitial update for GentrapTestAvoid NullPointerException when checking for R2 in GentrapAdded scala docs for picardPut all expression table outputs into a single directoryAdd heatmap plot jobs for all outputCreate fallback plot when data points for heatmap is not enoughAdded scala docs for macs2Added scala docs for igvtoolsAdded scala docs for bwaAdded scala docs for bedtoolsAdded scala docsAdded scala docs and and removed unused methodAdded scala docsChange output files handlingUse scalaz's implicit option for booleanInitial heat map plottingUpdate heatmap wrapperUpdate heatmap plot sizesadd scala docsUpdate heatmap plotting scriptreleas notes files addedMerge branch 'develop' into docs_v.0.3.0Merge branch 'patch_carp_summaryFix' into 'develop'Remove unused methodglobal summary file addedAdded scala docsfirst changes for 0.3.0Merge branch 'develop' into feature-shivaMerge branch 'develop' into feature-gentrapAdd job for writing PDF reportMerge branch 'patch-executable_check' into 'develop'Possible to not convert executable to CanonicalPathPossible to not convert executable to CanonicalPathAdd initial wrapper for pdflatexPass path to logo to template generatorFormatting updates