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Created with Raphaël 2.2.030Nov20191413121110931Oct20Sep14131211109131Aug2726252420191615141312111087654331Jul3023151420May13116542130Apr27252422732130Mar2726242321201918161514131298628Feb18171514121110743230Jan29282724232221201918171514136311Dec9325Nov2015141186431Oct302928Change uploadInputBag unit test to use new singularity containerFix CI lintStart CI unit test for uploadInputBagAdd uploadInputBagMerge branch '68-outputBagDetails' into 'develop'Add Jons Syntax FixChange it all backFix RID in singularityFixed RIDGervaise made me do it againGervaise made me do itAdd run details to output bagMerge branch '65-trim_galore' into 'develop'update dag.Spell correction.Update use of includeInputs.Update changes to reflect only the change in order of steps. Fix output files.Fix extra space.Remove pigz parllel option.Update with set for since only 1 variable. Also update pattern to pass files.Add back parallel trim step. Moved fastqc step after trim.Update bicf_logo.pngMerge branch '78-tool_version' into developMerge branch '60-consistency_tests' into 'develop'Fix id in generate versions.Fix number of reads that map. Merge branch '78-tool_version' of git.biohpc.swmed.edu:gudmap_rbk/rna-seq into 78-tool_versionAddress typo's and refernces to pipeline.Fix custom report names for orderingTry to get software references workingFix spelling errorTest software version/references multiqc custom report orderingMerge branch 'develop' into '60-consistency_tests'Merge branch '63-on_error' into 'develop'Fix parsing of json file.Fix consistency check for where it is grabbing.Update README.mdTry to fix order.Update DAG, links and order of sections.Add in yaml files.