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Created with Raphaël 2.2.09Nov876543231Oct30292827262523222120191615141312987652130Sep29282725242322211817161413111098765432131Aug3029282726252423Added some scaladocsAdded automated input file checkingfixed jobOutputFileAdded loggingFixed unit testingFixed small bugCatch nullpointersRemove unused importfix method nameAdded more infor for deps filesFixed jobOutputFileEnforce absolute paths for input filesAdded .par for faster IOFixed java typesAdded files to jsonAdded init version of dependency debug modechanges in docs 0.5.0 bam2wig reformat codeAdding addError methodschanges in docs 0.5.0 added getting help sectionBetter error handeling on wrong valuesFix null pointer on missing valuesone single quotation mark :/. Added test case to guard against future errors in manweconfig .fix nullpointer exceptionchanges in docs 0.5.0 carpcant create manwe config in /tmp dir, since that is node-specificMerge remote-tracking branch 'origin/feature-docs-0.5.0' into feature-docs-0.5.0changes in docs 0.5.0 carpAdded small key work to menuchanges in docs 0.5.0fix non-required arguments for manweuse output dir for varda intermediatesMerge branch 'fix_gentrap_report_pdf' into 'develop' Merge branch 'fix-toucan-settings' into 'develop' adapters table was not filled correctlynum_reads_discarded changed into num_reads_discarded_totalfixes in gentrap reportMerge branch 'fix-gears_parse' into 'develop' Merge branch 'feature-auto_retry' into 'develop' Adding d3 to the coreFixed gears parsing
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