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Created with Raphaël 2.2.05Nov43231Oct30292827262523222120191615141312987652130Sep29282725242322211817161413111098765432131Aug302928272625242322212019Merge 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 parsingMerge branch 'fix-shiva_fails' into 'develop' changes in gsnap piping and fix bug in fastqsyncStyle changesMerge remote-tracking branch 'remotes/origin/develop' into fix-shiva_failsAdded a default for the retry argthere's a bug in VEP:Merge branch 'feature-gears' into 'develop' Added sunburst plot to mapping and shivaFixed interval tagMerge remote-tracking branch 'remotes/origin/develop' into fix-shiva_failsAdded sample / lib to reportFixed warningRaise memoryAdding Gears to summary output of MappingOptimize codeAdded input file checkingfixed dependencies foe summarySimplify unmapped reads extractionMerge Request accepted by jenkins build successblahsee #231Style fixesFixed intermediate filesFix resource copy for the reportFix fai check