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Created with Raphaël 2.2.027Oct262523222120191615141312987652130Sep29282725242322211817161413111098765432131Aug302928272625242322212019181716151413121164Hide variant report when multisample variantcalling is not executedFix outputDir to workDir (makes more sense in multi sample mode)Refactor usage of Delly pipeline a bit by adding CatVariants and moving Delly to ShivaRaise default memoryAdded more settings to the summaryStyle changesImplemented sample specific settings in the summaryRemove undeed traitMerge remote-tracking branch 'origin/feature-docs-0.5.0' into feature-docs-0.5.0Change titlesAn update on example pipelineSwitch -a and -b for bedtools coverageCode style fixesRemove file checkingFix summary keyFixed bcftools merge stepFixed unknown executablesStyle changesFix existFix case classMove Executable function outside of classSet defaults for gc limitsAdded GenotypeConcordance to shivaAdded GenotypeConcordancefix compile errorFix failing test and codeMerge branch 'develop' into feature-vardaadd extra newlineMerge branch 'fix-Shiva_bcftools_calling' into 'develop' Merge remote-tracking branch 'remotes/origin/develop' into feature-generate_indexesMerge branch 'fix-sample-names' into 'develop' Typos and reformulating sentencesproper temp filesfix for #222Bugfix in KrakenReportToJson, include Root and Unclassified in any case.POM definition fix.Merge remote-tracking branch 'remotes/origin/develop' into fix-Shiva_bcftools_callingadded release notesrefactor memorylimitAdding tests for Gears