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Created with Raphaël 2.2.014Nov1211108765432131Oct30292827252423222120171615141310987630Sep29262217161512111098532129Aug28272625222019181514121187654130Jul292827Fix singleSample commandline functionChange util to utilsAdded consensus fastas to pipelineChanged Queue wrapperAdded consensus + variants builderAdded consensus builderAdded scala maxthread optionAdded fillAllele functionAdded checksAdded general vcf utilsMerge branch 'develop' into feature-basty_generate_fastaMerge branch 'develop' of git.lumc.nl:biopet/biopet into feature-yamsvpAdding delly mini-pipeline to yamsvcRemove unused filesMerge branch 'fixsamtofastq' into 'develop'Merge branch 'feature-merge_alleles' into 'develop'Merge branch 'feature-fixbedtools_cov_stats' into 'develop'Switch to own License fileMerge branch 'develop' into feature-merge_allelesFix typo and added exceptionChange default threads to 1Merge branch 'feature-sample_config_create' into 'develop'Fix bedtools_cov_stats.py for plotting in new sharkAdded plugin to pom.xmlAdded index file as output fileFix on output filesFix memoryStyle fixAdded mergeAlleles to executableChange to mergeAllelesAdded constructorAdded Queue wrapperFix bugs on MergeAllelesAdded MergeAlleles toolMerge commit '6c473b658b9fac23b6fcc3a1e3c1968b66e68919' into feature-merge_allelesChange name to SamplesTsvToJsonWorking version of ParseSamplesAdded mapToJson methodPlot changed for functioning in new sharkGC options can now be set through the config