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Created with Raphaël 2.2.013May12111098765432130Apr29282726252221181615141312111087654131Mar3029252423211918171615141311109875432129Feb2625Merge branch 'feature-cnvpipeline' into 'develop' Merge branch 'feature-allow-custom-adapters' into 'develop' StyleAccept multiple input filesRemove empty constructsRefactor tool to comply to test..Merge remote-tracking branch 'remotes/origin/develop' into biopet-biosMerge branch 'fix-make-rc_trimmingoptional' into 'develop' Merge branch 'feature-scatter_annotation' into 'develop' fix nullpointercreate genome file from fai.fix some code warningsNo tabix on unzipped vcf filesAdding commentsAdded pipeline to agregation and executableFixed testAdded contig check for each recordFixed compile errorFixed file namesAdded cnv to summary settingsAdded test in shiva for cnvcallingAdded cnv calling to shivaStyle fixesRemove old pipeline from executableAdded conifer as methodAdded bedtools sorted flag as defaultAdded summary testAdded basic unit testsStyle fixFix cutadapt test.Merge branch 'develop' into fix-make-rc_trimmingoptionalUpdate testMerge branch 'develop' into fix-svcallers-vcfUse samplename_suffix to change the sample nameMerge branch 'develop' into feature-allow-custom-adaptersAdded summary jobsStyle fixesMake kopisu more modulairRemove empty classMerge remote-tracking branch 'remotes/origin/develop' into feature-cnvpipeline