Pierre Gruet pushed to branch upstream at Debian Med / picard-tools
Commits: f17ae3a5 by Pierre Gruet at 2022-09-22T16:29:27+02:00 New upstream version 2.27.4+dfsg - - - - - 30 changed files: - .gitignore - build.gradle - src/main/java/picard/analysis/AlignmentSummaryMetrics.java - src/main/java/picard/analysis/AlignmentSummaryMetricsCollector.java - src/main/java/picard/analysis/CollectQualityYieldMetrics.java - + src/main/java/picard/analysis/HistogramGenerator.java - src/main/java/picard/analysis/MeanQualityByCycle.java - src/main/java/picard/sam/DuplicationMetrics.java - + src/main/java/picard/sam/DuplicationMetricsFactory.java - src/main/java/picard/sam/FastqToSam.java - + src/main/java/picard/sam/FlowBasedDuplicationMetrics.java - src/main/java/picard/sam/RevertSam.java - src/main/java/picard/sam/markduplicates/CollectDuplicateMetrics.java - src/main/java/picard/sam/markduplicates/EstimateLibraryComplexity.java - src/main/java/picard/sam/markduplicates/MarkDuplicates.java - + src/main/java/picard/sam/markduplicates/MarkDuplicatesForFlowArgumentCollection.java - + src/main/java/picard/sam/markduplicates/MarkDuplicatesForFlowHelper.java - + src/main/java/picard/sam/markduplicates/MarkDuplicatesHelper.java - src/main/java/picard/sam/markduplicates/MarkDuplicatesWithMateCigarIterator.java - src/main/java/picard/sam/markduplicates/SimpleMarkDuplicatesWithMateCigar.java - src/main/java/picard/sam/markduplicates/util/AbstractMarkDuplicatesCommandLineProgram.java - src/main/java/picard/sam/markduplicates/util/LibraryIdGenerator.java - src/main/java/picard/sam/markduplicates/util/ReadEnds.java - src/main/java/picard/sam/markduplicates/util/ReadEndsForMarkDuplicates.java - src/main/java/picard/util/AccumulateQualityYieldMetrics.java - src/main/java/picard/vcf/GenotypeConcordance.java - src/test/java/picard/analysis/CollectQualityYieldMetricsTest.java - src/test/java/picard/sam/CramCompatibilityTest.java - src/test/java/picard/sam/DuplicationMetricsTest.java - src/test/java/picard/sam/FastqToSamTest.java The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/commit/f17ae3a5adf9516c80a4e5d57455fa80fe172c0f -- View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/commit/f17ae3a5adf9516c80a4e5d57455fa80fe172c0f You're receiving this email because of your account on salsa.debian.org.
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