Pierre Gruet pushed to branch upstream at Debian Med / picard-tools
Commits: 0601fb2b by Pierre Gruet at 2024-12-05T12:35:41+01:00 New upstream version 3.3.0+dfsg - - - - - 30 changed files: - .github/workflows/cloud_tests.yml - .gitignore - Dockerfile - build.gradle - build_push_docker.sh - gradle/wrapper/gradle-wrapper.properties - gradlew - src/main/java/picard/analysis/CollectQualityYieldMetrics.java - + src/main/java/picard/analysis/CollectQualityYieldMetricsFlow.java - + src/main/java/picard/analysis/CollectQualityYieldMetricsSNVQ.java - src/main/java/picard/analysis/directed/PanelMetricsBase.java - src/main/java/picard/analysis/directed/TargetMetricsCollector.java - src/main/java/picard/cmdline/CommandLineProgram.java - src/main/java/picard/cmdline/StandardOptionDefinitions.java - src/main/java/picard/cmdline/argumentcollections/OptionalReferenceArgumentCollection.java - src/main/java/picard/cmdline/argumentcollections/ReferenceArgumentCollection.java - src/main/java/picard/cmdline/argumentcollections/RequiredReferenceArgumentCollection.java - src/main/java/picard/fingerprint/FingerprintChecker.java - + src/main/java/picard/flow/FlowBasedArgumentCollection.java - + src/main/java/picard/flow/FlowBasedKeyCodec.java - + src/main/java/picard/flow/FlowBasedRead.java - + src/main/java/picard/flow/FlowReadGroupInfo.java - src/main/java/picard/nio/DeleteRecursive.java - src/main/java/picard/nio/GATKBucketUtils.java → src/main/java/picard/nio/PicardBucketUtils.java - src/main/java/picard/nio/PicardHtsPath.java - src/main/java/picard/nio/GATKIOUtils.java → src/main/java/picard/nio/PicardIOUtils.java - src/main/java/picard/sam/AbstractAlignmentMerger.java - src/main/java/picard/sam/CreateSequenceDictionary.java - src/main/java/picard/sam/DownsampleSam.java - src/main/java/picard/sam/MergeBamAlignment.java The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/commit/0601fb2b9891fdbcabec88cd48b338fdb88a805d -- View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/commit/0601fb2b9891fdbcabec88cd48b338fdb88a805d You're receiving this email because of your account on salsa.debian.org.
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