Pierre Gruet pushed to branch master at Debian Med / picard-tools
Commits: c1ab316e by Pierre Gruet at 2023-12-14T13:16:36+01:00 New upstream version 3.1.1+dfsg - - - - - 98e0f677 by Pierre Gruet at 2023-12-14T13:17:03+01:00 Update upstream source from tag 'upstream/3.1.1+dfsg' Update to upstream version '3.1.1+dfsg' with Debian dir c05e4deb7ab5ed2606cbe4d8c3c01cb5d60c744a - - - - - 515d8a2c by Pierre Gruet at 2023-12-14T21:36:49+01:00 Refreshing patches - - - - - b5953e62 by Pierre Gruet at 2023-12-16T22:37:18+01:00 Enabling the test with BarclayParser again - - - - - 40fd4cc9 by Pierre Gruet at 2023-12-16T22:37:54+01:00 Patching out more code portions using google-nio - - - - - 6e784b77 by Pierre Gruet at 2023-12-16T22:38:09+01:00 Refreshing patches - - - - - 0b1f5678 by Pierre Gruet at 2023-12-16T22:38:28+01:00 Updating changelog - - - - - 9aa2e0e1 by Pierre Gruet at 2023-12-16T22:38:37+01:00 Upload to unstable - - - - - 30 changed files: - + .gitattributes - + .github/workflows/cloud_tests.yml - .gitignore - build.gradle - debian/changelog - debian/maven.ignoreRules - debian/patches/10-build.xml.patch → debian/patches/10-build.patch - debian/patches/20-shadowjar.patch - debian/patches/30-tests-fix-dataprovider.patch - debian/patches/40-tests-fix-testng.patch - − debian/patches/50-tests-exclude-Barclay.patch - debian/patches/com_sun_javadoc_removal_in_openjdk17.patch - debian/patches/correct_dataprovider_TestDontMergeAbuttingData.patch - − debian/patches/fix_javadoc_ascii.patch - debian/patches/fix_unreadabletests.patch - debian/patches/non-intel-skip-intel-tests - debian/patches/omit_BamToBfq.patch - debian/patches/remove_google_nio.patch - debian/patches/series - gradle/wrapper/gradle-wrapper.properties - gradlew - src/main/java/picard/analysis/AlignmentSummaryMetricsCollector.java - src/main/java/picard/analysis/CollectOxoGMetrics.java - src/main/java/picard/analysis/CollectWgsMetrics.java - src/main/java/picard/analysis/SinglePassSamProgram.java - src/main/java/picard/analysis/directed/CollectTargetedMetrics.java - src/main/java/picard/analysis/replicates/CollectIndependentReplicateMetrics.java - src/main/java/picard/cmdline/CommandLineProgram.java - src/main/java/picard/cmdline/PicardCommandLine.java - src/main/java/picard/fingerprint/CheckFingerprint.java The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/compare/393338cdd2a9ba4badf29d42229f44dea10e4e4b...9aa2e0e10df007b08d50193739a5a7c526d17825 -- View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/compare/393338cdd2a9ba4badf29d42229f44dea10e4e4b...9aa2e0e10df007b08d50193739a5a7c526d17825 You're receiving this email because of your account on salsa.debian.org.
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