[med-svn] [Git][med-team/picard-tools][upstream] New upstream version 2.23.3+dfsg

[Michael R. Crusoe]

Michael R. Crusoe pushed to branch upstream at Debian Med / picard-tools


Commits:
beb54d3c by Michael R. Crusoe at 2020-08-27T17:06:02+02:00
New upstream version 2.23.3+dfsg
- - - - -


30 changed files:

- README.md
- build.gradle
- src/main/java/picard/analysis/CollectMultipleMetrics.java
- src/main/java/picard/arrays/ArraysCallingMetricAccumulator.java
- src/main/java/picard/arrays/CollectArraysVariantCallingMetrics.java
- src/main/java/picard/arrays/CombineGenotypingArrayVcfs.java
- src/main/java/picard/arrays/GtcToVcf.java
- + src/main/java/picard/arrays/illumina/BpmToNormalizationManifestCsv.java
- src/main/java/picard/arrays/illumina/CompareGtcFiles.java
- + src/main/java/picard/arrays/illumina/IlluminaBPMFile.java
- + src/main/java/picard/arrays/illumina/IlluminaBPMLocusEntry.java
- src/main/java/picard/arrays/illumina/InfiniumDataFile.java
- src/main/java/picard/arrays/illumina/InfiniumEGTFile.java
- src/main/java/picard/arrays/illumina/InfiniumGTCFile.java
- src/main/java/picard/arrays/illumina/InfiniumVcfFields.java
- src/main/java/picard/cmdline/CommandLineProgram.java
- + src/main/java/picard/fingerprint/CappedHaplotypeProbabilities.java
- src/main/java/picard/fingerprint/CrosscheckFingerprints.java
- + src/main/java/picard/fingerprint/ExtractFingerprint.java
- src/main/java/picard/fingerprint/Fingerprint.java
- src/main/java/picard/fingerprint/FingerprintChecker.java
- src/main/java/picard/fingerprint/FingerprintUtils.java
- src/main/java/picard/fingerprint/HaplotypeProbabilitiesFromContaminatorSequence.java
- src/main/java/picard/fingerprint/HaplotypeProbabilitiesUsingLogLikelihoods.java
- src/main/java/picard/fingerprint/IdentifyContaminant.java
- + src/main/java/picard/fingerprint/LiftOverHaplotypeMap.java
- src/main/java/picard/fingerprint/MatchResults.java
- src/main/java/picard/sam/CreateSequenceDictionary.java
- src/main/java/picard/sam/MergeBamAlignment.java
- + src/main/java/picard/sam/markduplicates/CheckDuplicateMarking.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/picard-tools/-/commit/beb54d3cf2a3541c5990e91f76b251f5545b72fc

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