[med-svn] [Git][med-team/htsjdk][upstream] New upstream version 2.24.1+dfsg

[Pierre Gruet (@pgt)]

Pierre Gruet pushed to branch upstream at Debian Med / htsjdk


Commits:
b869680b by Pierre Gruet at 2021-11-17T22:36:52+01:00
New upstream version 2.24.1+dfsg
- - - - -


30 changed files:

- .gitignore
- .travis.yml
- README.md
- build.gradle
- + scripts/htsget-scripts/README.md
- + scripts/htsget-scripts/htsget_config.json
- + scripts/htsget-scripts/start-htsget-test-server.sh
- + src/main/java/htsjdk/io/AsyncWriterPool.java
- + src/main/java/htsjdk/io/HtsPath.java
- + src/main/java/htsjdk/io/IOPath.java
- + src/main/java/htsjdk/io/Writer.java
- src/main/java/htsjdk/samtools/AbstractSAMHeaderRecord.java
- src/main/java/htsjdk/samtools/BAMFileReader.java
- src/main/java/htsjdk/samtools/CRAMFileReader.java
- src/main/java/htsjdk/samtools/DuplicateSetIterator.java
- + src/main/java/htsjdk/samtools/HtsgetBAMFileReader.java
- src/main/java/htsjdk/samtools/QueryInterval.java
- src/main/java/htsjdk/samtools/SAMRecord.java
- src/main/java/htsjdk/samtools/SAMRecordDuplicateComparator.java
- src/main/java/htsjdk/samtools/SAMRecordQueryNameComparator.java
- src/main/java/htsjdk/samtools/SAMRecordSetBuilder.java
- src/main/java/htsjdk/samtools/SAMSequenceDictionary.java
- src/main/java/htsjdk/samtools/SAMSequenceRecord.java
- src/main/java/htsjdk/samtools/SAMUtils.java
- src/main/java/htsjdk/samtools/SAMValidationError.java
- src/main/java/htsjdk/samtools/SamFileValidator.java
- src/main/java/htsjdk/samtools/SamFlagField.java
- src/main/java/htsjdk/samtools/SamInputResource.java
- src/main/java/htsjdk/samtools/SamPairUtil.java
- src/main/java/htsjdk/samtools/SamReader.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/htsjdk/-/commit/b869680be30cad9b627cb669d899eac50d20f682

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View it on GitLab: https://salsa.debian.org/med-team/htsjdk/-/commit/b869680be30cad9b627cb669d899eac50d20f682
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