[med-svn] [Git][med-team/beagle][upstream] New upstream version 241217

[Dylan Aïssi (@daissi)]

Dylan Aïssi pushed to branch upstream at Debian Med / beagle


Commits:
64cf178b by Dylan Aïssi at 2025-02-03T22:45:17+01:00
New upstream version 241217
- - - - -


30 changed files:

- beagleutil/CompHapSegment.java
- blbutil/BitArray.java
- blbutil/BlockLineReader.java
- blbutil/FileIt.java
- blbutil/FileUtil.java
- blbutil/InputIt.java
- + blbutil/TriFunction.java
- blbutil/Utilities.java
- bref/AsIsBref3Writer.java
- bref/Bref3.java
- + bref/Bref3Header.java
- bref/Bref3It.java
- bref/Bref3Reader.java
- bref/CompressBref3Writer.java
- bref/SeqCoder3.java
- bref/UnBref3.java
- imp/ImpStates.java
- imp/ImputedRecBuilder.java
- ints/PackedIntArray.java
- ints/UnsignedByteArray.java
- main/Main.java
- main/Par.java
- main/RunStats.java
- main/WindowWriter.java
- phase/BasicPhaseStates.java
- phase/FixedPhaseData.java
- phase/FwdPbwtPhaser.java
- phase/HmmUpdater.java
- phase/Ibs2.java
- phase/Ibs2Sets.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/beagle/-/commit/64cf178bc1d96c6fe27580547b319e466a167a27

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View it on GitLab: https://salsa.debian.org/med-team/beagle/-/commit/64cf178bc1d96c6fe27580547b319e466a167a27
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