[med-svn] [Git][med-team/drop-seq][master] 6 commits: Fixing the clean target

[Pierre Gruet (@pgt)]

Pierre Gruet pushed to branch master at Debian Med / drop-seq


Commits:
2a523755 by Pierre Gruet at 2023-08-14T15:38:55+02:00
Fixing the clean target

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fe62a626 by Pierre Gruet at 2023-08-21T15:01:36+02:00
New upstream version 2.5.4+dfsg
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85691564 by Pierre Gruet at 2023-08-21T15:03:20+02:00
Update upstream source from tag 'upstream/2.5.4+dfsg'

Update to upstream version '2.5.4+dfsg'
with Debian dir 26f739889d94cb5625ac2daccb9e441cf248a43d
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94574002 by Pierre Gruet at 2023-08-21T15:05:34+02:00
Refreshing copyright years in d/copyright

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f938d6ef by Pierre Gruet at 2023-08-21T15:07:59+02:00
Updating changelog

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0fe09bef by Pierre Gruet at 2023-08-21T16:19:35+02:00
Upload to unstable

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30 changed files:

- debian/changelog
- debian/copyright
- debian/rules
- public.iml
- src/ant/defs.xml
- src/java/org/broadinstitute/dropseqrna/annotation/GTFReader.java
- src/java/org/broadinstitute/dropseqrna/annotation/GeneFromGTFBuilder.java
- src/java/org/broadinstitute/dropseqrna/annotation/ReduceGtf.java
- src/java/org/broadinstitute/dropseqrna/annotation/ValidateReference.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollector.java
- src/java/org/broadinstitute/dropseqrna/barnyard/Utils.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/GatherDigitalAlleleCounts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPInfoCollection.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileup.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMIBasePileupIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMICellReadIteratorWrapper.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/SNPUMICellReadIteratorWrapper2.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/AssignCellsToSamples.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/SampleGenotypeProbabilitiesIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/DetectDoublets.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/GenotypeMatrix.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/sampleassignment/multisample/VariantDataFactory.java
- src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeq.java
- src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeqUtils.java
- src/java/org/broadinstitute/dropseqrna/censusseq/CsiAnalysis.java
- src/java/org/broadinstitute/dropseqrna/censusseq/RollCall.java
- src/java/org/broadinstitute/dropseqrna/censusseq/SNPGenomicBasePileupIterator.java
- src/java/org/broadinstitute/dropseqrna/metrics/BamTagHistogram.java
- src/java/org/broadinstitute/dropseqrna/metrics/CountUnmatchedSampleIndices.java
- + src/java/org/broadinstitute/dropseqrna/metrics/MetricsUtil.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/compare/8887ed0e7c42eded3e10cd109c76d320c8434fc8...0fe09beff8b9249df11b37b45189a0229aa99048

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View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/compare/8887ed0e7c42eded3e10cd109c76d320c8434fc8...0fe09beff8b9249df11b37b45189a0229aa99048
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