[med-svn] [Git][med-team/drop-seq][master] 4 commits: routine-update: New upstream version

[Steffen Möller]

Steffen Möller pushed to branch master at Debian Med / drop-seq


Commits:
84bdb1ed by Steffen Moeller at 2020-09-20T20:15:43+02:00
routine-update: New upstream version

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aa4f6adc by Steffen Moeller at 2020-09-20T20:15:47+02:00
New upstream version 2.4.0+dfsg
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35ccb820 by Steffen Moeller at 2020-09-20T20:16:52+02:00
Update upstream source from tag 'upstream/2.4.0+dfsg'

Update to upstream version '2.4.0+dfsg'
with Debian dir 51741ebb48b50788caf3e0e563ca2db74033816a
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27738d57 by Steffen Moeller at 2020-09-20T20:27:31+02:00
New upstream version.

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30 changed files:

- README.md
- build.xml
- debian/changelog
- debian/patches/link_excluded_file.patch
- + doc/Census-seq_Computational_Protcools.pdf
- src/ant/defs.xml
- src/java/org/broadinstitute/dropseqrna/annotation/EnhanceGTFRecords.java
- src/java/org/broadinstitute/dropseqrna/annotation/GatherGeneGCLength.java
- src/java/org/broadinstitute/dropseqrna/barnyard/DigitalExpression.java
- src/java/org/broadinstitute/dropseqrna/barnyard/GatherMolecularBarcodeDistributionByGene.java
- + src/java/org/broadinstitute/dropseqrna/barnyard/RnaSeqMtMetrics.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SelectCellsByNumTranscripts.java
- src/java/org/broadinstitute/dropseqrna/barnyard/SingleCellRnaSeqMetricsCollector.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalallelecounts/LikelihoodUtils.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/SummarizeUMIBaseQualities.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/DgeHeaderMerger.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/DgeIterator.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/UMICollection.java
- src/java/org/broadinstitute/dropseqrna/barnyard/digitalexpression/tools/DGEMatrix.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/BiasedBarcodeCollectionFactory.java
- src/java/org/broadinstitute/dropseqrna/beadsynthesis/DetectBeadSynthesisErrors.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeq.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CensusSeqUtils.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CommonSNPsData.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CsiAnalysis.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/CsiMetrics.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/GenotypeDataBitSetListBacked.java
- + src/java/org/broadinstitute/dropseqrna/censusseq/GenotypeDataI.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/compare/7203c8e0e5ad7b5ba74bbaa447fc2ab3784516f7...27738d57c9deb4853c2df82e7ed6fa31cb690359

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View it on GitLab: https://salsa.debian.org/med-team/drop-seq/-/compare/7203c8e0e5ad7b5ba74bbaa447fc2ab3784516f7...27738d57c9deb4853c2df82e7ed6fa31cb690359
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