[med-svn] [Git][med-team/igv][master] 9 commits: New upstream version 2.13.0+dfsg

[Pierre Gruet (@pgt)]

Pierre Gruet pushed to branch master at Debian Med / igv


Commits:
85e56923 by Pierre Gruet at 2022-05-31T20:51:37+02:00
New upstream version 2.13.0+dfsg
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f193987c by Pierre Gruet at 2022-05-31T20:53:24+02:00
Update upstream source from tag 'upstream/2.13.0+dfsg'

Update to upstream version '2.13.0+dfsg'
with Debian dir 6060db99270fd9424c1f526fb548362ad6df77f5
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84847375 by Pierre Gruet at 2022-05-31T20:57:05+02:00
Refreshing patches

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302fe105 by Pierre Gruet at 2022-05-31T21:03:19+02:00
Setting Standards version to 4.6.1 (no change)

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4c814059 by Pierre Gruet at 2022-05-31T22:03:36+02:00
Removing more AWS stuff

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0e616eb7 by Pierre Gruet at 2022-05-31T22:04:00+02:00
Omit the instantiation of URLDecoder

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b0c6afc7 by Pierre Gruet at 2022-05-31T22:05:21+02:00
Updating changelog

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5d4fc600 by Pierre Gruet at 2022-05-31T22:08:58+02:00
Forwarding patch

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17e214b8 by Pierre Gruet at 2022-05-31T23:05:16+02:00
Upload to unstable

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30 changed files:

- README.md
- debian/changelog
- debian/control
- + debian/patches/no_instantiation_of_URLDecoder.patch
- debian/patches/omit_aws_stuff.patch
- debian/patches/series
- src/main/java/org/broad/igv/aws/S3LoadDialog.java
- src/main/java/org/broad/igv/batch/CommandExecutor.java
- src/main/java/org/broad/igv/bigwig/BigWigDataSource.java → src/main/java/org/broad/igv/bbfile/BBDataSource.java
- + src/main/java/org/broad/igv/bbfile/BBUtils.java
- + src/main/java/org/broad/igv/bbfile/codecs/BBBedCodec.java
- + src/main/java/org/broad/igv/bbfile/codecs/BBCodec.java
- + src/main/java/org/broad/igv/bbfile/codecs/BBCodecFactory.java
- + src/main/java/org/broad/igv/bbfile/codecs/BBGenePredCodec.java
- + src/main/java/org/broad/igv/bbfile/codecs/BBNarowPeakCodec.java
- src/main/java/org/broad/igv/blast/BlastMapping.java
- src/main/java/org/broad/igv/feature/AbstractFeature.java
- src/main/java/org/broad/igv/feature/BasicFeature.java
- src/main/java/org/broad/igv/feature/Exon.java
- src/main/java/org/broad/igv/feature/FeatureUtils.java
- src/main/java/org/broad/igv/feature/IGVFeature.java
- src/main/java/org/broad/igv/feature/Mutation.java
- src/main/java/org/broad/igv/feature/SpliceJunctionFeature.java
- src/main/java/org/broad/igv/feature/UCSCSnpFeature.java
- src/main/java/org/broad/igv/feature/bionano/SMAPFeature.java
- src/main/java/org/broad/igv/feature/bionano/SMAPPairedFeature.java
- src/main/java/org/broad/igv/feature/dranger/DRangerFeature.java
- src/main/java/org/broad/igv/feature/genome/GenomeBuilderDialog.java
- src/main/java/org/broad/igv/feature/genome/load/JsonGenomeLoader.java
- src/main/java/org/broad/igv/feature/tribble/PAFFeature.java


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/igv/-/compare/177bb6cb1bb4056aa8fdf70050261a1b247eeef6...17e214b8b362d462e5a00ccf6ea9ee43e12dcc20

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View it on GitLab: https://salsa.debian.org/med-team/igv/-/compare/177bb6cb1bb4056aa8fdf70050261a1b247eeef6...17e214b8b362d462e5a00ccf6ea9ee43e12dcc20
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