[med-svn] [Git][med-team/salmon][master] 11 commits: routine-update: New upstream version

[Michael R. Crusoe]

Michael R. Crusoe pushed to branch master at Debian Med / salmon


Commits:
91a79c52 by Michael R. Crusoe at 2020-11-26T16:12:50+01:00
routine-update: New upstream version

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a6b0c12c by Michael R. Crusoe at 2020-11-26T16:12:51+01:00
New upstream version 1.4.0+ds1
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d56f613e by Michael R. Crusoe at 2020-11-26T16:12:54+01:00
Update upstream source from tag 'upstream/1.4.0+ds1'

Update to upstream version '1.4.0+ds1'
with Debian dir 8de8319023d888d3233150c0842f1970cc6113a1
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2ad74496 by Michael R. Crusoe at 2020-11-26T16:12:55+01:00
routine-update: Standards-Version: 4.5.1

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52bbdd9d by Michael R. Crusoe at 2020-11-26T16:30:06+01:00
refreshed patches

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7e320bee by Michael R. Crusoe at 2020-11-26T17:05:28+01:00
debian/control: build-dep on libsimde-dev

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775c854d by Michael R. Crusoe at 2020-11-26T17:31:48+01:00
update pufferfish snapshot

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1b698d7c by Michael R. Crusoe at 2020-11-26T17:31:48+01:00
test

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8f6a9e2a by Michael R. Crusoe at 2020-11-26T17:31:48+01:00
arm64

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1cbe5f8b by Michael R. Crusoe at 2020-11-26T17:55:08+01:00
debian/patches/spelling: new typo fixes

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88839d44 by Michael R. Crusoe at 2020-11-26T19:10:46+01:00
routine-update: Ready to upload to unstable

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30 changed files:

- CMakeLists.txt
- README.md
- current_version.txt
- debian/changelog
- debian/control
- + debian/external/install/include/pufferfish/BulkChunk.hpp
- debian/external/install/include/pufferfish/CanonicalKmerIterator.hpp
- debian/external/install/include/pufferfish/MemCollector.hpp
- debian/external/install/include/pufferfish/ProgOpts.hpp
- debian/external/install/include/pufferfish/SAMWriter.hpp
- debian/external/install/include/pufferfish/chobo/memory_view.hpp
- debian/external/install/include/pufferfish/chobo/static_vector.hpp
- debian/external/install/include/pufferfish/rank9sel.hpp
- debian/external/pufferfish/CMakeLists.txt
- debian/external/pufferfish/cmake/Modules/FindJemalloc.cmake
- debian/external/pufferfish/external/twopaco/graphconstructor/vertexenumerator.cpp
- + debian/external/pufferfish/include/BulkChunk.hpp
- debian/external/pufferfish/include/CanonicalKmerIterator.hpp
- debian/external/pufferfish/include/FastxParserThreadUtils.hpp
- debian/external/pufferfish/include/MemCollector.hpp
- debian/external/pufferfish/include/ProgOpts.hpp
- debian/external/pufferfish/include/SAMWriter.hpp
- debian/external/pufferfish/include/chobo/memory_view.hpp
- debian/external/pufferfish/include/chobo/static_vector.hpp
- debian/external/pufferfish/include/rank9sel.hpp
- + debian/external/pufferfish/scripts/microbiome_experiments/bulk_setting.sh
- + debian/external/pufferfish/scripts/microbiome_experiments/clean_results.py
- + debian/external/pufferfish/scripts/microbiome_experiments/evaluate_bulk_results.py
- + debian/external/pufferfish/scripts/microbiome_experiments/microbiome_complete_pipeline.sh
- + debian/external/pufferfish/scripts/microbiome_experiments/microbiome_prep_performanceBenchmarks.sh


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/salmon/-/compare/f39a9aaf858789de2ea12c7ec23357a92a4e3555...88839d4410367711930f9eae0b79fc68432273c9

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View it on GitLab: https://salsa.debian.org/med-team/salmon/-/compare/f39a9aaf858789de2ea12c7ec23357a92a4e3555...88839d4410367711930f9eae0b79fc68432273c9
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