[med-svn] [Git][med-team/salmon][master] 5 commits: New upstream version 1.7.0+ds1

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / salmon


Commits:
b91c52c1 by Andreas Tille at 2022-02-20T08:30:59+01:00
New upstream version 1.7.0+ds1
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2fec3372 by Andreas Tille at 2022-02-20T08:30:59+01:00
routine-update: New upstream version

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94312cd5 by Andreas Tille at 2022-02-20T08:31:04+01:00
Update upstream source from tag 'upstream/1.7.0+ds1'

Update to upstream version '1.7.0+ds1'
with Debian dir 61085c2de6268c624971611a19474e01b2684c63
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0311071c by Andreas Tille at 2022-02-20T12:05:24+01:00
Update code copy of pufferfish

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08c06fec by Andreas Tille at 2022-02-20T14:38:23+01:00
cmake has issues in debian/external/pufferfish.  For the moment
        try to package external dependency https://salsa.debian.org/med-team/twopaco

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30 changed files:

- CMakeLists.txt
- current_version.txt
- debian/changelog
- − debian/external/pufferfish/.clang-format
- − debian/external/pufferfish/.drone.yml
- − debian/external/pufferfish/.drone/build.sh
- − debian/external/pufferfish/.drone/copy_build.sh
- − debian/external/pufferfish/.drone/unit_tests.sh
- − debian/external/pufferfish/.gitignore
- debian/external/pufferfish/CMakeLists.txt
- − debian/external/pufferfish/docker/Dockerfile
- debian/external/pufferfish/external/twopaco/CMakeLists.txt
- debian/external/pufferfish/external/twopaco/graphconstructor/vertexenumerator.cpp
- debian/external/pufferfish/external/twopaco/graphdump/compact_vector/compact_vector.hpp
- debian/external/pufferfish/include/CommonTypes.hpp
- debian/external/pufferfish/include/FastxParser.hpp
- debian/external/pufferfish/include/FastxParserThreadUtils.hpp
- debian/external/pufferfish/include/MemChainer.hpp
- debian/external/pufferfish/include/MemCollector.hpp
- debian/external/pufferfish/include/Util.hpp
- debian/external/pufferfish/include/Cedar.hpp → debian/external/pufferfish/include/cedar/Cedar.hpp
- debian/external/pufferfish/include/EquivalenceClassBuilder.hpp → debian/external/pufferfish/include/cedar/EquivalenceClassBuilder.hpp
- debian/external/pufferfish/include/PuffMappingReader.hpp → debian/external/pufferfish/include/cedar/PuffMappingReader.hpp
- debian/external/pufferfish/include/SAMReader.hpp → debian/external/pufferfish/include/cedar/SAMReader.hpp
- debian/external/pufferfish/include/TargetGroup.hpp → debian/external/pufferfish/include/cedar/TargetGroup.hpp
- debian/external/pufferfish/include/Taxa.h → debian/external/pufferfish/include/cedar/Taxa.h
- − debian/external/pufferfish/include/chobo/optional.hpp
- − debian/external/pufferfish/include/chobo/vector.hpp
- − debian/external/pufferfish/include/chobo/vector_ptr.hpp
- − debian/external/pufferfish/include/chobo/vector_view.hpp


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/salmon/-/compare/b7cbdadd83f32b00b5b052c3972aa5720f986f31...08c06fec89b08f8a9668245e38b7b5d326cab4a7

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View it on GitLab: https://salsa.debian.org/med-team/salmon/-/compare/b7cbdadd83f32b00b5b052c3972aa5720f986f31...08c06fec89b08f8a9668245e38b7b5d326cab4a7
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