[med-svn] [Git][med-team/spades][master] 8 commits: routine-update: New upstream version

[Étienne Mollier (@emollier)]

Étienne Mollier pushed to branch master at Debian Med / spades


Commits:
a5759a72 by Étienne Mollier at 2022-07-24T07:28:32+02:00
routine-update: New upstream version

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3d6cb8fc by Étienne Mollier at 2022-07-24T07:28:33+02:00
New upstream version 3.15.5+dfsg
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45a82de8 by Étienne Mollier at 2022-07-24T07:29:05+02:00
Update upstream source from tag 'upstream/3.15.5+dfsg'

Update to upstream version '3.15.5+dfsg'
with Debian dir a17493c8ed5ba416403b6612073676665f8232ef
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d315ca2d by Étienne Mollier at 2022-07-24T07:37:41+02:00
python3.patch: refresh.

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f2112b46 by Étienne Mollier at 2022-07-24T07:38:53+02:00
0003_accept-system-bwa.patch: unfuzz.

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2a839c34 by Étienne Mollier at 2022-07-24T07:39:11+02:00
yaml_load.patch: unfuzz.

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e7b11d7b by Étienne Mollier at 2022-07-24T07:41:27+02:00
fix-privacy-breaches.patch: update badges list.

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fbfcea01 by Étienne Mollier at 2022-07-24T09:24:27+02:00
update changelog

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20 changed files:

- README.md
- assembler/VERSION
- assembler/changelog.html
- assembler/manual.html
- assembler/src/cmake/pack.cmake
- + assembler/src/common/assembly_graph/handlers/used_edge_handler.hpp
- assembler/src/common/modules/alignment/pacbio/gap_filler.hpp
- assembler/src/projects/spades/contig_output_stage.cpp
- assembler/src/projects/spades/domain_matcher.cpp
- assembler/src/spades_pipeline/options_parser.py
- assembler/src/spades_pipeline/stages/correction_stage.py
- assembler/src/spades_pipeline/stages/error_correction_stage.py
- assembler/src/spades_pipeline/stages/pipeline.py
- − assembler/src/spades_pipeline/stages/scaffold_correction_stage.py
- assembler/src/spades_pipeline/stages/spades_iteration_stage.py
- assembler/src/spades_pipeline/stages/spades_stage.py
- assembler/src/spades_pipeline/support.py
- debian/changelog
- debian/patches/0003_accept-system-bwa.patch
- debian/patches/fix-privacy-breaches.patch


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/spades/-/compare/29ecdabb8a879e5b8a06b286f3ceff0ec82a56b0...fbfcea010aef8ce5bd51ae473a8e6e7bee66b7c9

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View it on GitLab: https://salsa.debian.org/med-team/spades/-/compare/29ecdabb8a879e5b8a06b286f3ceff0ec82a56b0...fbfcea010aef8ce5bd51ae473a8e6e7bee66b7c9
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