[med-svn] [Git][med-team/hyphy][master] 7 commits: routine-update: New upstream version

[Étienne Mollier (@emollier)]

Étienne Mollier pushed to branch master at Debian Med / hyphy


Commits:
ea985c22 by Étienne Mollier at 2023-11-06T22:51:14+01:00
routine-update: New upstream version

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15b23388 by Étienne Mollier at 2023-11-06T22:51:15+01:00
New upstream version 2.5.56+dfsg
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28d48653 by Étienne Mollier at 2023-11-06T22:51:22+01:00
Update upstream source from tag 'upstream/2.5.56+dfsg'

Update to upstream version '2.5.56+dfsg'
with Debian dir 55175177a57ac668828fa074d342044ab2f80783
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7ca06e04 by Étienne Mollier at 2023-11-06T22:56:40+01:00
rm_arch_specific_flags.patch: refresh.

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47efda0f by Étienne Mollier at 2023-11-06T22:57:00+01:00
use_debian_sqlite.patch: refresh.

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1490ac61 by Étienne Mollier at 2023-11-06T22:57:25+01:00
set-zlib-after-setting-default-libs.patch: refresh.

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62fc4c7c by Étienne Mollier at 2023-11-06T23:03:43+01:00
ready to upload to unstable.

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30 changed files:

- CMakeLists.txt
- debian/changelog
- debian/patches/rm_arch_specific_flags.patch
- debian/patches/set-zlib-after-setting-default-libs.patch
- debian/patches/use_debian_sqlite.patch
- res/TemplateBatchFiles/SelectionAnalyses/BUSTED.bf
- res/TemplateBatchFiles/SelectionAnalyses/FEL.bf
- res/TemplateBatchFiles/SelectionAnalyses/MEME.bf
- res/TemplateBatchFiles/SelectionAnalyses/aBSREL.bf
- res/TemplateBatchFiles/SelectionAnalyses/contrast-fel.bf
- res/TemplateBatchFiles/SelectionAnalyses/modules/io_functions.ibf
- res/TemplateBatchFiles/YangNielsenBranchSite2005.bf
- res/TemplateBatchFiles/files.lst
- res/TemplateBatchFiles/libv3/IOFunctions.bf
- res/TemplateBatchFiles/libv3/UtilityFunctions.bf
- res/TemplateBatchFiles/libv3/all-terms.bf
- res/TemplateBatchFiles/libv3/convenience/math.bf
- res/TemplateBatchFiles/libv3/convenience/regexp.bf
- res/TemplateBatchFiles/libv3/models/codon/MG_REV.bf
- res/TemplateBatchFiles/libv3/models/frequencies.bf
- res/TemplateBatchFiles/libv3/models/model_functions.bf
- res/TemplateBatchFiles/libv3/models/parameters.bf
- res/TemplateBatchFiles/libv3/tasks/estimators.bf
- res/TemplateBatchFiles/libv3/tasks/trees.bf
- src/core/avllistxl.cpp
- src/core/batchlan.cpp
- src/core/batchlanruntime.cpp
- src/core/constant.cpp
- src/core/formula.cpp
- src/core/fstring.cpp


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/hyphy/-/compare/7bd11d6a899dcebdd99a6e729db8bbeb01ee40fe...62fc4c7cf05c444211a3558e21492ccb63fc8164

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View it on GitLab: https://salsa.debian.org/med-team/hyphy/-/compare/7bd11d6a899dcebdd99a6e729db8bbeb01ee40fe...62fc4c7cf05c444211a3558e21492ccb63fc8164
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