[med-svn] [Git][med-team/python-biopython][master] 13 commits: implement makeblastdb -blastdb_version flag

[Étienne Mollier]

Étienne Mollier pushed to branch master at Debian Med / python-biopython


Commits:
dcb8b9cf by Etienne Mollier at 2020-06-11T17:10:17+02:00
implement makeblastdb -blastdb_version flag

this is to enable working around 32 bit limitations for some tests.

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8b2509a6 by Etienne Mollier at 2020-06-11T17:13:39+02:00
modified makeblastdb call in tests for use of v4

the move to v4 allows to execute tests on 32 bit architectures too,
otherwise execution of makeblastdb starves the address space, and
the database never gets built due to running out of memory.

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58a534fc by Etienne Mollier at 2020-06-11T17:45:33+02:00
incremented changelog to refer to bug report

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0c172baf by Etienne Mollier at 2020-06-11T17:47:17+02:00
routine-update: New upstream version

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375446ad by Etienne Mollier at 2020-06-11T17:47:19+02:00
New upstream version 1.77+dfsg
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3c726c31 by Etienne Mollier at 2020-06-11T17:47:48+02:00
Update upstream source from tag 'upstream/1.77+dfsg'

Update to upstream version '1.77+dfsg'
with Debian dir 75ee8858254474c3b1ef5c5cbf374d8dd2bec816
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6e0b60ee by Etienne Mollier at 2020-06-11T17:56:43+02:00
new upstream version

this was caught by routine-update.

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109cdc41 by Etienne Mollier at 2020-06-11T18:17:02+02:00
removed patch not applying anymore

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2202c0a7 by Etienne Mollier at 2020-06-11T18:17:52+02:00
remove patch applied upstream

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b6cd88a0 by Etienne Mollier at 2020-06-11T18:37:28+02:00
rewrote patch implementing version option

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adceea31 by Etienne Mollier at 2020-06-11T19:25:36+02:00
rewrote patch against tests for 32 bits workaround

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4bd09eea by Etienne Mollier at 2020-06-11T20:09:38+02:00
removed unnecessary patches

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1a60c9c7 by Etienne Mollier at 2020-06-11T20:26:12+02:00
routine-update: Ready to upload to unstable

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12 changed files:

- .appveyor.yml
- .flake8
- .gitignore
- .travis-tox.ini
- .travis.yml
- Bio/Affy/CelFile.py
- Bio/Align/AlignInfo.py
- Bio/Align/Applications/_ClustalOmega.py
- Bio/Align/Applications/_Clustalw.py
- Bio/Align/Applications/_Dialign.py
- Bio/Align/Applications/_MSAProbs.py
- Bio/Align/Applications/_Mafft.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/python-biopython/-/compare/aeed16e6cc293e35212b60b51dc44a5a88f57272...1a60c9c7728de7aa8a384b04186dec8cb98f8cd9

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-biopython/-/compare/aeed16e6cc293e35212b60b51dc44a5a88f57272...1a60c9c7728de7aa8a384b04186dec8cb98f8cd9
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