[med-svn] [Git][med-team/ncbi-blastplus][debian/jessie-backports] 23 commits: Imported Upstream version 2.4.0

[Andreas Tille]

Andreas Tille pushed to branch debian/jessie-backports at Debian Med / ncbi-blastplus


Commits:
c943f552 by Aaron M. Ucko at 2016-08-03T11:06:19-04:00
Imported Upstream version 2.4.0
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74e6c3db by Aaron M. Ucko at 2016-08-03T18:49:48-04:00
Imported Upstream version 2.4.0
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06564964 by Olivier Sallou at 2016-12-01T14:38:54+01:00
New upstream version 2.5.0
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d2179e98 by Olivier Sallou at 2016-12-01T14:39:29+01:00
Updated version 2.5.0 from 'upstream/2.5.0'

with Debian dir e6f7d6e5bafd2b66fe885214be2aeb69a94e79f6
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87072b85 by Olivier Sallou at 2016-12-01T15:42:13+01:00
new upstream release 2.5.0, update patches to match release

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8cb00b84 by Aaron M. Ucko at 2016-12-05T20:42:35-05:00
Start work on ncbi-blast+ 2.5.0-2.

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c0f5a8c1 by Aaron M. Ucko at 2016-12-05T23:05:55-05:00
fix_lib_deps: Also patch Makefile.blast_macros.mk.

Add blast to BLAST_LIBS to clear up link errors that could otherwise occur.

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96c2b0f9 by Aaron M. Ucko at 2016-12-05T23:15:53-05:00
B-D on libgnutls28-dev to enable HTTPS support.

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4d9d362b by Aaron M. Ucko at 2016-12-05T23:16:19-05:00
Fully take blast2 over from ncbi-tools6.

The C implementation has retired.

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ab421cee by Aaron M. Ucko at 2016-12-05T23:16:55-05:00
Finalize ncbi-blast+ 2.5.0-2 for upload to unstable.

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b2d16f3b by Aaron M. Ucko at 2016-12-07T21:30:27-05:00
Start work on ncbi-blast+ 2.5.0-3.

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4557e6e3 by Aaron M. Ucko at 2016-12-07T21:46:20-05:00
New suppress_gnutls_version_check patch.

Prevent bailing when the exact compile-time and runtime GNU TLS versions
differ; trust dpkg to disallow combinations that are actually incompatible.

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308ec1f2 by Aaron M. Ucko at 2016-12-07T21:46:40-05:00
Present config.log if configure fails.

debian/rules: If configure fails (as has been happening on alpha),
present (BUILD/status/)config.log before bailing.

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b7fec85b by Aaron M. Ucko at 2016-12-07T21:47:13-05:00
Finalize ncbi-blast+ 2.5.0-3 for upload to unstable.

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5b6c1b1e by Aaron M. Ucko at 2016-12-14T22:37:14-05:00
Start work on ncbi-blast+ 2.5.0-4.

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f9e8ec32 by Aaron M. Ucko at 2016-12-14T22:44:19-05:00
New optionally_keep_sequence patch (#792510).

Hang on to sequence data even if -parse_deflines recognized a non-local ID,
on the condition that the environment variable BLAST_ALWAYS_KEEP_SEQUENCE
(or configuration parameter [BLAST] always_keep_sequence) is set to a
"true" value (English-only, case-insensitive true, t, yes, y, or 1).

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43a0f403 by Aaron M. Ucko at 2016-12-14T22:46:45-05:00
Finalize ncbi-blast+ 2.5.0-4 for upload to unstable.

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edfc1313 by Olivier Sallou at 2017-01-15T17:12:04+00:00
New upstream version 2.6.0
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667fb222 by Olivier Sallou at 2017-01-15T17:12:12+00:00
Updated version 2.6.0 from 'upstream/2.6.0'

with Debian dir e42d5a2a50d036aecd1289ba1e5ef2e49790dfa4
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f0a587df by Olivier Sallou at 2017-01-15T17:13:59+00:00
prepare new upstream 2.6.0, update patches

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c5cc948f by Olivier Sallou at 2017-01-15T17:53:45+00:00
prepare upload of new upstream release 2.6.0

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42f3a525 by Andreas Tille at 2017-02-13T13:59:45+01:00
Merge branch 'master' into debian/jessie-backports

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f8e6d6f8 by Andreas Tille at 2017-02-13T14:00:08+01:00
Rebuild for jessie-backports

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30 changed files:

- c++/compilers/unix/GCC.sh
- c++/compilers/unix/ICC.sh
- c++/compilers/vs2013/build_exec.bat
- c++/compilers/vs2013/configure.bat
- c++/compilers/vs2013/dll/build/gbench/ncbi_gbench.sln
- c++/compilers/vs2013/dll/build/gui/ncbi_gui_dll.sln
- c++/compilers/vs2013/dll/build/ncbi_cpp_dll.sln
- c++/compilers/vs2013/make.bat
- c++/compilers/vs2013/ptb.bat
- c++/compilers/vs2013/static/build/gui/ncbi_gui.sln
- c++/compilers/vs2013/static/build/ncbi_cpp.sln
- c++/compilers/vs2013/user/build/ncbi_user.sln
- + c++/compilers/vs2015/Makefile.WinMain.app.msvc
- + c++/compilers/vs2015/Makefile.wxWidgets.app.msvc
- + c++/compilers/vs2015/build.sh
- + c++/compilers/vs2015/build_exec.bat
- + c++/compilers/vs2015/build_util.sh
- + c++/compilers/vs2015/check.sh
- + c++/compilers/vs2015/configure.bat
- + c++/compilers/vs2015/datatool.bat
- + c++/compilers/vs2015/dll/build/UtilityProjects/_CONFIGURE_.vcxproj
- + c++/compilers/vs2015/dll/build/UtilityProjects/_CONFIGURE_DIALOG_.vcxproj
- + c++/compilers/vs2015/dll/build/UtilityProjects/configure._
- + c++/compilers/vs2015/dll/build/UtilityProjects/configure_dialog._
- + c++/compilers/vs2015/dll/build/all.bat
- + c++/compilers/vs2015/dll/build/all_gbench.bat
- + c++/compilers/vs2015/dll/build/all_gui.bat
- + c++/compilers/vs2015/dll/build/all_ncbi.bat
- + c++/compilers/vs2015/dll/build/gbench/UtilityProjects/_CONFIGURE_.vcxproj
- + c++/compilers/vs2015/dll/build/gbench/UtilityProjects/_CONFIGURE_DIALOG_.vcxproj


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/ncbi-blastplus/compare/8707224a37ef624a8ec468d797b18ee83460a7a5...f8e6d6f8c938666710250ce9ed395a6594764b84

-- 
View it on GitLab: https://salsa.debian.org/med-team/ncbi-blastplus/compare/8707224a37ef624a8ec468d797b18ee83460a7a5...f8e6d6f8c938666710250ce9ed395a6594764b84
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