From: "Justin Lecher" <jlec@gentoo.org>
To: gentoo-commits@lists.gentoo.org
Subject: [gentoo-commits] proj/sci:fixing commit in: /
Date: Sat, 22 Jun 2013 10:49:23 +0000 (UTC) [thread overview]
Message-ID: <1371898140.cce50ebf51440b0d0b894465e42b13f88f4f0072.jlec@gentoo> (raw)
commit: cce50ebf51440b0d0b894465e42b13f88f4f0072
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sat Jun 22 10:49:00 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Jun 22 10:49:00 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=cce50ebf
Merge branch 'master' into fixing
* master: (22 commits)
Added new package: charmdebug.
sci-chemistry/shiftx: Block shiftx2 at runtime
sci-chemistry/shiftx: Fix patch and add patch for buffer overflow fix
The announced, but forgotten, change in sci-libs/fox-4.1.2-r2 actually done.
The announced, but forgotten, change in sci-libs/etsf_io-1.0.3-r2 actually done.
sci-physics/abinit/files/6.12.3-gui-makefiles.tbz put back, its deletion was a mistake.
sci-libs/trilinos: Version bump and rewrite
sci-libs/coinor-clp: Version bump and patch for mpi
For sci-libs/bigdft-abi and sci-physics/bigdft, filter LDFLAGS for cuda use not to break nvcc.
To sci-libs/bigdft-abi and sci-physics/bigdft added dev-util/gdbus-codegen among dependencies.
Spaces in the testing snippet of fortran code in sci-libs/bigdft-abi-1.0.4.ebuild protected from reformatting.
fixed qt4 build
fixing manifests
big fixes of metadata and package sub-herd re-distribution
sci-physics/openmx upgraded to 3.7.3 with some openMP and MPI C/F90 juggling, previous sci-physics/openmx-3.6 preserved for the time being.
sci-chemistry/talosn: drop upstream path in favour of our
sci-chemistry/modeller: Fix broken symlink, #473680
sci-chemistry/mics: New package
sci-chemistry/talosn: New package
Abinit & friends upgraded to sci-physics/abinit-7.2.2. BigDFT moved from sci-libs to sci-physics, sci-physics/abinit uses sci-libs/bigdft-abi instead. Usage of LIBDIR/finclude abandoned in favour of /usr/include, as mostly used upstream. Old files cleaned up.
...
Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
Conflicts:
sci-chemistry/talosn/ChangeLog
app-text/dgs/metadata.xml | 3 -
app-vim/freefem++-syntax/metadata.xml | 7 +-
app-vim/vim-gromacs/metadata.xml | 5 +-
dev-db/cppdb/metadata.xml | 19 ++-
dev-libs/simclist/metadata.xml | 17 +-
dev-ml/mlgmpidl/metadata.xml | 23 ++-
dev-ml/ocamlgraph/metadata.xml | 47 +++---
dev-ml/zarith/metadata.xml | 20 +--
dev-perl/opal-client/metadata.xml | 3 -
dev-python/opal-client/metadata.xml | 5 +-
dev-tcltk/img_rotate/metadata.xml | 5 +-
dev-tcltk/togl/metadata.xml | 3 -
media-libs/OpenMOIV/metadata.xml | 3 -
media-libs/libgfx/metadata.xml | 3 -
profiles/package.mask | 6 +
sci-biology/perlprimer/metadata.xml | 3 -
sci-chemistry/GromacsWrapper/metadata.xml | 2 +-
sci-chemistry/ball/metadata.xml | 2 +-
sci-chemistry/burrow-owl/metadata.xml | 5 +-
sci-chemistry/camshift/metadata.xml | 5 +-
sci-chemistry/chemBuild/metadata.xml | 2 +-
sci-chemistry/chimera-bin/metadata.xml | 2 +-
sci-chemistry/chooch/metadata.xml | 5 +-
sci-chemistry/cnsface/metadata.xml | 5 +-
sci-chemistry/concoord/metadata.xml | 2 +-
sci-chemistry/coot/metadata.xml | 3 -
sci-chemistry/cs-rosetta/metadata.xml | 2 +-
sci-chemistry/curvefit/metadata.xml | 2 +-
sci-chemistry/direx/metadata.xml | 3 -
sci-chemistry/dssp2pdb/metadata.xml | 3 -
sci-chemistry/freeon/freeon-2012.05.03.ebuild | 7 +-
sci-chemistry/freeon/freeon-9999.ebuild | 7 +-
sci-chemistry/hydronmr/metadata.xml | 2 +-
sci-chemistry/jana2000/metadata.xml | 3 -
sci-chemistry/jligand/metadata.xml | 5 +-
sci-chemistry/ligplot+/metadata.xml | 2 +-
sci-chemistry/mage/metadata.xml | 3 -
sci-chemistry/mddnmr/metadata.xml | 5 +-
sci-chemistry/modelfree/metadata.xml | 2 +-
sci-chemistry/modeller/ChangeLog | 6 +
...odeller-9.12.ebuild => modeller-9.12-r1.ebuild} | 2 +-
sci-chemistry/mtz2hkl/metadata.xml | 3 -
sci-chemistry/mtz2sca/metadata.xml | 3 -
sci-chemistry/phenix-bin/metadata.xml | 2 +-
sci-chemistry/polygon/metadata.xml | 5 +-
sci-chemistry/pymol-apbs-plugin/metadata.xml | 5 +-
sci-chemistry/rosetta-tools/metadata.xml | 3 -
sci-chemistry/rosetta/metadata.xml | 23 ++-
sci-chemistry/shiftx/ChangeLog | 7 +
sci-chemistry/shiftx/files/1.1-Makefile.patch | 15 +-
sci-chemistry/shiftx/files/1.1-bfr-overflow.patch | 16 ++
sci-chemistry/shiftx/metadata.xml | 3 -
sci-chemistry/shiftx/shiftx-1.1.ebuild | 7 +-
sci-chemistry/shiftx2/metadata.xml | 2 +-
sci-chemistry/simpson/metadata.xml | 2 +-
sci-chemistry/smmp/metadata.xml | 5 +-
sci-chemistry/specView/metadata.xml | 2 +-
sci-chemistry/ssp/metadata.xml | 2 +-
sci-chemistry/talosn/ChangeLog | 7 +-
...ebuild => talosn-4.01.2013.148.15.55-r2.ebuild} | 13 +-
sci-chemistry/ucsf-tools/metadata.xml | 2 +-
sci-chemistry/unio/metadata.xml | 5 +-
sci-libs/Cgraph/metadata.xml | 5 +-
sci-libs/bigdft-abi/ChangeLog | 17 ++
sci-libs/bigdft-abi/Manifest | 2 -
sci-libs/bigdft-abi/bigdft-abi-1.0.4.ebuild | 11 +-
sci-libs/bigdft/metadata.xml | 19 +--
sci-libs/cnsface-scripts/metadata.xml | 3 -
sci-libs/coinor-clp/ChangeLog | 6 +
sci-libs/coinor-clp/Manifest | 2 +-
...-clp-1.15.0.ebuild => coinor-clp-1.15.1.ebuild} | 4 +-
.../files/coinor-clp-1.15.1-mpi-header.patch | 12 ++
sci-libs/driftwood/metadata.xml | 5 +-
sci-libs/etsf_io/ChangeLog | 4 +
sci-libs/etsf_io/etsf_io-1.0.3-r2.ebuild | 6 +-
sci-libs/etsf_io/metadata.xml | 5 +-
sci-libs/fox/ChangeLog | 4 +
.../files/4.1.2-r2-install-customizations.patch | 4 +-
sci-libs/fox/metadata.xml | 19 +--
sci-libs/libxc/Manifest | 2 +-
sci-libs/libxc/libxc-9999.ebuild | 27 +--
sci-libs/libxc/metadata.xml | 5 +-
sci-libs/med/metadata.xml | 5 +-
sci-libs/msms/metadata.xml | 5 +-
sci-libs/mumps/ChangeLog | 5 +-
sci-libs/mumps/mumps-4.10.0-r2.ebuild | 5 +-
sci-libs/pagmo/metadata.xml | 13 +-
sci-libs/starparse/metadata.xml | 5 +-
sci-libs/trilinos/ChangeLog | 7 +-
sci-libs/trilinos/metadata.xml | 16 ++
sci-libs/trilinos/trilinos-11.2.3.ebuild | 186 +++++++++++++++++++++
sci-libs/wannier90/metadata.xml | 5 +-
sci-mathematics/alt-ergo/metadata.xml | 23 +--
sci-mathematics/apron/metadata.xml | 31 ++--
sci-mathematics/flocq/metadata.xml | 17 +-
sci-mathematics/frama-c/metadata.xml | 28 ++--
sci-mathematics/gap-guava/metadata.xml | 5 +-
sci-mathematics/gappa/metadata.xml | 22 +--
sci-mathematics/gappalib-coq/metadata.xml | 15 +-
sci-mathematics/giac/metadata.xml | 24 +--
sci-mathematics/ltl2ba/metadata.xml | 3 -
sci-mathematics/pff/metadata.xml | 17 +-
sci-mathematics/why/metadata.xml | 32 ++--
sci-physics/LoopTools/metadata.xml | 2 +-
sci-physics/abinit/ChangeLog | 7 +
sci-physics/abinit/Manifest | 3 +-
sci-physics/abinit/abinit-7.2.2.ebuild | 2 +-
sci-physics/abinit/files/6.12.3-gui-makefiles.tbz | Bin 0 -> 14600 bytes
sci-physics/atompaw/metadata.xml | 11 +-
sci-physics/atompaw2abinit/metadata.xml | 5 +-
sci-physics/bigdft/ChangeLog | 13 ++
sci-physics/bigdft/Manifest | 1 +
sci-physics/bigdft/bigdft-1.7_pre24.ebuild | 4 +-
sci-physics/elk/ChangeLog | 4 +
sci-physics/elk/elk-1.4.22.ebuild | 2 +-
sci-physics/herwig++/metadata.xml | 2 +-
sci-physics/openmx/ChangeLog | 7 +
sci-physics/openmx/Manifest | 2 +
sci-physics/openmx/files/3.7-fortran_objects.patch | 15 ++
sci-physics/openmx/metadata.xml | 2 +-
sci-physics/openmx/openmx-3.7.3.ebuild | 161 ++++++++++++++++++
sci-physics/thepeg/metadata.xml | 2 +-
sci-visualization/gnuplot/ChangeLog | 3 +
sci-visualization/gnuplot/gnuplot-4.7.9999.ebuild | 2 +-
sci-visualization/v_sim/metadata.xml | 3 -
sys-cluster/charmdebug/ChangeLog | 9 +
sys-cluster/charmdebug/Manifest | 1 +
sys-cluster/charmdebug/charmdebug-6.2.0.ebuild | 29 ++++
.../charmdebug}/metadata.xml | 0
www-apps/py-swish-e/metadata.xml | 5 +-
x11-libs/tr/metadata.xml | 3 -
131 files changed, 840 insertions(+), 482 deletions(-)
diff --cc sci-chemistry/talosn/ChangeLog
index dea3c84,9d358bf..93eccf6
--- a/sci-chemistry/talosn/ChangeLog
+++ b/sci-chemistry/talosn/ChangeLog
@@@ -7,4 -13,4 +13,3 @@@
18 Jun 2013; Justin Lecher <jlec@gentoo.org>
+talosn-4.01.2013.148.15.55.ebuild, +metadata.xml:
New package
--
next reply other threads:[~2013-06-22 10:49 UTC|newest]
Thread overview: 10+ messages / expand[flat|nested] mbox.gz Atom feed top
2013-06-22 10:49 Justin Lecher [this message]
-- strict thread matches above, loose matches on Subject: below --
2013-06-26 7:09 [gentoo-commits] proj/sci:jlec commit in: / Justin Lecher
2013-06-22 10:49 ` [gentoo-commits] proj/sci:fixing " Justin Lecher
2013-06-19 6:53 [gentoo-commits] proj/sci:ccp4 " Justin Lecher
2013-06-22 10:49 ` [gentoo-commits] proj/sci:fixing " Justin Lecher
2013-06-18 8:54 Justin Lecher
2013-06-17 5:55 Justin Lecher
2013-06-17 5:55 Justin Lecher
2013-06-17 5:55 [gentoo-commits] proj/sci:ccp4 " Justin Lecher
2013-06-17 5:55 ` [gentoo-commits] proj/sci:fixing " Justin Lecher
2013-06-17 5:55 [gentoo-commits] proj/sci:ccp4 " Justin Lecher
2013-06-17 5:55 ` [gentoo-commits] proj/sci:fixing " Justin Lecher
2013-06-16 17:23 [gentoo-commits] proj/sci:master " Justin Lecher
2013-06-17 5:55 ` [gentoo-commits] proj/sci:fixing " Justin Lecher
2013-06-16 14:23 Justin Lecher
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