* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
2013-07-08 12:08 ` [gentoo-commits] proj/sci:master " Justin Lecher
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To: gentoo-commits
commit: 68f704a5acc2a2db8dd7eae6fd683576af41e28c
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Mon Jul 8 12:07:04 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Mon Jul 8 12:07:04 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=68f704a5
Merge branch 'jlec'
* jlec:
Completly removed the directory check in the java source (we have everything under control in gentoo). Removed the .py extension from the -system.patch to make that part working again (it's installed without extensions to /usr/bin/!).
Work in progress Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
sci-chemistry/rosetta: Fix: Ebuild calls die in a subshell
sci-chemistry/rosetta: Add patches from www.csrosetta.org
update to new lange patches Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
sci-chemistry/shiftx2/ChangeLog | 8 +-
...xes.patch => shiftx2-1.07_p20120106-java.patch} | 45 +++-
.../files/shiftx2-1.07_p20120106-system.patch | 231 +++++++++++++++++++++
.../shiftx2/shiftx2-1.07_p20120106.ebuild | 30 ++-
4 files changed, 299 insertions(+), 15 deletions(-)
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* [gentoo-commits] proj/sci:master commit in: /
2013-07-11 20:27 [gentoo-commits] proj/sci:vtk commit in: / Justin Lecher
@ 2013-07-08 12:08 ` Justin Lecher
0 siblings, 0 replies; 26+ messages in thread
From: Justin Lecher @ 2013-07-08 12:08 UTC (permalink / raw
To: gentoo-commits
commit: 68f704a5acc2a2db8dd7eae6fd683576af41e28c
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Mon Jul 8 12:07:04 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Mon Jul 8 12:07:04 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=68f704a5
Merge branch 'jlec'
* jlec:
Completly removed the directory check in the java source (we have everything under control in gentoo). Removed the .py extension from the -system.patch to make that part working again (it's installed without extensions to /usr/bin/!).
Work in progress Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
sci-chemistry/rosetta: Fix: Ebuild calls die in a subshell
sci-chemistry/rosetta: Add patches from www.csrosetta.org
update to new lange patches Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
sci-chemistry/shiftx2/ChangeLog | 8 +-
...xes.patch => shiftx2-1.07_p20120106-java.patch} | 45 +++-
.../files/shiftx2-1.07_p20120106-system.patch | 231 +++++++++++++++++++++
.../shiftx2/shiftx2-1.07_p20120106.ebuild | 30 ++-
4 files changed, 299 insertions(+), 15 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: ffbc434cc003a1d815b290608ba3e4e5e371d20c
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Thu Jul 11 18:31:57 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Thu Jul 11 18:31:57 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=ffbc434c
Merge branch 'jlec'
* jlec:
sci-chemistry/coot: Update pc patch
sci-chemistry/coot/ChangeLog | 3 +
sci-chemistry/coot/files/9999-pc.patch | 561 +++++++++++++++++----------------
2 files changed, 284 insertions(+), 280 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: 521c3879e88d373f4eb885af030528caa867d7e8
Author: Sébastien Fabbro <bicatali <AT> gentoo <DOT> org>
AuthorDate: Tue Jul 9 23:48:53 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Tue Jul 9 23:48:53 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=521c3879
Merge branch 'master' of git://git.overlays.gentoo.org/proj/sci
licenses/mpich | 39 ----------------------
sci-physics/lammps/ChangeLog | 12 +++++++
sci-physics/lammps/Manifest | 1 +
...mmps-20130701.ebuild => lammps-20130708.ebuild} | 16 +++++++--
4 files changed, 26 insertions(+), 42 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: f1dcaee3267c375546293c9210d39b80c00c4ca1
Author: Christoph Junghans <ottxor <AT> gentoo <DOT> org>
AuthorDate: Sun Jul 7 23:30:15 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Jul 7 23:30:15 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f1dcaee3
Merge branch 'master' of ssh://github.com/gentoo-science/sci
sci-libs/libgeodecomp/Manifest | 1 +
...bgeodecomp-0.1.0.ebuild => libgeodecomp-0.2.0.ebuild} | 16 +++++++++++++---
2 files changed, 14 insertions(+), 3 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: bafcd12ba1034dd265fe4ac8d4f8497afdef8fe3
Author: Justin <jlec <AT> j-schmitz <DOT> net>
AuthorDate: Sun Jul 7 14:06:03 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Jul 7 14:06:03 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=bafcd12b
Merge pull request #89 from gentryx/master
Added ebuild for LibGeoDecomp 0.2.0
sci-libs/libgeodecomp/Manifest | 1 +
...bgeodecomp-0.1.0.ebuild => libgeodecomp-0.2.0.ebuild} | 16 +++++++++++++---
2 files changed, 14 insertions(+), 3 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: f8f8325388e6a8978ef271640515a144b53a8ed5
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Sat Jul 6 20:33:34 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Jul 6 20:33:34 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f8f83253
Merge /usr/local/portage/andis_overlay
sci-libs/libgeodecomp/Manifest | 1 +
...bgeodecomp-0.1.0.ebuild => libgeodecomp-0.2.0.ebuild} | 16 +++++++++++++---
2 files changed, 14 insertions(+), 3 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: 9fbdb4ae6a0b9287dc4b9417e2ca7ced7b26c60b
Author: Christoph Junghans <ottxor <AT> gentoo <DOT> org>
AuthorDate: Thu Jul 4 19:10:29 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Thu Jul 4 19:10:29 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=9fbdb4ae
Merge branch 'master' of ssh://github.com/gentoo-science/sci
dev-util/amdapp/amdapp-2.8.ebuild | 19 ++++++-
dev-util/intel-ocl-sdk/Manifest | 1 +
.../intel-ocl-sdk/intel-ocl-sdk-3.0.67279.ebuild | 65 ++++++++++++++++++++++
dev-util/intel-ocl-sdk/metadata.xml | 17 ++++++
media-gfx/brlcad/ChangeLog | 3 +
media-gfx/brlcad/Manifest | 1 +
6 files changed, 103 insertions(+), 3 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: 7a1714a356cddb1aa2bb3ca5773328f973fe56b2
Author: Justin <jlec <AT> j-schmitz <DOT> net>
AuthorDate: Thu Jul 4 06:18:51 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Thu Jul 4 06:18:51 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=7a1714a3
Merge pull request #87 from gentryx/master
Fixed ebuild for AMDAPP and added updated ebuild for Intel OpenCL SDK
dev-util/amdapp/amdapp-2.8.ebuild | 19 ++++++-
dev-util/intel-ocl-sdk/Manifest | 1 +
.../intel-ocl-sdk/intel-ocl-sdk-3.0.67279.ebuild | 65 ++++++++++++++++++++++
dev-util/intel-ocl-sdk/metadata.xml | 17 ++++++
4 files changed, 99 insertions(+), 3 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: 76e58b23060b68622a22a9812e954a44a9c7037b
Author: Sébastien Fabbro <bicatali <AT> gentoo <DOT> org>
AuthorDate: Wed Jul 3 19:57:29 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jul 3 19:57:29 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=76e58b23
Merge branch 'master' of git://git.overlays.gentoo.org/proj/sci; github.com:gentoo-science/sci
sci-physics/lammps/ChangeLog | 9 +++
sci-physics/lammps/Manifest | 1 +
sci-physics/lammps/lammps-20130701.ebuild | 105 ++++++++++++++++++++++++++++++
sci-physics/lammps/metadata.xml | 31 +++++++++
sys-cluster/charm/ChangeLog | 7 ++
sys-cluster/charm/charm-6.5.1.ebuild | 46 ++++++++-----
sys-cluster/charm/metadata.xml | 3 +
7 files changed, 184 insertions(+), 18 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: 637e2d028af727c3d7c0ab09bb29bdd0f80beeb7
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Wed Jul 3 19:57:02 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jul 3 19:57:02 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=637e2d02
Merge /usr/local/portage/andis_overlay
dev-util/intel-ocl-sdk/metadata.xml | 5 ++++-
1 file changed, 4 insertions(+), 1 deletion(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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To: gentoo-commits
commit: f2d3e656f959b32f0c70626924c0dc06de747be5
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Wed Jul 3 19:53:51 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jul 3 19:53:51 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f2d3e656
Merge /usr/local/portage/andis_overlay
dev-util/amdapp/amdapp-2.8.ebuild | 6 ++++--
dev-util/intel-ocl-sdk/intel-ocl-sdk-3.0.67279.ebuild | 10 +++++++---
2 files changed, 11 insertions(+), 5 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:27 Justin Lecher
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commit: c5d9b66462d9cc0c9a17de7c4e95c85f12701a23
Author: Nicolas Bock <nicolasbock <AT> gmail <DOT> com>
AuthorDate: Wed Jul 3 16:40:40 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jul 3 16:40:40 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=c5d9b664
Merge branch 'master' of github.com:gentoo-science/sci
sci-geosciences/pydap/ChangeLog | 8 ++++-
sci-geosciences/pydap/Manifest | 2 +-
sci-geosciences/pydap/metadata.xml | 12 +++----
sci-geosciences/pydap/pydap-3.0.3.ebuild | 34 -------------------
sci-geosciences/pydap/pydap-3.1.ebuild | 38 ++++++++++++++++++++++
sci-libs/armadillo/ChangeLog | 6 ++++
sci-libs/armadillo/Manifest | 2 +-
...llo-3.820.1.ebuild => armadillo-3.900.6.ebuild} | 2 +-
sci-libs/mlpack/ChangeLog | 6 ++++
sci-libs/mlpack/Manifest | 2 +-
.../{mlpack-1.0.5.ebuild => mlpack-1.0.6.ebuild} | 0
11 files changed, 67 insertions(+), 45 deletions(-)
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@ 2013-07-11 20:27 Justin Lecher
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commit: 70ee018686f6160008c53cc8e59ff3ce06612260
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Wed Jul 3 03:54:22 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jul 3 03:54:22 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=70ee0186
Merge /usr/local/portage/andis_overlay
dev-util/amdapp/amdapp-2.8.ebuild | 6 ++++--
1 file changed, 4 insertions(+), 2 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:26 Justin Lecher
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To: gentoo-commits
commit: 0dbff7dea8ebc8bfc1b3708ba59cfcee34e0273c
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Tue Jul 2 20:03:06 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Tue Jul 2 20:03:06 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=0dbff7de
Merge https://github.com/gentoo-science/sci
app-doc/root-docs/ChangeLog | 6 +
app-doc/root-docs/Manifest | 2 +-
...ocs-5.34.08.ebuild => root-docs-5.34.09.ebuild} | 2 +-
metadata/layout.conf | 6 +
sci-chemistry/ambertools/ChangeLog | 4 +-
sci-chemistry/ambertools/ambertools-12.ebuild | 2 +-
sci-chemistry/pymol-plugins-ezviz/ChangeLog | 5 +
...uild => pymol-plugins-ezviz-1.0.2005-r1.ebuild} | 1 +
sci-libs/bigdft-abi/ChangeLog | 8 +
...abi-1.0.4.ebuild => bigdft-abi-1.0.4-r1.ebuild} | 3 +
.../files/bigdft-abi-1.0.4-CUDA_gethostname.patch | 22 +++
sci-libs/msms/ChangeLog | 10 +-
sci-libs/msms/Manifest | 3 +-
sci-libs/msms/metadata.xml | 2 +-
sci-libs/msms/msms-1.5.4-r1.ebuild | 54 ------
.../{msms-1.5.6_rc2.ebuild => msms-1.5.6.ebuild} | 19 +--
sci-mathematics/ufc/ChangeLog | 5 +-
sci-mathematics/ufc/ufc-1.4.2.ebuild | 4 +-
sci-physics/root/ChangeLog | 6 +
sci-physics/root/Manifest | 5 +-
sci-physics/root/metadata.xml | 1 +
.../{root-5.34.08.ebuild => root-5.34.09.ebuild} | 15 +-
sys-cluster/charm/ChangeLog | 13 ++
sys-cluster/charm/Manifest | 1 +
sys-cluster/charm/charm-6.5.1.ebuild | 181 +++++++++++++++++++++
.../charm/files/charm-6.5.0-charmc-gentoo.patch | 25 +++
sys-cluster/charm/metadata.xml | 15 ++
sys-cluster/empi/ChangeLog | 14 ++
.../empi/{empi-0.8.ebuild => empi-0.9.ebuild} | 14 +-
.../empi/files/{ChangeLog-0.8 => ChangeLog-0.9} | 0
sys-cluster/empi/files/{empi-0.8 => empi-0.9} | 4 +-
.../files/{eselect.mpi-0.8 => eselect.mpi-0.9} | 0
sys-cluster/empi/metadata.xml | 8 +-
sys-cluster/hpl/ChangeLog | 8 +
sys-cluster/hpl/Manifest | 3 +-
.../hpl/{hpl-2.0-r1.ebuild => hpl-2.1.ebuild} | 33 ++--
sys-cluster/openmpi/ChangeLog | 11 +-
...le-malloc-override-inside-of-Gentoo-sandb.patch | 42 +++++
...penmpi-1.6.4.ebuild => openmpi-1.6.4-r1.ebuild} | 4 +-
39 files changed, 451 insertions(+), 110 deletions(-)
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@ 2013-07-11 20:26 Justin Lecher
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From: Justin Lecher @ 2013-07-11 20:26 UTC (permalink / raw
To: gentoo-commits
commit: 01912d585cd65e73ab596d080e2debe61de19930
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Tue Jul 2 20:02:52 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Tue Jul 2 20:02:52 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=01912d58
Merge /usr/local/portage/andis_overlay
dev-util/amdapp/amdapp-2.8.ebuild | 3 ++-
dev-util/intel-ocl-sdk/intel-ocl-sdk-3.0.67279.ebuild | 6 ++++--
2 files changed, 6 insertions(+), 3 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:26 Justin Lecher
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To: gentoo-commits
commit: fcddbe9646bf40e7743f3505b5cdca29d766ae4d
Author: Andreas Schäfer <gentryx <AT> gmx <DOT> de>
AuthorDate: Thu Jun 27 22:13:41 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Thu Jun 27 22:13:41 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=fcddbe96
Merge /usr/local/portage/andis_overlay
dev-util/amdapp/amdapp-2.8.ebuild | 10 +++-
dev-util/intel-ocl-sdk/Manifest | 1 +
.../intel-ocl-sdk/intel-ocl-sdk-3.0.67279.ebuild | 59 ++++++++++++++++++++++
dev-util/intel-ocl-sdk/metadata.xml | 14 +++++
4 files changed, 83 insertions(+), 1 deletion(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:26 Justin Lecher
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To: gentoo-commits
commit: f964406968cbe45f9268653af44c2dc6b52baadd
Author: Sébastien Fabbro <bicatali <AT> gentoo <DOT> org>
AuthorDate: Wed Jun 26 15:26:34 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jun 26 15:26:34 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f9644069
Merge branch 'master' of git://git.overlays.gentoo.org/proj/sci; github.com:gentoo-science/sci
dev-lang/ispc/ChangeLog | 3 ++
dev-lang/ispc/ispc-9999.ebuild | 3 +-
sci-chemistry/gnome-chemistry-utils/ChangeLog | 4 ++
.../gnome-chemistry-utils-0.14.2.ebuild | 2 +-
sci-chemistry/gnome-chemistry-utils/metadata.xml | 8 ++--
sci-chemistry/modeller/ChangeLog | 4 ++
...ller-9.12-r1.ebuild => modeller-9.12-r2.ebuild} | 3 +-
sci-chemistry/pymol/ChangeLog | 3 ++
sci-chemistry/pymol/pymol-9999.ebuild | 2 +-
sci-chemistry/ucsf-tools/ChangeLog | 3 ++
sci-chemistry/ucsf-tools/ucsf-tools-9999.ebuild | 13 +++++-
sci-physics/lammps/ChangeLog | 3 ++
sci-physics/lammps/lammps-20130526.ebuild | 25 +++++------
sys-cluster/charm/ChangeLog | 3 ++
sys-cluster/charm/charm-6.5.0.ebuild | 51 ++++++++--------------
...orline.patch => modules-3.2.10-errorline.patch} | 1 -
.../modules/files/modules-3.2.9c-errorline.patch | 1 -
sys-cluster/modules/modules-3.2.10.ebuild | 6 +--
18 files changed, 79 insertions(+), 59 deletions(-)
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* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:26 Justin Lecher
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To: gentoo-commits
commit: 9fb3b01bb87df3f976ef259d9aa4a09012ac4988
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Wed Jun 26 14:54:49 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jun 26 14:54:49 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=9fb3b01b
Merge branch 'master-broken'
* master-broken:
sci-chemistry/ucsf-tools: Fix compilation with latest gcc
sci-chemistry/modeller: Fix lib position, #474696
sci-chemistry/pymol: Update repo uri
sci-chemistry/pymol: Update repo uri
^ permalink raw reply [flat|nested] 26+ messages in thread
* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:26 Justin Lecher
0 siblings, 0 replies; 26+ messages in thread
From: Justin Lecher @ 2013-07-11 20:26 UTC (permalink / raw
To: gentoo-commits
commit: e2667d72a9cda457057fc4531574c2634dc92387
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Jun 21 10:44:31 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Jun 21 10:44:31 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e2667d72
Merge branch 'master' into jlec
* master: (29 commits)
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.
Version of bigdft bumped to 1.7_pre24, moved from sci-libs to sci-physics. No longer used as a library by sci-physics/abinit. Usage of LIBDIR/finclude abandoned in favour of /usr/include, as used upstream.
...
app-text/dgs/metadata.xml | 3 -
app-text/jabref/ChangeLog | 10 +
...jabref-2.10b.ebuild => jabref-2.10_beta.ebuild} | 8 +-
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-gfx/librecad/ChangeLog | 6 +
media-gfx/librecad/Manifest | 4 +-
media-gfx/librecad/files/1.0.0_rc2-gcc4.6.patch | 38 ---
.../files/librecad-1.0.0_rc2-version.patch | 11 -
media-gfx/librecad/librecad-1.0.2.ebuild | 45 ---
media-gfx/librecad/librecad-2.0.0_beta5.ebuild | 48 ---
media-gfx/librecad/librecad-2.0.0_rc1.ebuild | 27 +-
media-gfx/librecad/metadata.xml | 23 +-
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/ChangeLog | 9 +
...ch => freeon-2012.05.03-no_internal_hdf5.patch} | 32 +-
.../files/freeon-9999-no_internal_hdf5.patch | 25 ++
.../files/freeon-9999-no_internal_libs.patch | 47 ---
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/mics/ChangeLog | 10 +
sci-chemistry/mics/Manifest | 1 +
.../{mgltools-autodocktools => mics}/metadata.xml | 0
sci-chemistry/mics/mics-1.00.2011.327.12.00.ebuild | 51 +++
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/nMOLDYN/ChangeLog | 12 +
sci-chemistry/nMOLDYN/Manifest | 1 +
sci-chemistry/{trajng => nMOLDYN}/metadata.xml | 0
sci-chemistry/nMOLDYN/nMOLDYN-3.0.10.ebuild | 24 ++
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 | 16 +
sci-chemistry/talosn/Manifest | 1 +
.../metadata.xml | 0
.../talosn/talosn-4.01.2013.148.15.55-r2.ebuild | 68 ++++
sci-chemistry/ucsf-tools/metadata.xml | 2 +-
sci-chemistry/unio/metadata.xml | 5 +-
sci-libs/Cgraph/metadata.xml | 5 +-
sci-libs/bigdft-abi/ChangeLog | 29 ++
sci-libs/bigdft-abi/Manifest | 1 +
.../bigdft-abi-1.0.4.ebuild} | 78 +++--
.../files/bigdft-abi-1.0.4-tests.tar.bz2 | Bin 0 -> 402968 bytes
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 | 13 +-
..._io-1.0.3-r1.ebuild => etsf_io-1.0.3-r2.ebuild} | 6 +-
sci-libs/etsf_io/metadata.xml | 5 +-
sci-libs/fox/ChangeLog | 14 +-
...patch => 4.1.2-r2-install-customizations.patch} | 4 +-
.../{fox-4.1.2-r1.ebuild => fox-4.1.2-r2.ebuild} | 10 +-
sci-libs/fox/metadata.xml | 19 +-
sci-libs/libxc/ChangeLog | 11 +-
sci-libs/libxc/Manifest | 2 +-
...libxc-1.1.0-r1.ebuild => libxc-1.2.0-r1.ebuild} | 26 +-
.../{libxc-1.2.0.ebuild => libxc-2.0.1.ebuild} | 27 +-
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/ChangeLog | 7 +
sci-libs/wannier90/metadata.xml | 5 +-
...annier90-1.2.ebuild => wannier90-1.2-r1.ebuild} | 0
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 | 16 +
sci-physics/abinit/Manifest | 3 +-
sci-physics/abinit/abinit-7.0.5.ebuild | 356 ---------------------
.../{abinit-7.0.4.ebuild => abinit-7.2.2.ebuild} | 75 +++--
sci-physics/abinit/files/6.0.3-fftw.patch | 14 -
.../abinit/files/6.12.1-libabinit_options.patch | 57 ----
sci-physics/atompaw/ChangeLog | 7 +
...aw-3.0.1.9.ebuild => atompaw-3.0.1.9-r1.ebuild} | 11 +-
sci-physics/atompaw/metadata.xml | 11 +-
sci-physics/atompaw2abinit/metadata.xml | 5 +-
{sci-libs => sci-physics}/bigdft/ChangeLog | 23 +-
sci-physics/bigdft/Manifest | 1 +
.../bigdft/bigdft-1.7_pre24.ebuild | 37 +--
.../files/bigdft-1.7-dev.24-nolib_mods.patch | 14 +-
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 -
www-apps/py-swish-e/metadata.xml | 5 +-
x11-libs/tr/metadata.xml | 3 -
163 files changed, 1278 insertions(+), 1264 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread* [gentoo-commits] proj/sci:vtk commit in: /
@ 2013-07-11 20:26 Justin Lecher
0 siblings, 0 replies; 26+ messages in thread
From: Justin Lecher @ 2013-07-11 20:26 UTC (permalink / raw
To: gentoo-commits
commit: f43609fc308239ce00e3b66ad121c43dbf15b1ed
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Mon Jun 17 05:55:15 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Mon Jun 17 05:55:15 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f43609fc
Merge branch 'master' into jlec
* master: (120 commits)
add missing masks for live ebuilds
dev-python/healpy: Initial import
dev-java/jhealpix: Initial import
sci-astronomy/healpix_idl: Initial import
sci-astronomy/healpix_cxx: Initial import
sci-astronomy/chealpix: Initial import
sci-biology/twinscan: Bump to EAPI=5 and fix license
sci-biology/ssaha2-bin: Version Bump; restrict license; add QA_PREBUILT for binaries
sci-biology/smalt-bin: Version Bump; restrict license; add QA_PREBUILT for binaries
sci-biology/sequin: Version BUmp; restrcit license; add QA_PREBUILT for binaries; install html files into sys path
sci-biology/quicktree: Bump to EAPI=5 and fix license
sci-biology/gap2caf: Bump to EAPI=5 and fix license; make it build with eautoreconf
sci-biology/erpin: Bump to EAPI=5 and respect FLAGS / AR
sci-biology/clover: Version BUmp; fixed license; respect LDFLAGS
sci-chemistry/shiftx2: Respect FLAGS
Enhanced the sci-chemistry/shiftx ebuild. Still needs some love for the emake part (portage complains about LDFLAGS not respected), but should work.
sci-chemistry/pymol-plugins-psico: Bump to EAPI=5 and distutils-r1.eclass
sci-chemistry/smmp: Bump to EAPI=5 and python-r1.eclass
sci-chemistry/specView: Bump to EAPI=5 and python-single-r1.eclass
sci-chemistry/pyquante: Bump to EAPI=5 and distutils-r1.eclass
...
app-benchmarks/btl/ChangeLog | 5 +-
app-benchmarks/btl/btl-9999.ebuild | 11 +-
app-benchmarks/btl/metadata.xml | 14 +-
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dev-java/jgraphx/Manifest | 3 -
dev-java/jgraphx/jgraphx-1.2.0.7.ebuild | 44 --
dev-java/jgraphx/jgraphx-1.3.0.2.ebuild | 44 --
dev-java/jgraphx/jgraphx-1.4.1.0.ebuild | 18 +-
dev-java/jgraphx/jgraphx-1.4.1.2.ebuild | 44 --
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dev-ml/ocamlgraph/Manifest | 4 -
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dev-perl/Lab-Instrument/Manifest | 2 +-
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dev-python/instant/metadata.xml | 4 +-
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dev-python/meshpy/Manifest | 2 +-
...meshpy-0.91.2.ebuild => meshpy-2013.1.2.ebuild} | 29 +-
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dev-python/omniorbpy/omniorbpy-3.4.ebuild | 90 +--
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dev-python/opal-client/opal-client-2.2-r1.ebuild | 55 --
dev-python/opal-client/opal-client-2.4.1.ebuild | 42 ++
dev-python/pyhdf/ChangeLog | 8 +
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dev-tcltk/togl/Manifest | 2 +-
dev-util/smartgit/Manifest | 2 +-
licenses/GRL | 15 +
licenses/HSL | 222 ++++++
licenses/Tablet | 8 +-
media-gfx/brlcad/ChangeLog | 6 +-
media-gfx/brlcad/brlcad-9999.ebuild | 2 +-
media-gfx/brlcad/metadata.xml | 26 +-
media-gfx/librecad/ChangeLog | 6 +
media-gfx/librecad/librecad-9999.ebuild | 32 +-
media-libs/OpenMOIV/Manifest | 2 +-
media-libs/avbin-bin/Manifest | 4 +-
media-libs/libgfx/Manifest | 2 +-
net-firewall/gcb/Manifest | 2 +-
net-ftp/bbftp-client/Manifest | 2 +-
net-ftp/bbftp-server/Manifest | 2 +-
net-misc/bbscp/Manifest | 2 +-
net-misc/dhcp/ChangeLog | 61 --
net-misc/dhcp/Manifest | 1 -
net-misc/dhcp/dhcp-4.2.3_p2-r1.ebuild | 245 -------
net-misc/dhcp/files/dhcp-3.0-fix-perms.patch | 15 -
net-misc/dhcp/files/dhcp-3.0.3-dhclient-dbus.patch | 84 ---
.../dhcp/files/dhcp-3.0.3-dhclient-no-down.patch | 70 --
net-misc/dhcp/files/dhcp-4.0-dhclient-ntp.patch | 216 ------
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579 files changed, 4325 insertions(+), 8161 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread* [gentoo-commits] proj/sci:master commit in: /
@ 2013-07-08 12:08 Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
0 siblings, 1 reply; 26+ messages in thread
From: Justin Lecher @ 2013-07-08 12:08 UTC (permalink / raw
To: gentoo-commits
commit: 871dd6c9683391d6caedb0c82efac78e8befd55c
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 30 15:31:13 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Jun 30 15:31:13 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=871dd6c9
Merge branch 'master' into jlec
* master: (36 commits)
sci-libs/msms: Version BUmp; Bump to new distutil-r1.eclass
app-doc/root-docs: version bump
sci-physics/root: version bump
sys-cluster/hpl: version bump and fixes
fixed deps
In sci-libs/bigdft-abi-1.0.4-r1, CUDA support made compile.
moved to gx86
moved to gx86
Beautify
Beautify
Beautify.
Added new package: projections
Added new package: projections
Bashified package name mangling.
sys-cluster/modules: Prefix keyworded. Added tests. FHS fixes. Add bunch of fedora patches
Fixed missing use flag.
sci-chemistry/ucsf-tools: Fix compilation with latest gcc
sci-chemistry/modeller: Fix lib position, #474696
sci-chemistry/pymol: Update repo uri
sci-chemistry/pymol: Update repo uri
...
app-admin/eselect/ChangeLog | 6 +
app-admin/eselect/Manifest | 2 +-
...1.3.4-r100.ebuild => eselect-1.3.5-r100.ebuild} | 0
app-doc/root-docs/ChangeLog | 6 +
app-doc/root-docs/Manifest | 2 +-
...ocs-5.34.08.ebuild => root-docs-5.34.09.ebuild} | 2 +-
dev-java/fits/ChangeLog | 9 +-
dev-java/fits/Manifest | 2 +-
.../{fits-1.08.1.ebuild => fits-1.11.0.ebuild} | 6 +-
dev-lang/ispc/ChangeLog | 3 +
dev-lang/ispc/ispc-9999.ebuild | 3 +-
sci-chemistry/ambertools/ChangeLog | 4 +-
sci-chemistry/ambertools/ambertools-12.ebuild | 2 +-
sci-chemistry/gnome-chemistry-utils/ChangeLog | 4 +
.../gnome-chemistry-utils-0.14.2.ebuild | 2 +-
sci-chemistry/gnome-chemistry-utils/metadata.xml | 8 +-
sci-chemistry/modeller/ChangeLog | 4 +
...ller-9.12-r1.ebuild => modeller-9.12-r2.ebuild} | 3 +-
sci-chemistry/pymol/ChangeLog | 3 +
sci-chemistry/pymol/pymol-9999.ebuild | 2 +-
sci-chemistry/ucsf-tools/ChangeLog | 3 +
sci-chemistry/ucsf-tools/ucsf-tools-9999.ebuild | 13 +-
sci-libs/bigdft-abi/ChangeLog | 8 +
...abi-1.0.4.ebuild => bigdft-abi-1.0.4-r1.ebuild} | 3 +
.../files/bigdft-abi-1.0.4-CUDA_gethostname.patch | 22 +++
sci-libs/lwpr/ChangeLog | 9 +-
sci-libs/lwpr/Manifest | 2 +-
sci-libs/lwpr/files/lwpr-1.2.2-setup.py.patch | 12 --
sci-libs/lwpr/lwpr-1.2.2.ebuild | 83 ---------
sci-libs/lwpr/lwpr-1.2.5.ebuild | 51 ++++++
sci-libs/lwpr/metadata.xml | 10 +-
sci-libs/msms/ChangeLog | 10 +-
sci-libs/msms/Manifest | 3 +-
sci-libs/msms/metadata.xml | 2 +-
sci-libs/msms/msms-1.5.4-r1.ebuild | 54 ------
.../{msms-1.5.6_rc2.ebuild => msms-1.5.6.ebuild} | 19 +--
sci-physics/lammps/ChangeLog | 55 ------
sci-physics/lammps/Manifest | 3 -
sci-physics/lammps/lammps-20130512.ebuild | 72 --------
sci-physics/lammps/lammps-20130514.ebuild | 75 ---------
sci-physics/lammps/lammps-20130526.ebuild | 75 ---------
sci-physics/lammps/metadata.xml | 30 ----
sci-physics/root/ChangeLog | 6 +
sci-physics/root/Manifest | 5 +-
sci-physics/root/metadata.xml | 1 +
.../{root-5.34.08.ebuild => root-5.34.09.ebuild} | 15 +-
sys-cluster/charm/ChangeLog | 26 ---
sys-cluster/charm/Manifest | 1 -
sys-cluster/charm/charm-6.5.0.ebuild | 175 -------------------
.../charm/files/charm-6.5.0-charmc-gentoo.patch | 25 ---
sys-cluster/charm/metadata.xml | 10 --
sys-cluster/charmdebug/ChangeLog | 12 ++
sys-cluster/charmdebug/Manifest | 1 +
sys-cluster/charmdebug/charmdebug-6.2.0.ebuild | 31 ++++
.../charmdebug}/metadata.xml | 0
sys-cluster/hpl/ChangeLog | 8 +
sys-cluster/hpl/Manifest | 3 +-
.../hpl/{hpl-2.0-r1.ebuild => hpl-2.1.ebuild} | 33 ++--
sys-cluster/modules/ChangeLog | 10 ++
sys-cluster/modules/files/createmodule.py | 186 +++++++++++++++++++++
sys-cluster/modules/files/createmodule.sh | 166 ++++++++++++++++++
.../modules/files/modules-3.2.10-avail.patch | 12 ++
.../modules/files/modules-3.2.10-bindir.patch | 11 ++
.../modules/files/modules-3.2.10-clear.patch | 11 ++
...orline.patch => modules-3.2.10-errorline.patch} | 1 -
.../modules/files/modules-3.2.10-versioning.patch | 10 ++
.../modules/files/modules-3.2.9c-errorline.patch | 1 -
sys-cluster/modules/files/modules.sh.in | 7 +
sys-cluster/modules/metadata.xml | 20 ++-
sys-cluster/modules/modules-3.2.10-r1.ebuild | 61 +++++++
sys-cluster/modules/modules-3.2.10.ebuild | 6 +-
sys-cluster/projections/ChangeLog | 13 ++
sys-cluster/projections/Manifest | 1 +
.../projections}/metadata.xml | 0
sys-cluster/projections/projections-6.2.1.ebuild | 30 ++++
75 files changed, 811 insertions(+), 774 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread* [gentoo-commits] proj/sci:vtk commit in: /
2013-07-08 12:08 [gentoo-commits] proj/sci:master " Justin Lecher
@ 2013-07-11 20:26 ` Justin Lecher
0 siblings, 0 replies; 26+ messages in thread
From: Justin Lecher @ 2013-07-11 20:26 UTC (permalink / raw
To: gentoo-commits
commit: 871dd6c9683391d6caedb0c82efac78e8befd55c
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 30 15:31:13 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sun Jun 30 15:31:13 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=871dd6c9
Merge branch 'master' into jlec
* master: (36 commits)
sci-libs/msms: Version BUmp; Bump to new distutil-r1.eclass
app-doc/root-docs: version bump
sci-physics/root: version bump
sys-cluster/hpl: version bump and fixes
fixed deps
In sci-libs/bigdft-abi-1.0.4-r1, CUDA support made compile.
moved to gx86
moved to gx86
Beautify
Beautify
Beautify.
Added new package: projections
Added new package: projections
Bashified package name mangling.
sys-cluster/modules: Prefix keyworded. Added tests. FHS fixes. Add bunch of fedora patches
Fixed missing use flag.
sci-chemistry/ucsf-tools: Fix compilation with latest gcc
sci-chemistry/modeller: Fix lib position, #474696
sci-chemistry/pymol: Update repo uri
sci-chemistry/pymol: Update repo uri
...
app-admin/eselect/ChangeLog | 6 +
app-admin/eselect/Manifest | 2 +-
...1.3.4-r100.ebuild => eselect-1.3.5-r100.ebuild} | 0
app-doc/root-docs/ChangeLog | 6 +
app-doc/root-docs/Manifest | 2 +-
...ocs-5.34.08.ebuild => root-docs-5.34.09.ebuild} | 2 +-
dev-java/fits/ChangeLog | 9 +-
dev-java/fits/Manifest | 2 +-
.../{fits-1.08.1.ebuild => fits-1.11.0.ebuild} | 6 +-
dev-lang/ispc/ChangeLog | 3 +
dev-lang/ispc/ispc-9999.ebuild | 3 +-
sci-chemistry/ambertools/ChangeLog | 4 +-
sci-chemistry/ambertools/ambertools-12.ebuild | 2 +-
sci-chemistry/gnome-chemistry-utils/ChangeLog | 4 +
.../gnome-chemistry-utils-0.14.2.ebuild | 2 +-
sci-chemistry/gnome-chemistry-utils/metadata.xml | 8 +-
sci-chemistry/modeller/ChangeLog | 4 +
...ller-9.12-r1.ebuild => modeller-9.12-r2.ebuild} | 3 +-
sci-chemistry/pymol/ChangeLog | 3 +
sci-chemistry/pymol/pymol-9999.ebuild | 2 +-
sci-chemistry/ucsf-tools/ChangeLog | 3 +
sci-chemistry/ucsf-tools/ucsf-tools-9999.ebuild | 13 +-
sci-libs/bigdft-abi/ChangeLog | 8 +
...abi-1.0.4.ebuild => bigdft-abi-1.0.4-r1.ebuild} | 3 +
.../files/bigdft-abi-1.0.4-CUDA_gethostname.patch | 22 +++
sci-libs/lwpr/ChangeLog | 9 +-
sci-libs/lwpr/Manifest | 2 +-
sci-libs/lwpr/files/lwpr-1.2.2-setup.py.patch | 12 --
sci-libs/lwpr/lwpr-1.2.2.ebuild | 83 ---------
sci-libs/lwpr/lwpr-1.2.5.ebuild | 51 ++++++
sci-libs/lwpr/metadata.xml | 10 +-
sci-libs/msms/ChangeLog | 10 +-
sci-libs/msms/Manifest | 3 +-
sci-libs/msms/metadata.xml | 2 +-
sci-libs/msms/msms-1.5.4-r1.ebuild | 54 ------
.../{msms-1.5.6_rc2.ebuild => msms-1.5.6.ebuild} | 19 +--
sci-physics/lammps/ChangeLog | 55 ------
sci-physics/lammps/Manifest | 3 -
sci-physics/lammps/lammps-20130512.ebuild | 72 --------
sci-physics/lammps/lammps-20130514.ebuild | 75 ---------
sci-physics/lammps/lammps-20130526.ebuild | 75 ---------
sci-physics/lammps/metadata.xml | 30 ----
sci-physics/root/ChangeLog | 6 +
sci-physics/root/Manifest | 5 +-
sci-physics/root/metadata.xml | 1 +
.../{root-5.34.08.ebuild => root-5.34.09.ebuild} | 15 +-
sys-cluster/charm/ChangeLog | 26 ---
sys-cluster/charm/Manifest | 1 -
sys-cluster/charm/charm-6.5.0.ebuild | 175 -------------------
.../charm/files/charm-6.5.0-charmc-gentoo.patch | 25 ---
sys-cluster/charm/metadata.xml | 10 --
sys-cluster/charmdebug/ChangeLog | 12 ++
sys-cluster/charmdebug/Manifest | 1 +
sys-cluster/charmdebug/charmdebug-6.2.0.ebuild | 31 ++++
.../charmdebug}/metadata.xml | 0
sys-cluster/hpl/ChangeLog | 8 +
sys-cluster/hpl/Manifest | 3 +-
.../hpl/{hpl-2.0-r1.ebuild => hpl-2.1.ebuild} | 33 ++--
sys-cluster/modules/ChangeLog | 10 ++
sys-cluster/modules/files/createmodule.py | 186 +++++++++++++++++++++
sys-cluster/modules/files/createmodule.sh | 166 ++++++++++++++++++
.../modules/files/modules-3.2.10-avail.patch | 12 ++
.../modules/files/modules-3.2.10-bindir.patch | 11 ++
.../modules/files/modules-3.2.10-clear.patch | 11 ++
...orline.patch => modules-3.2.10-errorline.patch} | 1 -
.../modules/files/modules-3.2.10-versioning.patch | 10 ++
.../modules/files/modules-3.2.9c-errorline.patch | 1 -
sys-cluster/modules/files/modules.sh.in | 7 +
sys-cluster/modules/metadata.xml | 20 ++-
sys-cluster/modules/modules-3.2.10-r1.ebuild | 61 +++++++
sys-cluster/modules/modules-3.2.10.ebuild | 6 +-
sys-cluster/projections/ChangeLog | 13 ++
sys-cluster/projections/Manifest | 1 +
.../projections}/metadata.xml | 0
sys-cluster/projections/projections-6.2.1.ebuild | 30 ++++
75 files changed, 811 insertions(+), 774 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread
* [gentoo-commits] proj/sci:jlec commit in: /
@ 2013-07-08 11:54 Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
0 siblings, 1 reply; 26+ messages in thread
From: Justin Lecher @ 2013-07-08 11:54 UTC (permalink / raw
To: gentoo-commits
commit: e88605269a92bfb4a232752657f59519603709da
Author: Nicolas Bock <nicolasbock <AT> gmail <DOT> com>
AuthorDate: Wed Jun 26 18:32:49 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jun 26 18:32:49 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e8860526
Merge branch 'master' of github.com:gentoo-science/sci
dev-java/fits/ChangeLog | 9 +-
dev-java/fits/Manifest | 2 +-
.../{fits-1.08.1.ebuild => fits-1.11.0.ebuild} | 6 +-
sci-libs/lwpr/ChangeLog | 9 +-
sci-libs/lwpr/Manifest | 2 +-
sci-libs/lwpr/files/lwpr-1.2.2-setup.py.patch | 12 --
sci-libs/lwpr/lwpr-1.2.2.ebuild | 83 ---------
sci-libs/lwpr/lwpr-1.2.5.ebuild | 51 ++++++
sci-libs/lwpr/metadata.xml | 10 +-
sys-cluster/modules/ChangeLog | 10 ++
sys-cluster/modules/files/createmodule.py | 186 +++++++++++++++++++++
sys-cluster/modules/files/createmodule.sh | 166 ++++++++++++++++++
.../modules/files/modules-3.2.10-avail.patch | 12 ++
.../modules/files/modules-3.2.10-bindir.patch | 11 ++
.../modules/files/modules-3.2.10-clear.patch | 11 ++
.../modules/files/modules-3.2.10-versioning.patch | 10 ++
sys-cluster/modules/files/modules.sh.in | 7 +
sys-cluster/modules/metadata.xml | 20 ++-
sys-cluster/modules/modules-3.2.10-r1.ebuild | 61 +++++++
19 files changed, 561 insertions(+), 117 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread* [gentoo-commits] proj/sci:vtk commit in: /
2013-07-08 11:54 [gentoo-commits] proj/sci:jlec " Justin Lecher
@ 2013-07-11 20:26 ` Justin Lecher
0 siblings, 0 replies; 26+ messages in thread
From: Justin Lecher @ 2013-07-11 20:26 UTC (permalink / raw
To: gentoo-commits
commit: e88605269a92bfb4a232752657f59519603709da
Author: Nicolas Bock <nicolasbock <AT> gmail <DOT> com>
AuthorDate: Wed Jun 26 18:32:49 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jun 26 18:32:49 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e8860526
Merge branch 'master' of github.com:gentoo-science/sci
dev-java/fits/ChangeLog | 9 +-
dev-java/fits/Manifest | 2 +-
.../{fits-1.08.1.ebuild => fits-1.11.0.ebuild} | 6 +-
sci-libs/lwpr/ChangeLog | 9 +-
sci-libs/lwpr/Manifest | 2 +-
sci-libs/lwpr/files/lwpr-1.2.2-setup.py.patch | 12 --
sci-libs/lwpr/lwpr-1.2.2.ebuild | 83 ---------
sci-libs/lwpr/lwpr-1.2.5.ebuild | 51 ++++++
sci-libs/lwpr/metadata.xml | 10 +-
sys-cluster/modules/ChangeLog | 10 ++
sys-cluster/modules/files/createmodule.py | 186 +++++++++++++++++++++
sys-cluster/modules/files/createmodule.sh | 166 ++++++++++++++++++
.../modules/files/modules-3.2.10-avail.patch | 12 ++
.../modules/files/modules-3.2.10-bindir.patch | 11 ++
.../modules/files/modules-3.2.10-clear.patch | 11 ++
.../modules/files/modules-3.2.10-versioning.patch | 10 ++
sys-cluster/modules/files/modules.sh.in | 7 +
sys-cluster/modules/metadata.xml | 20 ++-
sys-cluster/modules/modules-3.2.10-r1.ebuild | 61 +++++++
19 files changed, 561 insertions(+), 117 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread
* [gentoo-commits] proj/sci:jlec commit in: /
@ 2013-07-08 11:54 Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
0 siblings, 1 reply; 26+ messages in thread
From: Justin Lecher @ 2013-07-08 11:54 UTC (permalink / raw
To: gentoo-commits
commit: 5bdbd20181a8d1c6e88a852b8c869804ebf450d1
Author: Sébastien Fabbro <bicatali <AT> gentoo <DOT> org>
AuthorDate: Wed Jun 26 16:53:22 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jun 26 16:53:22 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=5bdbd201
Merge branch 'master' of git://git.overlays.gentoo.org/proj/sci; github.com:gentoo-science/sci
sci-physics/lammps/ChangeLog | 3 +++
sci-physics/lammps/lammps-20130526.ebuild | 2 +-
2 files changed, 4 insertions(+), 1 deletion(-)
^ permalink raw reply [flat|nested] 26+ messages in thread
* [gentoo-commits] proj/sci:ccp4 commit in: /
@ 2013-07-08 11:54 Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
0 siblings, 1 reply; 26+ messages in thread
From: Justin Lecher @ 2013-07-08 11:54 UTC (permalink / raw
To: gentoo-commits
commit: d1167d3e9fbea263a965cb527c1ec46e27318474
Author: Justin <jlec <AT> j-schmitz <DOT> net>
AuthorDate: Wed Jun 26 07:24:32 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Jun 26 07:24:32 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=d1167d3e
Merge pull request #86 from gentryx/master
Added TCL patch to modules 3.2.10
...odules-3.2.9c-errorline.patch => modules-3.2.10-errorline.patch} | 1 -
sys-cluster/modules/files/modules-3.2.9c-errorline.patch | 1 -
sys-cluster/modules/modules-3.2.10.ebuild | 6 +++---
3 files changed, 3 insertions(+), 5 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread
* [gentoo-commits] proj/sci:jlec commit in: /
@ 2013-06-26 7:09 Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
0 siblings, 1 reply; 26+ messages in thread
From: Justin Lecher @ 2013-06-26 7:09 UTC (permalink / raw
To: gentoo-commits
commit: c40b625da6a65449986d4c2f7f1d90728531725c
Author: Justin <jlec <AT> j-schmitz <DOT> net>
AuthorDate: Fri Jun 21 13:50:53 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Jun 21 13:50:53 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=c40b625d
Merge pull request #85 from ercpe/jlec
Changes to the patch files to make the shiftx2 package working again.
sci-chemistry/shiftx2/ChangeLog | 8 +++-
.../files/shiftx2-1.07_p20120106-java.patch | 45 +++++++++++++++++++---
.../files/shiftx2-1.07_p20120106-system.patch | 6 +--
3 files changed, 49 insertions(+), 10 deletions(-)
^ permalink raw reply [flat|nested] 26+ messages in thread
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2013-07-08 12:08 [gentoo-commits] proj/sci:master " Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
2013-07-08 11:54 [gentoo-commits] proj/sci:jlec " Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
2013-07-08 11:54 [gentoo-commits] proj/sci:jlec " Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
2013-07-08 11:54 [gentoo-commits] proj/sci:ccp4 " Justin Lecher
2013-07-11 20:26 ` [gentoo-commits] proj/sci:vtk " Justin Lecher
2013-06-26 7:09 [gentoo-commits] proj/sci:jlec " Justin Lecher
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