Gentoo Archives: gentoo-commits

From: Justin Lecher <jlec@g.o>
To: gentoo-commits@l.g.o
Subject: [gentoo-commits] proj/sci:jlec commit in: /
Date: Sat, 28 Feb 2015 20:59:02
Message-Id: 1419597193.fbcd05c7ceb44015d9b28c7374e6ea81c9df9592.jlec@gentoo
1 commit: fbcd05c7ceb44015d9b28c7374e6ea81c9df9592
2 Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
3 AuthorDate: Fri Dec 26 12:33:13 2014 +0000
4 Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
5 CommitDate: Fri Dec 26 12:33:13 2014 +0000
6 URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=fbcd05c7
7
8 Merge branch 'master' into jlec
9
10 * master: (2007 commits)
11 .travis.yml: update portage version
12 fixed homepage and deps
13 Syncing fork
14 sci-astronomy/mosstack: New download url for mosstack. Added -r1-ebuild.
15 remove old
16 fixed deps (bug #529066)
17 fix installation
18 version bump; ebuild maintenance; fix SRC_URI
19 dev-python/pywcsgrid2: Update dep and add py3.4
20 sci-chemistry/freeon-9999: Add proper prefix flags to configure.
21 sci-biology/atsas: Add missing libs to installation
22 sci-biology/atsas: Add libdir to rpath
23 sync with gx86
24 sci-biology/atsas: Drop quotes
25 sci-biology/atsas: Add missing libpath
26 drop autotools-utils, empty DEPEND
27 sci-biology/bismark: Remove 'dodir' and break long lines.
28 fix libmaus herd to sci-biology
29 add metadata.xml
30 fix license: GPL-3
31 ...
32
33 Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>
34
35 Conflicts:
36 sci-chemistry/chimera-bin/ChangeLog
37 sci-chemistry/chimera-bin/Manifest
38 sci-chemistry/chimera-bin/chimera-bin-1.6.2.ebuild
39 sci-chemistry/chimera-bin/chimera-bin-1.8.ebuild
40 sci-chemistry/chimera-bin/chimera-bin-1.9.ebuild
41
42
43 .gitignore | 1 +
44 .travis.yml | 24 +
45 CONTRIBUTING.md | 150 +
46 ChangeLog | 10 +
47 README.md | 15 +-
48 app-admin/eselect/ChangeLog | 54 +-
49 app-admin/eselect/Manifest | 7 +-
50 app-admin/eselect/eselect-1.3.5-r100.ebuild | 73 -
51 app-admin/eselect/eselect-1.3.7-r100.ebuild | 72 +
52 app-admin/eselect/eselect-1.3.8-r100.ebuild | 72 +
53 app-admin/eselect/eselect-1.4-r100.ebuild | 72 +
54 app-admin/eselect/eselect-1.4.1-r100.ebuild | 72 +
55 app-admin/eselect/eselect-1.4.2-r100.ebuild | 72 +
56 app-admin/eselect/eselect-1.4.3-r100.ebuild | 72 +
57 app-admin/eselect/eselect-9999.ebuild | 69 +
58 .../eselect/files/eselect-1.3.8-alternatives.patch | 616 +
59 .../eselect/files/eselect-1.4.2-alternatives.patch | 616 +
60 app-admin/eselect/metadata.xml | 6 +-
61 app-benchmarks/btl/btl-9999.ebuild | 2 +-
62 app-benchmarks/numbench/ChangeLog | 5 +-
63 app-benchmarks/numbench/numbench-0.2.ebuild | 2 +-
64 app-benchmarks/numbench/numbench-9999.ebuild | 4 +-
65 app-doc/blacs-docs/ChangeLog | 6 +-
66 app-doc/blacs-docs/blacs-docs-1.1.ebuild | 8 +-
67 app-doc/blacs-docs/metadata.xml | 4 +-
68 app-doc/blas-docs/ChangeLog | 6 +-
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70 app-doc/blas-docs/metadata.xml | 4 +-
71 app-doc/lapack-docs/ChangeLog | 6 +-
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75 app-doc/root-docs/Manifest | 9 +-
76 .../files/root-docs-6.00.01-fillpatterns.patch | 30 +
77 .../files/root-docs-6.00.01-makehtml.patch | 55 +
78 app-doc/root-docs/metadata.xml | 7 +
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90 app-portage/g-octave/g-octave-9999.ebuild | 5 +-
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92 app-shells/mpibash/Manifest | 31 +
93 .../files/bash-4.3-append-process-segfault.patch | 18 +
94 app-shells/mpibash/files/bash-4.3-compat-lvl.patch | 13 +
95 .../files/bash-4.3-parse-time-keyword.patch | 30 +
96 .../mpibash/files/bash-4.3-term-cleanup.patch | 47 +
97 app-shells/mpibash/files/mpibash-4.3.patch | 1565 ++
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113 .../freefem++-syntax-20081108-r1.ebuild | 17 -
114 app-vim/freefem++-syntax/metadata.xml | 9 -
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149 {dev-util/f90cache => dev-cpp/icnc}/metadata.xml | 0
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174 .../gluegen/files/2.1.4-dont-test-archive.patch | 16 +
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204 dev-java/joda-convert/Manifest | 1 -
205 dev-java/joda-convert/files/1.2-build.xml | 99 -
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1834 sci-libs/coinor-cbc/coinor-cbc-2.8.1.ebuild | 83 -
1835 sci-libs/coinor-cbc/metadata.xml | 11 -
1836 sci-libs/coinor-cgl/ChangeLog | 24 -
1837 sci-libs/coinor-cgl/Manifest | 1 -
1838 sci-libs/coinor-cgl/coinor-cgl-0.58.0.ebuild | 73 -
1839 sci-libs/coinor-cgl/metadata.xml | 12 -
1840 sci-libs/coinor-clp/ChangeLog | 27 -
1841 sci-libs/coinor-clp/Manifest | 1 -
1842 sci-libs/coinor-clp/coinor-clp-1.15.1.ebuild | 112 -
1843 .../files/coinor-clp-1.15.1-mpi-header.patch | 12 -
1844 sci-libs/coinor-clp/metadata.xml | 20 -
1845 sci-libs/coinor-couenne/ChangeLog | 15 -
1846 sci-libs/coinor-couenne/Manifest | 1 -
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1848 sci-libs/coinor-couenne/metadata.xml | 12 -
1849 sci-libs/coinor-cppad/ChangeLog | 25 -
1850 sci-libs/coinor-cppad/Manifest | 1 -
1851 sci-libs/coinor-cppad/coinor-cppad-20130526.ebuild | 54 -
1852 sci-libs/coinor-cppad/metadata.xml | 14 -
1853 sci-libs/coinor-csdp/ChangeLog | 12 -
1854 sci-libs/coinor-csdp/Manifest | 1 -
1855 sci-libs/coinor-csdp/coinor-csdp-6.1.1.ebuild | 100 -
1856 sci-libs/coinor-csdp/metadata.xml | 16 -
1857 sci-libs/coinor-dip/ChangeLog | 9 -
1858 sci-libs/coinor-dip/Manifest | 1 -
1859 sci-libs/coinor-dip/coinor-dip-0.83.2.ebuild | 62 -
1860 sci-libs/coinor-dip/metadata.xml | 14 -
1861 sci-libs/coinor-dylp/ChangeLog | 9 -
1862 sci-libs/coinor-dylp/Manifest | 1 -
1863 sci-libs/coinor-dylp/coinor-dylp-1.8.3.ebuild | 66 -
1864 sci-libs/coinor-dylp/metadata.xml | 12 -
1865 sci-libs/coinor-flopcpp/ChangeLog | 9 -
1866 sci-libs/coinor-flopcpp/Manifest | 1 -
1867 .../coinor-flopcpp/coinor-flopcpp-1.1.2.ebuild | 67 -
1868 sci-libs/coinor-flopcpp/metadata.xml | 14 -
1869 sci-libs/coinor-mp/ChangeLog | 9 -
1870 sci-libs/coinor-mp/Manifest | 1 -
1871 sci-libs/coinor-mp/coinor-mp-1.6.0.ebuild | 55 -
1872 sci-libs/coinor-mp/metadata.xml | 11 -
1873 sci-libs/coinor-netlib/ChangeLog | 19 -
1874 sci-libs/coinor-netlib/Manifest | 1 -
1875 sci-libs/coinor-netlib/coinor-netlib-1.2.4.ebuild | 23 -
1876 sci-libs/coinor-netlib/metadata.xml | 9 -
1877 sci-libs/coinor-os/ChangeLog | 9 -
1878 sci-libs/coinor-os/Manifest | 1 -
1879 sci-libs/coinor-os/coinor-os-2.6.0.ebuild | 69 -
1880 sci-libs/coinor-os/metadata.xml | 11 -
1881 sci-libs/coinor-osi/ChangeLog | 21 -
1882 sci-libs/coinor-osi/Manifest | 1 -
1883 sci-libs/coinor-osi/coinor-osi-0.106.0.ebuild | 76 -
1884 sci-libs/coinor-osi/metadata.xml | 15 -
1885 sci-libs/coinor-sample/ChangeLog | 25 -
1886 sci-libs/coinor-sample/Manifest | 1 -
1887 sci-libs/coinor-sample/coinor-sample-1.2.4.ebuild | 23 -
1888 sci-libs/coinor-sample/metadata.xml | 9 -
1889 sci-libs/coinor-symphony/ChangeLog | 21 -
1890 sci-libs/coinor-symphony/Manifest | 1 -
1891 .../coinor-symphony/coinor-symphony-5.4.7.ebuild | 89 -
1892 sci-libs/coinor-symphony/metadata.xml | 18 -
1893 sci-libs/coinor-utils/ChangeLog | 21 -
1894 sci-libs/coinor-utils/Manifest | 1 -
1895 sci-libs/coinor-utils/coinor-utils-2.9.0.ebuild | 85 -
1896 sci-libs/coinor-utils/metadata.xml | 15 -
1897 sci-libs/coinor-vol/ChangeLog | 12 -
1898 sci-libs/coinor-vol/Manifest | 1 -
1899 sci-libs/coinor-vol/coinor-vol-1.3.3.ebuild | 71 -
1900 sci-libs/coinor-vol/metadata.xml | 10 -
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1902 sci-libs/dcmtk/ChangeLog | 18 +-
1903 sci-libs/dcmtk/Manifest | 5 +-
1904 sci-libs/dcmtk/dcmtk-3.5.4-r3.ebuild | 71 -
1905 sci-libs/dcmtk/dcmtk-3.5.5_pre20101008.ebuild | 79 -
1906 sci-libs/dcmtk/dcmtk-3.6.0.ebuild | 75 +
1907 sci-libs/dcmtk/files/02_dcmtk_3.6.0-1.patch | 89 +
1908 sci-libs/dcmtk/files/bug674361.patch | 1015 ++
1909 sci-libs/dcmtk/files/dcmtk-asneeded.patch | 16 +
1910 sci-libs/dcmtk/files/dcmtk_version_number.patch | 131 +
1911 sci-libs/dcmtk/files/doubledes.patch | 31 +
1912 sci-libs/dcmtk/files/fixnull.patch | 36 +
1913 sci-libs/dcmtk/files/noleak.patch | 36 +
1914 sci-libs/dcmtk/files/nothrow.patch | 76 +
1915 sci-libs/dcmtk/files/prefs.patch | 26 +
1916 .../files/regression_stacksequenceisodd.patch | 98 +
1917 .../dcmtk/files/use_correct_number_of_TS.patch | 19 +
1918 sci-libs/dcmtk/metadata.xml | 30 +-
1919 sci-libs/dealii/ChangeLog | 40 +
1920 sci-libs/dealii/Manifest | 4 +
1921 sci-libs/dealii/dealii-8.1.0-r2.ebuild | 116 +
1922 sci-libs/dealii/dealii-8.2.0_rc2.ebuild | 1 +
1923 sci-libs/dealii/dealii-9999.ebuild | 124 +
1924 .../files/dealii-8.1.0-p4est1.0-support.patch | 271 +
1925 sci-libs/dealii/metadata.xml | 35 +
1926 sci-libs/driftwood/ChangeLog | 6 +-
1927 sci-libs/driftwood/driftwood-0.87.ebuild | 4 +-
1928 sci-libs/driftwood/metadata.xml | 2 +-
1929 sci-libs/elmer-eio/ChangeLog | 28 +
1930 sci-libs/elmer-eio/Manifest | 1 +
1931 sci-libs/elmer-eio/elmer-eio-6.0_p4651.ebuild | 33 +
1932 sci-libs/elmer-eio/elmer-eio-9999.ebuild | 40 +
1933 .../files/elmer-eio-6.0_p4651-shared.patch | 37 +
1934 .../elmer-eio}/metadata.xml | 0
1935 sci-libs/elmer-hutiter/ChangeLog | 18 +
1936 sci-libs/elmer-hutiter/Manifest | 1 +
1937 .../elmer-hutiter/elmer-hutiter-6.0_p4651.ebuild | 38 +
1938 sci-libs/elmer-hutiter/elmer-hutiter-9999.ebuild | 45 +
1939 .../files/elmer-hutiter-6.0_p4651-shared.patch | 33 +
1940 .../elmer-hutiter}/metadata.xml | 0
1941 sci-libs/etsf_io/ChangeLog | 13 +-
1942 sci-libs/etsf_io/Manifest | 1 +
1943 sci-libs/etsf_io/etsf_io-1.0.3-r2.ebuild | 2 +-
1944 sci-libs/etsf_io/etsf_io-1.0.4.ebuild | 35 +
1945 sci-libs/factory/factory-3.1.1-r1.ebuild | 2 +-
1946 sci-libs/factory/factory-3.1.1.ebuild | 2 +-
1947 sci-libs/fdlibm/fdlibm-5.3.ebuild | 4 +-
1948 sci-libs/fftw/ChangeLog | 28 +
1949 sci-libs/fftw/fftw-9999.ebuild | 184 +
1950 .../fftw/files/fftw-3.3.3-install-header.patch | 35 +
1951 sci-libs/fftw/metadata.xml | 23 +
1952 sci-libs/fgsl/ChangeLog | 6 +-
1953 sci-libs/fgsl/fgsl-0.9.3.ebuild | 30 +-
1954 sci-libs/fgsl/fgsl-0.9.4.ebuild | 29 +-
1955 sci-libs/fgsl/metadata.xml | 12 +-
1956 sci-libs/fox/fox-4.1.2-r2.ebuild | 2 +-
1957 sci-libs/fplll/ChangeLog | 7 -
1958 sci-libs/fplll/Manifest | 1 -
1959 sci-libs/fplll/fplll-2.1.6.ebuild | 40 -
1960 sci-libs/fplll/metadata.xml | 6 -
1961 sci-libs/framewave/framewave-1.3.1.ebuild | 2 +-
1962 sci-libs/geom/geom-5.1.2.7.ebuild | 2 +-
1963 sci-libs/ghmm/ChangeLog | 12 +-
1964 sci-libs/ghmm/files/ghmm-9999-clapack.patch | 11 +
1965 sci-libs/ghmm/files/ghmm-9999-link.patch | 24 +
1966 sci-libs/ghmm/files/ghmm-9999-obsolete.patch | 13 +
1967 sci-libs/ghmm/files/ghmm-9999-out-of-source.patch | 40 +
1968 sci-libs/ghmm/files/ghmm-9999-respect.patch | 10 +
1969 sci-libs/ghmm/ghmm-9999.ebuild | 58 +-
1970 sci-libs/givaro/givaro-3.2.13.ebuild | 2 +-
1971 sci-libs/givaro/givaro-3.3.0.ebuild | 2 +-
1972 sci-libs/gmsh/ChangeLog | 19 +-
1973 sci-libs/gmsh/Manifest | 2 +-
1974 sci-libs/gmsh/files/gmsh-2.5.0-libpng-1.5.patch | 10 -
1975 sci-libs/gmsh/files/gmsh-2.5.0-link.patch | 16 -
1976 sci-libs/gmsh/gmsh-2.5.0-r1.ebuild | 91 -
1977 sci-libs/gmsh/gmsh-2.5.0.ebuild | 92 -
1978 sci-libs/gmsh/gmsh-2.8.5.ebuild | 92 +
1979 sci-libs/gmsh/gmsh-9999.ebuild | 87 -
1980 sci-libs/gotoblas2/gotoblas2-1.13.ebuild | 2 +-
1981 sci-libs/gsl/ChangeLog | 18 +-
1982 sci-libs/gsl/Manifest | 2 +-
1983 sci-libs/gsl/files/gsl-1.15-cblas.patch | 286 -
1984 sci-libs/gsl/files/gsl-1.16-cblas-external.patch | 294 +
1985 sci-libs/gsl/gsl-1.15-r3.ebuild | 57 -
1986 sci-libs/gsl/gsl-1.16-r1.ebuild | 60 +
1987 sci-libs/gsl/gsl-1.16-r2.ebuild | 60 +
1988 sci-libs/gsl/metadata.xml | 12 +-
1989 sci-libs/iml/iml-1.0.3-r2.ebuild | 2 +-
1990 sci-libs/ipopt/ChangeLog | 24 -
1991 sci-libs/ipopt/Manifest | 1 -
1992 sci-libs/ipopt/ipopt-3.11.0.ebuild | 97 -
1993 sci-libs/ipopt/metadata.xml | 18 -
1994 sci-libs/itk/ChangeLog | 23 +
1995 sci-libs/itk/Manifest | 4 +
1996 ...p-TransformFileReader-TransformFileWriter.patch | 50 +
1997 ...itkQuasiNewtonOptimizerv4-wrapping-warnin.patch | 28 +
1998 ...itkGradientDescentOptimizerv4-wrapping-wa.patch | 73 +
1999 ...OptimizerParameterScalesEstimatorTemplate.patch | 30 +
2000 .../0005-make-gdcm-helper-library-static.patch | 11 +
2001 sci-libs/itk/files/nrrdio-linking.patch | 15 +
2002 sci-libs/itk/itk-4.4.2-r1.ebuild | 134 +
2003 sci-libs/itk/itk-4.4.2.ebuild | 116 +
2004 sci-libs/itk/itk-4.5.1.ebuild | 154 +
2005 sci-libs/itk/metadata.xml | 18 +
2006 sci-libs/k3match/ChangeLog | 6 +-
2007 sci-libs/k3match/k3match-1.1.ebuild | 14 +-
2008 sci-libs/k3match/metadata.xml | 16 +-
2009 sci-libs/lapack-reference/ChangeLog | 67 +-
2010 sci-libs/lapack-reference/Manifest | 1 +
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2012 .../lapack-reference/lapack-reference-9999.ebuild | 113 +-
2013 sci-libs/lapack-reference/metadata.xml | 11 +-
2014 sci-libs/lapacke-reference/ChangeLog | 6 +
2015 sci-libs/lapacke-reference/Manifest | 1 +
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2017 .../lapacke-reference-9999.ebuild | 6 +-
2018 sci-libs/lapackpp/lapackpp-2.5.4.ebuild | 2 +-
2019 sci-libs/lemon/ChangeLog | 20 -
2020 sci-libs/lemon/Manifest | 1 -
2021 sci-libs/lemon/lemon-1.2.3.ebuild | 34 -
2022 sci-libs/levmar/levmar-2.6.ebuild | 4 +-
2023 sci-libs/libcgnsoo/libcgnsoo-1728.ebuild | 2 +-
2024 sci-libs/libfac/libfac-3.1.0.ebuild | 2 +-
2025 sci-libs/libfac/libfac-3.1.1.ebuild | 2 +-
2026 sci-libs/libgeodecomp/ChangeLog | 8 +
2027 sci-libs/libgeodecomp/Manifest | 2 +
2028 sci-libs/libgeodecomp/libgeodecomp-0.1.0.ebuild | 2 +-
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2030 sci-libs/libgeodecomp/libgeodecomp-0.3.1.ebuild | 36 +
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2032 sci-libs/libgeodecomp/metadata.xml | 26 +-
2033 sci-libs/libmatheval/libmatheval-1.1.10.ebuild | 2 +-
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2035 sci-libs/libmaus/libmaus-0.0.185.ebuild | 18 +
2036 sci-libs/libmaus/metadata.xml | 14 +
2037 sci-libs/libsc/ChangeLog | 21 +
2038 sci-libs/libsc/Manifest | 2 +
2039 sci-libs/libsc/libsc-1.0.ebuild | 72 +
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2061 sci-libs/m4ri/m4ri-20100221.ebuild | 38 -
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2086 sci-libs/mkl/mkl-11.2.0.090.ebuild | 141 +
2087 sci-libs/mkl/mkl-11.2.1.133.ebuild | 143 +
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2089 sci-libs/mlpack/Manifest | 2 +-
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2093 sci-libs/modglue/ChangeLog | 19 +-
2094 sci-libs/modglue/Manifest | 2 +-
2095 sci-libs/modglue/files/modglue-1.16-ldflags.patch | 13 -
2096 sci-libs/modglue/files/modglue-1.16-lib64.patch | 61 -
2097 .../modglue/files/modglue-1.16-parallelmake.patch | 53 -
2098 .../modglue/files/modglue-1.19-Makefiles.patch | 113 +
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2109 sci-libs/mumps/Manifest | 1 -
2110 sci-libs/mumps/metadata.xml | 18 -
2111 sci-libs/mumps/mumps-4.10.0-r2.ebuild | 184 -
2112 sci-libs/ni-visa/ChangeLog | 6 +-
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2119 sci-libs/nibabel/nibabel-9999.ebuild | 42 +
2120 sci-libs/nipy/ChangeLog | 8 +
2121 sci-libs/nipy/Manifest | 1 +
2122 sci-libs/nipy/metadata.xml | 12 +
2123 sci-libs/nipy/nipy-0.3.0.ebuild | 37 +
2124 sci-libs/nipy/nipy-9999.ebuild | 38 +
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2157 sci-libs/p4est/p4est-1.0.ebuild | 99 +
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2169 sci-libs/pastix/metadata.xml | 20 +
2170 sci-libs/pastix/pastix-5.2.2_p9.ebuild | 113 +
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2197 sci-libs/scikits_image/metadata.xml | 17 +
2198 sci-libs/scikits_image/scikits_image-9999.ebuild | 47 +
2199 sci-libs/silo/Manifest | 1 +
2200 sci-libs/silo/files/silo-4.9.1-qtlibs.patch | 66 +
2201 sci-libs/silo/metadata.xml | 18 +
2202 sci-libs/silo/silo-4.9.1.ebuild | 38 +
2203 sci-libs/spglib/ChangeLog | 14 +
2204 sci-libs/spglib/Manifest | 1 +
2205 sci-libs/spglib/files/spglib-openmp.patch | 22 +
2206 sci-libs/spglib/metadata.xml | 12 +
2207 sci-libs/spglib/spglib-1.6.0.ebuild | 34 +
2208 sci-libs/starparse/ChangeLog | 14 +
2209 sci-libs/starparse/Manifest | 1 -
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2218 sci-libs/superlu_dist/metadata.xml | 23 +
2219 sci-libs/superlu_dist/superlu_dist-3.3.ebuild | 82 +
2220 sci-libs/superlu_mt/ChangeLog | 17 +
2221 sci-libs/superlu_mt/Manifest | 1 +
2222 .../files/superlu_mt-2.1-duplicate-symbols.patch | 900 ++
2223 .../files/superlu_mt-2.1-missing-includes.patch | 44 +
2224 sci-libs/superlu_mt/metadata.xml | 23 +
2225 sci-libs/superlu_mt/superlu_mt-2.1.ebuild | 110 +
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2231 sci-libs/trilinos/ChangeLog | 21 +-
2232 sci-libs/trilinos/Manifest | 3 +
2233 .../files/trilinos-11.12.1-fix-install-paths.patch | 61 +
2234 .../files/trilinos-11.2.3-fix-install-paths.patch | 62 +
2235 .../files/trilinos-11.4.2-fix-install-paths.patch | 60 +
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2237 sci-libs/trilinos/trilinos-11.0.3.ebuild | 11 +-
2238 sci-libs/trilinos/trilinos-11.10.2.ebuild | 202 +
2239 sci-libs/trilinos/trilinos-11.12.1.ebuild | 202 +
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2241 sci-libs/trilinos/trilinos-11.2.3.ebuild | 186 -
2242 sci-libs/trilinos/trilinos-11.4.2.ebuild | 202 +
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2245 sci-libs/wannier90/ChangeLog | 21 +-
2246 sci-libs/wannier90/Manifest | 1 +
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2248 sci-libs/wannier90/wannier90-1.2-r3.ebuild | 72 +
2249 sci-libs/wannier90/wannier90-2.0.0.ebuild | 65 +
2250 sci-libs/xblas/ChangeLog | 14 +-
2251 sci-libs/xblas/metadata.xml | 3 +
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2255 sci-libs/xraylib/Manifest | 1 +
2256 sci-libs/xraylib/metadata.xml | 38 +
2257 sci-libs/xraylib/xraylib-2.16.0.ebuild | 84 +
2258 sci-libs/zarja/zarja-1.1.1.ebuild | 2 +-
2259 sci-mathematics/Macaulay2/ChangeLog | 17 +-
2260 sci-mathematics/Macaulay2/Macaulay2-9999.ebuild | 76 +-
2261 sci-mathematics/Macaulay2/Manifest | 8 +-
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2265 sci-mathematics/acl2/acl2-4.2.ebuild | 54 -
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2267 sci-mathematics/acl2/acl2-6.3.ebuild | 69 +
2268 sci-mathematics/acl2/metadata.xml | 32 +-
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2270 sci-mathematics/alt-ergo/Manifest | 2 +-
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2274 sci-mathematics/apron/Manifest | 2 +-
2275 sci-mathematics/apron/apron-0.9.10-r1.ebuild | 67 +
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2280 sci-mathematics/axiom/axiom-201009.ebuild | 35 +-
2281 sci-mathematics/axiom/metadata.xml | 2 +-
2282 sci-mathematics/bertini/ChangeLog | 17 -
2283 sci-mathematics/bertini/Manifest | 2 -
2284 sci-mathematics/bertini/bertini-1.3.1.ebuild | 54 -
2285 sci-mathematics/bertini/metadata.xml | 29 -
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2287 sci-mathematics/cadabra/ChangeLog | 16 +-
2288 sci-mathematics/cadabra/Manifest | 3 +-
2289 sci-mathematics/cadabra/cadabra-1.31.ebuild | 83 -
2290 sci-mathematics/cadabra/cadabra-1.33.ebuild | 88 +
2291 sci-mathematics/cadabra/cadabra-1.39.ebuild | 88 +
2292 .../cadabra/files/cadabra-1.21-no-stripping.patch | 30 -
2293 .../files/cadabra-1.25-xcadabra-flags.patch | 11 -
2294 .../cadabra/files/cadabra-1.33-FLAGS.patch | 171 +
2295 .../cadabra/files/cadabra-1.39-FLAGS.patch | 171 +
2296 sci-mathematics/cdfplayer/cdfplayer-9.0.1.ebuild | 4 +-
2297 sci-mathematics/cipi/ChangeLog | 5 +-
2298 sci-mathematics/cipi/Manifest | 1 +
2299 sci-mathematics/cipi/cipi-1.0.ebuild | 9 +-
2300 sci-mathematics/cipi/metadata.xml | 12 +-
2301 sci-mathematics/dolfin/ChangeLog | 6 +-
2302 sci-mathematics/dolfin/dolfin-0.9.9.ebuild | 24 +-
2303 sci-mathematics/dolfin/metadata.xml | 18 +-
2304 sci-mathematics/dsfmt/dsfmt-2.2.ebuild | 2 +-
2305 sci-mathematics/flocq/ChangeLog | 23 +-
2306 sci-mathematics/flocq/Manifest | 2 +-
2307 sci-mathematics/flocq/flocq-2.1.0.ebuild | 21 -
2308 sci-mathematics/flocq/flocq-2.3.0.ebuild | 36 +
2309 sci-mathematics/frama-c/ChangeLog | 28 +-
2310 sci-mathematics/frama-c/Manifest | 2 +-
2311 .../frama-c/files/ocamlgraph185_compat.patch | 254 +
2312 sci-mathematics/frama-c/frama-c-20120901.ebuild | 63 -
2313 sci-mathematics/frama-c/frama-c-20140301.ebuild | 68 +
2314 sci-mathematics/freefem++/ChangeLog | 8 +-
2315 sci-mathematics/freefem++/freefem++-3.8.ebuild | 41 +-
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2317 sci-mathematics/gap-guava/gap-guava-3.10-r1.ebuild | 2 +-
2318 sci-mathematics/gap/gap-4.4.12.ebuild | 2 +-
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2320 sci-mathematics/gappa/Manifest | 2 +-
2321 sci-mathematics/gappa/gappa-0.16.3.ebuild | 50 -
2322 sci-mathematics/gappa/gappa-1.1.1.ebuild | 39 +
2323 sci-mathematics/gappalib-coq/ChangeLog | 34 +-
2324 sci-mathematics/gappalib-coq/Manifest | 2 +-
2325 .../gappalib-coq/files/gappalib-coq-coq84.patch | 71 -
2326 .../gappalib-coq/gappalib-coq-0.18.0.ebuild | 35 -
2327 .../gappalib-coq/gappalib-coq-1.0.0.ebuild | 34 +
2328 sci-mathematics/giac/ChangeLog | 21 +-
2329 sci-mathematics/giac/Manifest | 2 +-
2330 sci-mathematics/giac/giac-1.0.0.ebuild | 59 -
2331 sci-mathematics/giac/giac-1.1.0.ebuild | 75 +
2332 sci-mathematics/giac/metadata.xml | 2 +-
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2346 sci-mathematics/mdp/Manifest | 2 +-
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2349 sci-mathematics/mdp/mdp-9999.ebuild | 29 +-
2350 sci-mathematics/netgen/Manifest | 3 +-
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2352 .../netgen/files/netgen-5.x-missing-define.patch | 38 +
2353 sci-mathematics/netgen/files/netgen.desktop | 5 +-
2354 sci-mathematics/netgen/netgen-4.9.13.ebuild | 4 +-
2355 sci-mathematics/netgen/netgen-5.0.0.ebuild | 88 +
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2357 sci-mathematics/open-axiom/Manifest | 1 +
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2360 sci-mathematics/open-axiom/open-axiom-1.4.2.ebuild | 37 +
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2363 sci-mathematics/petsc/Manifest | 3 +-
2364 .../petsc/files/petsc-3.4.2-disable-rpath.patch | 16 +
2365 .../petsc/files/petsc-3.5.1-disable-rpath.patch | 16 +
2366 sci-mathematics/petsc/metadata.xml | 6 +-
2367 sci-mathematics/petsc/petsc-3.3_p5.ebuild | 223 -
2368 sci-mathematics/petsc/petsc-3.4.2.ebuild | 247 +
2369 sci-mathematics/petsc/petsc-3.5.1.ebuild | 243 +
2370 sci-mathematics/pff/ChangeLog | 23 +-
2371 sci-mathematics/pff/metadata.xml | 1 +
2372 sci-mathematics/pff/pff-8.4.ebuild | 17 +-
2373 sci-mathematics/polymake/ChangeLog | 8 -
2374 sci-mathematics/polymake/Manifest | 1 -
2375 sci-mathematics/polymake/files/2.10-soname.patch | 11 -
2376 .../files/polymake-2.11-drop-jreality.patch | 25 -
2377 sci-mathematics/polymake/metadata.xml | 17 -
2378 sci-mathematics/polymake/polymake-2.11-r1.ebuild | 82 -
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2380 sci-mathematics/pulp/Manifest | 2 +-
2381 sci-mathematics/pulp/pulp-1.5.3.ebuild | 43 -
2382 sci-mathematics/pulp/pulp-1.5.6.ebuild | 43 +
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2384 sci-mathematics/scilab/Manifest | 2 +
2385 .../files/scilab-5.3.3-java-version-check.patch | 23 +
2386 .../files/scilab-5.5.0-accessviolation.patch | 21 +
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2389 .../scilab/files/scilab-5.5.0-gluegen.patch | 11 +
2390 .../scilab/files/scilab-5.5.0-java-heap.patch | 11 +
2391 .../scilab/files/scilab-5.5.0-jdk1.8.patch | 76 +
2392 .../scilab/files/scilab-5.5.0-nogui.patch | 13 +
2393 .../files/scilab-5.5.1-accessviolation.patch | 21 +
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2398 .../scilab/files/scilab-5.5.1-missinglib.patch | 11 +
2399 .../scilab/files/scilab-5.5.1-nogui.patch | 13 +