gentoo resync : 12.01.2019

9 files changed, 4 insertions, 82 deletions

diff --git a/metadata/md5-cache/sci-chemistry/Manifest.gz b/metadata/md5-cache/sci-chemistry/Manifest.gz
index 0695652b9294..095b5fb9e3df 100644
--- a/metadata/md5-cache/sci-chemistry/Manifest.gz
+++ b/metadata/md5-cache/sci-chemistry/Manifest.gz
diff --git a/metadata/md5-cache/sci-chemistry/apbs-1.4.1-r2 b/metadata/md5-cache/sci-chemistry/apbs-1.4.1-r2
index 1d29124d68ae..49f560b3fdb0 100644
--- a/metadata/md5-cache/sci-chemistry/apbs-1.4.1-r2
+++ b/metadata/md5-cache/sci-chemistry/apbs-1.4.1-r2
@@ -1,7 +1,7 @@
 DEFINED_PHASES=compile configure install prepare setup test
 DEPEND=dev-cpp/eigen:3 dev-libs/maloc[mpi=] sys-libs/readline virtual/blas fetk? ( sci-libs/amd sci-libs/fetk sci-libs/superlu sci-libs/umfpack ) mpi? ( virtual/mpi ) python? ( python_targets_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 ) >=dev-lang/python-exec-2:=[python_targets_python2_7(-)?,-python_single_target_jython2_7(-),-python_single_target_pypy(-),-python_single_target_pypy3(-),-python_single_target_python3_4(-),-python_single_target_python3_5(-),-python_single_target_python3_6(-),-python_single_target_python3_7(-),python_single_target_python2_7(+)] ) virtual/pkgconfig doc? ( app-doc/doxygen ) sys-devel/make >=dev-util/cmake-3.9.6 python_targets_python2_7? ( >=dev-lang/python-2.7.5-r2:2.7 ) >=dev-lang/python-exec-2:=[python_targets_python2_7(-)?,-python_single_target_jython2_7(-),-python_single_target_pypy(-),-python_single_target_pypy3(-),-python_single_target_python3_4(-),-python_single_target_python3_5(-),-python_single_target_python3_6(-),-python_single_target_python3_7(-),python_single_target_python2_7(+)]
 DESCRIPTION=Evaluation of electrostatic properties of nanoscale biomolecular systems
-EAPI=5
+EAPI=6
 HOMEPAGE=https://www.poissonboltzmann.org/apbs/
 IUSE=debug doc examples fast +fetk iapbs mpi openmp python tools python_targets_python2_7
 KEYWORDS=amd64 ppc x86 ~amd64-linux ~x86-linux
@@ -11,4 +11,4 @@ REQUIRED_USE=iapbs? ( fetk ) mpi? ( !python ) python? ( tools fetk iapbs python_
 SLOT=0
 SRC_URI=https://github.com/Electrostatics/apbs-pdb2pqr/archive/74fcb8676de69ed04ddab8976a8b05a6caaf4d65.zip -> apbs-1.4.1.zip
 _eclasses_=cmake-utils	ab10bd85e5d38e2a32077bcd91faa1b6	desktop	b1d22ac8bdd4679ab79c71aca235009d	distutils-r1	71a5ee567fb298e553ce8d1319279151	epatch	a1bf4756dba418a7238f3be0cb010c54	estack	43ddf5aaffa7a8d0482df54d25a66a1f	eutils	6e6c2737b59a4b982de6fb3ecefd87f8	flag-o-matic	55aaa148741116aa54ad0d80e361818e	ltprune	08f9e1d9ee0af8f5d9a7854efbcd8c0e	multilib	b2f01ad412baf81650c23fcf0975fa33	multiprocessing	cac3169468f893670dac3e7cb940e045	ninja-utils	132cbb376048d079b5a012f5467c4e7f	preserve-libs	ef207dc62baddfddfd39a164d9797648	python-single-r1	3a0fc81f484bfdbd9c2b7448015a36e4	python-utils-r1	12114a2a9aab35b93efc037a196b3234	toolchain-funcs	f164325a2cdb5b3ea39311d483988861	vcs-clean	2a0f74a496fa2b1552c4f3398258b7bf	xdg-utils	93b2dfbb00a09161e1e7f6360c0f7f6b
-_md5_=6a96394a927ad8fef2bf8994cd06837c
+_md5_=b7b214fa754f69638687bac2d11fb805
diff --git a/metadata/md5-cache/sci-chemistry/gromacs-2016.2 b/metadata/md5-cache/sci-chemistry/gromacs-2016.2
deleted file mode 100644
index 39c608166299..000000000000
--- a/metadata/md5-cache/sci-chemistry/gromacs-2016.2
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=compile configure install postinst prepare pretend test unpack
-DEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) hwloc? ( <sys-apps/hwloc-2 ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi ) virtual/pkgconfig doc? ( app-doc/doxygen dev-texlive/texlive-latex dev-texlive/texlive-latexextra media-gfx/imagemagick ) dev-libs/tinyxml2 dev-util/ninja >=dev-util/cmake-3.9.6
-DESCRIPTION=The ultimate molecular dynamics simulation package
-EAPI=6
-HOMEPAGE=http://www.gromacs.org/
-IUSE=X blas cuda +doc -double-precision +fftw +hwloc lapack mkl mpi +offensive openmp +single-precision test +threads +tng cpu_flags_x86_sse2 cpu_flags_x86_sse4_1 cpu_flags_x86_fma4 cpu_flags_x86_avx cpu_flags_x86_avx2
-KEYWORDS=amd64 arm x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos
-LICENSE=LGPL-2.1 UoI-NCSA !mkl? ( !fftw? ( BSD ) !blas? ( BSD ) !lapack? ( BSD ) ) cuda? ( LGPL-3 ) threads? ( BSD )
-RDEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) hwloc? ( <sys-apps/hwloc-2 ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi )
-REQUIRED_USE=|| ( single-precision double-precision ) cuda? ( single-precision ) mkl? ( !blas !fftw !lapack )
-SLOT=0/2016.2
-SRC_URI=ftp://ftp.gromacs.org/pub/gromacs/gromacs-2016.2.tar.gz test? ( http://gerrit.gromacs.org/download/regressiontests-2016.2.tar.gz )
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-_md5_=f7ac23698680faf20fa93d11dbe806d0
diff --git a/metadata/md5-cache/sci-chemistry/gromacs-2019_rc1 b/metadata/md5-cache/sci-chemistry/gromacs-2019
index 09ae540cd4ed..421c101e634a 100644
--- a/metadata/md5-cache/sci-chemistry/gromacs-2019_rc1
+++ b/metadata/md5-cache/sci-chemistry/gromacs-2019
@@ -8,7 +8,7 @@ KEYWORDS=~amd64 ~arm ~x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos
 LICENSE=LGPL-2.1 UoI-NCSA !mkl? ( !fftw? ( BSD ) !blas? ( BSD ) !lapack? ( BSD ) ) cuda? ( LGPL-3 ) threads? ( BSD )
 RDEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) cuda? ( >=dev-util/nvidia-cuda-toolkit-6.5.14 ) opencl? ( virtual/opencl ) fftw? ( sci-libs/fftw:3.0 ) hwloc? ( sys-apps/hwloc ) lapack? ( virtual/lapack ) lmfit? ( sci-libs/lmfit ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi )
 REQUIRED_USE=|| ( single-precision double-precision ) cuda? ( single-precision ) cuda? ( !opencl ) mkl? ( !blas !fftw !lapack )
-SLOT=0/2019_rc1
-SRC_URI=ftp://ftp.gromacs.org/pub/gromacs/gromacs-2019-rc1.tar.gz test? ( http://gerrit.gromacs.org/download/regressiontests-2019-rc1.tar.gz )
+SLOT=0/2019
+SRC_URI=ftp://ftp.gromacs.org/pub/gromacs/gromacs-2019.tar.gz test? ( http://gerrit.gromacs.org/download/regressiontests-2019.tar.gz )
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diff --git a/metadata/md5-cache/sci-chemistry/gromacs-4.6.9999 b/metadata/md5-cache/sci-chemistry/gromacs-4.6.9999
deleted file mode 100644
index 998b8b31ee43..000000000000
--- a/metadata/md5-cache/sci-chemistry/gromacs-4.6.9999
+++ /dev/null
@@ -1,12 +0,0 @@
-DEFINED_PHASES=compile configure install postinst prepare pretend test unpack
-DEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) gsl? ( sci-libs/gsl ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi ) virtual/pkgconfig doc? ( app-doc/doxygen dev-texlive/texlive-latex dev-texlive/texlive-latexextra media-gfx/imagemagick sys-apps/coreutils ) doc? ( app-doc/doxygen ) dev-util/ninja >=dev-util/cmake-3.9.6 >=dev-vcs/git-1.8.2.1[curl]
-DESCRIPTION=The ultimate molecular dynamics simulation package
-EAPI=6
-HOMEPAGE=http://www.gromacs.org/
-IUSE=X blas cuda doc -double-precision +fftw gsl lapack mkl mpi +offensive openmp +single-precision test +threads zsh-completion cpu_flags_x86_sse2 cpu_flags_x86_sse4_1 cpu_flags_x86_fma4 cpu_flags_x86_avx
-LICENSE=LGPL-2.1 UoI-NCSA !mkl? ( !fftw? ( BSD ) !blas? ( BSD ) !lapack? ( BSD ) ) cuda? ( LGPL-3 ) threads? ( BSD )
-RDEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) gsl? ( sci-libs/gsl ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi )
-REQUIRED_USE=|| ( single-precision double-precision ) cuda? ( single-precision ) mkl? ( !blas !fftw !lapack )
-SLOT=0/4.6.9999
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diff --git a/metadata/md5-cache/sci-chemistry/gromacs-5.0.4 b/metadata/md5-cache/sci-chemistry/gromacs-5.0.4
deleted file mode 100644
index a2abd05826cb..000000000000
--- a/metadata/md5-cache/sci-chemistry/gromacs-5.0.4
+++ /dev/null
@@ -1,14 +0,0 @@
-DEFINED_PHASES=compile configure install postinst prepare pretend test unpack
-DEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) boost? ( >=dev-libs/boost-1.55 ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi ) virtual/pkgconfig doc? ( app-doc/doxygen dev-texlive/texlive-latex dev-texlive/texlive-latexextra media-gfx/imagemagick ) dev-util/ninja >=dev-util/cmake-3.9.6
-DESCRIPTION=The ultimate molecular dynamics simulation package
-EAPI=5
-HOMEPAGE=http://www.gromacs.org/
-IUSE=X blas boost cuda +doc -double-precision +fftw lapack +make-symlinks mkl mpi +offensive openmp +single-precision test +threads +tng cpu_flags_x86_sse2 cpu_flags_x86_sse4_1 cpu_flags_x86_fma4 cpu_flags_x86_avx cpu_flags_x86_avx2
-KEYWORDS=~alpha amd64 arm ppc64 ~sparc x86 ~amd64-linux ~x86-linux ~x64-macos ~x86-macos
-LICENSE=LGPL-2.1 UoI-NCSA !mkl? ( !fftw? ( BSD ) !blas? ( BSD ) !lapack? ( BSD ) ) cuda? ( LGPL-3 ) threads? ( BSD )
-RDEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) boost? ( >=dev-libs/boost-1.55 ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi )
-REQUIRED_USE=|| ( single-precision double-precision ) cuda? ( single-precision ) mkl? ( !blas !fftw !lapack )
-SLOT=0/5.0.4
-SRC_URI=ftp://ftp.gromacs.org/pub/gromacs/gromacs-5.0.4.tar.gz test? ( http://gerrit.gromacs.org/download/regressiontests-5.0.4.tar.gz )
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diff --git a/metadata/md5-cache/sci-chemistry/gromacs-5.0.9999 b/metadata/md5-cache/sci-chemistry/gromacs-5.0.9999
deleted file mode 100644
index 52d86ff9acc7..000000000000
--- a/metadata/md5-cache/sci-chemistry/gromacs-5.0.9999
+++ /dev/null
@@ -1,12 +0,0 @@
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-DEPEND=X? ( x11-libs/libX11 x11-libs/libSM x11-libs/libICE ) blas? ( virtual/blas ) boost? ( >=dev-libs/boost-1.55 ) cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 ) fftw? ( sci-libs/fftw:3.0 ) lapack? ( virtual/lapack ) mkl? ( sci-libs/mkl ) mpi? ( virtual/mpi ) virtual/pkgconfig doc? ( app-doc/doxygen dev-texlive/texlive-latex dev-texlive/texlive-latexextra media-gfx/imagemagick ) dev-util/ninja >=dev-util/cmake-3.9.6 >=dev-vcs/git-1.8.2.1[curl]
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diff --git a/metadata/md5-cache/sci-chemistry/gromacs-5.1.3 b/metadata/md5-cache/sci-chemistry/gromacs-5.1.3
deleted file mode 100644
index a5a4f2179a93..000000000000
--- a/metadata/md5-cache/sci-chemistry/gromacs-5.1.3
+++ /dev/null
@@ -1,14 +0,0 @@
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-DESCRIPTION=The ultimate molecular dynamics simulation package
-EAPI=6
-HOMEPAGE=http://www.gromacs.org/
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diff --git a/metadata/md5-cache/sci-chemistry/gromacs-5.1.9999 b/metadata/md5-cache/sci-chemistry/gromacs-5.1.9999
deleted file mode 100644
index dea338491fd2..000000000000
--- a/metadata/md5-cache/sci-chemistry/gromacs-5.1.9999
+++ /dev/null
@@ -1,12 +0,0 @@
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