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Horea Christian a5c0e85c0b
sci-biology/ABI-expression-data: upstream regenerated archive
5 days ago
app-admin/eselect app-admin/eselect: Fix eselect patch 1 year ago
app-arch/libdeflate app-arch/libdeflate: make a patch to fix EPREFIX installations 1 year ago
app-benchmarks Update Manifests to new hashes 2 years ago
app-doc app-doc/root-docs: removal due to migration of sci-physics/root 1 year ago
app-forensics/vine Update Manifests to new hashes 2 years ago
app-portage/g-octave Second try to clean spaces in metadata.xml 2 years ago
app-vim/vim-gromacs Second try to clean spaces in metadata.xml 2 years ago
dev-cpp dev-cpp/kokkos: moved to gx86 2 months ago
dev-java dev-java/htsjdk: drop old 2.1.0 version 1 year ago
dev-lang dev-lang/vtune: version bump to 2020 update 1 3 weeks ago
dev-libs dev-libs/intel-common: version bump to 2020 update 1 3 weeks ago
dev-lua/lua-md5 dev-lua/lua-md5: new package needed by sci-biology/genometools 1 year ago
dev-ml Update Manifests to new hashes 2 years ago
dev-perl dev-perl/Bio-EnsEMBL: update ensembl-api.tar.gz digest 10 months ago
dev-python dev-python/json_tricks: new package 2 months ago
dev-tcltk Update Manifests to new hashes 2 years ago
dev-util dev-util/plog: initial commit 1.1.4_p20191110. 6 months ago
docs virtual/{{c,}blas,lapack{,e}}: replaced by counterparts in ::gentoo. 9 months ago
eclass dev-libs/intel-common: EAPI bump in intel-sdp-r1 eclass 1 year ago
licenses Add UCSF-Motioncor2 license 7 months ago
media-gfx media-gfx/librecad: Newver version in tree 1 year ago
media-libs media-libs/DualContouringSample: depend on media-libs/glm 2 months ago
metadata metadata: Updated default repository path 6 months ago
net-ftp Update Manifests to new hashes 2 years ago
net-misc net-misc/cernbox-client: Fix USE-deps 2 years ago
patches Drop patches/jupyter_core-4.0.4-tests-dotipython.patch 4 years ago
perl-core/encoding-warnings Update Manifests to new hashes 2 years ago
profiles profiles: removed deprecated masking 2 months ago
sci-astronomy sci-astronomy/wcslib: new package 2 months ago
sci-biology sci-biology/ABI-expression-data: upstream regenerated archive 5 days ago
sci-chemistry sci-chemistry/openbabel-ruby: remove from tree. 3 months ago
sci-electronics Update Manifests to new hashes 2 years ago
sci-geosciences Drop obsolete packages 1 year ago
sci-libs sci-libs/pybids: updated PYTHON_COMPAT 3 weeks ago
sci-mathematics sci-mathematics/mdp: remove from tree. 3 months ago
sci-misc sci-misc/elmer-gui: remove as qt4 is gone 1 year ago
sci-physics sci-physics/opticks: correct headers directory. 2 months ago
sci-visualization sci-visualization/mricron: removed package 2 months ago
scripts virtual/{{c,}blas,lapack{,e}}: replaced by counterparts in ::gentoo. 9 months ago
sys-cluster sys-cluster/openmpi: slot-dep on libevent 9 months ago
sys-devel/gdebugger Drop leftover from CVS in HEADER 3 years ago
virtual virtual/{{c,}blas,lapack{,e}}: replaced by counterparts in ::gentoo. 9 months ago
x11-libs x11-libs/agg: Remove 1 year ago
x11-misc/envytools Consistently ident with tabs 2 years ago
.gitignore profiles: remove use.local.desc permanently 2 years ago
.travis.yml Bump portage for travis 1 year ago
CONTRIBUTING.md Fix broken Markdown headings 3 years ago
README.md README: Updated new portage-compliant repo path 6 months ago
skel.ebuild header.txt, skel.ebuild: Update for new copyright policy. 1 year ago
skel.metadata.xml skel.metadata.xml: update for GLEP 67 1 year ago

README.md

Gentoo Science Overlay

Build Status

This is a Gentoo Linux ebuild repository which provides numerous scientific software packages.

Install

As per the current Portage specifications, ebuild repositories (a.k.a. overlays) should be managed via file collections under /etc/portage/repos.conf/. To enable our overlay without the need for additional software, simply run (as root):

wget https://gitweb.gentoo.org/proj/sci.git/plain/metadata/science.conf -O /etc/portage/repos.conf/science

To start using the overlay you now only need to get the ebuilds, via emerge --sync.

BLAS and LAPACK

The BLAS and LAPACK switching framework in ::gentoo has been implemented. The Science overlay will no longer carry blas and lapack ebuilds.

Uninstall

To uninstall the overlay run (again, as root):

rm /etc/portage/repos.conf/science
rm /var/db/repos/science -rf

Support

You can ask for help on Freenode IRC in #gentoo-science. Alternatively you can report bugs on the GitHub issues page.

Contribute

Please fork! We will merge! See our contributing guide.