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* sci-libs/xblas: EAPI bumpAndrew Ammerlaan2021-01-301-5/+6
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* eclass/numeric-int64-multibuild.eclass: use_if_iuse is deprecatedAndrew Ammerlaan2021-01-301-5/+5
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/clfft: EAPI bump, add doc buildingAndrew Ammerlaan2021-01-305-148/+40
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/ciftilib: version bump, EAPI bump, cmake-utils-->cmakeAndrew Ammerlaan2021-01-303-23/+7
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/cgnstools: remove pack, replace by cgnslib[tools]Andrew Ammerlaan2021-01-307-443/+0
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/xraylib: do REQUIRED_USE correctlyAndrew Ammerlaan2021-01-291-2/+4
| | | | | | | oops, clearly it's time to go to bed now Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/xraylib: use docinto/dodoc instead of insintoAndrew Ammerlaan2021-01-291-9/+9
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/xraylib: version bump, EAPI bump, add ruby and lua targetsAndrew Ammerlaan2021-01-294-168/+95
| | | | | | | | drop java support, uses gradle now which is not supported by portage at the moment Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/asl: fix manifestAndrew Ammerlaan2021-01-291-14/+0
| | | | | | | | okay I think I found out why this keeps happening, and it should be fixed now Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-libs/asl: camke-utils --> cmake, fix compilationAndrew Ammerlaan2021-01-294-63/+38
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-misc/jwnl: fix install location of config xml filesAndrew Ammerlaan2021-01-291-1/+1
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-misc/jwnl: version bump 1.4_rc2, EAPI bumpAndrew Ammerlaan2021-01-293-50/+49
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/chimera-bin: add missing REQUIRED_USE="${PYTHON_REQUIRED_USE}"Andrew Ammerlaan2021-01-292-0/+4
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/chimera-bin: use python-r1 instead of python-any-r1Andrew Ammerlaan2021-01-292-2/+2
| | | | | | | | the python dep is runtime and not build time, so -any* is not the correct eclass here Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/chimera-bin: remove oldAndrew Ammerlaan2021-01-292-92/+0
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/chimera-bin: add version 1.15Andrew Ammerlaan2021-01-293-7/+115
| | | | | | | | | also fix the symlink to freetype and add dependency on python2_7 Closes: https://github.com/gentoo/sci/issues/1046 Closes: https://github.com/gentoo/sci/issues/1045 Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/giac: fix SRC_URIAndrew Ammerlaan2021-01-296-82/+234
| | | | | | | thanks to @kiwifb and the sage-on-gentoo overlay Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* .github/workflows/pkgcheck: correctly ignore live VCS pkgsAisha Tammy2021-01-291-1/+1
| | | | | | | previous ignore was too lenient and ignored a lot of things, this one is suggested by radhermit Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sci-mathematics/netgen: EAPI bump, add 6.0-betaAndrew Ammerlaan2021-01-285-172/+133
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/giac: version bump, EAPI bumpAndrew Ammerlaan2021-01-282-19/+20
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/cipi: EAPI bump, fix compile phaseAndrew Ammerlaan2021-01-281-5/+11
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/Oid: EAPI bumpAndrew Ammerlaan2021-01-282-12/+14
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-physics/atompaw: install pdf docs unconditionallyAndrew Ammerlaan2021-01-281-8/+5
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-physics/atompaw: fix manifest, how did this happen?Andrew Ammerlaan2021-01-281-14/+0
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-physics/atompaw: version bump 4.1.1.0, EAPI bumpAndrew Ammerlaan2021-01-283-70/+73
| | | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Manifest-Sign-Key: A19F636CD4EDBCD1 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/freeon: EAPI bump, autotools-utils --> cmakeAndrew Ammerlaan2021-01-281-29/+8
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/erkale: EAPI bump, camke-utils --> cmakeAndrew Ammerlaan2021-01-281-7/+10
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* .github/workflows/pkgcheck.yml: make compatible with pkgcheck-0.8Andrew Ammerlaan2021-01-281-1/+1
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* dev-util/VampirTrace: drop dead packageAisha Tammy2021-01-274-96/+0
| | | | | | | upstream has abandoned it and suggests using Score-P, which is not in the repos Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* dev-util/makefile2graph: bump to eapi 7 + live ebuildAisha Tammy2021-01-272-8/+59
| | | | | | | also add tests Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* dev-libs/half: bump to EAPI 7Aisha Tammy2021-01-271-10/+6
| | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sci-biology/somatic-sniper: remove pack, archived upstreamAndrew Ammerlaan2021-01-263-44/+0
| | | | | | does not build, needs static libs of samtools Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/salmon: cmake-utils --> cmake EAPI bumpAndrew Ammerlaan2021-01-261-10/+14
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/sailfish: initial attempts at getting this to workAndrew Ammerlaan2021-01-265-25/+220
| | | | | | | the build system is a mess of things wanting to fetch things Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/proda: EAPI bumpAndrew Ammerlaan2021-01-261-6/+7
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/imagej: version bump, EAPI bump, add keywordsAndrew Ammerlaan2021-01-263-43/+20
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/lattE-macchiato: drop dead packageAisha Tammy2021-01-264-300/+0
| | | | | | superseded by latte-int available on ::sage-on-gentoo Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* media-libs/embree-bin: version bump to 3.12.2Aisha Tammy2021-01-252-0/+56
| | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sys-cluster/lmod: add long descriptionAisha Tammy2021-01-252-2/+2
| | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sci-mathematics/scilab: only add -fallow-argument-mismatch if supportedAndrew Ammerlaan2021-01-253-3/+3
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: merge fixes in 5.5.2 ebuild to the later versionsAndrew Ammerlaan2021-01-243-33/+60
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: revert ban of --as-neededFabio Rossi2021-01-241-4/+0
| | | | | | | | | | The linker flag was banned a lot of time ago, on amd64 I don't see problems at link- or run-time, so let's try without it. In case this commit might be reverted later. Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Closes: https://github.com/gentoo/sci/pull/1042 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: fix QA issuesFabio Rossi2021-01-241-1/+6
| | | | | Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: fix dependency needed for USE=mpiFabio Rossi2021-01-241-0/+1
| | | | | Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: bump to EAPI 7Fabio Rossi2021-01-241-1/+1
| | | | | Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: remove USE=bash-completionFabio Rossi2021-01-241-2/+3
| | | | | | | | Install unconditionally bash-completion file to avoid useless rebuilds. Fix also symlinks for bashcomp aliases. Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: fix linking to deprecated lapack functionsFabio Rossi2021-01-241-1/+1
| | | | | | | | Fix lapack dependency to have support for legacy functions to avoid "undefined reference to [dz]geqpf_" linking errors Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/scilab: re-add previous version 5.5.2Fabio Rossi2021-01-2417-0/+998
| | | | | | | | As latest version 6.1.0 requires more work (missing deps in portage), re-add the old one. Ebuild is not mergeable yet. Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* licenses: add file for scilab-5.5.2Fabio Rossi2021-01-241-0/+519
| | | | | Signed-off-by: Fabio Rossi <rossi.f@inwind.it> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sys-cluster/lmod: add long descriptionAisha Tammy2021-01-242-1/+9
| | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>