commit: 8a73a8d755084a19bb9071502667bf7783f86baa Author: NHOrus <jy6x2b32pie9 <AT> yahoo <DOT> com> AuthorDate: Mon Apr 1 18:08:48 2024 +0000 Commit: Sam James <sam <AT> gentoo <DOT> org> CommitDate: Wed May 8 16:56:04 2024 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8a73a8d7
sci-biology/paml: add 4.10.7 Project source is now hosted on github. Closes: https://bugs.gentoo.org/831488 Closes: https://bugs.gentoo.org/919885 Signed-off-by: NHOrus <jy6x2b32pie9 <AT> yahoo.com> Closes: https://github.com/gentoo/gentoo/pull/36048 Signed-off-by: Sam James <sam <AT> gentoo.org> sci-biology/paml/Manifest | 1 + sci-biology/paml/metadata.xml | 3 +++ sci-biology/paml/paml-4.10.7.ebuild | 37 +++++++++++++++++++++++++++++++++++++ 3 files changed, 41 insertions(+) diff --git a/sci-biology/paml/Manifest b/sci-biology/paml/Manifest index 87d673016fbe..4e828eff1360 100644 --- a/sci-biology/paml/Manifest +++ b/sci-biology/paml/Manifest @@ -1 +1,2 @@ +DIST paml-4.10.7.tar.gz 5250841 BLAKE2B 4d2a7fdc8eb93abe200165f7805520a02f4251dc651f26c4e1bf6fb11eee3d0721fd9d6f3c96979bae0f51b77f168e8d8a12f3dd3cbbfec7e8210a70b7c4bb9e SHA512 e450c0a28ecef946279fd92834eb5ddfb50805167655364cc959ef21839a75280a37d79209918373e80dacb0fc35decaccdb1477e53a81fd99fb140a0ce839fe DIST paml4.9j.tgz 6380272 BLAKE2B 58fc40904aff6ae539613e772fc0525b557c1e72c1a7a1d95176987bafed8771624ae6c53803bc71c5821a52de8212a49ad99c02c408870ec929c15b6bf217e0 SHA512 c5f3c42409bbaf5ac67c816a245f1d3175ee449dcf10232d9de539130341f80f85ae53518cbca549b1f42ddf64a6e8140a22b9da091d458b425512f11f8c1758 diff --git a/sci-biology/paml/metadata.xml b/sci-biology/paml/metadata.xml index ccdff086e20b..1407729820e0 100644 --- a/sci-biology/paml/metadata.xml +++ b/sci-biology/paml/metadata.xml @@ -5,4 +5,7 @@ <email>sci-biol...@gentoo.org</email> <name>Gentoo Biology Project</name> </maintainer> + <upstream> + <remote-id type="github">abacus-gene/paml</remote-id> + </upstream> </pkgmetadata> diff --git a/sci-biology/paml/paml-4.10.7.ebuild b/sci-biology/paml/paml-4.10.7.ebuild new file mode 100644 index 000000000000..53a41c38fd11 --- /dev/null +++ b/sci-biology/paml/paml-4.10.7.ebuild @@ -0,0 +1,37 @@ +# Copyright 1999-2024 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +inherit toolchain-funcs + +DESCRIPTION="Phylogenetic Analysis by Maximum Likelihood" +HOMEPAGE="https://abacus.gene.ucl.ac.uk/software/paml.html"; +SRC_URI="https://github.com/abacus-gene/${PN}/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="free-noncomm" +SLOT="0" +KEYWORDS="~amd64" + +src_configure() { + tc-export CC +} + +src_compile() { + emake -C src +} + +src_install() { + dobin src/{baseml,basemlg,codeml,evolver,pamp,mcmctree,infinitesites,yn00,chi2} + + dodoc -r README.md doc/. + + insinto /usr/share/${PN}/control + doins examples/*.ctl + + insinto /usr/share/${PN}/dat + doins -r examples/stewart* examples/*.dat dat/. + + insinto /usr/share/${PN} + doins -r examples +}
