commit: 331823c3e421263be84719b492e2cff006c99447 Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> AuthorDate: Tue Jan 19 09:12:28 2021 +0000 Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> CommitDate: Tue Jan 19 09:12:40 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=331823c3
sci-biology/snphylo: fix fetching, version bump Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net> profiles/package.mask | 1 - ...-20140701.ebuild => snphylo-0_p20181005.ebuild} | 23 +++++++++++----------- 2 files changed, 12 insertions(+), 12 deletions(-) diff --git a/profiles/package.mask b/profiles/package.mask index 076004dee..9232daefe 100644 --- a/profiles/package.mask +++ b/profiles/package.mask @@ -103,4 +103,3 @@ sci-biology/sgp2 sci-biology/skewer-bin sci-biology/smalt sci-biology/SnpEff -sci-biology/snphylo diff --git a/sci-biology/snphylo/snphylo-20140701.ebuild b/sci-biology/snphylo/snphylo-0_p20181005.ebuild similarity index 58% rename from sci-biology/snphylo/snphylo-20140701.ebuild rename to sci-biology/snphylo/snphylo-0_p20181005.ebuild index c10401184..48506d759 100644 --- a/sci-biology/snphylo/snphylo-20140701.ebuild +++ b/sci-biology/snphylo/snphylo-0_p20181005.ebuild @@ -1,29 +1,30 @@ -# Copyright 1999-2015 Gentoo Foundation +# Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=5 +EAPI=7 + +COMMIT="55cc9a45dc1d0064c94a3e8bea8fdb7c00656556" DESCRIPTION="Pipeline to generate phylogenetic tree from SNP data" -HOMEPAGE="http://chibba.pgml.uga.edu/snphylo"; -SRC_URI="http://chibba.pgml.uga.edu/snphylo/snphylo.tar.gz -> ${P}.tar.gz" -# http://github.com/thlee/SNPhylo -# http://www.biomedcentral.com/1471-2164/15/162 +HOMEPAGE="https://github.com/thlee/SNPhylo"; +SRC_URI="https://github.com/thlee/SNPhylo/archive/${COMMIT}.tar.gz -> ${P}.tar.gz" LICENSE="GPL-2" SLOT="0" KEYWORDS="" -IUSE="" -DEPEND="" -RDEPEND="${DEPEND} +RDEPEND=" sci-biology/fastdnaml sci-biology/muscle - sci-biology/phylip" + sci-biology/phylip + dev-lang/R +" +DEPEND="${RDEPEND}" # http://chibba.pgml.uga.edu/snphylo/install_on_linux.html # R packages (phangorn, gdsfmt, SNPRelate and getopt) # $ apt-get -y install r-base-dev r-cran-getopt r-cran-rgl -S="${WORKDIR}"/"${PN}" +S="${WORKDIR}/SNPhylo-${COMMIT}" src_compile(){ bash setup.sh || die
