commit: e8ed9acc2ba2166aeed1ebe534271fe724ba6980 Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> AuthorDate: Sun Jan 10 14:04:02 2021 +0000 Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> CommitDate: Sun Jan 10 14:04:02 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=e8ed9acc
sci-biology/proovread: add version 2.14.1 Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net> ...oovread-9999.ebuild => proovread-2.14.1.ebuild} | 32 ++++++++++------------ sci-biology/proovread/proovread-9999.ebuild | 32 ++++++++++------------ 2 files changed, 30 insertions(+), 34 deletions(-) diff --git a/sci-biology/proovread/proovread-9999.ebuild b/sci-biology/proovread/proovread-2.14.1.ebuild similarity index 68% copy from sci-biology/proovread/proovread-9999.ebuild copy to sci-biology/proovread/proovread-2.14.1.ebuild index d8d3dc913..732817308 100644 --- a/sci-biology/proovread/proovread-9999.ebuild +++ b/sci-biology/proovread/proovread-2.14.1.ebuild @@ -1,36 +1,35 @@ -# Copyright 1999-2018 Gentoo Foundation +# Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=6 +EAPI=7 -[ "$PV" == "9999" ] && inherit git-r3 - -inherit perl-functions toolchain-funcs +inherit perl-functions DESCRIPTION="Error correct PacBio subreads using Illumina reads" HOMEPAGE="https://github.com/BioInf-Wuerzburg/proovread"; if [ "$PV" == "9999" ]; then + inherit git-r3 EGIT_REPO_URI="https://github.com/BioInf-Wuerzburg/proovread"; KEYWORDS="" else - SRC_URI="" - KEYWORDS="~amd64 ~x86" # issue #125 + SRC_URI="https://github.com/BioInf-Wuerzburg/${PN}/releases/download/${P}/${P}.tar.gz"; + KEYWORDS="~amd64 ~x86" fi -LICENSE="Artistic-2 GPL-3" +LICENSE="Artistic-2 GPL-3 blasr" SLOT="0" -IUSE="" -# needs Fasta::Parser +# TODO: package shrimp and update blasr +# blasr requires new dep libblasr, which +# I cannot get to compile successfully RDEPEND=" >=dev-lang/perl-5.10 dev-perl/Log-Log4perl dev-perl/File-Which >=sci-biology/ncbi-tools++-2.2.24 - >=sci-biology/samtools-1.1" -DEPEND="${RDEPEND} - >=sci-biology/shrimp-2 - sci-biology/blasr" + >=sci-biology/samtools-1.1 +" +DEPEND="${RDEPEND}" src_install(){ cd bin || die @@ -43,9 +42,8 @@ src_install(){ dobin bin/* cd ../../lib || die perl_domodule -r -C ${PN} * - # cd ../util/blasr-1.3.1 || die - # dobin blasr - # dodoc LICENSE.txt + cd ../util/blasr-1.3.1 || die + dobin blasr } pkg_postinst(){ diff --git a/sci-biology/proovread/proovread-9999.ebuild b/sci-biology/proovread/proovread-9999.ebuild index d8d3dc913..732817308 100644 --- a/sci-biology/proovread/proovread-9999.ebuild +++ b/sci-biology/proovread/proovread-9999.ebuild @@ -1,36 +1,35 @@ -# Copyright 1999-2018 Gentoo Foundation +# Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=6 +EAPI=7 -[ "$PV" == "9999" ] && inherit git-r3 - -inherit perl-functions toolchain-funcs +inherit perl-functions DESCRIPTION="Error correct PacBio subreads using Illumina reads" HOMEPAGE="https://github.com/BioInf-Wuerzburg/proovread"; if [ "$PV" == "9999" ]; then + inherit git-r3 EGIT_REPO_URI="https://github.com/BioInf-Wuerzburg/proovread"; KEYWORDS="" else - SRC_URI="" - KEYWORDS="~amd64 ~x86" # issue #125 + SRC_URI="https://github.com/BioInf-Wuerzburg/${PN}/releases/download/${P}/${P}.tar.gz"; + KEYWORDS="~amd64 ~x86" fi -LICENSE="Artistic-2 GPL-3" +LICENSE="Artistic-2 GPL-3 blasr" SLOT="0" -IUSE="" -# needs Fasta::Parser +# TODO: package shrimp and update blasr +# blasr requires new dep libblasr, which +# I cannot get to compile successfully RDEPEND=" >=dev-lang/perl-5.10 dev-perl/Log-Log4perl dev-perl/File-Which >=sci-biology/ncbi-tools++-2.2.24 - >=sci-biology/samtools-1.1" -DEPEND="${RDEPEND} - >=sci-biology/shrimp-2 - sci-biology/blasr" + >=sci-biology/samtools-1.1 +" +DEPEND="${RDEPEND}" src_install(){ cd bin || die @@ -43,9 +42,8 @@ src_install(){ dobin bin/* cd ../../lib || die perl_domodule -r -C ${PN} * - # cd ../util/blasr-1.3.1 || die - # dobin blasr - # dodoc LICENSE.txt + cd ../util/blasr-1.3.1 || die + dobin blasr } pkg_postinst(){
