commit: cd5113534b40b92c4b055c9a12c52e105e22828a Author: Ian Stakenvicius <axs <AT> gentoo <DOT> org> AuthorDate: Tue Apr 19 20:34:54 2016 +0000 Commit: Ian Stakenvicius <axs <AT> gentoo <DOT> org> CommitDate: Tue Apr 19 20:34:54 2016 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=cd511353
sci-biology/hmmer: cheamup of 2.3.2 version * Bumped EAPI * Merged KEYWORDS between 2.3.2-r1 and 2.3.2-r2 * dropped IUSE="pvm" as package was dropped 5 years ago * fixed metadata.xml to match Package-Manager: portage-2.2.26 sci-biology/hmmer/hmmer-2.3.2-r1.ebuild | 51 ---------------------- ...hmmer-2.3.2-r2.ebuild => hmmer-2.3.2-r3.ebuild} | 28 ++++++------ sci-biology/hmmer/metadata.xml | 4 -- 3 files changed, 15 insertions(+), 68 deletions(-) diff --git a/sci-biology/hmmer/hmmer-2.3.2-r1.ebuild b/sci-biology/hmmer/hmmer-2.3.2-r1.ebuild deleted file mode 100644 index 7b1fbba..0000000 --- a/sci-biology/hmmer/hmmer-2.3.2-r1.ebuild +++ /dev/null @@ -1,51 +0,0 @@ -# Copyright 1999-2010 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 -# $Id$ - -DESCRIPTION="Sequence analysis using profile hidden Markov models" -LICENSE="GPL-2" -HOMEPAGE="http://hmmer.janelia.org/"; -SRC_URI="ftp://ftp.genetics.wustl.edu/pub/eddy/${PN}/${PV}/${P}.tar.gz"; - -SLOT="0" -IUSE="pvm threads" -KEYWORDS="~alpha amd64 ia64 ~ppc ~sparc x86" - -DEPEND="pvm? ( sys-cluster/pvm )" - -src_compile() { - ./configure \ - --host=${CHOST} \ - --prefix="${D}"/usr \ - --exec_prefix="${D}"/usr \ - --mandir="${D}"/usr/share/man \ - --enable-lfs \ - $(use_enable pvm) \ - $(use_enable threads) || die - emake || die -} - -src_install() { - einstall || die - - cd src - dolib libhmmer.a - insinto /usr/include/hmmer - doins *.h - - cd ../squid - dobin afetch alistat compalign compstruct revcomp seqstat seqsplit sfetch shuffle sreformat sindex weight translate - dolib libsquid.a - insinto /usr/include/hmmer - doins *.h - - cd .. - dodoc NOTES - newdoc 00README README - insinto /usr/share/doc/${PF} - doins Userguide.pdf -} - -src_test() { - make check -} diff --git a/sci-biology/hmmer/hmmer-2.3.2-r2.ebuild b/sci-biology/hmmer/hmmer-2.3.2-r3.ebuild similarity index 69% rename from sci-biology/hmmer/hmmer-2.3.2-r2.ebuild rename to sci-biology/hmmer/hmmer-2.3.2-r3.ebuild index 64fa500..9868ec1 100644 --- a/sci-biology/hmmer/hmmer-2.3.2-r2.ebuild +++ b/sci-biology/hmmer/hmmer-2.3.2-r3.ebuild @@ -1,45 +1,47 @@ -# Copyright 1999-2010 Gentoo Foundation +# Copyright 1999-2016 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Id$ +EAPI=6 + DESCRIPTION="Sequence analysis using profile hidden Markov models" LICENSE="GPL-2" HOMEPAGE="http://hmmer.janelia.org/"; SRC_URI="ftp://ftp.genetics.wustl.edu/pub/eddy/${PN}/${PV}/${P}.tar.gz"; SLOT="0" -IUSE="pvm threads" -KEYWORDS="~alpha amd64 ~ia64 ~ppc ppc64 ~sparc x86" +IUSE="threads test" +KEYWORDS="~alpha amd64 ia64 ~ppc ppc64 ~sparc x86" -DEPEND="pvm? ( sys-cluster/pvm )" +DEPEND="" +RDEPEND="" -src_compile() { +src_configure() { econf \ --host=${CHOST} \ --prefix="${D}"/usr \ --exec_prefix="${D}"/usr \ --mandir="${D}"/usr/share/man \ --enable-lfs \ - $(use_enable pvm) \ - $(use_enable threads) || die - emake || die + $(use_enable threads) } src_install() { - einstall || die + emake DESTDIR="${D}" install - cd src + pushd src >/dev/null || die dolib libhmmer.a insinto /usr/include/hmmer doins *.h + popd >/dev/null || die - cd ../squid + pushd squid >/dev/null || die dobin afetch alistat compalign compstruct revcomp seqstat seqsplit sfetch shuffle sreformat sindex weight translate dolib libsquid.a insinto /usr/include/hmmer doins *.h + popd >/dev/null || die - cd .. dodoc NOTES newdoc 00README README insinto /usr/share/doc/${PF} @@ -47,5 +49,5 @@ src_install() { } src_test() { - make check + emake check } diff --git a/sci-biology/hmmer/metadata.xml b/sci-biology/hmmer/metadata.xml index a6a17ef..8417d15 100644 --- a/sci-biology/hmmer/metadata.xml +++ b/sci-biology/hmmer/metadata.xml @@ -5,8 +5,4 @@ <email>[email protected]</email> <name>Gentoo Biology Project</name> </maintainer> - <use> - <flag name="pvm">Add support for parallel virtual machine - (<pkg>sys-cluster/pvm</pkg>)</flag> - </use> </pkgmetadata>
