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

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 (file)
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 64fa50030079ff05661e2bfab7850909c5a928ee..9868ec14eaae44b964c9ec2640ad8ce37bd90779 100644 (file)
--- 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 a6a17ef25823a159638c0cc5ab5720ad43e6c5a3..8417d1580d40486314bdb7f937f7fb4dcceaccde 100644 (file)
--- a/sci-biology/hmmer/metadata.xml
+++ b/sci-biology/hmmer/metadata.xml
@@ -5,8 +5,4 @@
                <email>sci-biology@gentoo.org</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>