[gentoo-commits] proj/sci:master commit in: sci-biology/stacks/

[Andrew Ammerlaan]

commit:     d93f43a0459c27bc0268cc5cec3ad2f780b0e905
Author:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Tue Jan 25 11:07:16 2022 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue Jan 25 11:07:16 2022 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=d93f43a0

sci-biology/stacks: bump to version 2.60

Package-Manager: Portage-3.0.30, Repoman-3.0.3
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>

 .../{stacks-2.55.ebuild => stacks-2.60.ebuild}     | 31 ++++++++++------------
 1 file changed, 14 insertions(+), 17 deletions(-)

diff --git a/sci-biology/stacks/stacks-2.55.ebuild 
b/sci-biology/stacks/stacks-2.60.ebuild
similarity index 66%
rename from sci-biology/stacks/stacks-2.55.ebuild
rename to sci-biology/stacks/stacks-2.60.ebuild
index becd91a5d..4de3f8da8 100644
--- a/sci-biology/stacks/stacks-2.55.ebuild
+++ b/sci-biology/stacks/stacks-2.60.ebuild
@@ -1,7 +1,7 @@
-# Copyright 1999-2021 Gentoo Authors
+# Copyright 1999-2022 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=7
+EAPI=8
 
 inherit perl-module webapp autotools
 
@@ -10,10 +10,8 @@ HOMEPAGE="http://creskolab.uoregon.edu/stacks";
 SRC_URI="http://creskolab.uoregon.edu/stacks/source/${P}.tar.gz";
 
 LICENSE="GPL-3"
-# SLOT="0" # webapp ebuilds do not set SLOT
-KEYWORDS=""
+KEYWORDS="~amd64"
 
-# No rule to make target test
 RESTRICT="test"
 
 DEPEND="
@@ -21,11 +19,14 @@ DEPEND="
        dev-cpp/sparsehash
        sci-biology/samtools:*
        sci-biology/bamtools
-       sci-biology/gmap" # Source code for both GMAP and GSNAP
+       sci-biology/gmap
+"
+
 RDEPEND="${DEPEND}
        dev-lang/perl
-       >=dev-lang/php-5
-       dev-perl/DBD-mysql"
+       >=dev-lang/php-5:*
+       dev-perl/DBD-mysql
+"
 
 PATCHES=(
        "${FILESDIR}/${PN}-make-install.patch"
@@ -41,17 +42,13 @@ src_prepare(){
 
 src_configure() {
        econf
-       webapp_src_preinst
        sed -e 's#/usr/lib/libbam.a#-lbam#;#./htslib/libhts.a#-lhts#' -i 
Makefile || die
 }
 
 src_install() {
-       emake install DESTDIR="${ED}"
-       mydoc="Changes README TODO INSTALL"
-       perl-module_src_install DESTDIR="${ED}"
-       webapp_src_install || die "Failed running webapp_src_install"
-}
-
-pkg_postinst() {
-       webapp_pkg_postinst || die "webapp_pkg_postinst failed"
+       webapp_src_preinst
+       DESTDIR="${ED}" default
+       DESTDIR="${ED}" perl-module_src_install
+       dodir /usr/share/webapps/${PN}/${PV}
+       webapp_src_install
 }