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authorMartin Mokrejš <mmokrejs@fold.natur.cuni.cz>2017-04-14 09:42:19 +0200
committerJustin Lecher <jlec@gentoo.org>2017-04-22 17:09:51 +0100
commit6b672731c97e773142cbc7ee9a5a09cf2c4c5d60 (patch)
tree98646d21dbe8eef267b53588589d23f472a2eadf /sci-biology
parentfix license (diff)
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sci-biology/velvet: expose additional variables as described in manual and needed at compile time
Package-Manager: Portage-2.3.5, Repoman-2.3.2 Closes: https://github.com/gentoo/gentoo/pull/4421 Signed-off-by: Justin Lecher <jlec@gentoo.org>
Diffstat (limited to 'sci-biology')
-rw-r--r--sci-biology/velvet/velvet-1.2.10.ebuild13
1 files changed, 9 insertions, 4 deletions
diff --git a/sci-biology/velvet/velvet-1.2.10.ebuild b/sci-biology/velvet/velvet-1.2.10.ebuild
index c6c841be3e47..53f5dd644f91 100644
--- a/sci-biology/velvet/velvet-1.2.10.ebuild
+++ b/sci-biology/velvet/velvet-1.2.10.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2013 Gentoo Foundation
+# Copyright 1999-2017 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=5
@@ -28,9 +28,11 @@ src_prepare() {
fi
elog "Upstream recommendes using -O3 in CFLAGS"
echo
- elog "To adjust the MAXKMERLENGTH or CATEGORIES parameters as described in the manual,"
- elog "please set the variables VELVET_MAXKMERLENGTH or VELVET_CATEGORIES in your"
- elog "environment or /etc/make.conf, then re-emerge the package. For example:"
+ elog "To adjust the MAXKMERLENGTH, CATEGORIES, BIGASSEMBLY, LONGSEQUENCES parameters"
+ elog "as described in the PDF manual, please set the variables by prepending VELVET_ in"
+ elog "front of it. For example VELVET_MAXKMERLENGTH, VELVET_CATEGORIES, ..."
+ elog "Set them either in your environment or in /etc/portage/make.conf, then re-emerge"
+ elog "the package. For example:"
elog " VELVET_MAXKMERLENGTH=NN emerge [options] velvet"
MAKEOPTS+=" -j1"
@@ -51,8 +53,11 @@ src_prepare() {
CFLAGS="${CFLAGS}"
OPT="${CFLAGS}"
)
+ if use openmp; then MAKE_XOPTS+=( OPENMP=1 ); fi
if [[ ${VELVET_MAXKMERLENGTH} != "" ]]; then MAKE_XOPTS+=( MAXKMERLENGTH=${VELVET_MAXKMERLENGTH} ); fi
if [[ ${VELVET_CATEGORIES} != "" ]]; then MAKE_XOPTS+=( CATEGORIES=${VELVET_CATEGORIES} ); fi
+ if [[ ${VELVET_BIGASSEMBLY} != "" ]]; then MAKE_XOPTS+=( BIGASSEMBLY=${VELVET_BIGASSEMBLY} ); fi
+ if [[ ${VELVET_LONGSEQUENCES} != "" ]]; then MAKE_XOPTS+=( LONGSEQUENCES=${VELVET_LONGSEQUENCES} ); fi
}
src_compile() {