sci-biology/velvet: expose additional variables as described in manual and needed...

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>

diff --git a/sci-biology/velvet/velvet-1.2.10.ebuild b/sci-biology/velvet/velvet-1.2.10.ebuild
index c6c841be3e47d85752d1d6c6bc07b70744d06549..53f5dd644f9136b2788e3aaa4b8f2867506f0fd1 100644 (file)
--- 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() {