commit: edf1cd8c7acd0369e94308ab5cdbcfea6c81e50b
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Fri Mar 23 00:47:46 2018 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Fri Mar 23 00:47:46 2018 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=edf1cd8c
sci-biology/augustus: respect EPREFIX and new DEPENDency
The dependency is brought in through the comparative gene prediction
code.
Package-Manager: Portage-2.3.24, Repoman-2.3.6
sci-biology/augustus/augustus-3.3.ebuild | 12 +++++++++---
1 file changed, 9 insertions(+), 3 deletions(-)
diff --git a/sci-biology/augustus/augustus-3.3.ebuild
b/sci-biology/augustus/augustus-3.3.ebuild
index b050f1da2..b2b19a04e 100644
--- a/sci-biology/augustus/augustus-3.3.ebuild
+++ b/sci-biology/augustus/augustus-3.3.ebuild
@@ -17,7 +17,10 @@ SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="examples"
+# TODO: provide USE for mysql and sqlite, edit src/Makefile to reflect paths
+# and common.mk
RDEPEND="
+ sci-mathematics/lpsolve
sci-libs/gsl
dev-libs/boost
sys-libs/zlib"
@@ -30,10 +33,13 @@ src_prepare() {
# epatch "${FILESDIR}"/${P}-sane-build.patch
tc-export CC CXX
sed -e 's/ -O3//g' -i src/Makefile || die
- # enable comparative gene prediction (needs c++11 compiler)
+ # enable comparative gene prediction (needs c++11 compiler),
+ # this needs sci-mathematics/lpsolve
sed -e 's/^# COMPGENEPRED/COMPGENEPRED/' -i common.mk || die
- # respect $EPREFIX
- sed -e 's#^INCLUDES = /usr/include/bamtools#INCLUDES =
${EPREFIX}/usr/include/bamtools#' -i auxprogs/bam2hints/Makefile || die
+ # respect $EPREFIX at src/Makefile, auxprogs/bam2hints/Makefile, more?
+ find . -name Makefile | while read f; do \
+ sed -s 's#/usr/include#${EPREFIX}/usr/include#' -i $f || die;
+ done
}
src_compile() {
