[gentoo-commits] proj/sci:master commit in: sci-biology/sailfish/files/, sci-biology/sailfish/

[gentoo-commits] proj/sci:master commit in: sci-biology/sailfish/files/, sci-biology/sailfish/

[Martin Mokrejs]

commit:     fba69b3c82862f7b4673420bbfc4f1e57b6a2971
Author:     Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Fri Apr  8 12:52:27 2016 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Fri Apr  8 12:52:27 2016 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=fba69b3c

sci-biology/sailfish: version bump; noted bundled 3rd-party code

Package-Manager: portage-2.2.28

 ...t-static.patch => sailfish-0.9.2-no-boost-static.patch} |  0
 .../{sailfish-0.9.1.ebuild => sailfish-0.9.2.ebuild}       | 14 ++++++++++++--
 2 files changed, 12 insertions(+), 2 deletions(-)

diff --git a/sci-biology/sailfish/files/sailfish-0.9.1-no-boost-static.patch b/sci-biology/sailfish/files/sailfish-0.9.2-no-boost-static.patch
similarity index 100%
rename from sci-biology/sailfish/files/sailfish-0.9.1-no-boost-static.patch
rename to sci-biology/sailfish/files/sailfish-0.9.2-no-boost-static.patch

diff --git a/sci-biology/sailfish/sailfish-0.9.1.ebuild b/sci-biology/sailfish/sailfish-0.9.2.ebuild
similarity index 60%
rename from sci-biology/sailfish/sailfish-0.9.1.ebuild
rename to sci-biology/sailfish/sailfish-0.9.2.ebuild
index 8a1b1c0..6350ef6 100644
--- a/sci-biology/sailfish/sailfish-0.9.1.ebuild
+++ b/sci-biology/sailfish/sailfish-0.9.2.ebuild
@@ -10,17 +10,27 @@ DESCRIPTION="Rapid Mapping-based Isoform Quantification from RNA-Seq Reads"
 HOMEPAGE="http://www.cs.cmu.edu/~ckingsf/software/sailfish/"
 SRC_URI="https://github.com/kingsfordgroup/${PN}/archive/v${PV}.tar.gz -> ${P}.tar.gz"
 
-LICENSE="GPL-3"
+LICENSE="GPL-3+"
 SLOT="0"
 KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
 IUSE=""
 
-PATCHES=( "${FILESDIR}"/${PN}-0.9.1-no-boost-static.patch )
+PATCHES=( "${FILESDIR}"/${P}-no-boost-static.patch )
 
 DEPEND="dev-libs/boost:0
 		dev-libs/jemalloc
 		dev-cpp/tbb"
 RDEPEND="${DEPEND}"
+# a C++-11 compliant compiler is needs, aka >=gcc-4.7
+
+# TODO: disable 
+# [  7%] Performing download step (verify and extract) for 'libdivsufsort'
+#i
+# contains bundled RapMap
+# contains bundled libdivsufsort-master
+# contains bundled libgff
+# contains bundled jellyfish-2.2.3
+# contains bundled sparsehash-sparsehash-2.0.2
 
 src_install() {
 	cmake-utils_src_install