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

["Martin Mokrejs" <mmokrejs@fold.natur.cuni.cz>]

commit:     39d413c0adc6a8d96442cc9562c516c53021add8
Author:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Tue May  1 22:13:29 2018 +0000
Commit:     Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Tue May  1 22:13:29 2018 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=39d413c0

sci-biology/jellyfish: version bump and a few tweaks

Install properly PDF documentation.

Use ${PV} in SRC_URI.

Update SRC_URI to reflect github hosting these days.

Package-Manager: Portage-2.3.31, Repoman-2.3.9

 .../jellyfish/{jellyfish-1.1.11-r2.ebuild => jellyfish-1.1.12.ebuild} | 4 ++--
 .../jellyfish/{jellyfish-2.2.9.ebuild => jellyfish-2.2.10.ebuild}     | 0
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/sci-biology/jellyfish/jellyfish-1.1.11-r2.ebuild b/sci-biology/jellyfish/jellyfish-1.1.12.ebuild
similarity index 91%
rename from sci-biology/jellyfish/jellyfish-1.1.11-r2.ebuild
rename to sci-biology/jellyfish/jellyfish-1.1.12.ebuild
index a9b0ce4d1..a22be5187 100644
--- a/sci-biology/jellyfish/jellyfish-1.1.11-r2.ebuild
+++ b/sci-biology/jellyfish/jellyfish-1.1.12.ebuild
@@ -7,8 +7,7 @@ inherit eutils flag-o-matic
 
 DESCRIPTION="k-mer counter within reads for assemblies"
 HOMEPAGE="http://www.cbcb.umd.edu/software/jellyfish"
-SRC_URI="http://www.cbcb.umd.edu/software/jellyfish/jellyfish-1.1.11.tar.gz
-	http://www.cbcb.umd.edu/software/jellyfish/jellyfish-manual-1.1.pdf"
+SRC_URI="https://github.com/gmarcais/Jellyfish/releases/download/v${PV}/${P}.tar.gz"
 
 # older version is hidden in trinityrnaseq_r20140413p1/trinity-plugins/jellyfish-1.1.11
 # also was bundled in quorum-0.2.1 and MaSuRca-2.1.0
@@ -45,4 +44,5 @@ src_install(){
 	mv "${ED}"/usr/include/"${P}"/"${PN}"/* "${ED}/usr/include/${PN}${SLOT}/" || die
 	rm -r "${ED}/usr/include/${P}" || die
 	mv "${ED}"/usr/share/man/man1/jellyfish.1 "${ED}"/usr/share/man/man1/jellyfish"${SLOT}".1 || die
+	newdoc doc/jellyfish.pdf jellyfish"${SLOT}".pdf
 }

diff --git a/sci-biology/jellyfish/jellyfish-2.2.9.ebuild b/sci-biology/jellyfish/jellyfish-2.2.10.ebuild
similarity index 100%
rename from sci-biology/jellyfish/jellyfish-2.2.9.ebuild
rename to sci-biology/jellyfish/jellyfish-2.2.10.ebuild