commit: e1d13a2f0d3827367a8e5b10813a1dafbcbd46ae Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Sun Nov 15 18:42:06 2015 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Sun Nov 15 18:42:06 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=e1d13a2f
sci-biology/SEECER: add einfo() message that default kmer size 17 is suboptimal Package-Manager: portage-2.2.18 sci-biology/SEECER/ChangeLog | 5 +++++ sci-biology/SEECER/SEECER-0.1.3-r2.ebuild | 13 +++++++++++-- 2 files changed, 16 insertions(+), 2 deletions(-) diff --git a/sci-biology/SEECER/ChangeLog b/sci-biology/SEECER/ChangeLog index b72cc46..1302cab 100644 --- a/sci-biology/SEECER/ChangeLog +++ b/sci-biology/SEECER/ChangeLog @@ -2,6 +2,11 @@ # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Id$ + 15 Nov 2015; Martin Mokrejs <mmokr...@fold.natur.cuni.cz> + SEECER-0.1.3-r2.ebuild: + sci-biology/SEECER: add einfo() message that default kmer size 17 is + suboptimal + 13 Nov 2015; Martin Mokrejs <mmokr...@fold.natur.cuni.cz> SEECER-0.1.3-r2.ebuild, files/remove-hardcoded-paths.patch: sci-biology/SEECER: patch crappy shellscripts to at leats die on error; diff --git a/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild b/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild index 3a9138c..8d8e919 100644 --- a/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild +++ b/sci-biology/SEECER/SEECER-0.1.3-r2.ebuild @@ -8,13 +8,18 @@ inherit eutils DESCRIPTION="SEquencing Error Corrector for RNA-Seq reads" HOMEPAGE="http://sb.cs.cmu.edu/seecer/"; -SRC_URI=" +if [ "$PV" == "9999" ]; then + EGIT_REPO_URI="https://github.com/haisonle/SEECER.git"; + KEYWORDS="" +else + SRC_URI=" http://sb.cs.cmu.edu/seecer/downloads/"${P}".tar.gz http://sb.cs.cmu.edu/seecer/downloads/manual.pdf -> "${PN}"-manual.pdf" + KEYWORDS="~amd64" +fi LICENSE="GPL-3" SLOT="0" -KEYWORDS="~amd64" IUSE="" # although has bundled jellyfish-1.1.11 copy it just calls the executable during runtime @@ -37,3 +42,7 @@ src_install(){ dobin bin/seecer bin/random_sub_N bin/replace_ids bin/run_jellyfish.sh bin/run_seecer.sh dodoc README "${DISTDIR}"/"${PN}"-manual.pdf } + +pkg_postinst(){ + einfo "Note that the default kmer size 17 is terribly suboptimal, use k=31 instead" +}
