commit: f88203259ef0c27caa76cf104f4bf851f6e012d0 Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Wed Jun 10 13:27:42 2015 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Wed Jun 10 13:27:42 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=f8820325
add dependency on jhdf5; more ebuild cleanup Package-Manager: portage-2.2.18 sci-biology/fastqc/ChangeLog | 4 ++++ sci-biology/fastqc/fastqc-0.11.3.ebuild | 7 ++++--- 2 files changed, 8 insertions(+), 3 deletions(-) diff --git a/sci-biology/fastqc/ChangeLog b/sci-biology/fastqc/ChangeLog index 3510855..0e247b8 100644 --- a/sci-biology/fastqc/ChangeLog +++ b/sci-biology/fastqc/ChangeLog @@ -2,6 +2,10 @@ # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Header: $ + 10 Jun 2015; Martin Mokrejs <[email protected]> + fastqc-0.11.3.ebuild: + add dependency on jhdf5; more ebuild cleanup + *fastqc-0.11.3 (30 May 2015) 30 May 2015; Martin Mokrejs <[email protected]> diff --git a/sci-biology/fastqc/fastqc-0.11.3.ebuild b/sci-biology/fastqc/fastqc-0.11.3.ebuild index d2ae40e..d934cae 100644 --- a/sci-biology/fastqc/fastqc-0.11.3.ebuild +++ b/sci-biology/fastqc/fastqc-0.11.3.ebuild @@ -16,6 +16,7 @@ KEYWORDS="" IUSE="" DEPEND="sci-biology/picard + sci-libs/jhdf5 >=virtual/jre-1.5:*" RDEPEND="${DEPEND} dev-lang/perl @@ -29,7 +30,7 @@ src_prepare(){ } src_compile(){ - ant build || die # TODO: this does not work somehow + ant || die } src_install(){ @@ -38,6 +39,6 @@ src_install(){ # TODO: need to compile java in uk/ac/babraham/FastQC/ # and decide whether jbzip2-0.9.jar is a standard java lib or not - # ignore the sam-1.103.jar, that is likely library already in sci-biology/picard - # cisd-jhdf5.jar + # ignore the sam-1.103.jar and rely on /usr/share/picard/lib/sam.jar from sci-biology/picard + # cisd-jhdf5.jar should be provided by sci-libs/jhdf5 }
