commit: f5965a7c3727b476c3f8392bb1bec8eae7792f45 Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Fri Apr 17 22:47:44 2015 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Fri Apr 17 22:47:44 2015 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=f5965a7c
sci-biology/cgview-bin: fixed installation of perl-related files Package-Manager: portage-2.2.18 sci-biology/cgview-bin/ChangeLog | 4 ++++ sci-biology/cgview-bin/cgview-bin-20131130.ebuild | 18 +++++++++++++----- 2 files changed, 17 insertions(+), 5 deletions(-) diff --git a/sci-biology/cgview-bin/ChangeLog b/sci-biology/cgview-bin/ChangeLog index e3de215..3ab4181 100644 --- a/sci-biology/cgview-bin/ChangeLog +++ b/sci-biology/cgview-bin/ChangeLog @@ -2,6 +2,10 @@ # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Header: $ + 17 Apr 2015; Martin Mokrejs <[email protected]> + cgview-bin-20131130.ebuild: + sci-biology/cgview-bin: fixed installation of perl-related files + 18 Feb 2015; Justin Lecher <[email protected]> cgview-bin-20131130.ebuild: sci-biology/cgview-bin: fix SLOT operators; drop KEYWORDS as fetch failed diff --git a/sci-biology/cgview-bin/cgview-bin-20131130.ebuild b/sci-biology/cgview-bin/cgview-bin-20131130.ebuild index 61141e3..74a9540 100644 --- a/sci-biology/cgview-bin/cgview-bin-20131130.ebuild +++ b/sci-biology/cgview-bin/cgview-bin-20131130.ebuild @@ -6,6 +6,9 @@ EAPI=5 inherit java-pkg-2 +PERL_EXPORT_PHASE_FUNCTIONS=no +inherit perl-module eutils toolchain-funcs + DESCRIPTION="CGView Comparison Tool to compare genome sequences graphically (aka CCT)" HOMEPAGE="http://stothard.afns.ualberta.ca/downloads/CCT"; SRC_URI="http://www.ualberta.ca/~stothard/downloads/cgview_comparison_tool.zip"; @@ -34,11 +37,16 @@ src_test(){ } src_install() { - echo 'CCT_HOME='${EPREFIX}'/usr/share/cgview_comparison_tool' > "${S}/99cgview" + insinto /usr/share/${PN}/scripts + chmod a+x scripts/* # BUG: this does not work + doins scripts/* + echo 'CCT_HOME='${EPREFIX}'/usr/share/cgview' > "${S}/99cgview" echo 'PATH="$PATH":"'${CCT_HOME}'/scripts"' >> "${S}/99cgview" doenvd "${S}/99cgview" - #export PATH="$PATH":"${CCT_HOME}/scripts":/path/to/blast-2.2.25/bin - #export PERL5LIB="${CCT_HOME}"/lib/bioperl-1.2.3:"${CCT_HOME}"/lib/perl_modules:"$PERL5LIB" - - dobin bin/cgview.jar + perl_set_version + insinto ${VENDOR_LIB}/cgview + doins lib/perl_modules/Util/*.pm + # + # Exception in thread "main" java.lang.NoClassDefFoundError: org/apache/batik/svggen/SVGGraphics2DIOException + java-pkg_dojar bin/cgview.jar }
