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commit: c682d1e50bdf2b4dffc7f97d0d4879920d02a112 |
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Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Sat Jul 30 11:05:27 2011 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Sat Jul 30 11:05:27 2011 +0000 |
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URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=c682d1e5 |
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|
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some ebuild cleanup |
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|
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(Portage version: 2.1.10.7/git/Linux i686, unsigned Manifest commit) |
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|
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--- |
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sci-biology/estscan/ChangeLog | 4 +++ |
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sci-biology/estscan/estscan-3.0.3.ebuild | 31 +++++++++++++++-------------- |
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2 files changed, 20 insertions(+), 15 deletions(-) |
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|
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diff --git a/sci-biology/estscan/ChangeLog b/sci-biology/estscan/ChangeLog |
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index ff0f2e4..bce0bfa 100644 |
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--- a/sci-biology/estscan/ChangeLog |
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+++ b/sci-biology/estscan/ChangeLog |
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@@ -2,6 +2,10 @@ |
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# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 |
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# $Header: $ |
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|
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+ 30 Jul 2011; Martin Mokrejs <mmokrejs@×××××××××××××××.cz> |
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+ estscan-3.0.3.ebuild: |
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+ some ebuild cleanup estscan-3.0.3.ebuild |
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+ |
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23 Jun 2011; Justin Lecher <jlec@g.o> estscan-3.0.3.ebuild, |
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metadata.xml: |
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Streamlined fortran-2 eclass usage |
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|
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diff --git a/sci-biology/estscan/estscan-3.0.3.ebuild b/sci-biology/estscan/estscan-3.0.3.ebuild |
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index d282860..913303a 100644 |
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--- a/sci-biology/estscan/estscan-3.0.3.ebuild |
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+++ b/sci-biology/estscan/estscan-3.0.3.ebuild |
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@@ -21,14 +21,16 @@ SRC_URI=" |
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|
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SLOT="0" |
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LICENSE="estscan" |
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-KEYWORDS="~x86 ~amd64" |
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+KEYWORDS="" |
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+#KEYWORDS="~x86 ~amd64" |
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IUSE="intel" |
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|
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DEPEND=" |
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virtual/fortran |
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intel? ( |
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dev-lang/icc |
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- dev-lang/ifc )" |
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+ dev-lang/ifc ) |
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+ dev-perl/BTLib" |
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RDEPEND="${DEPEND}" |
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|
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S="${WORKDIR}" |
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@@ -74,40 +76,39 @@ src_prepare() { |
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|
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src_compile() { |
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emake -C ${P} |
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- |
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- cd ../BTLib-0.19 |
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- perl Makefile.PL || die "perl Makefile.PL failed" |
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} |
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|
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src_install() { |
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# FIXME: Some kind of documentation is in {P}/estscan.spec |
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- cd ${P} |
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+ cd ${P} || die "Failed to chdir to "${P}" |
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dobin \ |
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build_model estscan evaluate_model extract_EST extract_UG_EST \ |
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extract_mRNA makesmat maskred prepare_data winsegshuffle |
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# the file build_model_utils.pl should go into some PERL site-packages dir |
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# see {P}/estscan.spec |
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|
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- # install the doc (but is not in ${WORKDIR} because src_UNPACK() failed on it |
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- cd "${WORKDIR}" |
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+ # install the doc (but is not in ${WORKDIR} because src_unpack() failed on it as it has .pdf extension |
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+ cd "${DISTDIR}" || die "Failed to chdir to "${DISTDIR}" |
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insinto /usr/share/doc/ESTscan |
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# grab the file directly from ../distdir/ |
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- doins ../distdir/user_guide_fev_07.pdf |
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+ doins "${DISTDIR}"/user_guide_fev_07.pdf |
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|
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# install the default precomputed matrices |
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- cd "${WORKDIR}" |
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+ cd "${WORKDIR}" || die "Failed to chdir to "${WORKDIR}" |
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insinto /usr/share/ESTscan |
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doins *.smat |
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|
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# install BTlib (in perl) |
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- cd BTLib-0.19 || die |
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- dobin fetch indexer netfetch |
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+ # dobin fetch indexer netfetch |
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insinto /usr/share/ESTscan/ |
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- doins fetch.conf |
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+ # install the config file which is packed inside the BTLib tarball while is not |
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+ # being installed by dev-perl/BTLib |
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+ doins "${WORKDIR}"/BTLib-0.19/fetch.conf |
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|
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# FIXME: install the *.pm files from BTLib-0.19 |
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- myinst="DESTDIR=${D}" |
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- perl-module_src_install |
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+ # cd "${WORKDIR}"/BTLib-0.19 || die "Failed to chdir to "${WORKDIR}"/BTLib-0.19 |
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+ # myinst="DESTDIR=${D}" |
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+ # perl-module_src_install |
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|
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einfo "Please edit /usr/share/ESTscan/fetch.conf to fit your local database layout." |
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einfo "Also create your own scoring matrices and place them into /usr/share/ESTscan/." |
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