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commit: 68381f880ac18171246417b6dfc9c35a77d12232 |
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Author: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org> |
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AuthorDate: Thu Dec 1 22:00:48 2022 +0000 |
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Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org> |
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CommitDate: Thu Dec 1 22:00:48 2022 +0000 |
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URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=68381f88 |
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|
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sci-biology/mRNAmarkup: treeclean |
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|
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Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org> |
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|
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sci-biology/mRNAmarkup/mRNAmarkup-5.21.2019.ebuild | 55 ---------------------- |
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sci-biology/mRNAmarkup/metadata.xml | 12 ----- |
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2 files changed, 67 deletions(-) |
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|
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diff --git a/sci-biology/mRNAmarkup/mRNAmarkup-5.21.2019.ebuild b/sci-biology/mRNAmarkup/mRNAmarkup-5.21.2019.ebuild |
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deleted file mode 100644 |
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index fb37b69f9..000000000 |
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--- a/sci-biology/mRNAmarkup/mRNAmarkup-5.21.2019.ebuild |
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+++ /dev/null |
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@@ -1,55 +0,0 @@ |
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-# Copyright 1999-2021 Gentoo Authors |
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-# Distributed under the terms of the GNU General Public License v2 |
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- |
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-EAPI=7 |
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- |
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-DESCRIPTION="Transcript annotation workflow" |
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-HOMEPAGE="http://brendelgroup.org/bioinformatics2go/mRNAmarkup.php" |
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-SRC_URI="http://www.brendelgroup.org/bioinformatics2go/Download/mRNAmarkup-${PV//./-}.tar.gz" # 184MB |
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- |
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-LICENSE="mRNAmarkup" |
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-SLOT="0" |
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-KEYWORDS="~amd64" |
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- |
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-DEPEND=" |
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- sci-biology/ncbi-tools++ |
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- sci-biology/estscan" |
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-# sci-biology/MuSeqBox has fetch-restrict and probably only works with old BLAST plaintex output |
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-# but, mRNAmarkup/INSTALL says: |
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-# 'For convenience, a copy of the MuSeqBox code distribution is included in directory src/contributed |
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-# |
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-# has a slightly modified estscan copy in src/contributed |
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-RDEPEND="${DEPEND}" |
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- |
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-S="${WORKDIR}/${PN}" |
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- |
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-src_prepare(){ |
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- default |
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- sed -e \ |
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- "s#configfile=$installdir/mRNAmarkup.conf#configfile=/usr/share/mRNAmarkup/etc/mRNAmarkup.conf#" \ |
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- -i bin/mRNAmarkup.orig || die |
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- sed -e \ |
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- "s#$installdir/bin/ESTScan.conf#/usr/share/mRNAmarkup/etc/ESTScan.conf#" \ |
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- -i bin/mRNAmarkup.orig |
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-} |
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- |
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-src_compile(){ |
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- cd src |
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- emake |
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-} |
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- |
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-src_install(){ |
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- mv bin/mRNAmarkup.orig bin/mRNAmarkup |
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- sed -e 's#INSTALLDIR#/usr/share/mRNAmarkup/etc/#' -i bin/mRNAmarkup |
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- dobin bin/mRNAmarkup bin/*.pl bin/dnatopro bin/genestat |
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- # TODO: there are some more files in bin/ , sigh! |
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- insinto /usr/share/mRNAmarkup/etc |
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- mv mRNAmarkup.conf.orig mRNAmarkup.conf |
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- doins mRNAmarkup.conf |
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- doins bin/ESTScan.conf |
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- dodoc 0README INSTALL |
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-} |
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- |
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-pkg_postinst(){ |
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- einfo "Please obtain a local copy of NCBI CDD dastabase" |
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-} |
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|
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diff --git a/sci-biology/mRNAmarkup/metadata.xml b/sci-biology/mRNAmarkup/metadata.xml |
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deleted file mode 100644 |
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index 138cb7705..000000000 |
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--- a/sci-biology/mRNAmarkup/metadata.xml |
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+++ /dev/null |
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@@ -1,12 +0,0 @@ |
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-<?xml version="1.0" encoding="UTF-8"?> |
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-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
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-<pkgmetadata> |
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- <maintainer type="person"> |
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- <email>mmokrejs@×××××××××××××××.cz</email> |
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- <name>Martin Mokrejs</name> |
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- </maintainer> |
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- <maintainer type="project"> |
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- <email>sci-biology@g.o</email> |
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- <name>Gentoo Biology Project</name> |
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- </maintainer> |
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-</pkgmetadata> |