commit: 0c9a8d595bc0e9f73ec77071ff9f5a798e8443b4 Author: Jakov Smolić <jsmolic <AT> gentoo <DOT> org> AuthorDate: Tue Aug 9 07:11:00 2022 +0000 Commit: Jakov Smolić <jsmolic <AT> gentoo <DOT> org> CommitDate: Tue Aug 9 07:11:00 2022 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=0c9a8d59
sci-biology/transfac: treeclean Closes: https://bugs.gentoo.org/361411 Signed-off-by: Jakov Smolić <jsmolic <AT> gentoo.org> profiles/package.mask | 5 ---- sci-biology/transfac/Manifest | 1 - sci-biology/transfac/metadata.xml | 16 ----------- sci-biology/transfac/transfac-3.2-r2.ebuild | 42 ----------------------------- 4 files changed, 64 deletions(-) diff --git a/profiles/package.mask b/profiles/package.mask index 1345f899a433..15577ff6c56f 100644 --- a/profiles/package.mask +++ b/profiles/package.mask @@ -498,11 +498,6 @@ dev-libs/ucommon # Removal on 2022-08-10. dev-php/pecl-geoip -# David Seifert <[email protected]> (2022-07-11) -# Crashes with latest emboss, no other distro packages this, -# ancient release, bug #361411, removal on 2022-08-10. -sci-biology/transfac - # Fabian Groffen <[email protected]> (2022-07-02) # Segfaults handling SPF validations (warn on permerror), like the # previous release, better not to trust your important mail to diff --git a/sci-biology/transfac/Manifest b/sci-biology/transfac/Manifest deleted file mode 100644 index 78b209e166c0..000000000000 --- a/sci-biology/transfac/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST transfac32.tar.Z 3346266 BLAKE2B 3bd6cfacd7e4ea75946dce5e77bae84a7d199daa84750fe21cd3c393fa66cdf09518a4043ac15f2fbe7bc19f001482e14b65743f1a89aec34bcb28409277370e SHA512 d7004f90e57fa2b8839714e50b9ce1f67357db404adc1a5caddd1e9b86c8e3e9f4e85bbda15c4d6afed85da82ae8615f63260f9a3df9cfd79897d38896893b9f diff --git a/sci-biology/transfac/metadata.xml b/sci-biology/transfac/metadata.xml deleted file mode 100644 index daa74b549bb1..000000000000 --- a/sci-biology/transfac/metadata.xml +++ /dev/null @@ -1,16 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd";> -<pkgmetadata> - <maintainer type="project"> - <email>[email protected]</email> - <name>Gentoo Biology Project</name> - </maintainer> - <longdescription> - TRANSFAC® is a database of eukaryotic transcription factors, of their - genomic binding sites and DNA-binding profiles. TRANSFAC 3.2 is an old - public version available at the European Bioinformatics Institute. - TRANSFAC® is currently maintained by the BIOBASE company. Altough they - offer public access to a more recent version of the database, they - offer no free downloadable version. - </longdescription> -</pkgmetadata> diff --git a/sci-biology/transfac/transfac-3.2-r2.ebuild b/sci-biology/transfac/transfac-3.2-r2.ebuild deleted file mode 100644 index 2fce474da2ad..000000000000 --- a/sci-biology/transfac/transfac-3.2-r2.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -DESCRIPTION="A database of eucaryotic transcription factors" -HOMEPAGE="http://www.gene-regulation.com/pub/databases.html"; -SRC_URI="ftp://ftp.ebi.ac.uk/pub/databases/${PN}/${PN}32.tar.Z"; -S="${WORKDIR}" - -LICENSE="public-domain" -SLOT="3" -# Minimal build keeps only the indexed files (if applicable) and the documentation. -# The non-indexed database is not installed. -KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux" -IUSE="emboss minimal" - -BDEPEND="emboss? ( sci-biology/emboss )" -RDEPEND="${BDEPEND}" - -src_compile() { - if use emboss; then - einfo - einfo "Indexing TRANSFAC for usage with EMBOSS" - EMBOSS_DATA="." tfextract -auto -infile class.dat || die "Indexing TRANSFAC failed" - einfo - fi -} - -src_install() { - newdoc readme.txt README - - if ! use minimal; then - insinto /usr/share/transfac-${SLOT} - doins *.dat - fi - - if use emboss; then - insinto /usr/share/EMBOSS/data - doins tf* - fi -}
