sci-biology/transfac: treeclean

Closes: https://bugs.gentoo.org/361411
Signed-off-by: Jakov Smolić <jsmolic@gentoo.org>

profiles/package.mask

@@ -498,11 +498,6 @@ dev-libs/ucommon
 # Removal on 2022-08-10.
 dev-php/pecl-geoip
 
-# David Seifert <soap@gentoo.org> (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 <grobian@gentoo.org> (2022-07-02)
 # Segfaults handling SPF validations (warn on permerror), like the
 # previous release, better not to trust your important mail to

sci-biology/transfac/Manifest

@@ -1 +0,0 @@
-DIST transfac32.tar.Z 3346266 BLAKE2B 3bd6cfacd7e4ea75946dce5e77bae84a7d199daa84750fe21cd3c393fa66cdf09518a4043ac15f2fbe7bc19f001482e14b65743f1a89aec34bcb28409277370e SHA512 d7004f90e57fa2b8839714e50b9ce1f67357db404adc1a5caddd1e9b86c8e3e9f4e85bbda15c4d6afed85da82ae8615f63260f9a3df9cfd79897d38896893b9f

sci-biology/transfac/metadata.xml

@@ -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>sci-biology@gentoo.org</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>

sci-biology/transfac/transfac-3.2-r2.ebuild

@@ -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
-}