sci-biology/bowtie: Remove old

Signed-off-by: Michał Górny <mgorny@gentoo.org>
Part-of: https://github.com/gentoo/gentoo/pull/41697
Signed-off-by: Michał Górny <mgorny@gentoo.org>

sci-biology/bowtie/Manifest

@@ -1,2 +1 @@
-DIST bowtie2-2.4.4-source.zip 10515984 BLAKE2B be4ceb9d3155d2a9a1f580e5032251b04b89ce0c8c9c89fc3551b34fe3bd71a683362488be7aad6daef24734c6f95c19223f20e67f198f745c4432381243039c SHA512 1b5dadd7e41b90bb9b05f50bfa171fe219cfd03aa8bb6f800de4baaffeb975eef6efc4fb8b49cb0d18833f74a1741cbe1556b87388f59188e04a55dcee6a02da
 DIST bowtie2-2.5.1-source.zip 10528859 BLAKE2B 9dc22bfef4b3a1cfaa606cb235acd1d7688015678d82e8ca80d3d7cf269e1f45d6cb60bc29eb334fb6f0c25d5afd8202e83a83e53668c8965857b8885d2692c8 SHA512 31cc642e318ab50e7ef6035a9c2095024d46d92a317011ed0c3ac3ccb3d427a13bf724d0158d29a4f1e07115ddcb85229b95bcb2d4351164fcadd6568293565f

sci-biology/bowtie/bowtie-2.4.4.ebuild

@@ -1,55 +0,0 @@
-# Copyright 2021-2024 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=8
-
-PYTHON_COMPAT=( python3_10 )
-
-inherit python-single-r1 toolchain-funcs
-
-DESCRIPTION="Popular short read aligner for Next-generation sequencing data"
-HOMEPAGE="http://bowtie-bio.sourceforge.net/bowtie2/"
-SRC_URI="https://downloads.sourceforge.net/project/${PN}-bio/bowtie2/${PV}/bowtie2-${PV}-source.zip"
-S="${WORKDIR}/${PN}2-${PV}"
-
-LICENSE="GPL-3"
-SLOT="2"
-KEYWORDS="~amd64 ~x86"
-IUSE="cpu_flags_x86_sse2 examples"
-REQUIRED_USE="cpu_flags_x86_sse2 ${PYTHON_REQUIRED_USE}"
-
-RDEPEND="
-	${PYTHON_DEPS}
-	dev-lang/perl
-	sys-libs/zlib"
-DEPEND="${RDEPEND}"
-BDEPEND="app-arch/unzip"
-
-src_compile() {
-	emake \
-		CXX="$(tc-getCXX)" \
-		CXXFLAGS="" \
-		CPPFLAGS="${CPPFLAGS}" \
-		EXTRA_FLAGS="${LDFLAGS}" \
-		RELEASE_FLAGS="${CXXFLAGS} -msse2"
-}
-
-src_install() {
-	dobin bowtie2 bowtie2-*
-
-	exeinto /usr/libexec/bowtie2
-	doexe scripts/*
-
-	HTML_DOCS=( doc/{manual.html,style.css} )
-	einstalldocs
-	dodoc TUTORIAL
-	newman MANUAL bowtie2.1
-
-	python_fix_shebang "${ED}"/usr/bin/bowtie2-{build,inspect}
-
-	if use examples; then
-		docinto examples
-		dodoc -r example/.
-		docompress -x /usr/share/doc/${PF}/examples
-	fi
-}