sci-biology/jellyfish: SLOT jellyfish to support concurrent ver. {1,2}

This renames the resulting binaries, pkg-config file contents, headers, and all
packages currently depending on sci-biology/jellyfish.

sci-biology/quorum: SLOT jellyfish to support concurrent ver. {1,2}
sci-biology/Rcorrector: SLOT jellyfish to support concurrent ver. {1,2}
sci-biology/SEECER: SLOT jellyfish to support concurrent ver. {1,2}
sci-biology/amos: SLOT jellyfish to support concurrent ver. {1,2}
sci-biology/kraken: SLOT jellyfish to support concurrent ver. {1,2}
sci-biology/wgs-assembler: SLOT jellyfish to support concurrent ver. {1,2}

Package-Manager: Portage-2.3.28, Repoman-2.3.9

1 files changed, 0 insertions, 46 deletions

diff --git a/sci-biology/jellyfish/jellyfish-2.2.6.ebuild b/sci-biology/jellyfish/jellyfish-2.2.6.ebuild
deleted file mode 100644
index af91bd892..000000000
--- a/sci-biology/jellyfish/jellyfish-2.2.6.ebuild
+++ /dev/null
@@ -1,46 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit eutils flag-o-matic autotools
-
-DESCRIPTION="k-mer counter within reads for assemblies"
-HOMEPAGE="http://www.genome.umd.edu/jellyfish.html"
-SRC_URI="https://github.com/gmarcais/Jellyfish/releases/download/v${PV}/${P}.tar.gz
-	ftp://ftp.genome.umd.edu/pub/jellyfish/JellyfishUserGuide.pdf"
-
-# older version is hidden in trinityrnaseq_r20140413p1/trinity-plugins/jellyfish-1.1.11
-
-LICENSE="GPL-3+ BSD"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE="cpu_flags_x86_sse"
-
-RDEPEND=""
-DEPEND="${RDEPEND}
-	virtual/pkgconfig"
-
-src_prepare(){
-	eautoreconf
-	default
-}
-
-# TODO: enable compilation of Bindings to Ruby, Python and Perl
-# '--enable-ruby-binding', '--enable-python-binding' or '--enable-perl-binding',  '--enable-swig'
-src_configure(){
-	#  --with-sse              enable SSE
-	#  --with-half             enable half float (16 bits)
-	#  --with-int128           enable int128
-	local myconf
-	use cpu_flags_x86_sse && myconf+=( --with-sse )
-	econf econf ${myconf[@]}
-}
-
-src_install(){
-	default
-	sed -e "s#jellyfish-${PV}#jellyfish#" -i "${ED}/usr/$(get_libdir)"/pkgconfig/jellyfish-2.0.pc || die
-	mkdir -p "${ED}/usr/include/${PN}" || die
-	mv "${ED}"/usr/include/"${P}"/"${PN}"/* "${ED}/usr/include/${PN}/" || die
-	rm -r "${ED}/usr/include/${P}" || die
-}