[gentoo-commits] gentoo-x86 commit in dev-haskell/bio: metadata.xml bio-0.5.3.ebuild Manifest ChangeLog

[gentoo-commits] gentoo-x86 commit in dev-haskell/bio: metadata.xml bio-0.5.3.ebuild Manifest ChangeLog

[Sergei Trofimovich (slyfox)]

slyfox      13/09/12 20:19:20

  Added:                metadata.xml bio-0.5.3.ebuild Manifest ChangeLog
  Log:
  A bioinformatics library for haskell (requested by Martin MOKREJŠ).
  
  (Portage version: 2.2.1_p20/cvs/Linux x86_64, signed Manifest commit with key 611FF3AA)

Revision  Changes    Path
1.1                  dev-haskell/bio/metadata.xml

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/metadata.xml?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/metadata.xml?rev=1.1&content-type=text/plain

Index: metadata.xml
===================================================================
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
	<herd>haskell</herd>
	<maintainer>
		<email>haskell@gentoo.org</email>
	</maintainer>
	<longdescription>
		This is a collection of data structures and algorithms
		useful for building bioinformatics-related tools
		and utilities.
		
		Current list of features includes: a Sequence data type supporting
		protein and nucleotide sequences and conversion between them.  As of version
		0.4, different kinds of sequence have different types.  Support for quality
		data, reading and writing Fasta formatted files, reading TwoBit and
		phd formats, and Roche/454 SFF files.  Rudimentary (i.e. unoptimized) support
		for doing alignments - including dynamic adjustment of scores based on sequence quality.
		Also Blast output parsing.  Partly implemented single linkage clustering, and
		multiple alignment.  Reading Gene Ontology (GO) annotations (GOA) and
		definitions\/hierarchy.
		
		The Darcs repository is at: &lt;http://malde.org/~ketil/biohaskell/biolib&gt;.
	</longdescription>
</pkgmetadata>



1.1                  dev-haskell/bio/bio-0.5.3.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/bio-0.5.3.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/bio-0.5.3.ebuild?rev=1.1&content-type=text/plain

Index: bio-0.5.3.ebuild
===================================================================
# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/dev-haskell/bio/bio-0.5.3.ebuild,v 1.1 2013/09/12 20:19:20 slyfox Exp $

EAPI=5

# ebuild generated by hackport 0.3.2.9999

CABAL_FEATURES="bin lib profile haddock hoogle hscolour"
inherit haskell-cabal

DESCRIPTION="A bioinformatics library"
HOMEPAGE="http://biohaskell.org/Libraries/Bio"
SRC_URI="mirror://hackage/packages/archive/${PN}/${PV}/${P}.tar.gz"

LICENSE="LGPL-2.1"
SLOT="0/${PV}"
KEYWORDS="~amd64 ~x86"
IUSE="+examples test"

RDEPEND=">=dev-haskell/binary-0.4:=[profile?] <dev-haskell/binary-0.8:=[profile?]
		dev-haskell/mtl:=[profile?]
		dev-haskell/parallel:=[profile?]
		dev-haskell/parsec:=[profile?]
		>=dev-haskell/quickcheck-2:=[profile?]
		dev-haskell/random:=[profile?]
		>=dev-haskell/tagsoup-0.8:=[profile?]
		>=dev-lang/ghc-6.10.4:="
DEPEND="${RDEPEND}
		>=dev-haskell/cabal-1.6"

src_prepare() {
	cabal_chdeps \
		'binary >=0.4 && <0.5' 'binary >=0.4 && <0.8'
}

src_configure() {
	haskell-cabal_src_configure \
		$(cabal_flag examples examples) \
		$(cabal_flag test test)
}

src_test() {
	dist/build/qc/qc || die
}

src_install() {
	haskell-cabal_src_install

	use test && rm "${ED}"/usr/bin/qc
	# many examples collide with dev-haskell/flower
	if use examples ; then
		pushd "${ED}"/usr/bin
		local example
		for example in *
		do
			mv "${example}" "${PN}-example-${example}"
		done
		popd
	fi
}



1.1                  dev-haskell/bio/Manifest

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/Manifest?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/Manifest?rev=1.1&content-type=text/plain

Index: Manifest
===================================================================
DIST bio-0.5.3.tar.gz 103707 SHA256 42c8f9b83fea6bf51356afe1251910ba4421e0af0bb4f26431eaf385971d7eed SHA512 fbe09240a600abbcac952f52f05f28f9b305a1ae3def8b4144bd73bdb160acfbe5457086ef829057d5a73df1df5061668487b2ca5621df73628c8c4990b6b544 WHIRLPOOL 84d057c68b0fbf899594470e171f883b92def29f0f7f607b08d0d419dd01c5f2e0f6054f93387c32b6b7ffdd1ceb6e84ef6b8cfe5faaee1f89c2e8b10837dcb8
EBUILD bio-0.5.3.ebuild 1375 SHA256 ecf9ceec6bda42efbdc69ff61de7537e9410c04162d553efa769c495cf4e8b98 SHA512 82fee07894b9e332aac30e82bd367c0f0c3e02f61d5ad5f5b70542244b522eba96bb83435bffb4bdff6cdffe1c8823181277be00a83fab7892a5d6e65e6534e2 WHIRLPOOL 9f3176b3586f79dc6342090b8faadabc9c1a0f34753bcf11b9080798033325bb253cd8a6a75ad7a8e8e2d3160a8297ae883b93d1b2509dc12d1df452343decd1
MISC metadata.xml 1122 SHA256 aaafdc9895fe7b024ed53b6c43689db3d3b4521a3d1f95cfa9a4efa79a9039c6 SHA512 3ea3be892112d9141e04990e90d59a6a4605a4b884a7395ba179fe43068fb2a9c9c70cd3338ceecd615831f5474620768d529e355f72c1fedc652c82f2530841 WHIRLPOOL db24da3d68a86d0a77a825d27f8fba03aeab0235723d485b878fa7cb5473b60ea291d1541a7acd95c205cfc5b570caaa852c23a41b2a1076eecd79c16bb36c14



1.1                  dev-haskell/bio/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/ChangeLog?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/dev-haskell/bio/ChangeLog?rev=1.1&content-type=text/plain

Index: ChangeLog
===================================================================
# ChangeLog for dev-haskell/bio
# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
# $Header: /var/cvsroot/gentoo-x86/dev-haskell/bio/ChangeLog,v 1.1 2013/09/12 20:19:20 slyfox Exp $

*bio-0.5.3 (12 Sep 2013)

  12 Sep 2013; Sergei Trofimovich <slyfox@gentoo.org> +bio-0.5.3.ebuild,
  +metadata.xml:
  A bioinformatics library for haskell (requested by Martin MOKREJŠ).