sci-chemistry/aria: Version bump

Package-Manager: portage-2.2.0_alpha150/cvs/Linux x86_64
Manifest-Sign-Key: 0x70EB7916

4 files changed, 108 insertions, 13 deletions

diff --git a/sci-chemistry/aria/ChangeLog b/sci-chemistry/aria/ChangeLog
index b3d1384ff746..9a8925e6c5af 100644
--- a/sci-chemistry/aria/ChangeLog
+++ b/sci-chemistry/aria/ChangeLog
@@ -1,6 +1,12 @@
 # ChangeLog for sci-chemistry/aria
-# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/aria/ChangeLog,v 1.15 2012/07/10 07:14:24 jlec Exp $
+# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/aria/ChangeLog,v 1.16 2013/01/11 17:10:40 jlec Exp $
+
+*aria-2.3.2-r4 (11 Jan 2013)
+
+  11 Jan 2013; Justin Lecher <jlec@gentoo.org> +aria-2.3.2-r4.ebuild,
+  metadata.xml:
+  Version bump
 
   10 Jul 2012; Justin Lecher <jlec@gentoo.org> -aria-2.3.1.ebuild,
   -aria-2.3.2.ebuild, -aria-2.3.2-r1.ebuild, -aria-2.3.2-r2.ebuild:
diff --git a/sci-chemistry/aria/Manifest b/sci-chemistry/aria/Manifest
index 5d13b42b3e08..682af4f53601 100644
--- a/sci-chemistry/aria/Manifest
+++ b/sci-chemistry/aria/Manifest
@@ -1,18 +1,19 @@
 -----BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA512
+Hash: SHA256
 
 AUX aria-2.3.2-python.patch 963 SHA256 87f5f27484eddb6ce47fab2a2df6da15fa37cdef24c39e3da7b93555a22e512d SHA512 0422f5f5f70afbe2130aabd5466521063f1e2d8598e4a81ab7be98e331988b9c7fde1155ceb97a773f17df1d8207a3b60d6c9969cd3eea6d33ec7ce35b9b5d28 WHIRLPOOL 119101d2329ec3d8ab6e58992ab8bccc99d04a1a857c65c95c5a468b31ed8061ba51b33056e18d59e54b98546f186ee83f99b6adf20c43b33a998ab5e2ec230e
 AUX aria-2.3.2-through-space-2.patch 6049 SHA256 585c963b5b918865175208c44ca256b23062423c9a8111506111fd04e6ac405e SHA512 18e57343aa7d609c11edfc5bbf9aa831c190729ee0dea8f3c1d8103f46c5d1a225a5acda50a09ff26587e119f4a9a0e35af5388d4a325dace7925352f829714d WHIRLPOOL 058c58f4a3319c20410be74541b991280f2b61436a55ff715db24e1351ddb33d4c95977441df27c53929d6d4474923e751e998f07e5399a1b92ec065831e2610
 AUX aria-2.3.2-through-space.patch 5040 SHA256 99c547ad5fb85401c39187b9a708fc7332c36be6e467bd834cb551a723fd84fb SHA512 1827cf859af84ced8e0f368370d0f3814de5bb74f7d6e832e4a904dce15d62e1dc660d6c1bda9c148d554ba883ec35bfc3fb6c165c8954b759f91a9c9e102976 WHIRLPOOL 1298a5152a6676b2f6f481c72a82e4af802b4b5c4327d96346e1d184e288dfb2eeaf8b097f5bf6dccf079b8b74ba88212b795ca28c9a42c22302eb7dfb89ed7b
 DIST aria2.3.2.tar.gz 1836270 SHA256 30727ea8bdc2e3b44e5970545008fcfa07fa59aa28b76824956a2aa71daa9615 SHA512 009a1d0079f5cc162dc732749ddd2b33297268f0d988b2f37bda4ed50c7764ceef7ae5b56b322c7ac79427a4a2a92d1239199891445cb5e2b3d0908ed670e2aa WHIRLPOOL f18af5b751e79c92e04f4dc12b6b806a1c505b269559a2342bdd6280b790f9f0df9bb4afe366af03beaf09af0128c6b68c39bc66603d51ad24914c78b2579cf3
+DIST aria2.3.2_latest.tar.gz 1861854 SHA256 fc2a197e7098f58e603e4cef724986535e9c356a180b86466527a8616a95fc77 SHA512 8ace8e35e351e9b2b4b7d00ab4a5acbb7295e2fef1de54d5a8e60ae4550c5706fbbd0bbe960443ec4d26bd2861bc574deb53c9ab82865600919f0b022dbda3ce WHIRLPOOL 56a4b37f4444fc5388459579cc9ac6381e9a6dbee983ff4a73ece5768b6cc1250ca36d4aadf9a8d5ef289b45117d5e850b7032663a41bb297a8c6c9061efd7ae
 EBUILD aria-2.3.2-r3.ebuild 2133 SHA256 a3dfc04c836c454e8a6b47cab2428e050803f38f8789ac270e00a18bca169e4a SHA512 dfe16aac87a4c2b7c1e9e2a3ec4775776def02e4971d7b64046aeb2afcdb1da5f1aa2b9260d3012004030b90d918dda078daffc75c9d3256be1fdc053338645d WHIRLPOOL 6c8f1da099c22ec2907bc825b99afb7b171fcd31e5d63f1244504dd2837a9d58dc1629e03e79b828ab7f535bd5043a844aaef21a268b026585fa5bd2be0cb692
-MISC ChangeLog 2368 SHA256 3df584ac6308d432fd03fdc120a4a00b020217a4ce98413e6377f01286fe0006 SHA512 e94f764629d8762d42c072c61f90a2f3158b137e002bd8eae5bbbbc3041791a0f8e71cb9788c674202b0a1a9b76e4e4a8bdef0848965ef2be57b3ab1bf845b1e WHIRLPOOL 562e4c3a97764ddc64804d023a003dff42b3800704e8a02db20dc5bae442417c632b3a9720c52643b69ac4340cc326fea658486afa4de970bc7769f493e14d22
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+EBUILD aria-2.3.2-r4.ebuild 2016 SHA256 6da21490416a7a6783f89bf36310b005a8034cff4d74f10daa74d8126122c2ea SHA512 46c5f14e2ce1e9cc62f93ce908aa204cdea99dc68c310aa53c5107340af2c3066cee636d9450b6156c9c75d4dbee91df503dd5c59cf463d5a8ef234793ebb357 WHIRLPOOL 752080ebbbff395933e07be5b9c5e3be9ac3aa0eb80cbf58614cf8e1994fa3d7280c1e66df5b11ae62430aa8b896be97306529a765ccdac98eb7c46a1069b402
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diff --git a/sci-chemistry/aria/aria-2.3.2-r4.ebuild b/sci-chemistry/aria/aria-2.3.2-r4.ebuild
new file mode 100644
index 000000000000..19d832d7596d
--- /dev/null
+++ b/sci-chemistry/aria/aria-2.3.2-r4.ebuild
@@ -0,0 +1,88 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/aria/aria-2.3.2-r4.ebuild,v 1.1 2013/01/11 17:10:40 jlec Exp $
+
+EAPI=3
+
+PYTHON_DEPEND="2"
+PYTHON_USE_WITH="tk"
+
+inherit base eutils python versionator
+
+MY_P="${PN}$(get_version_component_range 1-2 ${PV})"
+
+DESCRIPTION="Automated NOE assignment and NMR structure calculation"
+HOMEPAGE="http://aria.pasteur.fr/"
+SRC_URI="http://aria.pasteur.fr/archives/${MY_P}.2_latest.tar.gz"
+
+SLOT="0"
+LICENSE="cns"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="examples"
+
+RDEPEND="
+	sci-chemistry/clashlist
+	sci-chemistry/procheck
+	sci-libs/clashscore-db
+	dev-python/numpy
+	dev-python/matplotlib[tk]
+	>=sci-chemistry/cns-1.2.1-r7[aria,openmp]
+	dev-lang/tk
+	>=sci-chemistry/ccpn-2.2
+	dev-tcltk/tix"
+DEPEND="${RDEPEND}"
+
+RESTRICT="fetch"
+
+S="${WORKDIR}/${MY_P}"
+
+pkg_nofetch(){
+	einfo "Go to ${HOMEPAGE}, download ${A}"
+	einfo "and place it in ${DISTDIR}"
+}
+
+src_test(){
+	export CCPNMR_TOP_DIR="${EPREFIX}"/$(python_get_sitedir)
+	export PYTHONPATH=.:${CCPNMR_TOP_DIR}/ccpn/python
+	$(PYTHON) check.py || die
+}
+
+src_install(){
+	insinto "$(python_get_sitedir)/${PN}"
+	doins -r src aria2.py || die "failed to install ${PN}"
+	insinto "$(python_get_sitedir)/${PN}"/cns
+	doins -r cns/{protocols,toppar,src/helplib} || die "failed to install cns part"
+
+	if use examples; then
+		insinto /usr/share/${P}/
+		doins -r examples || die
+	fi
+
+	# ENV
+	cat >> "${T}"/20aria <<- EOF
+	ARIA2="${EPREFIX}/$(python_get_sitedir)/${PN}"
+	EOF
+
+	doenvd "${T}"/20aria
+
+	# Launch Wrapper
+	cat >> "${T}"/aria <<- EOF
+	#!/bin/sh
+	export CCPNMR_TOP_DIR="${EPREFIX}/$(python_get_sitedir)"
+	export PYTHONPATH="${EPREFIX}/$(python_get_sitedir)/ccpn/python"
+	exec "$(PYTHON)" -O "\${ARIA2}"/aria2.py \$@
+	EOF
+
+	dobin "${T}"/aria || die "failed to install wrapper"
+	dosym aria /usr/bin/aria2
+
+	dodoc README || die
+}
+
+pkg_postinst() {
+	python_mod_optimize ${PN}
+}
+
+pkg_postrm() {
+	python_mod_cleanup ${PN}
+}
diff --git a/sci-chemistry/aria/metadata.xml b/sci-chemistry/aria/metadata.xml
index 210ad0db014c..5ef07a39e7e1 100644
--- a/sci-chemistry/aria/metadata.xml
+++ b/sci-chemistry/aria/metadata.xml
@@ -1,8 +1,8 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-	<herd>sci</herd>
-	<maintainer>
-		<email>jlec@gentoo.org</email>
-	</maintainer>
+  <herd>sci</herd>
+  <maintainer>
+    <email>jlec@gentoo.org</email>
+  </maintainer>
 </pkgmetadata>