Todays Python patches, fix for psipred32

Package-Manager: portage-2.2.0_alpha69/cvs/Linux x86_64

9 files changed, 247 insertions, 17 deletions

diff --git a/sci-chemistry/ccpn/ChangeLog b/sci-chemistry/ccpn/ChangeLog
index b53d5e7e1b83..8aedca2b990d 100644
--- a/sci-chemistry/ccpn/ChangeLog
+++ b/sci-chemistry/ccpn/ChangeLog
@@ -1,6 +1,14 @@
 # ChangeLog for sci-chemistry/ccpn
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.72 2011/10/17 15:38:40 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.73 2011/10/19 07:25:58 jlec Exp $
+
+*ccpn-2.2.1_p111019 (19 Oct 2011)
+
+  19 Oct 2011; Justin Lecher <jlec@gentoo.org> +ccpn-2.2.1_p111019.ebuild,
+  ccpn-2.1.5_p110926.ebuild, ccpn-2.2.1_p111017.ebuild,
+  ccpn-2.2.1_p110926.ebuild, ccpn-2.1.5_p111017.ebuild, metadata.xml,
+  ccpn-2.2.1_p111011.ebuild, ccpn-2.1.5_p111011.ebuild:
+  Todays Python patches, fix for psipred32
 
 *ccpn-2.2.1_p111017 (17 Oct 2011)
 *ccpn-2.1.5_p111017 (17 Oct 2011)
diff --git a/sci-chemistry/ccpn/Manifest b/sci-chemistry/ccpn/Manifest
index 5b94a0f6b309..af89b4ccc2c6 100644
--- a/sci-chemistry/ccpn/Manifest
+++ b/sci-chemistry/ccpn/Manifest
@@ -33,27 +33,29 @@ DIST ccpn-update-2.2.1-110905.patch.bz2 78329 RMD160 295a3057f4ccd0ad89a3bc75a99
 DIST ccpn-update-2.2.1-110926.patch.bz2 79805 RMD160 2eb19fe8cc1bcf98dba2aa892f41cef16ababd01 SHA1 09199cec4c733befb32558d5138fff93a94fa03f SHA256 5e8b44399cb0fd3b0a20405c3c65428aefd3a47445a003e40f4caac2fe77fd41
 DIST ccpn-update-2.2.1-111011.patch.xz 76948 RMD160 1bac8433d91adb373971a4130bb9a89cf46a4051 SHA1 a6001349d0da0bcf9f1142c5b4050ad1903fdf0d SHA256 ec7fc527d6f869f2a952e52e73a4ea17a257237e9724e4916119ba484688aeeb
 DIST ccpn-update-2.2.1-111017.patch.xz 76984 RMD160 26a58d486bdc33cafaced593c327a00162b6605a SHA1 e8503957efaa6deb53c8537b954ec2ce972a6bc4 SHA256 73e38c80b38957a9484e885cb4c867f67d17b43ff61a5f25ad35d6c9fddd3e7a
+DIST ccpn-update-2.2.1-111019.patch.xz 68036 RMD160 6481ae9b2ba14f1084e33a7cfde6d75d690cbc84 SHA1 3d0227376ac2d67a421dc9e00cb4a276be8ad671 SHA256 e812aeec0d065e69b59567bb3e1b9d3d47968665bd223edbbd92c74ec811bdc9
 EBUILD ccpn-2.1.3.1_p100806.ebuild 5188 RMD160 b66825e37b79a5f6ec6635b9f3236d1cda2da672 SHA1 458f516ffad25d9283b21c9dfb8e50c6323f4264 SHA256 ff57abefefd3bb128a3f96bf039cbaa5ed97350f6b41fdbdd4b4365ff9e68e51
 EBUILD ccpn-2.1.5_p110602.ebuild 5802 RMD160 b979b28541d4a52d52df45af0ac194c147e9e586 SHA1 bf731d3e076684670155ea7ed6f862785c961130 SHA256 a5b205266d47c77f3bcb2f4149a53e2866a665d28e49b5749dd0d3774d50cc38
 EBUILD ccpn-2.1.5_p110629.ebuild 5802 RMD160 99ce3cef5396276532ab3301e5442f72c379e39e SHA1 9efbd6e35633b15b92449228c17a82890d394c38 SHA256 f29088839b852119b20caa877a105aa4af4a447d60c429b8c7bd92e0918a9ea1
 EBUILD ccpn-2.1.5_p110817.ebuild 5802 RMD160 112485a848b98a5f8377b2d05c8555147de6dfd5 SHA1 1dfab5862dc3890a5d131f1f6e78c8f28f797ac1 SHA256 135ccefec5d55bedc301c2e9d1d61e31b09f17daec2d835f7f6e9f50272a42e9
 EBUILD ccpn-2.1.5_p110905.ebuild 5802 RMD160 4213a4957af30e78714604bed3cc565acc172a71 SHA1 579587f639367f3988f9f1925e78751bad08ad41 SHA256 dcf706cbadac4352090d7650838af11e0d5c03c6b42d71ba7d4906847b248f92
-EBUILD ccpn-2.1.5_p110926.ebuild 5979 RMD160 2e45a9cfeaf5dde3da4a5e21855e0ac940cbf03c SHA1 eec884bcd131188d897d9328307e5f2212843591 SHA256 1a29fd4f7e4a77d3dc4f87e3acd5c7531818d2d67e8b4bf529f61de8ec14bee6
-EBUILD ccpn-2.1.5_p111011.ebuild 5735 RMD160 345cedf4338bccb608cfb9594fc755006fd3cc8c SHA1 f68f3114f6b43f8361d87651b587066bbdbe2cf8 SHA256 a3f7fe3a060faeade96be90d59b937bf6a17172f3fec98e962806a38b013c3e1
-EBUILD ccpn-2.1.5_p111017.ebuild 5742 RMD160 ee685d3cbf28c2d48d48eb9eeb0c98a88b6e43b5 SHA1 f00ef8088e7a663281166f6b6c04c2fbe6ed06ab SHA256 6032c58bee52646ae332082b40fad322cebba125cb2007d77c6338419d1dbe7b
+EBUILD ccpn-2.1.5_p110926.ebuild 6010 RMD160 b1c16c451387a7f6aec29662843d79fa5ebbdd6e SHA1 e8c9aa2b897b7c0fff10cda35ce4cf6f561d2edf SHA256 0fd5352daa50a772138bff644cc3db9317cfbbb7dd4a2eea4bf02dd4487714a6
+EBUILD ccpn-2.1.5_p111011.ebuild 5766 RMD160 2de7124aa015e929939a35372841eca6b9c6b760 SHA1 d9d40612897662548f67fc05bf19a65ce893c8eb SHA256 1826ca6259f1f58f0b34d8e9baa785d4542e8cdd926370a9be4b36f9d0fc256b
+EBUILD ccpn-2.1.5_p111017.ebuild 5773 RMD160 74770cdc30a513ca57b66667b9377883cc25ffd4 SHA1 1cc1c784d1921c3922a98548fc4f219327725248 SHA256 5da3935144bbb0b01bc826218c9b92de1148f799a0bd5965f83ca753cc7391e2
 EBUILD ccpn-2.2.1_p110602.ebuild 5817 RMD160 02a268d39e592e55955bd768c13d486fa37394df SHA1 4d419c6825b3eba1bbc9d1f21a441fee54633dcf SHA256 d01e038bb78efe67639c2fe0571f17ead32fb931cc14bf3f1a2d0140e322557c
 EBUILD ccpn-2.2.1_p110629.ebuild 5817 RMD160 10a004a5f52097e30cceef012832dc31ac4a35ee SHA1 7d23a32e384549d53ab406c5e2ff96d6984e8b9c SHA256 99cb9b2c41b7c6cbb8405177b9d99b1c06ad140059bfa001ffbae68bc150b636
 EBUILD ccpn-2.2.1_p110817.ebuild 5817 RMD160 e9302ad7cb2e95a8c2e24359691a3c2371402a89 SHA1 923d0a52f358bf45de72d6b71fcb519f187f9298 SHA256 67c4e3e30cb978b5eb879ad532f3b30d3afcd14b3019bb5d27c779607914448c
 EBUILD ccpn-2.2.1_p110905.ebuild 5817 RMD160 d3f9cc71971395a5e7b907c7081851d756f9ced8 SHA1 dd8c79e2b29af8f9de92edf4b0e9425f13fd6203 SHA256 4b8d550918003a3f3e25c043ed2625ea634c08ffc353a6354579a235c7a1e2a1
-EBUILD ccpn-2.2.1_p110926.ebuild 5994 RMD160 9129c768ad48573ce77f78eba188ac9463f1e4e6 SHA1 62537eb587b07d685eab4a3283830d8c4ae98ea6 SHA256 98c21322d95f3b0049382c3a541a318dc9c7b4fa65257b64ef4185ded414d5d2
-EBUILD ccpn-2.2.1_p111011.ebuild 5750 RMD160 f1f681042dbd6c477195c3a660dd7891a8d68eec SHA1 918ed53ea2036dc6526983fb560b50bc611b81af SHA256 72d5d8ab6b144a1a630d2b5aa85cf17b813630926bd747fbd9808c89c968f26d
-EBUILD ccpn-2.2.1_p111017.ebuild 5757 RMD160 59e601b865038e47ab236e15b853fdb1313cfde0 SHA1 9b97afb8481bb1c425dcf2af4a9de62bc7405ae3 SHA256 f6680f2892d4f407a4d8f9e17577e6e28d8d581b6db6eabfa440700a93c720bb
-MISC ChangeLog 14077 RMD160 47d58d1c6e3c7adbad0415b2deb694dceea4d554 SHA1 415d508ba621913decc2351ad1e6e15aabce3c1a SHA256 3b38dae785c75500f0b0f3ae5bc0e6b3874d687d61419f3f3493539f469da2d4
+EBUILD ccpn-2.2.1_p110926.ebuild 6025 RMD160 c8fbfe5b3e10a79447e86ff3fd49f1e7c5eb44d0 SHA1 dd9f901354a019ed1bb1731548264d3c8cfd833c SHA256 5b76872a98bb9e63db70bc96b22fd8acdf719c665e10a3e404af431f8693783d
+EBUILD ccpn-2.2.1_p111011.ebuild 5781 RMD160 078beee165b07aa92753a05312179edc6ed82e2d SHA1 379e2840780bb9b5f86e8ddf134eec03174a93e3 SHA256 eb6ad46393d8e0efd724dd5d966363c2aa17c4ccef30b4c3a6de62f35970fb2c
+EBUILD ccpn-2.2.1_p111017.ebuild 5788 RMD160 f83ad913229aeb54667bf55ec2d5b1563b511492 SHA1 9dbce4e6f7c1e90e84fc389873261410e882fc1d SHA256 6a85c4e9c4ca84325bd2cb6627b7f82d0d245a893ab43bd8fdb39fed74f2876a
+EBUILD ccpn-2.2.1_p111019.ebuild 5788 RMD160 1199938733ab49962a7cda42f86cb9d1d4d99840 SHA1 ebed2c4883b8c8c4f3788ba4b160df136b1c5d35 SHA256 08dc643197243a4836c440c37258be1651fe1d8b96d46ef4da668ae03d65cdd3
+MISC ChangeLog 14413 RMD160 9dc6a273964ce855a548f6390a0862224df20163 SHA1 05fd1bf04452d43878d0dff9c31f00cdcdef23fa SHA256 8cb15a64137db262f781858d325f8bf8d8af1fc31027147b10b723b56f724b4f
 MISC metadata.xml 322 RMD160 9fd5fba7405b689fc39a089d81ffdaa9f961b514 SHA1 0c31132b25fca04cff97ef11fdc11940f90c77d0 SHA256 7468ba4c27b879e7ed5f82274f5837e51f1f389673a33b9e26e1756a6b0783df
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-=4rnT
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diff --git a/sci-chemistry/ccpn/ccpn-2.1.5_p110926.ebuild b/sci-chemistry/ccpn/ccpn-2.1.5_p110926.ebuild
index 3e99c2a9f6ae..6a05a896dcbe 100644
--- a/sci-chemistry/ccpn/ccpn-2.1.5_p110926.ebuild
+++ b/sci-chemistry/ccpn/ccpn-2.1.5_p110926.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p110926.ebuild,v 1.2 2011/10/07 19:29:31 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p110926.ebuild,v 1.3 2011/10/19 07:25:58 jlec Exp $
 
 EAPI="3"
 
@@ -59,6 +59,7 @@ src_prepare() {
 
 	sed \
 		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
 		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
 
 	local tk_ver
diff --git a/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild b/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild
index afcbfe58f1ff..bdb3bf68f7b6 100644
--- a/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild
+++ b/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild,v 1.1 2011/10/11 19:28:28 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p111011.ebuild,v 1.2 2011/10/19 07:25:58 jlec Exp $
 
 EAPI="3"
 
@@ -60,6 +60,7 @@ src_prepare() {
 
 	sed \
 		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
 		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
 
 	local tk_ver
diff --git a/sci-chemistry/ccpn/ccpn-2.1.5_p111017.ebuild b/sci-chemistry/ccpn/ccpn-2.1.5_p111017.ebuild
index 29908be3c9f1..6d841300e841 100644
--- a/sci-chemistry/ccpn/ccpn-2.1.5_p111017.ebuild
+++ b/sci-chemistry/ccpn/ccpn-2.1.5_p111017.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p111017.ebuild,v 1.1 2011/10/17 15:38:40 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.1.5_p111017.ebuild,v 1.2 2011/10/19 07:25:58 jlec Exp $
 
 EAPI="3"
 
@@ -60,6 +60,7 @@ src_prepare() {
 
 	sed \
 		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
 		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
 
 	local tk_ver
diff --git a/sci-chemistry/ccpn/ccpn-2.2.1_p110926.ebuild b/sci-chemistry/ccpn/ccpn-2.2.1_p110926.ebuild
index 530b99d9a109..81bba68c28b7 100644
--- a/sci-chemistry/ccpn/ccpn-2.2.1_p110926.ebuild
+++ b/sci-chemistry/ccpn/ccpn-2.2.1_p110926.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p110926.ebuild,v 1.2 2011/10/07 19:29:31 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p110926.ebuild,v 1.3 2011/10/19 07:25:58 jlec Exp $
 
 EAPI="3"
 
@@ -59,6 +59,7 @@ src_prepare() {
 
 	sed \
 		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
 		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
 
 	local tk_ver
diff --git a/sci-chemistry/ccpn/ccpn-2.2.1_p111011.ebuild b/sci-chemistry/ccpn/ccpn-2.2.1_p111011.ebuild
index 23c0825dce7f..d0ae0c549ab9 100644
--- a/sci-chemistry/ccpn/ccpn-2.2.1_p111011.ebuild
+++ b/sci-chemistry/ccpn/ccpn-2.2.1_p111011.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p111011.ebuild,v 1.1 2011/10/11 19:28:28 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p111011.ebuild,v 1.2 2011/10/19 07:25:58 jlec Exp $
 
 EAPI="3"
 
@@ -60,6 +60,7 @@ src_prepare() {
 
 	sed \
 		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
 		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
 
 	local tk_ver
diff --git a/sci-chemistry/ccpn/ccpn-2.2.1_p111017.ebuild b/sci-chemistry/ccpn/ccpn-2.2.1_p111017.ebuild
index 28849630e1fe..e4f4f13a7c63 100644
--- a/sci-chemistry/ccpn/ccpn-2.2.1_p111017.ebuild
+++ b/sci-chemistry/ccpn/ccpn-2.2.1_p111017.ebuild
@@ -1,6 +1,6 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p111017.ebuild,v 1.1 2011/10/17 15:38:40 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p111017.ebuild,v 1.2 2011/10/19 07:25:58 jlec Exp $
 
 EAPI="3"
 
@@ -60,6 +60,7 @@ src_prepare() {
 
 	sed \
 		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
 		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
 
 	local tk_ver
diff --git a/sci-chemistry/ccpn/ccpn-2.2.1_p111019.ebuild b/sci-chemistry/ccpn/ccpn-2.2.1_p111019.ebuild
new file mode 100644
index 000000000000..51c99204e671
--- /dev/null
+++ b/sci-chemistry/ccpn/ccpn-2.2.1_p111019.ebuild
@@ -0,0 +1,214 @@
+# Copyright 1999-2011 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.1_p111019.ebuild,v 1.1 2011/10/19 07:25:58 jlec Exp $
+
+EAPI="3"
+
+PYTHON_DEPEND="2:2.5"
+PYTHON_USE_WITH="ssl tk"
+
+inherit eutils portability python toolchain-funcs versionator
+
+PATCHSET="${PV##*_p}"
+MY_PN="${PN}mr"
+MY_PV="$(replace_version_separator 3 _ ${PV%%_p*})"
+MY_MAJOR="$(get_version_component_range 1-3)"
+
+DESCRIPTION="The Collaborative Computing Project for NMR"
+SRC_URI="http://www.bio.cam.ac.uk/ccpn/download/${MY_PN}/analysis${MY_PV}.tar.gz"
+	[[ -n ${PATCHSET} ]] && SRC_URI="${SRC_URI}	http://dev.gentoo.org/~jlec/distfiles/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch.xz"
+HOMEPAGE="http://www.ccpn.ac.uk/ccpn"
+
+SLOT="0"
+LICENSE="|| ( CCPN LGPL-2.1 )"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="extendnmr +opengl"
+
+RDEPEND="
+	dev-lang/tk[threads]
+	>=dev-python/numpy-1.4
+	>=dev-tcltk/tix-8.4.3
+	=sci-libs/ccpn-data-"${MY_MAJOR}"*
+	>=sci-libs/ccpn-data-2.2.1_p111011
+	sci-biology/psipred
+	x11-libs/libXext
+	x11-libs/libX11
+	opengl? (
+		media-libs/freeglut
+		dev-python/pyglet )"
+# We need to fix this
+#		sci-chemistry/mdd
+DEPEND="${RDEPEND}"
+PDEPEND="
+	extendnmr? (
+		>=sci-chemistry/aria-2.3.2-r1
+		sci-chemistry/prodecomp )"
+
+RESTRICT="mirror"
+
+S="${WORKDIR}"/${MY_PN}/${MY_PN}$(get_version_component_range 1-2 ${PV})
+
+pkg_setup() {
+	python_set_active_version 2
+}
+
+src_prepare() {
+	[[ -n ${PATCHSET} ]] && \
+		epatch "${WORKDIR}"/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch
+
+	epatch "${FILESDIR}"/${MY_PV}-parallel.patch
+
+	sed \
+		-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
+		-e "s:weights_s:weights:g" \
+		-i python/ccpnmr/analysis/wrappers/Psipred.py || die
+
+	local tk_ver
+	local myconf
+
+	tk_ver="$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2)"
+
+	if use opengl; then
+		GLUT_NEED_INIT="-DNEED_GLUT_INIT"
+		IGNORE_GL_FLAG=""
+		GL_FLAG="-DUSE_GL_TRUE"
+		GL_DIR="${EPREFIX}/usr"
+		GL_LIB="-lglut -lGLU -lGL"
+		GL_INCLUDE_FLAGS="-I\$(GL_DIR)/include"
+		GL_LIB_FLAGS="-L\$(GL_DIR)/$(get_libdir)"
+
+	else
+		IGNORE_GL_FLAG="-DIGNORE_GL"
+		GL_FLAG="-DUSE_GL_FALSE"
+	fi
+
+	GLUT_NOT_IN_GL=""
+	GLUT_FLAG="\$(GLUT_NEED_INIT) \$(GLUT_NOT_IN_GL)"
+
+	rm -rf data model doc license || die
+
+	sed \
+		-e "s|/usr|${EPREFIX}/usr|g" \
+		-e "s|^\(CC =\).*|\1 $(tc-getCC)|g" \
+		-e "s|^\(OPT_FLAG =\).*|\1 ${CFLAGS}|g" \
+		-e "s|^\(LINK_FLAGS =.*\)|\1 ${LDFLAGS}|g" \
+		-e "s|^\(IGNORE_GL_FLAG =\).*|\1 ${IGNORE_GL_FLAG}|g" \
+		-e "s|^\(GL_FLAG =\).*|\1 ${GL_FLAG}|g" \
+		-e "s|^\(GL_DIR =\).*|\1 ${GL_DIR}|g" \
+		-e "s|^\(GL_LIB =\).*|\1 ${GL_LIB}|g" \
+		-e "s|^\(GL_LIB_FLAGS =\).*|\1 ${GL_LIB_FLAGS}|g" \
+		-e "s|^\(GL_INCLUDE_FLAGS =\).*|\1 ${GL_INCLUDE_FLAGS}|g" \
+		-e "s|^\(GLUT_NEED_INIT =\).*|\1 ${GLUT_NEED_INIT}|g" \
+		-e "s|^\(GLUT_NOT_IN_GL =\).*|\1|g" \
+		-e "s|^\(X11_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \
+		-e "s|^\(TCL_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \
+		-e "s|^\(TK_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \
+		-e "s|^\(PYTHON_INCLUDE_FLAGS =\).*|\1 -I${EPREFIX}/$(python_get_includedir)|g" \
+		-e "s|^\(PYTHON_LIB =\).*|\1 $(python_get_library -l)|g" \
+		c/environment_default.txt > c/environment.txt
+}
+
+src_compile() {
+	emake -C c all links || die
+}
+
+src_install() {
+	local libdir
+	local tkver
+	local _wrapper
+
+	find . -name "*.pyc" -type d -delete
+
+	libdir=$(get_libdir)
+	tkver=$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2)
+
+	_wrapper="analysis dangle dataShifter depositionFileImporter eci formatConverter pipe2azara xeasy2azara"
+	use extendnmr && _wrapper="${_wrapper} extendNmr"
+	for wrapper in ${_wrapper}; do
+		sed \
+			-e "s|gentoo_sitedir|${EPREFIX}$(python_get_sitedir)|g" \
+		   -e "s|gentoolibdir|${EPREFIX}/usr/${libdir}|g" \
+			-e "s|gentootk|${EPREFIX}/usr/${libdir}/tk${tkver}|g" \
+			-e "s|gentootcl|${EPREFIX}/usr/${libdir}/tclk${tkver}|g" \
+			-e "s|gentoopython|${EPREFIX}/usr/bin/python|g" \
+			-e "s|gentoousr|${EPREFIX}/usr|g" \
+			-e "s|//|/|g" \
+			"${FILESDIR}"/${wrapper} > "${T}"/${wrapper} || die "Fail fix ${wrapper}"
+		dobin "${T}"/${wrapper} || die "Failed to install ${wrapper}"
+	done
+
+	local in_path
+	local files
+	local pydocs
+
+	pydocs="$(find python -name doc -type d)"
+	rm -rf ${pydocs} || die
+
+	in_path=$(python_get_sitedir)/${PN}
+
+	for i in python/memops/format/compatibility/{Converters,part2/Converters2}.py; do
+	sed \
+		-e 's|#from __future__|from __future__|g' \
+		-i ${i} || die
+	done
+
+	insinto ${in_path}
+
+	dodir ${in_path}/c
+
+	ebegin "Installing main files"
+		doins -r python || die "main files installation failed"
+	eend
+
+	einfo "Adjusting permissions"
+
+	files="
+		cambridge/c/BayesPeakSeparator.so
+		ccp/c/StructUtil.so
+		ccp/c/StructStructure.so
+		ccp/c/StructBond.so
+		ccp/c/StructAtom.so
+		ccpnmr/c/DyAtomCoord.so
+		ccpnmr/c/DyDistConstraint.so
+		ccpnmr/c/DyDistForce.so
+		ccpnmr/c/AtomCoordList.so
+		ccpnmr/c/DyAtomCoordList.so
+		ccpnmr/c/ContourStyle.so
+		ccpnmr/c/ContourLevels.so
+		ccpnmr/c/SliceFile.so
+		ccpnmr/c/PeakCluster.so
+		ccpnmr/c/Dynamics.so
+		ccpnmr/c/Bacus.so
+		ccpnmr/c/Midge.so
+		ccpnmr/c/DyDistConstraintList.so
+		ccpnmr/c/WinPeakList.so
+		ccpnmr/c/PeakList.so
+		ccpnmr/c/DistConstraint.so
+		ccpnmr/c/CloudUtil.so
+		ccpnmr/c/DistForce.so
+		ccpnmr/c/DistConstraintList.so
+		ccpnmr/c/AtomCoord.so
+		ccpnmr/c/DyDynamics.so
+		ccpnmr/c/ContourFile.so
+		memops/c/ShapeFile.so
+		memops/c/BlockFile.so
+		memops/c/PdfHandler.so
+		memops/c/MemCache.so
+		memops/c/FitMethod.so
+		memops/c/PsHandler.so
+		memops/c/GlHandler.so
+		memops/c/StoreFile.so
+		memops/c/StoreHandler.so
+		memops/c/TkHandler.so"
+	for FILE in ${files}; do
+		fperms 755 ${in_path}/python/${FILE}
+	done
+}
+
+pkg_postinst() {
+	python_mod_optimize ${PN}
+}
+
+pkg_postrm() {
+	python_mod_cleanup ${PN}
+}