Move symlink createtion to the data package

Package-Manager: portage-2.2.0_alpha59/cvs/Linux x86_64

4 files changed, 446 insertions, 5 deletions

diff --git a/sci-chemistry/ccpn/ChangeLog b/sci-chemistry/ccpn/ChangeLog
index cd83b35f8817..07c1db3268a1 100644
--- a/sci-chemistry/ccpn/ChangeLog
+++ b/sci-chemistry/ccpn/ChangeLog
@@ -1,6 +1,17 @@
 # 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 1.68 2011/09/27 08:26:00 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ChangeLog,v 1.69 2011/09/28 14:17:21 jlec Exp $
+
+  28 Sep 2011; Justin Lecher <jlec@gentoo.org> +ccpn-2.1.5_p110928.ebuild,
+  +ccpn-2.2.1_p110928.ebuild:
+  Move symlink createtion to the data package
+
+*ccpn-2.2.1_p110928 (28 Sep 2011)
+*ccpn-2.1.5_p110928 (28 Sep 2011)
+
+  28 Sep 2011; Justin Lecher <jlec@gentoo.org> +ccpn-2.1.5_p110928.ebuild,
+  +ccpn-2.2.1_p110928.ebuild:
+  Move symlink create to the data package
 
 *ccpn-2.2.1_p110926 (27 Sep 2011)
 *ccpn-2.1.5_p110926 (27 Sep 2011)
diff --git a/sci-chemistry/ccpn/Manifest b/sci-chemistry/ccpn/Manifest
index 0e28d5304458..81c96eeb79cf 100644
--- a/sci-chemistry/ccpn/Manifest
+++ b/sci-chemistry/ccpn/Manifest
@@ -24,28 +24,32 @@ DIST ccpn-update-2.1.5-110629.patch.bz2 86224 RMD160 d4cb190ce84f62639d77f659247
 DIST ccpn-update-2.1.5-110817.patch.bz2 88191 RMD160 9fe24e51a1416cdde25ac6d25c2764840c1a00ef SHA1 d16956e6ad7530d17c9e46b877eaf993959f49a2 SHA256 176fd4488c40d7eb426df353d85a05ddb8e4b4126f32264c9d536bf1799fe44c
 DIST ccpn-update-2.1.5-110905.patch.bz2 99670 RMD160 d3163c0d2d07661e318fa101267ef9dba6d05244 SHA1 3b61f72e66bf56c8c2799b864eef91643a30f367 SHA256 c2fa8f6c3f9826747e9f244a46b7ab701ff83dabc36f8ae534db0d76239c5da9
 DIST ccpn-update-2.1.5-110926.patch.bz2 99882 RMD160 8e1aa7563ea395c9ef68c87fb4d400d8d8ddc3ec SHA1 efafa90ae1edd7bf0be0bffad76c27c514b47213 SHA256 cff2cec1728fa92636ec4b89d638238755ae055c12b8453298c3ee9daceac012
+DIST ccpn-update-2.1.5-110928.patch.xz 96260 RMD160 fdbf92ec90bcf4e0aae2aefcbc61dd71befbea80 SHA1 c6130a35c614222b98c1091f324efac1a28b1a93 SHA256 a6f5928dd0795e8842d446ddc27712b40bccb01ef9a48235d24f54b8b8957313
 DIST ccpn-update-2.2.1-110602.patch.bz2 57084 RMD160 502c9ca948caf7be5e87759222982a952dd81bc2 SHA1 31725499eba0bb851357227fc4db274121a32240 SHA256 591be1c0c5dfea56c7fa8aec5da154a2a7263a11e8e20ff2a71a2e6e484c6e00
 DIST ccpn-update-2.2.1-110629.patch.bz2 66050 RMD160 8d3b37d9c848f177b4c35f36eccd1026500af0b4 SHA1 66371f52b15ec8c689c1634fa30f6679c4e8c681 SHA256 99280022b594a45d1bdb9811f0f78851a8cb8282476c521987def7ab13cb0dac
 DIST ccpn-update-2.2.1-110817.patch.bz2 77149 RMD160 69c2417ca700129d9c53f90d5be665b2192ae0c0 SHA1 b61874c4753251ac08fd4549f6b656352e462ece SHA256 f08b1082435546c605d516167617cdf5b163aa820150718fa8e205cd4f9a3232
 DIST ccpn-update-2.2.1-110905.patch.bz2 78329 RMD160 295a3057f4ccd0ad89a3bc75a9992351953be891 SHA1 b7f1e545777d5850564475ce5fb495c0f516a748 SHA256 e3823d29f58a2f6adb3a1855c6665604d8cff8a7f26af75f2b8c6c990a58a36f
 DIST ccpn-update-2.2.1-110926.patch.bz2 79805 RMD160 2eb19fe8cc1bcf98dba2aa892f41cef16ababd01 SHA1 09199cec4c733befb32558d5138fff93a94fa03f SHA256 5e8b44399cb0fd3b0a20405c3c65428aefd3a47445a003e40f4caac2fe77fd41
+DIST ccpn-update-2.2.1-110928.patch.xz 73556 RMD160 c0fc370a3b4b93f5c42f6f4820513e0203d5f480 SHA1 cabb6f89cd2621c4380f3546e8d38e413502f339 SHA256 50af2ca7ed5b2af7772e0111c7dcd7aadbf55f90f0a623f6642dc9d042fff9ce
 EBUILD ccpn-2.1.3.1_p100806.ebuild 5188 RMD160 b66825e37b79a5f6ec6635b9f3236d1cda2da672 SHA1 458f516ffad25d9283b21c9dfb8e50c6323f4264 SHA256 ff57abefefd3bb128a3f96bf039cbaa5ed97350f6b41fdbdd4b4365ff9e68e51
 EBUILD ccpn-2.1.5_p110602.ebuild 5794 RMD160 8a28dce36877c1bf37a188364d831322f6a88049 SHA1 a5bbc2015b8b7f7f8a11e9a6297be2f80edcf585 SHA256 6c28d2dfd433267d1dcd5ba25de0ae6a8dcfd312df2943cca70e2eb896b2343b
 EBUILD ccpn-2.1.5_p110629.ebuild 5794 RMD160 a4bc4bfc58ac834cb2551366e8eaf59eb9079f6f SHA1 679454b9f8f7317ebb4b75d9729efe2ccd8fcd1e SHA256 4eb9b69f024bf309d9f88468528aeecffa03f14e96d59a5fca3ce8733e7f6bf0
 EBUILD ccpn-2.1.5_p110817.ebuild 5794 RMD160 d18b5e31dcb31eeaff5dc88a26ce2e5db7147906 SHA1 f2485d1ba0d0a7110b1947019770e045e43f8e2c SHA256 8c8a13a96ea4b5707879a422245117491ca4b87f46b3aa2a63e74379ffcc5de1
 EBUILD ccpn-2.1.5_p110905.ebuild 5794 RMD160 5b40785ae8c0471b54e19fa04f0ed008a50f1aa5 SHA1 a728c6529fb566c5537dd6e8c4c0fc75d5725bef SHA256 e009253f4bc3c8b50af8a036a457ec81cb70e06cdd2156e8d8a336acc8e8b16a
 EBUILD ccpn-2.1.5_p110926.ebuild 5971 RMD160 632413ffb550cfc36299c2107b430c4eb3ae3bdf SHA1 5e6c3fa4d68ee075c785d4101740f36698bc9098 SHA256 4891223c20b5be543e892f746dc59d5b4d2dd34b45f492e0593852bbda103197
+EBUILD ccpn-2.1.5_p110928.ebuild 5727 RMD160 d339eadadecfd10dca4de1517ebaacb359dbc54f SHA1 5898d4814e82c4d67f209c2da502dd3041a7ecdb SHA256 140eb320ff25cc5d8b3e643047006be8b00fd82e271a2bab4a9a0117d22ff9ca
 EBUILD ccpn-2.2.1_p110602.ebuild 5806 RMD160 ad1b5507ba8c6534023cf02498a1689ebad49b71 SHA1 18935d2bb4af71fd0063927084d5bb1a454672dc SHA256 e5d6eae560e472bfa730454d37dad7d7979ded74a2fa7bbcec963332d68d7c0d
 EBUILD ccpn-2.2.1_p110629.ebuild 5806 RMD160 a63bf6ce2b38cfb5a39a1b98a0666d492fd90c87 SHA1 695710527df0138d62a448870e0a3809aab1ccae SHA256 fad2ae44188fa8fd22f1d0096c9d2164ea947e57f170683e08781fb7f1364f60
 EBUILD ccpn-2.2.1_p110817.ebuild 5806 RMD160 397603fb9fea25aea0c5a9d92029a535e2ae7aa2 SHA1 376860302c8aab8fc0a3bcd33931eff158c4459a SHA256 ae98ca1bd9383d1d16051f66e9056bb37884261514e6aec469dfb2a9ebaeb318
 EBUILD ccpn-2.2.1_p110905.ebuild 5806 RMD160 12307b04226e935f4b81649515a0cfbfc6d1b26c SHA1 fe299ba1ab0dbe330dbe3170e74d0488943291ae SHA256 e770d80a032174cdd5e533afd5d70caa8e8913e44544eb151c02334ef770480f
 EBUILD ccpn-2.2.1_p110926.ebuild 5983 RMD160 3a1f53b1e71cb58c3d8668ef73bd4a13bb70c19c SHA1 cae4a96243081a557393fe8c522f67539bfcec29 SHA256 070cb02b41dc1361a82c8450d120de472639114bf0059c1b83d17ddf78814e19
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diff --git a/sci-chemistry/ccpn/ccpn-2.1.5_p110928.ebuild b/sci-chemistry/ccpn/ccpn-2.1.5_p110928.ebuild
new file mode 100644
index 000000000000..57f21311f6b5
--- /dev/null
+++ b/sci-chemistry/ccpn/ccpn-2.1.5_p110928.ebuild
@@ -0,0 +1,213 @@
+# 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_p110928.ebuild,v 1.1 2011/09/28 14:17:21 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"
+HOMEPAGE="http://www.ccpn.ac.uk/ccpn"
+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"
+
+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-"${MY_MAJOR}"*
+	>=sci-libs/ccpn-data-${PVR}
+	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="${RDEPEND}"
+PDEPEND="
+	extendnmr? (
+		sci-chemistry/aria
+		sci-chemistry/prodecomp )"
+
+RESTRICT="mirror"
+
+S="${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" \
+		-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=$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2)
+
+	_wrapper="analysis dangle dataShifter depositionFileImporter eci formatConverter pipe2azara"
+	use extendnmr && _wrapper="${_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}
+}
diff --git a/sci-chemistry/ccpn/ccpn-2.2.1_p110928.ebuild b/sci-chemistry/ccpn/ccpn-2.2.1_p110928.ebuild
new file mode 100644
index 000000000000..2aa3c4422546
--- /dev/null
+++ b/sci-chemistry/ccpn/ccpn-2.2.1_p110928.ebuild
@@ -0,0 +1,213 @@
+# 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_p110928.ebuild,v 1.1 2011/09/28 14:17:21 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-"${MY_MAJOR}"*
+	>=sci-libs/ccpn-data-${PVR}
+	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="${RDEPEND}"
+PDEPEND="
+	extendnmr? (
+		sci-chemistry/aria
+		sci-chemistry/prodecomp )"
+
+RESTRICT="mirror"
+
+S="${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" \
+		-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}
+}