Fix for missing StripXml, #375903

(Portage version: 2.2.0_alpha46/cvs/Linux x86_64)

4 files changed, 65 insertions, 8 deletions

diff --git a/sci-chemistry/balbes/ChangeLog b/sci-chemistry/balbes/ChangeLog
index 3c56c20d2353..eb69efa205ab 100644
--- a/sci-chemistry/balbes/ChangeLog
+++ b/sci-chemistry/balbes/ChangeLog
@@ -1,6 +1,13 @@
 # ChangeLog for sci-chemistry/balbes
 # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/balbes/ChangeLog,v 1.8 2011/06/21 16:05:18 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/balbes/ChangeLog,v 1.9 2011/07/23 12:29:01 jlec Exp $
+
+*balbes-1.0.0_p100317-r2 (23 Jul 2011)
+
+  23 Jul 2011; Justin Lecher <jlec@gentoo.org>
+  +files/pyxml-0.8.4-python-2.6.patch, -balbes-1.0.0_p100317-r1.ebuild,
+  +balbes-1.0.0_p100317-r2.ebuild, metadata.xml:
+  Fix for missing StripXml, #375903
 
   21 Jun 2011; Justin Lecher <jlec@gentoo.org> balbes-1.0.0_p100317-r1.ebuild:
   Add dependency on virtual/fortran
diff --git a/sci-chemistry/balbes/balbes-1.0.0_p100317-r1.ebuild b/sci-chemistry/balbes/balbes-1.0.0_p100317-r2.ebuild
index e30fc1e2c0f3..bd15687e2870 100644
--- a/sci-chemistry/balbes/balbes-1.0.0_p100317-r1.ebuild
+++ b/sci-chemistry/balbes/balbes-1.0.0_p100317-r2.ebuild
@@ -1,8 +1,8 @@
 # Copyright 1999-2011 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/balbes/balbes-1.0.0_p100317-r1.ebuild,v 1.5 2011/06/21 16:05:18 jlec Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/balbes/balbes-1.0.0_p100317-r2.ebuild,v 1.1 2011/07/23 12:29:01 jlec Exp $
 
-EAPI="3"
+EAPI=3
 
 CCP4VER="6.1.3"
 PYTHON_DEPEND="2"
@@ -20,6 +20,8 @@ KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
 LICENSE="ccp4"
 IUSE=""
 
+# bundled PyXML is modified and cannot be replaced
+
 COMMON_DEPEND="
 	sci-libs/ccp4-libs
 	virtual/fortran"
@@ -39,23 +41,43 @@ pkg_setup() {
 
 src_unpack() {
 	unpack ${P}.tar.gz
-	tar xvzf "${DISTDIR}"/ccp4-${CCP4VER}-core-src.tar.gz ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/bin_py/balbes
+	tar xvzf "${DISTDIR}"/ccp4-${CCP4VER}-core-src.tar.gz \
+		ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/bin_py \
+		ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/PyXML-0.8.4
 	python_convert_shebangs 2 "${WORKDIR}"/ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/bin_py/balbes
 }
 
 src_prepare() {
 	mkdir "${WORKDIR}"/bin || die
 	epatch "${FILESDIR}"/${PV}-makefile.patch
+	cd "${WORKDIR}"/ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/
+	epatch "${FILESDIR}"/pyxml-0.8.4-python-2.6.patch
 }
 
 src_compile() {
 	emake \
 		BLANC_FORT="$(tc-getFC) ${FFLAGS}" || die
+	cd "${WORKDIR}"/ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/PyXML-0.8.4
+	find build -delete
+	$(PYTHON) setup.py build
+	find xml/xslt test -delete
 }
 
 src_install() {
+	insinto /usr/share/balbes/BALBES_0.0.1/
+	doins -r \
+		 "${WORKDIR}"/ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/bin_py \
+		 "${WORKDIR}"/ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/PyXML-0.8.4 || die
 	dobin \
 		"${WORKDIR}"/bin/* \
 		"${WORKDIR}"/ccp4-${CCP4VER}/share/balbes/BALBES_0.0.1/bin_py/balbes \
 		|| die
 }
+
+pkg_postinst() {
+	python_mod_optimize /usr/share/balbes/BALBES_0.0.1/{bin_py,PyXML-0.8.4}
+}
+
+pkg_postrm() {
+	python_mod_cleanup /usr/share/balbes/BALBES_0.0.1/{bin_py,PyXML-0.8.4}
+}
diff --git a/sci-chemistry/balbes/files/pyxml-0.8.4-python-2.6.patch b/sci-chemistry/balbes/files/pyxml-0.8.4-python-2.6.patch
new file mode 100644
index 000000000000..d29b0b6a9eb2
--- /dev/null
+++ b/sci-chemistry/balbes/files/pyxml-0.8.4-python-2.6.patch
@@ -0,0 +1,28 @@
+diff -rupN PyXML-0.8.4-old/xml/xpath/ParsedAbbreviatedAbsoluteLocationPath.py PyXML-0.8.4/xml/xpath/ParsedAbbreviatedAbsoluteLocationPath.py
+--- PyXML-0.8.4-old/xml/xpath/ParsedAbbreviatedAbsoluteLocationPath.py	2008-12-15 16:54:36.000000000 +0900
++++ PyXML-0.8.4/xml/xpath/ParsedAbbreviatedAbsoluteLocationPath.py	2008-12-15 16:57:02.000000000 +0900
+@@ -24,8 +24,8 @@ class ParsedAbbreviatedAbsoluteLocationP
+         self._rel = rel
+         nt = ParsedNodeTest.ParsedNodeTest('node', '')
+         ppl = ParsedPredicateList.ParsedPredicateList([])
+-        as = ParsedAxisSpecifier.ParsedAxisSpecifier('descendant-or-self')
+-        self._step = ParsedStep.ParsedStep(as, nt, ppl)
++        as_ = ParsedAxisSpecifier.ParsedAxisSpecifier('descendant-or-self')
++        self._step = ParsedStep.ParsedStep(as_, nt, ppl)
+         return
+ 
+     def evaluate(self, context):
+diff -rupN PyXML-0.8.4-old/xml/xpath/ParsedAbbreviatedRelativeLocationPath.py PyXML-0.8.4/xml/xpath/ParsedAbbreviatedRelativeLocationPath.py
+--- PyXML-0.8.4-old/xml/xpath/ParsedAbbreviatedRelativeLocationPath.py	2008-12-15 16:54:36.000000000 +0900
++++ PyXML-0.8.4/xml/xpath/ParsedAbbreviatedRelativeLocationPath.py	2008-12-15 16:58:58.000000000 +0900
+@@ -28,8 +28,8 @@ class ParsedAbbreviatedRelativeLocationP
+         self._right = right
+         nt = ParsedNodeTest.ParsedNodeTest('node','')
+         ppl = ParsedPredicateList.ParsedPredicateList([])
+-        as = ParsedAxisSpecifier.ParsedAxisSpecifier('descendant-or-self')
+-        self._middle = ParsedStep.ParsedStep(as, nt, ppl)
++        as_ = ParsedAxisSpecifier.ParsedAxisSpecifier('descendant-or-self')
++        self._middle = ParsedStep.ParsedStep(as_, nt, ppl)
+ 
+     def evaluate(self, context):
+         res = []
diff --git a/sci-chemistry/balbes/metadata.xml b/sci-chemistry/balbes/metadata.xml
index deb657090e7d..4bb6be5e5d0c 100644
--- a/sci-chemistry/balbes/metadata.xml
+++ b/sci-chemistry/balbes/metadata.xml
@@ -2,10 +2,10 @@
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
 	<herd>sci-chemistry</herd>
-<maintainer>
-  <email>jlec@gentoo.org</email>
-</maintainer>
-<longdescription>
+	<maintainer>
+		<email>jlec@gentoo.org</email>
+	</maintainer>
+	<longdescription>
 	BALBES is a system for solving protein structures using x-ray 
 	crystalographic data. Molecular Replacement(MR) is its core 
 	scientific method. BALBES aims to integrate all components,