InCvs

11 files changed, 0 insertions, 373 deletions

diff --git a/sci-chemistry/ghemical/ChangeLog b/sci-chemistry/ghemical/ChangeLog
deleted file mode 100644
index 012896a1c..000000000
--- a/sci-chemistry/ghemical/ChangeLog
+++ /dev/null
@@ -1,18 +0,0 @@
-# ChangeLog for sci-chemistry/ghemical
-# Copyright 1999-2009 Gentoo Foundation; Distributed under the GPL v2
-# $Header: $
-
-*ghemical-2.98 (06 Feb 2009)
-*ghemical-2.95 (06 Feb 2009)
-
-  06 Feb 2009; Reinis Danne <rei4dan@gmail.com>
-  +files/ghemical-2.95-g_threads-246414.patch,
-  +files/ghemical-2.95-import_export-212689.patch,
-  +files/ghemical-2.95-libf2c_config_test-232292.patch,
-  +files/ghemical-2.98-import_export-212689.patch,
-  +files/ghemical-2.98-libf2c_config_test-232292.patch,
-  +files/ghemical-gcc43.patch, +metadata.xml, +ghemical-2.95.ebuild,
-  +ghemical-2.98.ebuild:
-  Added patches from #212689, #232292 and #246414 to ebuilds for
-  ghemical-2.95 and 2.98.
-
diff --git a/sci-chemistry/ghemical/Manifest b/sci-chemistry/ghemical/Manifest
deleted file mode 100644
index a281a4042..000000000
--- a/sci-chemistry/ghemical/Manifest
+++ /dev/null
@@ -1,12 +0,0 @@
-AUX ghemical-2.95-g_threads-246414.patch 553 RMD160 d06e847c0c2f4c445b3e73b624cd81ccec4589b2 SHA1 d523d4e092aaa79581bffeb11283c685065117f0 SHA256 e5bf7ceed065218397b9611c24a390f0ed96ce485a29e945095092dbe38ef188
-AUX ghemical-2.95-import_export-212689.patch 1288 RMD160 abbbce698c8f2eff1e4c35224ccccd8e7411d20b SHA1 5edb4c1f951d0dc6724f78bf5b6a9a544f8c7be7 SHA256 fc487c38e8ac30c2936781aa194b57a2d7f5621ea9af484b7ab734b5dbd819bd
-AUX ghemical-2.95-libf2c_config_test-232292.patch 321 RMD160 366614a65c978602af23d7d8ed3c4135bc226ef5 SHA1 cca2e3cc88ec4d38c4e55a5c3a368e0a62a5cd25 SHA256 3497cdf758fac1aa207f1bb7fca9621e2145402ca346bc5406fff49b6d570a33
-AUX ghemical-2.98-import_export-212689.patch 1288 RMD160 abbbce698c8f2eff1e4c35224ccccd8e7411d20b SHA1 5edb4c1f951d0dc6724f78bf5b6a9a544f8c7be7 SHA256 fc487c38e8ac30c2936781aa194b57a2d7f5621ea9af484b7ab734b5dbd819bd
-AUX ghemical-2.98-libf2c_config_test-232292.patch 321 RMD160 366614a65c978602af23d7d8ed3c4135bc226ef5 SHA1 cca2e3cc88ec4d38c4e55a5c3a368e0a62a5cd25 SHA256 3497cdf758fac1aa207f1bb7fca9621e2145402ca346bc5406fff49b6d570a33
-AUX ghemical-gcc43.patch 403 RMD160 7ed2b8633e0ec98024e97417cd1751cea2a33a96 SHA1 bcb7336fddf379c202abc61a8423d5c9f9be8d91 SHA256 de2ed1a0190a5fb450c88217fa88c62b99c6243c3547776e0f806c1acd0b0630
-DIST ghemical-2.95.tar.gz 2062097 RMD160 866cb26b7980d9cdfc1f73ddc03240df583ded20 SHA1 ac9419292554103f2b9bc7be8dfc921906134351 SHA256 1083bd02aba1a73fe7008a2f23d1b974147ac95f34f7ef2f90d8d2f9a823e8cc
-DIST ghemical-2.98.tar.gz 2065429 RMD160 836e1ec7a45615b58aa4a369d2fc21f5d599fbf4 SHA1 d4212aefe12b4d1f98ce6859e0f0d0a658c64a5d SHA256 2163b321df97698487017d32df77fdf4a9afb385b60f93145fd161a277c7ae82
-EBUILD ghemical-2.95.ebuild 1916 RMD160 c7a1581f426a168184f921b2eec056c3d0bb40f5 SHA1 e8d04b780e343e1415124e30a77d5f54db7e0bee SHA256 48f3967160544ba1cc7a3482d231799e87ef22c5791d0da8101f196878c496c0
-EBUILD ghemical-2.98.ebuild 1903 RMD160 c07a4268703e34f60a0a44d9349840c2e45afa79 SHA1 4094546e55523b25b27c0f916e6f468bf75b3659 SHA256 a34a7731d61fa9a2c66d4d73ec92a59780ccd04cac5ae9d26b591d80e7d760bc
-MISC ChangeLog 677 RMD160 d2aa468f0f2e0661a23fcd9b15d220d08ef4f98d SHA1 857d6eeb3649eeaac8bb82c860d931449f56ff9f SHA256 c6abeb4834485ac321c5a32c6fe4c80785b45434ad8478dbc6727d0c7781a0ea
-MISC metadata.xml 917 RMD160 5ada96e4b3d836e6525a5613076ea6da69e5daec SHA1 bcaf353e9ba29dfa292785049d643f798e46f24a SHA256 3400c4d52b6b7864856cca423c808bbec063fe565bf570411283d66af3771a70
diff --git a/sci-chemistry/ghemical/files/ghemical-2.95-g_threads-246414.patch b/sci-chemistry/ghemical/files/ghemical-2.95-g_threads-246414.patch
deleted file mode 100644
index 7e2c594bd..000000000
--- a/sci-chemistry/ghemical/files/ghemical-2.95-g_threads-246414.patch
+++ /dev/null
@@ -1,26 +0,0 @@
---- src/gtk_main.cpp.orig	2007-05-23 14:21:19.000000000 +0300
-+++ src/gtk_main.cpp	2008-11-11 17:53:02.000000000 +0200
-@@ -33,6 +33,13 @@
- 
- int main(int argc, char ** argv)
- {
-+#ifdef ENABLE_THREADS
-+
-+    g_thread_init(NULL);
-+	gdk_threads_init();
-+
-+#endif	// ENABLE_THREADS
-+
- 	GError * error = NULL;
- 	
- 	GOptionContext * option_context = g_option_context_new("- a GTK2 molecular modelling program");
-@@ -46,9 +53,6 @@
- 	
- #ifdef ENABLE_THREADS
- 	
--	g_thread_init(NULL);
--	gdk_threads_init();
--	
- 	gdk_threads_enter();
- 	
- #endif	// ENABLE_THREADS
diff --git a/sci-chemistry/ghemical/files/ghemical-2.95-import_export-212689.patch b/sci-chemistry/ghemical/files/ghemical-2.95-import_export-212689.patch
deleted file mode 100644
index b643eb623..000000000
--- a/sci-chemistry/ghemical/files/ghemical-2.95-import_export-212689.patch
+++ /dev/null
@@ -1,54 +0,0 @@
---- src/project.cpp	2007-08-16 11:20:00.000000000 +0200
-+++ src/project.cpp	2008-11-10 21:39:15.000000000 +0200
-@@ -307,6 +307,12 @@
- 	ifstream ifile;
- 	ostringstream intermed;
- 	file_trans translator;
-+
-+	// Store the current locale and switch to "C"
-+	
-+	static char my_num_locale[32] = "C";
-+	strcpy(my_num_locale, setlocale(LC_NUMERIC, NULL));
-+	setlocale(LC_NUMERIC, "C");
- 	
- 	if (index == 0)		// Automatic detection
- 	{
-@@ -328,7 +334,13 @@
- 	}
- 	
- 	istringstream interInput(intermed.str());
--	return ReadGPR((* this), interInput, false);
-+	bool retval = ReadGPR((* this), interInput, false);
-+
-+	// Change back to the original locale
-+	
-+	setlocale(LC_NUMERIC, my_num_locale);
-+
-+	return retval;
- }
- 
- bool project::ExportFile(const char * filename, int index)
-@@ -337,6 +349,12 @@
- 	stringstream intermed;
- 	file_trans translator;
- 	
-+	// Store the current locale and switch to "C"
-+	
-+	static char my_num_locale[32] = "C";
-+	strcpy(my_num_locale, setlocale(LC_NUMERIC, NULL));
-+	setlocale(LC_NUMERIC, "C");
-+
- 	WriteGPR_v100((* this), intermed);		// this is for openbabel-1.100.2
- 	istringstream interInput(intermed.str());
- 	
-@@ -359,6 +377,10 @@
- 		ofile.close();
- 	}
- 	
-+	// Change back to the original locale
-+	
-+	setlocale(LC_NUMERIC, my_num_locale);
-+
- 	return true;
- }
- 
diff --git a/sci-chemistry/ghemical/files/ghemical-2.95-libf2c_config_test-232292.patch b/sci-chemistry/ghemical/files/ghemical-2.95-libf2c_config_test-232292.patch
deleted file mode 100644
index c847e9eb7..000000000
--- a/sci-chemistry/ghemical/files/ghemical-2.95-libf2c_config_test-232292.patch
+++ /dev/null
@@ -1,13 +0,0 @@
---- configure.ac.orig	2008-07-17 22:34:51.000000000 -0400
-+++ configure.ac	2008-07-17 22:35:56.000000000 -0400
-@@ -83,6 +83,9 @@
- 
- AC_CHECK_LIB(X11,XOpenDisplay,,[AC_MSG_ERROR([X11 library missing])])
- 
-+## Need libf2c for MOPAC
-+AC_CHECK_LIB(f2c,i_len)
-+
- ## are the rest necessary???
- 
- AC_CHECK_LIB(Xmu,XmuDrawLogo)
-
diff --git a/sci-chemistry/ghemical/files/ghemical-2.98-import_export-212689.patch b/sci-chemistry/ghemical/files/ghemical-2.98-import_export-212689.patch
deleted file mode 100644
index b643eb623..000000000
--- a/sci-chemistry/ghemical/files/ghemical-2.98-import_export-212689.patch
+++ /dev/null
@@ -1,54 +0,0 @@
---- src/project.cpp	2007-08-16 11:20:00.000000000 +0200
-+++ src/project.cpp	2008-11-10 21:39:15.000000000 +0200
-@@ -307,6 +307,12 @@
- 	ifstream ifile;
- 	ostringstream intermed;
- 	file_trans translator;
-+
-+	// Store the current locale and switch to "C"
-+	
-+	static char my_num_locale[32] = "C";
-+	strcpy(my_num_locale, setlocale(LC_NUMERIC, NULL));
-+	setlocale(LC_NUMERIC, "C");
- 	
- 	if (index == 0)		// Automatic detection
- 	{
-@@ -328,7 +334,13 @@
- 	}
- 	
- 	istringstream interInput(intermed.str());
--	return ReadGPR((* this), interInput, false);
-+	bool retval = ReadGPR((* this), interInput, false);
-+
-+	// Change back to the original locale
-+	
-+	setlocale(LC_NUMERIC, my_num_locale);
-+
-+	return retval;
- }
- 
- bool project::ExportFile(const char * filename, int index)
-@@ -337,6 +349,12 @@
- 	stringstream intermed;
- 	file_trans translator;
- 	
-+	// Store the current locale and switch to "C"
-+	
-+	static char my_num_locale[32] = "C";
-+	strcpy(my_num_locale, setlocale(LC_NUMERIC, NULL));
-+	setlocale(LC_NUMERIC, "C");
-+
- 	WriteGPR_v100((* this), intermed);		// this is for openbabel-1.100.2
- 	istringstream interInput(intermed.str());
- 	
-@@ -359,6 +377,10 @@
- 		ofile.close();
- 	}
- 	
-+	// Change back to the original locale
-+	
-+	setlocale(LC_NUMERIC, my_num_locale);
-+
- 	return true;
- }
- 
diff --git a/sci-chemistry/ghemical/files/ghemical-2.98-libf2c_config_test-232292.patch b/sci-chemistry/ghemical/files/ghemical-2.98-libf2c_config_test-232292.patch
deleted file mode 100644
index c847e9eb7..000000000
--- a/sci-chemistry/ghemical/files/ghemical-2.98-libf2c_config_test-232292.patch
+++ /dev/null
@@ -1,13 +0,0 @@
---- configure.ac.orig	2008-07-17 22:34:51.000000000 -0400
-+++ configure.ac	2008-07-17 22:35:56.000000000 -0400
-@@ -83,6 +83,9 @@
- 
- AC_CHECK_LIB(X11,XOpenDisplay,,[AC_MSG_ERROR([X11 library missing])])
- 
-+## Need libf2c for MOPAC
-+AC_CHECK_LIB(f2c,i_len)
-+
- ## are the rest necessary???
- 
- AC_CHECK_LIB(Xmu,XmuDrawLogo)
-
diff --git a/sci-chemistry/ghemical/files/ghemical-gcc43.patch b/sci-chemistry/ghemical/files/ghemical-gcc43.patch
deleted file mode 100644
index 93557d487..000000000
--- a/sci-chemistry/ghemical/files/ghemical-gcc43.patch
+++ /dev/null
@@ -1,14 +0,0 @@
---- src-orig/pangofont_wcl.cpp  2008-11-30 16:15:23.932475487 -0600
-+++ src/pangofont_wcl.cpp       2008-11-30 16:16:09.620396370 -0600
-@@ -22,6 +22,10 @@
- 
- #include <gtk/gtkgl.h>
- 
-+#include <string.h>
-+
-+#include <cstdlib>
-+using namespace std;
- /*################################################################################################*/
- 
- pangofont_wcl::pangofont_wcl(ogl_camera * cam) :
-
diff --git a/sci-chemistry/ghemical/ghemical-2.95.ebuild b/sci-chemistry/ghemical/ghemical-2.95.ebuild
deleted file mode 100644
index 63b6fbd74..000000000
--- a/sci-chemistry/ghemical/ghemical-2.95.ebuild
+++ /dev/null
@@ -1,74 +0,0 @@
-# Copyright 1999-2009 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: $
-
-inherit eutils flag-o-matic autotools
-
-DESCRIPTION="Chemical quantum mechanics and molecular mechanics"
-HOMEPAGE="http://bioinformatics.org/ghemical/"
-
-SRC_URI="http://bioinformatics.org/ghemical/download/current/${P}.tar.gz"
-LICENSE="GPL-2"
-
-SLOT="0"
-
-KEYWORDS="~amd64 ~x86"
-IUSE="threads openbabel seamonkey"
-RDEPEND="virtual/glut
-	virtual/glu
-	virtual/opengl
-	sci-chemistry/mpqc
-	x11-libs/libICE
-	x11-libs/libSM
-	x11-libs/libX11
-	x11-libs/libXext
-	x11-libs/libXi
-	x11-libs/libXmu
-	x11-libs/libXt
-	x11-libs/pango
-	>=x11-libs/gtk+-2.6
-	>=x11-libs/gtkglext-1.0.5
-	>=gnome-base/libglade-2.4
-	>=sci-libs/libghemical-2.96
-	>=x11-libs/liboglappth-0.96
-	openbabel? ( >=sci-chemistry/openbabel-2 )
-	threads? ( >=dev-libs/glib-2.4 )"
-
-DEPEND="${RDEPEND}
-	>=dev-util/pkgconfig-0.15"
-
-src_unpack() {
-	unpack ${A}
-	cd "${S}"
-
-	epatch "${FILESDIR}/${P}-import_export-212689.patch" || die "Faild to apply ${P}-import_export-212689.patch"
-	epatch "${FILESDIR}/${P}-libf2c_config_test-232292.patch" || die "Failed to apply ${P}-libf2c_config_test-232292.patch"
-	epatch "${FILESDIR}/${P}-g_threads-246414.patch" || die "Failed to apply ${P}-g_threads-246414.patch"
-
-	eautoreconf
-}
-
-src_compile() {
-
-# With amd64, if you want gamess I recommend adding gamess and gtk-gamess to package.provided for now.
-
-# Change the built-in help browser.
-	if use seamonkey ; then
-		sed -i -e 's|mozilla|seamonkey|g' src/gtk_app.cpp || die "sed failed for seamonkey!"
-	else
-		sed -i -e 's|mozilla|firefox|g' src/gtk_app.cpp || die "sed failed for seamonkey!"
-	fi
-
-	# For libf2c
-	append-ldflags -Xlinker -defsym -Xlinker MAIN__=main
-
-	econf \
-		$(use_enable openbabel) \
-		$(use_enable threads) \
-		|| die "configure failed"
-	emake || die "make failed"
-}
-
-src_install() {
-	emake DESTDIR="${D}" install || die "install failed"
-}
diff --git a/sci-chemistry/ghemical/ghemical-2.98.ebuild b/sci-chemistry/ghemical/ghemical-2.98.ebuild
deleted file mode 100644
index c07d72cfe..000000000
--- a/sci-chemistry/ghemical/ghemical-2.98.ebuild
+++ /dev/null
@@ -1,74 +0,0 @@
-# Copyright 1999-2009 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: $
-
-inherit eutils flag-o-matic autotools
-
-DESCRIPTION="Chemical quantum mechanics and molecular mechanics"
-HOMEPAGE="http://bioinformatics.org/ghemical/"
-
-SRC_URI="http://bioinformatics.org/ghemical/download/current/${P}.tar.gz"
-LICENSE="GPL-2"
-
-SLOT="0"
-
-KEYWORDS="~amd64 ~x86"
-IUSE="threads openbabel seamonkey"
-RDEPEND="virtual/glut
-	virtual/glu
-	virtual/opengl
-	sci-chemistry/mpqc
-	x11-libs/libICE
-	x11-libs/libSM
-	x11-libs/libX11
-	x11-libs/libXext
-	x11-libs/libXi
-	x11-libs/libXmu
-	x11-libs/libXt
-	x11-libs/pango
-	>=x11-libs/gtk+-2.6
-	>=x11-libs/gtkglext-1.0.5
-	>=gnome-base/libglade-2.4
-	>=sci-libs/libghemical-2.96
-	>=x11-libs/liboglappth-0.96
-	openbabel? ( >=sci-chemistry/openbabel-2 )
-	threads? ( >=dev-libs/glib-2.4 )"
-
-DEPEND="${RDEPEND}
-	>=dev-util/pkgconfig-0.15"
-
-src_unpack() {
-	unpack ${A}
-	cd "${S}"
-
-	epatch "${FILESDIR}/ghemical-gcc43.patch" || die "Failed to apply ghemical-gcc43.patch"
-	epatch "${FILESDIR}/${P}-import_export-212689.patch" || die "Failed to apply ${P}-import_export-212689.patch"
-	epatch "${FILESDIR}/${P}-libf2c_config_test-232292.patch" || die "Failed to apply ${P}-libf2c_config_test-232292.patch"
-
-	eautoreconf
-}
-
-src_compile() {
-
-# With amd64, if you want gamess I recommend adding gamess and gtk-gamess to package.provided for now.
-
-# Change the built-in help browser.
-	if use seamonkey ; then
-		sed -i -e 's|mozilla|seamonkey|g' src/gtk_app.cpp || die "sed failed for seamonkey!"
-	else
-		sed -i -e 's|mozilla|firefox|g' src/gtk_app.cpp || die "sed failed for seamonkey!"
-	fi
-
-	# For libf2c
-	append-ldflags -Xlinker -defsym -Xlinker MAIN__=main
-
-	econf \
-		$(use_enable openbabel) \
-		$(use_enable threads) \
-		|| die "configure failed"
-	emake || die "make failed"
-}
-
-src_install() {
-	emake DESTDIR="${D}" install || die "install failed"
-}
diff --git a/sci-chemistry/ghemical/metadata.xml b/sci-chemistry/ghemical/metadata.xml
deleted file mode 100644
index 962798860..000000000
--- a/sci-chemistry/ghemical/metadata.xml
+++ /dev/null
@@ -1,21 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-<herd>sci-chemistry</herd>
-<longdescription>
-Ghemical supports both quantum-mechanics (semi-empirical and ab initio) models 
-and molecular mechanics models (there is an experimental Tripos 5.2-like force 
-field for organic molecules). Also a tool for reduced protein models is 
-included. Geometry optimization, molecular dynamics and a large set of 
-visualization tools are currently available.
-</longdescription>
-<use>
-  <flag name='gamess'>Add GAMESS interface for QM/MM
-    (<pkg>sci-chemistry/gamess</pkg>)</flag>
-  <flag name='mopac7'>Apply compilation fix for
-    <pkg>sci-chemistry/mopac7</pkg> support</flag>
-  <flag name='openbabel'>Use <pkg>sci-chemistry/openbabel</pkg> for file
-    conversions</flag>
-  <flag name='toolbar'>Build the shortcuts toolbar</flag>
-</use>
-</pkgmetadata>