Update of /cvsroot/fink/dists/10.4/stable/main/finkinfo/sci
In directory vz-cvs-3.sog:/tmp/cvs-serv11572
Modified Files:
coot.info
Log Message:
coot upstream bug fixes for RNA real-space refinement
Index: coot.info
===================================================================
RCS file: /cvsroot/fink/dists/10.4/stable/main/finkinfo/sci/coot.info,v
retrieving revision 1.26
retrieving revision 1.27
diff -u -d -r1.26 -r1.27
--- coot.info 16 Dec 2010 14:53:30 -0000 1.26
+++ coot.info 18 Aug 2011 16:07:19 -0000 1.27
@@ -1,13 +1,13 @@
Package: coot
-Version: 0.6.2-pre-1
-Revision: 290
+Version: 0.7-pre-1
+Revision: 628
SourceDirectory: %n-%v
GCC: 4.0
-# Source: http://lmb.bioch.ox.ac.uk/%n/software/source/releases/%n-0.6.1.tar.gz
-Source:
http://lmb.bioch.ox.ac.uk/%n/software/source/pre-releases/%n-%v-revision-3290.tar.gz
-Source-MD5: 5be756b3b65b3cf477bf328bd81dab41
-Source2: http://www.ysbl.york.ac.uk/refmac/data/refmac_dictionary.tar.gz
-Source2-MD5: d6eab829728608d0b8eade38debcedd3
+#Source: http://lmb.bioch.ox.ac.uk/%n/software/source/releases/%n-0.6.2.tar.gz
+Source:
http://lmb.bioch.ox.ac.uk/%n/software/source/pre-releases/%n-%v-revision-3%r.tar.gz
+Source-MD5: d9188ef3c9251f1930912392502d0caa
+Source2:
http://www.ysbl.york.ac.uk/~garib/refmac/data/refmac_experimental/refmac_dictionary_v5.29.tar.gz
+Source2-MD5: bc3469d0c1ac4104a683b5dcf397edae
Source3:
http://www.ysbl.york.ac.uk/~emsley/software/extras/reference-structures.tar.gz
Source3-MD5: 257ab90d44f1c877ada96720dbb87c13
###############################################################################
@@ -20,8 +20,8 @@
to map contouring and importing/creation and other (modelling) operations. The
mmdb, clipper, ssm and mccp4 libraries are provided in individual fink packages
that replace the now obsolete ccp4-onlylibs-dev fink package. On-line
-documentation is available from the coot Web via the help menu or via the web
-site (see below) and is updated regularly.
+documentation is available from the coot website accessed via the help menu,
+or manually, via the web-site, (see below) and is updated regularly.
.
To have an Aqua-like Coot gtk+2 environment, issue the following command:
echo "include \"%p/share/themes/Glossy_P/gtk-2.0/gtkrc\"">~/.gtkrc-2.0
@@ -52,7 +52,7 @@
giflib ,
glib2-dev (>= 2.14.0-1) ,
glitz ,
- gmp ,
+ gmp5 ,
gsl ,
gtk+2 (>= 2.12.0-1) ,
gtk+2-dev (>= 2.12.0-1) ,
@@ -61,7 +61,6 @@
guile18-dev ,
guile18-lib ,
guile18-gtk-dev (>= 2.0-10) ,
- imlib ,
libart2 (>= 2.3.16-2) ,
libcurl4 ,
libgettext3-dev ,
@@ -71,7 +70,7 @@
libjpeg8 ,
libpng3 ,
librsvg2-gtk (>= 2.20.0-1) ,
- libtool14 ,
+ libtool2 ,
libxml2 ,
pango1-xft2-ft219-dev (>= 1.18.4-1) ,
pixman (>= 0.10.0-1) ,
@@ -92,10 +91,10 @@
coot-shlibs (= %v-%r) ,
fftw-shlibs | fftw-mpi-shlibs ,
freeglut-shlibs ,
- gcc44-shlibs (>= 4.4.0-1000) ,
+ gcc46-shlibs ,
giflib-shlibs ,
glib2-shlibs (>= 2.14.0-1) ,
- gmp-shlibs ,
+ gmp5-shlibs ,
gnome-themes-glossy-p ,
gsl-shlibs ,
gtk+2-shlibs (>= 2.12.0-1) ,
@@ -106,7 +105,6 @@
guile18-gui ,
guile18-lib ,
guile18-shlibs ,
- imlib-shlibs ,
libart2-shlibs ,
libcurl4-shlibs ,
libgettext3-shlibs ,
@@ -116,7 +114,7 @@
libpng3-shlibs ,
librsvg2-shlibs (>= 2.20.0-1) ,
libtiff-shlibs ,
- libtool14-shlibs ,
+ libtool2-shlibs ,
librsvg2-gtk (>= 2.20.0-1) ,
libxml2-shlibs ,
pango1-xft2-ft219-shlibs (>= 1.18.4-1) ,
@@ -140,7 +138,7 @@
--with-gpp4=%p --with-mmdb=%p --with-ssmlib-prefix=%p --with-clipper-prefix=%p
\
--with-fftw=%p --with-gnomecanvas-prefix=%p --with-gtk2 --with-glut-prefix=%p
\
--with-guile-gtk --with-guile-gtk-prefix=%p --with-gl-prefix=/usr/X11R6
\
---with-imlib-prefix=%p --with-gtkgl-prefix=%p --with-glib-prefix=%p
\
+--with-gtkgl-prefix=%p --with-glib-prefix=%p \
--with-gsl-prefix=%p --with-guile --with-python=%p --with-pygtk=%p
<<
###############################################################################
@@ -161,7 +159,7 @@
export
PKG_CONFIG_PATH=%p/lib/pango-ft219/lib/pkgconfig:%p/lib/fontconfig2/lib/pkgconfig:%p/lib/freetype219/lib/pkgconfig:%p/lib/pkgconfig:${PKG_CONFIG_PATH}
FLIBS="-L%p/lib" \
CPPFLAGS="-I%p/include/libglade-2.0/glade -I%p/include/libglade-2.0
-I%p/include/python2.7 -I%p/include/mmdb -I%p/include/ssm
-I%p/include/gpp4/ccp4 -I%p/include/clipper -I%p/include -I/usr/X11R6/include" \
-
LDFLAGS="-Wl,-dylib_file,%p/lib/python2.7/config/libpython2.7.dylib:%p/lib/libsfftw.2.0.7.dylib:%p/lib/libsrfftw.2.0.7.dylib:%p/lib/pango-ft219/lib/libpango-1.0.dylib:%p/lib/pango-ft219/lib/libpangocairo-1.0.dylib:%p/lib/pango-ft219/lib/libpangoft2-1.0.dylib:%p/lib/pango-ft219/lib/libpangox-1.0.dylib:%p/lib/pango-ft219/lib/libpangoxft-1.0.dylib
-L%p/lib/pango-ft219/lib -L%p/lib -L/usr/lib -lSystemStubs -flat_namespace
-L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries" \
+
LDFLAGS="-Wl,-dylib_file,%p/lib/python2.7/config/libpython2.7.dylib:%p/lib/libsfftw.2.0.7.dylib:%p/lib/libsrfftw.2.0.7.dylib:%p/lib/pango-ft219/lib/libpango-1.0.dylib:%p/lib/pango-ft219/lib/libpangocairo-1.0.dylib:%p/lib/pango-ft219/lib/libpangoft2-1.0.dylib:%p/lib/pango-ft219/lib/libpangox-1.0.dylib:%p/lib/pango-ft219/lib/libpangoxft-1.0.dylib
-L%p/lib/pango-ft219/lib -L%p/lib -L/usr/lib -flat_namespace
-L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries" \
DYLD_LIBRARY_PATH="" \
./configure %c
#
@@ -201,7 +199,7 @@
# cp src/coot.py %i/share/coot/python/coot.py
# This installs the refmac monomer library
mkdir -p %i/share/coot/lib/data
-cp -R ../dic %i/share/coot/lib/data/monomers
+cp -R ../monomers %i/share/coot/lib/data/monomers
cp %i/share/coot/lib/data/monomers/ener_lib.cif %i/share/coot/lib/.
# Reference structures should be in %i/share/coot/reference-structures
cp -R ../reference-structures %i/share/coot/.
@@ -214,7 +212,8 @@
echo "export COOT_REFMAC_LIB_DIR=%p/share/coot/lib" >> %i/bin/coot
echo "export COOT_PYTHON_DIR=%p/share/coot/python" >> %i/bin/coot
echo 'export COOT_SBASE_DIR="$CCP4/share/sbase"' >> %i/bin/coot
-echo "export
PYTHONPATH=/System/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6:/System/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5:%p/lib/python2.7/site-packages:%p/lib/python2.7/site-packages/gtk-2.0:%p/share/coot/python:\$PYTHONPATH"
>> %i/bin/coot
+echo "export
PYTHONPATH=%p/lib/python2.7/site-packages:%p/lib/python2.7/site-packages/gtk-2.0:%p/share/coot/python:\$PYTHONPATH"
>> %i/bin/coot
+#echo "export
PYTHONPATH=/System/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6:/System/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5:%p/lib/python2.7/site-packages:%p/lib/python2.7/site-packages/gtk-2.0:%p/share/coot/python:\$PYTHONPATH"
>> %i/bin/coot
echo "%p/bin/coot-real \"\$@\" " >> %i/bin/coot
chmod a+x %i/bin/coot
# Clean up the rest of the mess.
------------------------------------------------------------------------------
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