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Update to 0.90

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This commit is contained in:
Maho Nakata 2003-07-24 07:06:17 +00:00
parent 5d07337364
commit 7f03690b18
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=85511
4 changed files with 362 additions and 343 deletions
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2
biology/pymol/Makefile
View file

@ -5,7 +5,7 @@
# $FreeBSD$
PORTNAME= pymol
PORTVERSION= 0.86
PORTVERSION= 0.90
CATEGORIES= biology python
MASTER_SITES= ${MASTER_SITE_SOURCEFORGE}
MASTER_SITE_SUBDIR= pymol

2
biology/pymol/distinfo
View file

@ -1 +1 @@
MD5 (pymol-0_86-src.tgz) = 7610bb7689230eff2ec945236fdce0b8
MD5 (pymol-0_90-src.tgz) = be181d10df622b011725d9541da22070

38
biology/pymol/files/patch-Rules.make
View file

@ -1,6 +1,6 @@
--- Rules.make.orig Wed Apr 30 11:42:37 2003
+++ Rules.make Wed Apr 30 11:52:50 2003
@@ -4,42 +4,42 @@
--- Rules.make.orig Thu Jul 24 15:21:01 2003
+++ Rules.make Thu Jul 24 15:27:58 2003
@@ -4,22 +4,22 @@
#
#- Building ----------------------------------------------------------
#--- Tell "make" how to get to PyMOL
@ -19,32 +19,23 @@
+PYTHON_EXE = $(PYMOL_PATH)/bin/python
PYTHON_LIB =
PYTHON_LIB_DIR =
-PYTHON_INC_DIR = -I$(PYMOL_PATH)/ext/include/python2.1 \
- -I$(PYMOL_PATH)/ext/include/python2.1/Numeric
-PYTHON_INC_DIR = -I$(PYMOL_PATH)/ext/include/python2.2 \
- -I$(PYMOL_PATH)/ext/include/python2.2/Numeric
+PYTHON_INC_DIR = -I$(PYMOL_PATH)/include/@PYTHON_VERSION@ \
+ -I$(PYMOL_PATH)/include/@PYTHON_VERSION@/Numeric
#--- Other external dependencies
-EXT_INC_DIR = -I$(PYMOL_PATH)/ext/include
-EXT_LIB_DIR = -L$(PYMOL_PATH)/ext/lib
+EXT_INC_DIR = -I$(PYMOL_PATH)/include -I.
+EXT_INC_DIR = -I$(PYMOL_PATH)/include
+EXT_LIB_DIR = -L$(PYMOL_PATH)/lib
#---------------------------------------------------------------------
#
-#- Build for LINUX as an importable module ---------------------------
+#- Build for FreeBSD as an importable module ---------------------------
#--- System libraries
-LIBS = $(PYTHON_LIB) -lglut -lGL -lGLU -ldl -lpng -lXmu $(ZLIB) -lm
+LIBS = $(PYTHON_LIB) -lglut -lGL -lGLU -lpng -lXmu $(ZLIB) -lm
#--- PyMOL configuration
DEFS = -D_PYMOL_MODULE -D_PYMOL_NUMPY
#--- How we build shared libraries
BUILD = -shared
#- Build for LINUX as an importable module ---------------------------
@@ -32,14 +32,14 @@
#--- What are we trying to build?
-DEST = -o modules/pymol/_cmd.so
-#--- Gcc Options for Linux
DEST = -o modules/pymol/_cmd.so
#--- Gcc Options for Linux
-CCOPT1 = -march=i486 -D__i686__ -ffast-math -Wall -ansi -Wmissing-prototypes
+DEST = -o modules/_cmd.so
+#--- Gcc Options for FreeBSD
+CCOPT1 = #-march=i486 -D__i686__ -ffast-math -Wall -ansi -Wmissing-prototypes
#--- libraries for PyOpenGL
PYOGL_LIB = -lglut -lGL -lGLU -lXmu -lXi
@ -57,15 +48,6 @@
#--- GCC Profiling
#CCOPT2 = -pg -O3 -funroll-loops
#--- Debugging
@@ -47,7 +47,7 @@
#---------------------------------------------------------------------
#
#- Choose One --------------------------------------------------------
-#--- Workaround for XFree86/DRI linux dll problem for module build
+#--- Workaround for XFree86/DRI FreeBSD dll problem for module build
BUGS = -D_DRI_WORKAROUND
#---
#BUGS =
@@ -69,18 +69,19 @@
# No changes normally required below here
#---------------------------------------------------------------------

663
biology/pymol/pkg-plist
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@ -1,385 +1,371 @@
bin/pymol
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%%PORTDOCS%%share/examples/pymol/chempy/generate_mmff.py
%%PORTDOCS%%share/examples/pymol/cookbook/contact.pml
%%PORTDOCS%%share/examples/pymol/cookbook/README
%%PORTDOCS%%share/examples/pymol/cookbook/density.pml
%%PORTDOCS%%share/examples/pymol/cookbook/groel_es.pml
%%PORTDOCS%%share/examples/pymol/cookbook/packing.pml
%%PORTDOCS%%share/examples/pymol/cookbook/packsurf.pml
%%PORTDOCS%%share/examples/pymol/cookbook/ribosome.pml
%%PORTDOCS%%share/examples/pymol/devel/brick01.py
%%PORTDOCS%%share/examples/pymol/devel/cgo01.py
%%PORTDOCS%%share/examples/pymol/devel/cgo02.py
%%PORTDOCS%%share/examples/pymol/devel/cgo03.py
%%PORTDOCS%%share/examples/pymol/devel/cgo_3Dtext01.py
%%PORTDOCS%%share/examples/pymol/devel/cgo_label_hack.py
%%PORTDOCS%%share/examples/pymol/devel/chempy_model01.py
%%PORTDOCS%%share/examples/pymol/devel/chempy_model02.py
%%PORTDOCS%%share/examples/pymol/devel/chempy_model03.py
%%PORTDOCS%%share/examples/pymol/devel/gl01.py
%%PORTDOCS%%share/examples/pymol/devel/gl02.py
%%PORTDOCS%%share/examples/pymol/devel/gl03.py
%%PORTDOCS%%share/examples/pymol/devel/povray01.py
%%PORTDOCS%%share/examples/pymol/devel/sele_wiz.py
%%PORTDOCS%%share/examples/pymol/devel/start_pymol.py
%%PORTDOCS%%share/examples/pymol/devel/xmlrpc01.py
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share/pymol/modules/chempy/fast/__init__.py
share/pymol/modules/chempy/fast/__init__.pyc
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share/pymol/modules/chempy/__init__.py
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share/pymol/modules/chempy/bmin/__init__.py
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share/pymol/modules/chempy/bond_mmff.py
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share/pymol/modules/chempy/bonds.py
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share/pymol/modules/pymol/wizard/security.py
share/pymol/modules/pymol/wizard/security.pyc
share/pymol/modules/pymol/wizard/security.pyo
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share/pymol/modules/pymol/wizarding.pyc
share/pymol/modules/pymol/wizarding.pyo
share/pymol/modules/pymol/xray.py
share/pymol/modules/pymol/xray.pyc
share/pymol/modules/pymol/xray.pyo
share/pymol/modules/pymol/xwin.py
share/pymol/modules/pymol/xwin.pyc
share/pymol/modules/pymol/xwin.pyo
share/pymol/modules/_cmd.so
share/pymol/modules/compile_pymol.pyc
share/pymol/modules/launch_pymol.pyc
share/pymol/modules/compile_pymol.pyo
share/pymol/modules/launch_pymol.pyo
share/pymol/test/README
share/pymol/test/cyg
share/pymol/test/dat/1tii.pdb
share/pymol/test/dat/3al1.pdb
share/pymol/test/dat/3al1.r3d
@ -392,17 +378,12 @@ share/pymol/test/dat/pept.r3d
share/pymol/test/dat/small01.mol
share/pymol/test/dat/tiny.pdb
share/pymol/test/dat/water.pdb
share/pymol/test/README
share/pymol/test/run
share/pymol/test/show
share/pymol/test/trim.py
share/pymol/test/vdiff
share/pymol/test/win.py
share/pymol/test/inp/C0020pdb.pml
share/pymol/test/inp/B01.py
share/pymol/test/inp/B02.py
share/pymol/test/inp/B03.py
share/pymol/test/inp/C0001quit.pml
share/pymol/test/inp/C0010hello.pml
share/pymol/test/inp/C0020pdb.pml
share/pymol/test/inp/C0025mol.pml
share/pymol/test/inp/C0030pkl.pml
share/pymol/test/inp/C0050multi.pml
@ -413,6 +394,12 @@ share/pymol/test/inp/C0100select.pml
share/pymol/test/inp/C0105names.pml
share/pymol/test/inp/C0140iterate.pml
share/pymol/test/inp/C0150alter.pml
share/pymol/test/inp/C0160get.pml
share/pymol/test/inp/C0170scene.pml
share/pymol/test/inp/C0200feedback.pml
share/pymol/test/inp/C0201extend.pml
share/pymol/test/inp/C0202help_python.pml
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share/pymol/test/inp/C0600util.pml
share/pymol/test/inp/C1000viewing.pml
@ -423,14 +410,18 @@ share/pymol/test/inp/C1040editing.pml
share/pymol/test/inp/C1050fitting.py
share/pymol/test/inp/C1060controlling.py
share/pymol/test/inp/C1070exporting.pml
share/pymol/test/inp/C1080isomore.pml
share/pymol/test/inp/C1090coulomb.pml
share/pymol/test/inp/L0010ccp4read.pml
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share/pymol/test/inp/L0030isomesh.pml
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share/pymol/test/inp/T03.py
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share/pymol/test/inp/U01.pml
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share/pymol/test/ref/C0010hello.log
@ -450,8 +441,13 @@ share/pymol/test/ref/C0105names.log
share/pymol/test/ref/C0140iterate.log
share/pymol/test/ref/C0150alter.1.pdb
share/pymol/test/ref/C0150alter.log
share/pymol/test/ref/C0160get.log
share/pymol/test/ref/C0170scene.log
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share/pymol/test/ref/C1000viewing.log
share/pymol/test/ref/C1010helping.log
@ -461,12 +457,21 @@ share/pymol/test/ref/C1040editing.log
share/pymol/test/ref/C1050fitting.log
share/pymol/test/ref/C1060controlling.log
share/pymol/test/ref/C1070exporting.log
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share/pymol/test/ref/T01.log
share/pymol/test/ref/U01.log
share/pymol/test/run
share/pymol/test/show
share/pymol/test/trim.py
share/pymol/test/vdiff
share/pymol/test/win.py
@dirrm share/pymol/test/ref
@dirrm share/pymol/test/inp
@dirrm share/pymol/test/dat
@ -489,8 +494,40 @@ share/pymol/test/ref/U01.log
@dirrm share/pymol/modules/chempy/bmin
@dirrm share/pymol/modules/chempy
@dirrm share/pymol/modules
%%PORTDOCS%%@dirrm share/examples/pymol/devel
%%PORTDOCS%%@dirrm share/examples/pymol/cookbook
%%PORTDOCS%%@dirrm share/examples/pymol/chempy
%%PORTDOCS%%@dirrm share/examples/pymol
@dirrm share/pymol
%%PORTDOCS%%%%EXAMPLESDIR%%/chempy/generate_amber.py
%%PORTDOCS%%%%EXAMPLESDIR%%/chempy/generate_mmff.py
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/README
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/contact.pml
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/density.pml
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/groel_es.pml
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/packing.pml
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/packsurf.pml
%%PORTDOCS%%%%EXAMPLESDIR%%/cookbook/ribosome.pml
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/brick01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/cgo01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/cgo02.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/cgo03.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/cgo_3Dtext01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/cgo_label_hack.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/chempy_model01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/chempy_model02.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/chempy_model03.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/gl01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/gl02.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/gl03.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/povray01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/sele_wiz.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/start_pymol.py
%%PORTDOCS%%%%EXAMPLESDIR%%/devel/xmlrpc01.py
%%PORTDOCS%%%%EXAMPLESDIR%%/launching/README
%%PORTDOCS%%%%EXAMPLESDIR%%/launching/launch.py
%%PORTDOCS%%%%EXAMPLESDIR%%/launching/launch_demo.py
%%PORTDOCS%%%%EXAMPLESDIR%%/launching/launch_no_tk.py
%%PORTDOCS%%%%EXAMPLESDIR%%/launching/launch_viewer1.py
%%PORTDOCS%%%%EXAMPLESDIR%%/launching/launch_viewer2.py
%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/launching
%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/devel
%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/cookbook
%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%/chempy
%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%