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setup.py

 #!/usr/bin/env python
#
# This script only applies if you are performing a Python Distutils-based
# installation of PyMOL.
#
# It assumes that all of PyMOL's external dependencies are pre-installed.

from distutils.core import setup, Extension
import sys

#============================================================================
if sys.platform=='win32':
   inc_dirs=["ov/src",
             "layer0","layer1","layer2",
             "layer3","layer4","layer5",
             "win32/include"]
   libs=["opengl32","glu32","glut32","libpng","zlib"]
   pyogl_libs = ["opengl32","glu32","glut32"]
   lib_dirs=["win32/lib"]
   def_macros=[("_PYMOL_MODULE",None),
                  ("WIN32",None),
                  ("_HAVE_LIBPNG",None),
               ]
   ext_comp_args=[]
   ext_link_args=['/NODEFAULTLIB:"LIBC"']
#============================================================================
elif sys.platform=='cygwin':
   inc_dirs=["ov/src",
             "layer0","layer1","layer2",
             "layer3","layer4","layer5"]
   libs=["glut32","opengl32","glu32","png"]
   pyogl_libs = ["glut32","opengl32","glu32"]
   lib_dirs=["/usr/lib/w32api"]
   def_macros=[("_PYMOL_MODULE",None),
#                  ("_PYMOL_NUMPY",None),
                  ("CYGWIN",None),
               ("_HAVE_LIBPNG",None)]
   ext_comp_args=[]
   ext_link_args=[]
#============================================================================
elif sys.platform=='darwin':

# under Fink, with the following packages installed:
#
#  python24
#  libpng3
#  pmw-py24
#  freetype2
#  freetype2-dev
#
# REMEMBER to compile using Fink's Python!
#
   inc_dirs=["ov/src",
             "layer0","layer1","layer2",
             "layer3","layer4","layer5", 
        "/System/Library/Frameworks/OpenGL.framework/Headers",
        "/System/Library/Frameworks/GLUT.framework/Headers",
        "/System/Library/Frameworks/CoreFoundation.framework/Headers",
        "/System/Library/Frameworks/AppKit.framework/Headers",
        "/System/Library/Frameworks/ApplicationServices.framework/Headers",
        "/System/Library/Frameworks/Cocoa.framework/Headers",
        "/System/Library/Frameworks/IOKit.framework/Headers",
        "/sw/lib/freetype2/include",
        "/sw/lib/freetype2/include/freetype2",
        "/sw/include"]
   libs=[]
   pyogl_libs = []
   lib_dirs=[]
   def_macros=[("_PYMOL_MODULE",None),
               ("_PYMOL_OSX",None),
               ("_HAVE_LIBPNG",None),
               ("_PYMOL_FREETYPE",None),
      ]
   ext_comp_args=[]
   ext_link_args=["-framework","OpenGL",
                  "-framework","AppKit",
                  "-framework","ApplicationServices",
                  "-framework","CoreFoundation",
                  "-framework","Cocoa",
                  "-framework","IOKit",
                  "-framework","GLUT",
                  "-lpng", 
                  "-L/sw/lib/freetype2/lib", "-lfreetype" ]

#============================================================================
else: # linux or standard unix
   inc_dirs=["ov/src",
             "layer0","layer1","layer2",
             "layer3","layer4","layer5",
             "/usr/include/freetype2",
#             "/users/warren/ext/include",
# VMD plugin support
#             "contrib/uiuc/plugins/include",
#             "contrib/uiuc/plugins/molfile_plugin/src",
             ]
   libs=["GL","GLU","glut","png","z","freetype",
#        "Xxf86vm"
      ]     
   pyogl_libs = ["GL","GLU","glut"]
   lib_dirs=[
      "/usr/X11R6/lib",
#      "/users/warren/pymol/ext/lib"
      ]
   def_macros=[("_PYMOL_MODULE",None),
               ("_PYMOL_INLINE",None),
               ("_PYMOL_FREETYPE",None),
# Numeric Python support               
#                  ("_PYMOL_NUMPY",None),
# VMD plugin support               
#               ("_PYMOL_VMD_PLUGINS",None),
               ("_HAVE_LIBPNG",None)]
   ext_comp_args=["-ffast-math","-funroll-loops","-O3"]
   ext_link_args=[]
   
setup ( # Distribution meta-data
   name = "pymol",
      version = "1.0.0",
      package_dir = {'' : 'modules'},
      packages = ['chempy',
               'chempy/bmin',
               'chempy/champ',
               'chempy/fast',
               'chempy/fragments',
               'chempy/tinker',
               'pmg_tk',
               'pmg_tk/startup',
               'pmg_tk/skins',
               'pmg_tk/skins/normal',               
               'pmg_wx',
               'pymol',
               'pymol/opengl',
               'pymol/opengl/gl',
               'pymol/opengl/glu',
               'pymol/opengl/glut',
               'pymol/wizard'],
      ext_modules = [
   Extension("pymol._cmd", [
   "ov/src/OVContext.c",
   "ov/src/OVHeapArray.c",
   "ov/src/OVHeap.c",
   "ov/src/OVLexicon.c",
   "ov/src/OVOneToOne.c",
   "ov/src/OVOneToAny.c",
   "ov/src/OVRandom.c",
   "ov/src/ov_utility.c",
   "layer0/Block.c",
   "layer0/Crystal.c",
   "layer0/Debug.c",
   "layer0/Deferred.c",
   "layer0/Err.c",
   "layer0/Feedback.c",
   "layer0/Field.c",
   "layer0/Isosurf.c",
   "layer0/Map.c",
   "layer0/Match.c",
   "layer0/Matrix.c",
   "layer0/MemoryDebug.c",
   "layer0/MemoryCache.c",
   "layer0/MyPNG.c",
   "layer0/Parse.c",
   "layer0/Pixmap.c",
   "layer0/Queue.c",
   "layer0/Raw.c",
   "layer0/Sphere.c",
   "layer0/Tetsurf.c",
   "layer0/Texture.c",
   "layer0/Tracker.c",
   "layer0/Triangle.c",
   "layer0/Util.c",
   "layer0/Vector.c",
   "layer0/Word.c",
   "layer0/os_gl.c",
   "layer1/Basis.c",
   "layer1/ButMode.c",
   "layer1/Character.c",
   "layer1/CGO.c",
   "layer1/Color.c",
   "layer1/Control.c",
   "layer1/Extrude.c",
   "layer1/Font.c",
   "layer1/FontType.c",
   "layer1/FontGLUT.c",
   "layer1/FontGLUT8x13.c",
   "layer1/FontGLUT9x15.c",
   "layer1/FontGLUTHel10.c",
   "layer1/FontGLUTHel12.c",
   "layer1/FontGLUTHel18.c",
   "layer1/Movie.c",
   "layer1/Ortho.c",
   "layer1/P.c",
   "layer1/PConv.c",
   "layer1/Pop.c",
   "layer1/PyMOLObject.c",
   "layer1/Ray.c",
   "layer1/Rep.c",
   "layer1/Scene.c",
   "layer1/ScrollBar.c",
   "layer1/Seq.c",
   "layer1/Setting.c",
   "layer1/Shaker.c",
   "layer1/Symmetry.c",
   "layer1/Text.c",
   "layer1/TypeFace.c",
   "layer1/Wizard.c",
   "layer1/View.c",
   "layer2/AtomInfo.c",
   "layer2/CoordSet.c",
   "layer2/GadgetSet.c",   
   "layer2/DistSet.c",
   "layer2/ObjectAlignment.c",
   "layer2/ObjectCGO.c",
   "layer2/ObjectCallback.c",
   "layer2/ObjectDist.c",
   "layer2/ObjectMap.c",
   "layer2/ObjectMesh.c",
   "layer2/ObjectMolecule.c",
   "layer2/ObjectMolecule2.c",
   "layer2/ObjectSurface.c",
   "layer2/ObjectSlice.c",
   "layer2/RepCartoon.c",
   "layer2/RepCylBond.c",
   "layer2/RepDistDash.c",
   "layer2/RepDistLabel.c",
   "layer2/RepDot.c",
   "layer2/RepLabel.c",
   "layer2/RepMesh.c",
   "layer2/ObjectGadget.c",
   "layer2/ObjectGadgetRamp.c",
   "layer2/ObjectGroup.c",
   "layer2/RepAngle.c",      
   "layer2/RepDihedral.c",   
   "layer2/RepNonbonded.c",
   "layer2/RepNonbondedSphere.c",
   "layer2/RepRibbon.c",
   "layer2/RepSphere.c",
   "layer2/RepEllipsoid.c",   
   "layer2/RepSurface.c",
   "layer2/RepWireBond.c",
   "layer2/Sculpt.c",
   "layer2/SculptCache.c",
   "layer2/VFont.c",   
   "layer3/PlugIOManager.c",
   "layer3/Editor.c",
   "layer3/Executive.c",
   "layer3/Seeker.c",
   "layer3/Selector.c",
   "layer4/Cmd.c",
   "layer4/Export.c",
   "layer4/Menu.c",
   "layer4/PopUp.c",
   "layer5/PyMOL.c",
   "layer5/TestPyMOL.c",
   "layer5/main.c",
# uncomment below for VMD molfile plugin support
# (incomplete at present -- only TRJ, TRR, XTC, DCD so far...)
#   "contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/carplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/corplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c",
#   "contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp",
#   "contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c",
   
   ],
   include_dirs = inc_dirs,
   libraries = libs,
   library_dirs = lib_dirs,
   define_macros = def_macros,
   extra_link_args = ext_link_args,
   extra_compile_args = ext_comp_args,
             ),
   Extension("pymol.sglite", [
   "contrib/sglite/runtests.c",
   "contrib/sglite/sgcb.c",
   "contrib/sglite/sgcharmx.c",
   "contrib/sglite/sgfile.c",
   "contrib/sglite/sggen.c",
   "contrib/sglite/sgglobal.c",
   "contrib/sglite/sghall.c",
   "contrib/sglite/sghkl.c",
   "contrib/sglite/sglitemodule.c",
   "contrib/sglite/sgltr.c",
   "contrib/sglite/sgmath.c",
   "contrib/sglite/sgmetric.c",
   "contrib/sglite/sgnorm.c",
   "contrib/sglite/sgprop.c",
   "contrib/sglite/sgss.c",
   "contrib/sglite/sgstr.c",
   "contrib/sglite/sgsymbols.c",
   "contrib/sglite/sgtidy.c",
   "contrib/sglite/sgtype.c",
   "contrib/sglite/sgutil.c"
   ],
   define_macros=[("PythonTypes",None)],   
   include_dirs=["contrib/sglite","contrib/modules"]
             ),
   Extension("chempy.champ._champ", [
   "contrib/champ/champ.c",
   "contrib/champ/champ_module.c",
   "contrib/champ/chiral.c",
   "contrib/champ/err2.c",
   "contrib/champ/feedback2.c",
   "contrib/champ/list.c",
   "contrib/champ/os_memory.c",
   "contrib/champ/sort.c",
   "contrib/champ/strblock.c",
   "contrib/champ/vla.c",
   ],
   include_dirs=["contrib/champ"]
             ),
   Extension("pymol.ExtensionClass",["contrib/modules/ExtensionClass.c"]),
   Extension("pymol.opengl.glu._glu_num", ["contrib/pyopengl/_glu_nummodule.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros,
             ),
   Extension("pymol.opengl.glu._glu", ["contrib/pyopengl/_glumodule.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros
             ),
   Extension("pymol.opengl.glut._glut", ["contrib/pyopengl/_glutmodule.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros
             ),
   Extension("pymol.opengl.gl._opengl_num", ["contrib/pyopengl/_opengl_nummodule.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros
             ),
   Extension("pymol.opengl.gl._opengl", ["contrib/pyopengl/_openglmodule.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros
             ),
   Extension("pymol.opengl.gl.openglutil", ["contrib/pyopengl/openglutil.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros
             ),
   Extension("pymol.opengl.gl.openglutil_num", ["contrib/pyopengl/openglutil_num.c"],
             include_dirs = inc_dirs,
             libraries = pyogl_libs,
             library_dirs = lib_dirs,
             define_macros = def_macros
             )
])

print '''
 After running:

    python setup.py install
    
 Please run, to complete the installation:

    python setup2.py install

 To uninstall PyMOL, run:

    python setup2.py uninstall
'''

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