def createGeometries(self, obj):
from DejaVu.Geom import Geom
geomC = obj.geomContainer
c = Geom('path', shape=(0,0), protected=True)
c.replace = 'force'
geomC.addGeom(c, parent=geomC.masterGeom)
for a in obj.allAtoms:
a.colors['path']=(1.,1.,1.)
a.opacities['path']=1.0
for chain in obj.chains:
if not hasattr(chain, 'sheet2D') or chain.sheet2D is None:
continue
# HACK TO DEBUG SECONDARYSTRUCTURE
if not chain.sheet2D.has_key('ssSheet2D') or \
chain.sheet2D['ssSheet2D'] is None:
continue
# Create a geometry per sheet2D
name = 'path'+ chain.id
g = Spheres( name, quality = 10, radii = 0.15, protected=True)
g.replace = 'force'
geomC.addGeom( g, parent=c)
self.managedGeometries.append(g)
# FIXME to update this geom we would have to implement
# self.updateGeom specifically for this command
geomC.atoms[name] = ResidueSet()
g.chain = chain
geomC.atomPropToVertices[name] = self.atomPropToVertices
geomC.geomPickToAtoms[name] = self.pickedVerticesToAtoms
geomC.geomPickToBonds[name] = None
def createGeometries(self, obj):
from DejaVu.Geom import Geom
geomC = obj.geomContainer
c = Geom('path', shape=(0, 0), protected=True)
c.replace = 'force'
geomC.addGeom(c, parent=geomC.masterGeom)
for a in obj.allAtoms:
a.colors['path'] = (1., 1., 1.)
a.opacities['path'] = 1.0
for chain in obj.chains:
if not hasattr(chain, 'sheet2D') or chain.sheet2D is None:
continue
# HACK TO DEBUG SECONDARYSTRUCTURE
if not chain.sheet2D.has_key('ssSheet2D') or \
chain.sheet2D['ssSheet2D'] is None:
continue
# Create a geometry per sheet2D
name = 'path' + chain.id
g = Spheres(name, quality=10, radii=0.15, protected=True)
g.replace = 'force'
geomC.addGeom(g, parent=c)
self.managedGeometries.append(g)
# FIXME to update this geom we would have to implement
# self.updateGeom specifically for this command
geomC.atoms[name] = ResidueSet()
g.chain = chain
geomC.atomPropToVertices[name] = self.atomPropToVertices
geomC.geomPickToAtoms[name] = self.pickedVerticesToAtoms
geomC.geomPickToBonds[name] = None
def createGeometries(self, name):
from DejaVu.Geom import Geom
t = Geom(name,shape=(0,0), protected=True)
self.vf.vectfield[name]=t
t.replace = True
self.vf.GUI.VIEWER.AddObject(t, redo=0)
def createGeometries(self, name):
from DejaVu.Geom import Geom
t = Geom(name, shape=(0, 0), protected=True)
self.vf.vectfield[name] = t
t.replace = True
self.vf.GUI.VIEWER.AddObject(t, redo=0)