name='0ABL kinase0', nbJitter=20,
meshFile=wrkDir+'/recipes/cyto/1ABL_centered',
packingMode='close')
rCyto1.addIngredient( kinase0 )
# create HistoVol
h1 = HistoVol()
# create and add oganelles
from DejaVu.IndexedPolygons import IndexedPolygonsFromFile
geomS = IndexedPolygonsFromFile(wrkDir+'/organelles/vesicle_r20nm', 'vesicle')
faces = geomS.getFaces()
vertices = geomS.getVertices()
vnormals = geomS.getVNormals()
o1 = Organelle(vertices, faces, vnormals)
h1.addOrganelle(o1)
# set recipe
o1.setSurfaceRecipe(rSurf1)
o1.setInnerRecipe(rCyto1)
h1.setMinMaxProteinSize()
print('Surf', rSurf1.getMinMaxProteinSize())
print('Cyto', rCyto1.getMinMaxProteinSize())
print('o1', o1.getMinMaxProteinSize())
print('smallest', h1.smallestProteinSize)
print('largest', h1.largestProteinSize)
print('Bounding box', h1.boundingBox)
# meshFile='recipes/cyto/1TWV_centered', # color=cornflowerblue, packingPriority=1) #rCyto.addIngredient( ingr1TWV ) # vesicle from DejaVu.IndexedPolygons import IndexedPolygonsFromFile # create HistoVol h1 = HistoVol() # create and add oganelles geomS = IndexedPolygonsFromFile(wrkDir+'/organelles/vesicle_r20nm', 'vesicle') faces = geomS.getFaces() vertices = geomS.getVertices() vnormals = geomS.getVNormals() o1 = Organelle(vertices, faces, vnormals) h1.addOrganelle(o1) # set recipes h1.setExteriorRecipe(rCyto) o1.setSurfaceRecipe(rSurf1) #o1.setInnerRecipe(rMatrix1) h1.setMinMaxProteinSize() print 'Cyto', rCyto.getMinMaxProteinSize() print 'Surf', rSurf1.getMinMaxProteinSize() print 'Matrix', rMatrix1.getMinMaxProteinSize() print 'o1', o1.getMinMaxProteinSize() print 'smallest', h1.smallestProteinSize print 'largest', h1.largestProteinSize
h1 = HistoVol() # set recipes h1.setExteriorRecipe(rCyto) #o1.setSurfaceRecipe(rSurf1) #o1.setInnerRecipe(rMatrix1) from Pmv.hostappInterface.cinema4d_dev import helperC4D as helper #display the organel, the box, and prepare the hierachy... doc = helper.getCurrentScene() sel = doc.GetSelection() c4dorganlle = sel[0] helper.triangulate(c4dorganlle) faces,vertices,vnormals = helper.DecomposeMesh(c4dorganlle,edit=True,copy=True,tri=True) o1 = Organelle(vertices, faces, vnormals) h1.addOrganelle(o1) o1.setSurfaceRecipe(rSurf1) #o1.setInnerRecipe(rCyto) #define the viewer type dejavu,c4d,blender ViewerType='c4d' afviewer = AFViewer(ViewerType=ViewerType) #make some option here afviewer.doPoints = False afviewer.doSpheres = False afviewer.quality = 1 #lowest quality for sphere and cylinder h1.setMinMaxProteinSize() print 'Cyto', rCyto.getMinMaxProteinSize()
## print 'time to fill', time()-t1
## h1.printFillInfo()
## execfile('displayFill.py')
from Pmv.hostappInterface.cinema4d import helperC4D as helper
#display the organel, the box, and prepare the hierachy...
doc = helper.getCurrentScene()
sel = doc.get_selection()
c4dorganlle = sel[0]
helper.triangulate(c4dorganlle)
faces = c4dorganlle.get_polygons()
c4dvertices = c4dorganlle.get_points()
vertices = map(helper.vc4d,c4dvertices)
vnormals = helper.GetFaces(c4dorganlle)
o1 = Organelle(vertices, faces, vnormals)
h1.addOrganelle(o1)
o1.setSurfaceRecipe(rSurf1)
# add padding
bb = h1.boundingBox
pad = 100.
x,y,z = bb[0]
bb[0] = [x-pad, y-pad, z-pad]
x,y,z = bb[1]
bb[1] = [x+pad, y+pad, z+pad]
print 'Bounding box with padding', h1.boundingBox
h1.setMinMaxProteinSize()
print 'Cyto', rCyto.getMinMaxProteinSize()
# color=cornflowerblue, packingPriority=1)
#rCyto.addIngredient( ingr1TWV )
# vesicle
from DejaVu.IndexedPolygons import IndexedPolygonsFromFile
# create HistoVol
h1 = HistoVol()
# create and add oganelles
geomS = IndexedPolygonsFromFile(wrkDir + '/organelles/vesicle_r20nm',
'vesicle')
faces = geomS.getFaces()
vertices = geomS.getVertices()
vnormals = geomS.getVNormals()
o1 = Organelle(vertices, faces, vnormals)
h1.addOrganelle(o1)
# set recipes
h1.setExteriorRecipe(rCyto)
o1.setSurfaceRecipe(rSurf1)
#o1.setInnerRecipe(rMatrix1)
h1.setMinMaxProteinSize()
print 'Cyto', rCyto.getMinMaxProteinSize()
print 'Surf', rSurf1.getMinMaxProteinSize()
print 'Matrix', rMatrix1.getMinMaxProteinSize()
print 'o1', o1.getMinMaxProteinSize()
print 'smallest', h1.smallestProteinSize
print 'largest', h1.largestProteinSize
