# 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)
pad = 100.
afviewer.SetHistoVol(h1,pad,display=False)
afviewer.displayPreFill()
(x,y,z), maxi = h1.boundingBox
bb = [[0, y, z], maxi]
h1.buildGrid(boundingBox=bb)#, gridFileOut='1vesicle_new.grid' )
afviewer.displayFillBox(bb)
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 'Surf', rSurf1.getMinMaxProteinSize()
print 'Matrix', rMatrix1.getMinMaxProteinSize()
#print 'o1', o1.getMinMaxProteinSize()
print 'smallest', h1.smallestProteinSize
print 'largest', h1.largestProteinSize
pad = 100.
afviewer.SetHistoVol(h1,pad,display=False)
afviewer.displayPreFill()
def FILL(h):
doc =helper.getCurrentScene()
box = doc.GetSelection()[0]
bb=helper.getCornerPointCube(box)
# 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 print 'Bounding box', h1.boundingBox # add padding bb = h1.boundingBox pad = 200. 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
# 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)
pad = 100.
afviewer.SetHistoVol(h1,pad,display=False)
afviewer.displayPreFill()
(x,y,z), maxi = h1.boundingBox
bb = [[0, y, z], maxi]
h1.buildGrid(boundingBox=bb)#, gridFileOut='1vesicle_new.grid' )
afviewer.displayFillBox(bb)
