def readOne(fname, gname, scene):
# iscene = Cmaxwell(mwcallback);
filename = autopack.retrieveFile(fname, cache="geoms") #geometries
ok = scene.readMXS(str(filename))
if not ok:
print "problem reading", filename
obj = scene.getObject(str(gname))[0]
# print obj,gname
# obj2 = scene.addObject(obj);
# iscene.freeScene();
return obj, scene
def buildCompartmentsGeomRep(comp, collada_xml, root_node, mask=None):
if comp.representation_file is None:
return collada_xml, root_node
nr = scene.Node(str(comp.name) + str("rep"))
filename = autopack.retrieveFile(comp.representation_file,
cache="geometries") #geometries
gdic = helper.read(filename)
for nid in gdic:
matnode = oneMaterial(str(nid), collada_xml, color=gdic[nid]["color"])
master_node = colladaMesh(str(nid),
gdic[nid]["mesh"][0],
gdic[nid]["mesh"][1],
gdic[nid]["mesh"][2],
collada_xml,
matnode=matnode)
# master_node = colladaMesh(str(nid),comp.vertices,comp.vnormals,comp.faces,collada_xml,matnode=matnode)
collada_xml.nodes.append(master_node)
# mxmesh.setParent(nr)
if len(gdic[nid]['instances']):
geomnode = scene.NodeNode(master_node)
# !n=scene.Node(str(nid)+str("instances"))
# nri.setParent(nr)
g = []
c = 0
for mat in gdic[nid]['instances']:
geomnode = scene.NodeNode(master_node)
# instance = scene.createInstancement(str(nid)+"_"+str(c),mxmesh)
mat = numpy.array(mat, float) #.transpose()
if helper.host == 'dejavu': #need to find the way that will work everywhere
mry90 = helper.rotation_matrix(-math.pi / 2.0,
[0.0, 1.0, 0.0]) #?
mat = numpy.array(numpy.matrix(mat) * numpy.matrix(mry90))
# mat = numpy.array(mat).transpose()
scale, shear, euler, translate, perspective = decompose_matrix(
mat)
p = translate #matrix[3,:3]/100.0#unit problem
tr = scene.TranslateTransform(p[0], p[1], p[2])
rx = scene.RotateTransform(1, 0, 0, numpy.degrees(euler[0]))
ry = scene.RotateTransform(0, 1, 0, numpy.degrees(euler[1]))
rz = scene.RotateTransform(0, 0, 1, numpy.degrees(euler[2]))
s = scene.ScaleTransform(scale[0], scale[1], scale[2])
ne = scene.Node(str(nid) + "_" + str(c),
children=[
geomnode,
],
transforms=[tr, rz, ry, rx,
s]) #scene.MatrixTransform(matrix)
g.append(ne)
c += 1
node = scene.Node(str(nid) + str("instances"), children=g)
nr.children.append(node)
root_node.children.append(nr)
return collada_xml, root_node
useXref = True
mixedJson = True
HIV = False
#def convertOneRecipe()
if len(sys.argv) > 1:
filename = sys.argv[1]
resultfile = None
if filename in autopack.RECIPES:
n = filename
v = sys.argv[2]
filename = autopack.RECIPES[n][v]["setupfile"]
resultfile = autopack.RECIPES[n][v]["resultfile"]
else:
resultfile = sys.argv[2]
setupfile = autopack.retrieveFile(filename, cache="recipes")
print("ok use ", setupfile, filename, resultfile)
fileName, fileExtension = os.path.splitext(setupfile)
n = os.path.basename(fileName)
h = Environment(name=n)
h.loadRecipe(setupfile)
h.setupfile = filename
if resultfile is not None:
h.resultfile = resultfile
fileName, fileExtension = os.path.splitext(setupfile)
if export_json:
print("expot json recipe ", fileName)
h.saveRecipe(fileName + ".json", useXref=useXref, indent=True)
if check_result:
rfile = h.resultfile
resultfilename = autopack.retrieveFile(rfile, cache="results")
print ingr.o_name, "removed"
doit = True
import datetime
i = datetime.datetime.now()
#update the json dic if wrong center info
if len(sys.argv) > 1:
filename = sys.argv[1]
resultfile = None
if filename in autopack.RECIPES:
n = filename
v = sys.argv[2]
filename = autopack.RECIPES[n][v]["setupfile"]
resultfile = autopack.RECIPES[n][v]["resultfile"]
setupfile = autopack.retrieveFile(filename, cache="recipes")
else:
setupfile = filename
#overwrite result file
resultfile = "output_autopack_test"
print("ok use ", setupfile, filename)
fileName, fileExtension = os.path.splitext(setupfile)
print fileName
n = os.path.basename(fileName)
recipe = n
h = Environment(name=n)
h.loadRecipe(setupfile)
h.setupfile = filename
if resultfile is not None:
h.resultfile = resultfile
h.saveResult = False
# mesh=None
# if MAYA:
# mesh=helper.getObject("HIV1_capsid_3j3q_Rep_Med_0_1_0")
# collada_xml=helper.instancesToCollada(parent_object,collada_xml=collada_xml,instance_node=True,parent_node=node,mesh=mesh)
# #collada_xml.scene.nodes
# collada_xml.write("/Users/ludo/DEV/autopack_git/autoPACK_database_1.0.0/geometries/HIV1_capside_3j3q_Rep_Med_0_2_1.dae")
resultfile = None
if len(sys.argv) > 1:
filename = sys.argv[1]
if filename in autopack.RECIPES:
n = filename
v = sys.argv[2]
filename = autopack.RECIPES[n][v]["setupfile"]
resultfile = autopack.RECIPES[n][v]["resultfile"]
setupfile = autopack.retrieveFile(filename, cache="recipes")
print("ok use ", setupfile, filename)
fileName, fileExtension = os.path.splitext(setupfile)
n = os.path.basename(fileName)
else:
setupfile = filename = "C:\Users\ludov\Google Drive\TSRI HIV Modeling\HIVsphere_simple_r140.json"
# resultfile = "C:\Users\ludov\Google Drive\TSRI HIV Modeling\cellpack_models\Sphere_140_m330_random_tr.json"
# resultfile = "C:\Users\ludov\Google Drive\TSRI HIV Modeling\cellpack_models\Sphere_140_10_random_tr.json"
resultfile = "C:\Users\ludov\Google Drive\TSRI HIV Modeling\cellpack_models\HIV_VLP_140_214_random_tr.json"
# resultfile = "C:\Users\ludov\OneDrive\Documents\\backupC4DHiv\sphere140_rand_49_tr.json"
# setupfile = filename = "C:\Users\ludov\Google Drive\TSRI HIV Modeling\HIVsphere_simple_r139.json"
# resultfile = "C:\Users\ludov\OneDrive\Documents\\backupC4DHiv\sphere139_random_127_tr.json"
n = "HIV_VLP"
h = Environment(name=n)
h.loadRecipe(setupfile)
h.setupfile = filename
def buildCompartmentsGeom(comp, scene, parent=None):
if comp.representation_file is None:
return
nr = scene.createNullObject(str(comp.name) + str("rep"))
if parent is not None:
nr.setParent(parent)
filename = autopack.retrieveFile(comp.representation_file,
cache="geoms") #geometries
gdic = helper.read(filename)
for nid in gdic:
matnode = oneMaterial(str(nid), scene, color=gdic[nid]["color"])
mxmesh = maxwellMesh(str(nid),
gdic[nid]["mesh"][0],
gdic[nid]["mesh"][1],
gdic[nid]["mesh"][2],
scene,
matnode=matnode)
mxmesh.setParent(nr)
if len(gdic[nid]['instances']):
nri = scene.createNullObject(str(nid) + str("instances"))
nri.setParent(nr)
c = 0
for mat in gdic[nid]['instances']:
instance = scene.createInstancement(
str(nid) + "_" + str(c), mxmesh)
mat = numpy.array(mat, float).transpose()
scale, shear, euler, translate, perspective = decompose_matrix(
mat)
base, pivot, ok = instance.getBaseAndPivot()
base.origin = Cvector(float(mat[3][0]), float(mat[3][1]),
float(mat[3][2]))
mat[3, :3] = [0., 0., 0.]
# mat = numpy.array(mat,float).transpose()
newaxis = helper.ApplyMatrix(
[[1., 0., 0.], [0., 1., 0.], [0., 0., 1.]], mat)
base.xAxis = Cvector(float(newaxis[0][0]),
float(newaxis[0][1]),
float(newaxis[0][2]))
base.yAxis = Cvector(float(newaxis[1][0]),
float(newaxis[1][1]),
float(newaxis[1][2]))
base.zAxis = Cvector(float(newaxis[2][0]),
float(newaxis[2][1]),
float(newaxis[2][2]))
# base.xAxis=Cvector(float(mat[0][0]),float(mat[1][0]),float(mat[2][0]))
# base.yAxis=Cvector(float(mat[0][1]),float(mat[1][1]),float(mat[2][1]))
# base.zAxis=Cvector(float(mat[0][2]),float(mat[1][2]),float(mat[2][2]))\
# base.xAxis=Cvector(float(mat[0][0]),float(mat[0][1]),float(mat[0][2]))
# base.yAxis=Cvector(float(mat[1][0]),float(mat[1][1]),float(mat[1][2]))
# base.zAxis=Cvector(float(mat[2][0]),float(mat[2][1]),float(mat[2][2]))
base.xAxis.normalize()
base.yAxis.normalize()
base.zAxis.normalize()
# base.origin = Cvector(float(mat[0][3]),float(mat[1][3]),float(mat[2][3]))
# print ("X",mat[0][0],mat[0][1],mat[0][2],base.xAxis.x(),base.xAxis.y(),base.xAxis.z())
# print ("Y",mat[1][0],mat[1][1],mat[1][2],base.yAxis.x(),base.yAxis.y(),base.yAxis.z())
# print ("Z",mat[2][0],mat[2][1],mat[2][2],base.zAxis.x(),base.zAxis.y(),base.zAxis.z())
# print ("base",mat[3][0],mat[3][1],mat[3][2],base.origin.x(),base.origin.y(),base.origin.z())
instance.setBaseAndPivot(base, base)
# pos=Cvector(float(mat[3][0]),float(mat[3][1]),float(mat[3][2]))
# eul=Cvector(float(euler[0]),float(euler[1]),float(euler[2]))
# instance.setPosition(pos)
# instance.setRotation(eul)
# instance.setParent(nri)
# wt=instance.getWorldTransform()[0]
print str(nid) + "_" + str(c), mat
# print wt.origin.x(),wt.origin.y(),wt.origin.z(),float(mat[3][0]),float(mat[3][1]),float(mat[3][2])
# print wt.xAxis.x(),wt.xAxis.y(),wt.xAxis.z()
# print wt.yAxis.x(),wt.yAxis.y(),wt.yAxis.z()
# print wt.zAxis.x(),wt.zAxis.y(),wt.zAxis.z()
# print instance.getPosition()[0]
# print instance.getRotation()[0]
# base,pivot,ok = instance.getBaseAndPivot();
if c == 5:
# print ("X",mat,base.xAxis.x(),base.xAxis.y(),base.xAxis.z())
break
c += 1