projectTree.remove(False, sibl, None)
colorPt = neurite.getParent().createChild("neurite")
colorPt.setTitle("color_" + neurite.getTitle())
nn = projectTree.findNode(neurite, projectTree)
cn = DefaultMutableTreeNode(colorPt)
projectTree.getModel().insertNodeInto(cn, nn.getParent(), nn.getParent().getChildCount())
areatreePts = neurite.findChildrenOfTypeR("areatree")
for areatreePt in areatreePts:
# display connectors first
oiPt = getOutAndInPt(areatreePt, ct)
oiPt = [x for y in oiPt for x in y]
if oiPt is None: continue
for c in oiPt:
Display3D.show(c, False, 5)
areatree = areatreePt.getObject()
las = areatree.getLayerSet()
# add a clone of areatree to 'color_***' neurite
colortree = areatree.clone(project, False)
colortreePt = ProjectThing(areatreePt.getTemplate(), project, colortree)
las.add(colortree)
colorPt.addChild(colortreePt)
catn = DefaultMutableTreeNode(colortreePt)
projectTree.getModel().insertNodeInto(catn, cn, 0)
print colorPt, colortreePt
# prepare cut and bead nodes
root = colortree.getRoot()
nOuts = 0
nIns = 0
neurites = projectRoot.findChildrenOfTypeR("neurite")
for neurite in neurites:
if re.match(r"^(apla_|in_|out_)", neurite.getTitle()):
areatrees = neurite.findChildrenOfTypeR("areatree")
for areatree in areatrees:
nNeurites += 1
oiPt = getOutAndInPt(areatree, ct)
nOuts += len(oiPt[0])
nIns += len(oiPt[1])
oiPt = [x for y in oiPt for x in y]
# print oiPt
if oiPt is None:
continue
for c in oiPt:
Display3D.show(c, False, 4)
Display3D.show(areatree, False, 4)
# for iPt in oiPt[0]:
# Display3D.show(iPt, 1, 8)
# if 'in_' in neurite.getTitle():
# connectors = neurite.findChildrenOfTypeR("connector")
# for connector in connectors:
# Display3D.show(connector, 1, 8)
print 'done.'
print nNeurites, 'neurites,', nOuts, 'outputs,', nIns, 'inputs'
# ps = Display.getFront().getLayerSet().getLayer(800).getAll(Patch)
# for p in ps:
# print type(p), p
# Display3D.show(p)
def exportWavefront(zds, filepath):
"""
Takes a sequence of ZDisplayable instances and saves all as meshes to disk in wavefront format.
A materials .mtl file is saved along with it.
See: https://github.com/fiji/3D_Viewer/blob/master/src/main/java/customnode/WavefrontExporter.java
"""
meshes = {
zd.getTitle(): d3d.createMesh(zd.project.findProjectThing(zd), zd,
resampling_factor).call()
for zd in zds
}
WavefrontExporter.save(meshes, filepath)
project = Project.getProjects()[0]
d3d = Display3D.getDisplay(project.getRootLayerSet())
def exportSelectedAsWavefront(project, filepath):
""" Select a node in the Project Tree, then run this function
to export the meshes of all ZDisplayable under the node
in Wavefront format. """
exportWavefront(list(loadFromSelectedTreeNode(project)), filepath)
# Strategy 1: provide a list of IDs
# The IDs of the AreaList (zDisplayables: arealists, balls etc.) instances
"""
to_add = [67163, 66596]
for zd_id in to_add:
nOuts = 0
nIns = 0
neurites = projectRoot.findChildrenOfTypeR("neurite")
for neurite in neurites:
if re.match(r"^(apla_|in_|out_)", neurite.getTitle()):
areatrees = neurite.findChildrenOfTypeR("areatree")
for areatree in areatrees:
nNeurites += 1
oiPt = getOutAndInPt(areatree, ct)
nOuts += len(oiPt[0])
nIns += len(oiPt[1])
oiPt = [x for y in oiPt for x in y]
# print oiPt
if oiPt is None:
continue
for c in oiPt:
Display3D.show(c, False, 4)
Display3D.show(areatree, False, 4)
# for iPt in oiPt[0]:
# Display3D.show(iPt, 1, 8)
# if 'in_' in neurite.getTitle():
# connectors = neurite.findChildrenOfTypeR("connector")
# for connector in connectors:
# Display3D.show(connector, 1, 8)
print 'done.'
print nNeurites, 'neurites,', nOuts, 'outputs,', nIns, 'inputs'
# ps = Display.getFront().getLayerSet().getLayer(800).getAll(Patch)
# for p in ps:
# print type(p), p
# Display3D.show(p)
