In Fiji display SWC files in the 3D Viewer

SWC_Display.py

import re
import os

from java.awt import Color
from ij3d import Image3DUniverse

univ = Image3DUniverse(512, 512)
univ.show()

# d = '/home/mark/painting-demo/static/data'
d = '/home/mark/tracing-examples/'

swc_files = [ os.path.join(d,x) for x in os.listdir(d) if re.search('(?i)\.swc',x) ]

# Just take the first 3 largest files:
swc_files.sort( key=os.path.getsize, reverse=True )
swc_files[-3:len(swc_files)]

from tracing import PathAndFillManager

pafm = PathAndFillManager(500, # width
                          500, # height
                          50, # depth
                          1, # x spacing
                          1, # y spacing
                          1, # z spacing
                          "micrometres")

for swc_file in swc_files:

    if not pafm.importSWC(swc_file,False): # second parameter is ignoreCalibration
        IJ.error("Failed to load: "+swc_file)

    for i in range(pafm.size()):
        path = pafm.getPath(i)
        path.addTo3DViewer(univ, Color.blue, None)