def testNeuroMorpho(self):
for f in self.get_neuroMorphFilenames():
m = MorphologyArray.fromSWC(open(f))
print 'Loaded', f, "(%d Vertices)" % len(m)
swcOut = m.toSWC()
dtype= {'names': ('id', 'type', 'x', 'y', 'z', 'r', 'pid'), 'formats': ('int32', 'int32', 'f4', 'f4', 'f4', 'f4', 'int32') }
swcDataSrc = np.loadtxt(open(f), dtype=dtype)
swcDataOut = np.loadtxt(StringIO(swcOut), dtype=dtype)
eps = 0.01
assert (swcDataSrc['id'] == swcDataOut['id']).all()
assert (swcDataSrc['pid'] == swcDataOut['pid']).all()
maxX = np.max(np.fabs(swcDataSrc['x'] - swcDataOut['x']))
maxY = np.max(np.fabs(swcDataSrc['y'] - swcDataOut['y']))
maxZ = np.max(np.fabs(swcDataSrc['z'] - swcDataOut['z']))
maxR = np.max(np.fabs(swcDataSrc['r'] - swcDataOut['r']))
maxEPS = np.max((maxX, maxY, maxZ, maxR))
assert maxEPS < eps
print ' -- Max EPS: %f' % maxEPS
def test1(self):
swcSrc = """
1 0 1.0 2.0 3.0 4.0 -1
2 0 5.0 6.0 7.0 8.0 1
"""
swcOut = MorphologyArray.fromSWC(StringIO(swcSrc)).to_tree().toSWCStr()
print "*", StrUtils.strip_comments_and_blank_lines(swcSrc), "*"
print "*", StrUtils.strip_comments_and_blank_lines(swcOut), "*"
assert StrUtils.strip_comments_and_blank_lines(swcSrc) == StrUtils.strip_comments_and_blank_lines(swcOut)
m=MorphologyArray.fromSWC(StringIO(swcSrc))
s = m.toSWC()
print s