Beispiel #1
1
 def testMarkInclusions(self):
     from ImageProcessing.LoadZStack import LoadZStack
     from ImageProcessing.MarkInclusions import MarkInclusions
     loader = LoadZStack()
     loader.paramPath.value = importDir
     loader.paramDz.value = '100.0 mum'
     loader.paramDy.value = '1.29 mum'
     loader.paramDx.value = '1.29 mum'
     zstack = loader.loadImageAsGreyScale()
     from ImageProcessing.AutoFocus import AutoFocus
     afw = AutoFocus()
     statistics = afw.getStatistics(zstack)
     minc = MarkInclusions()
     marked = minc.markInclusions(zstack, statistics)
     self.assertEqual(zstack.dimensions, marked.dimensions)
     self.assertEqual(zstack.unit, marked.unit)
Beispiel #2
0
 def testSingle(self):
     print "Importing single image..."
     from ImageProcessing.LoadZStack import LoadZStack
     loader = LoadZStack()
     loader.paramPath.value = os.path.join(importDir, 'TestZStack_z00.tif')
     loader.paramDz.value = '100.0 mum'
     loader.paramDy.value = '1.29 mum'
     loader.paramDx.value = '1.29 mum'
     loader.paramStartz.value = '300.0 mum'
     loader.paramZClip.value = '3:4'
     zstack = loader.loadImageAsGreyScale()
     print "Done."
     print "Calculating single image statistics..."
     from ImageProcessing.AutoFocus import AutoFocus
     afw = AutoFocus()
     statistics = afw.getStatistics(zstack)
     print "Done."
     assert len(statistics['diameter'].data) == 2
     imax = statistics['diameter'].data.argmax()
     imin = statistics['diameter'].data.argmin()
     mul = 1.29
     self.check((200.0 * mul, mul), statistics['xPos'].data[imax])
     self.check((200.0 * mul, mul), statistics['yPos'].data[imax])
     self.check((300.0, 0.0), statistics['zPos'].data[imax])
     self.check((20.7 * mul, 3 * mul), statistics['diameter'].data[imax])
     self.check((53.0 * mul, mul), statistics['xPos'].data[imin])
     self.check((53.0 * mul, mul), statistics['yPos'].data[imin])
     self.check((300.0, 0.0), statistics['zPos'].data[imin])
     self.check((7.0 * mul, mul), statistics['diameter'].data[imin])