def setUp( self ):
self.GRAY1 = 60
self.ds1 = ConstantSource( self.GRAY1 )
self.GRAY2 = 120
self.ds2 = ConstantSource( self.GRAY2 )
self.GRAY3 = 190
self.ds3 = ConstantSource( self.GRAY3 )
self.layer1 = GrayscaleLayer( self.ds1, normalize = False )
self.layer1.visible = False
self.layer1.opacity = 0.1
self.ims1 = GrayscaleImageSource( self.ds1, self.layer1 )
self.layer2 = GrayscaleLayer( self.ds2, normalize = False )
self.layer2.visible = True
self.layer2.opacity = 0.3
self.ims2 = GrayscaleImageSource( self.ds2, self.layer2 )
self.layer3 = GrayscaleLayer( self.ds3, normalize = False )
self.layer3.visible = True
self.layer3.opacity = 1.0
self.ims3 = GrayscaleImageSource( self.ds3, self.layer3 )
lsm = LayerStackModel()
lsm.append(self.layer1)
lsm.append(self.layer2)
lsm.append(self.layer3)
self.lsm = lsm
sims = StackedImageSources( lsm )
sims.register( self.layer1, self.ims1 )
sims.register( self.layer2, self.ims2 )
sims.register( self.layer3, self.ims3 )
self.sims = sims
class GrayscaleImageSourceTest( ut.TestCase ):
def setUp( self ):
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], 'lena.npy'))
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource( self.ars, GrayscaleLayer( self.ars ))
def testRequest( self ):
imr = self.ims.request(QRect(0,0,512,512))
def check(result, codon):
self.assertEqual(codon, "unique")
self.assertTrue(type(result) == QImage)
imr.notify(check, codon="unique")
def testSetDirty( self ):
def checkAllDirty( rect ):
self.assertTrue( rect.isEmpty() )
def checkDirtyRect( rect ):
self.assertEqual( rect.x(), 34 )
self.assertEqual( rect.y(), 12 )
self.assertEqual( rect.width(), 3 )
self.assertEqual( rect.height(), 22 )
# should mark everything dirty
self.ims.isDirty.connect( checkAllDirty )
self.ims.setDirty((slice(34,None), slice(12,34)))
self.ims.isDirty.disconnect( checkAllDirty )
# dirty subrect
self.ims.isDirty.connect( checkDirtyRect )
self.ims.setDirty((slice(34,37), slice(12,34)))
self.ims.isDirty.disconnect( checkDirtyRect )
class GrayscaleImageSourceTest(ImageSourcesTestBase):
def setUp(self):
super(GrayscaleImageSourceTest, self).setUp()
self.raw = numpy.load(
os.path.join(volumina._testing.__path__[0],
'lena.npy')).astype(numpy.uint32)
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))
def testRequest(self):
imr = self.ims.request(QRect(0, 0, 512, 512))
result = imr.wait()
self.assertTrue(type(result) == QImage)
def testSetDirty(self):
def checkAllDirty(rect):
self.assertTrue(rect.isEmpty())
def checkDirtyRect(rect):
self.assertEqual(rect.x(), 34)
self.assertEqual(rect.y(), 12)
self.assertEqual(rect.width(), 3)
self.assertEqual(rect.height(), 22)
# should mark everything dirty
self.ims.isDirty.connect(checkAllDirty)
self.ims.setDirty((slice(34, None), slice(12, 34)))
self.ims.isDirty.disconnect(checkAllDirty)
# dirty subrect
self.ims.isDirty.connect(checkDirtyRect)
self.ims.setDirty((slice(34, 37), slice(12, 34)))
self.ims.isDirty.disconnect(checkDirtyRect)
def setUp(self):
super(GrayscaleImageSourceTest, self).setUp()
self.raw = numpy.load(
os.path.join(volumina._testing.__path__[0],
'lena.npy')).astype(numpy.uint32)
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))
class GrayscaleImageSourceTest(ImageSourcesTestBase):
def setUp(self):
super(GrayscaleImageSourceTest, self).setUp()
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], "lena.npy")).astype(numpy.uint32)
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))
def testRequest(self):
imr = self.ims.request(QRect(0, 0, 512, 512))
result = imr.wait()
self.assertTrue(type(result) == QImage)
def testSetDirty(self):
def checkAllDirty(rect):
self.assertTrue(rect.isEmpty())
def checkDirtyRect(rect):
self.assertEqual(rect.x(), 34)
self.assertEqual(rect.y(), 12)
self.assertEqual(rect.width(), 3)
self.assertEqual(rect.height(), 22)
# should mark everything dirty
self.ims.isDirty.connect(checkAllDirty)
self.ims.setDirty((slice(34, None), slice(12, 34)))
self.ims.isDirty.disconnect(checkAllDirty)
# dirty subrect
self.ims.isDirty.connect(checkDirtyRect)
self.ims.setDirty((slice(34, 37), slice(12, 34)))
self.ims.isDirty.disconnect(checkDirtyRect)
def setUp(self):
super(GrayscaleImageSourceTest, self).setUp()
self.raw = numpy.load(
os.path.join(volumina._testing.__path__[0],
"2d_cells_apoptotic_1channel.npy")).astype(
numpy.uint32)
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))
def setUp(self):
super(GrayscaleImageSourceTest2, self).setUp()
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], "lena.npy")).astype(numpy.uint32)
self.raw = numpy.ma.masked_array(self.raw, numpy.zeros(self.raw.shape, dtype=bool), shrink=False)
self.raw[:10, :] = numpy.ma.masked
self.raw[-10:, :] = numpy.ma.masked
self.raw[:, :10] = numpy.ma.masked
self.raw[:, -10:] = numpy.ma.masked
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))
class GrayscaleImageSourceTest2(ImageSourcesTestBase):
def setUp(self):
super(GrayscaleImageSourceTest2, self).setUp()
self.raw = numpy.load(
os.path.join(volumina._testing.__path__[0],
"2d_cells_apoptotic_1channel.npy"))[0:512,
0:512].astype(
numpy.uint32)
self.raw = numpy.ma.masked_array(self.raw,
numpy.zeros(self.raw.shape,
dtype=bool),
shrink=False)
self.raw[:10, :] = numpy.ma.masked
self.raw[-10:, :] = numpy.ma.masked
self.raw[:, :10] = numpy.ma.masked
self.raw[:, -10:] = numpy.ma.masked
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))
def testRequest(self):
imr = self.ims.request(QRect(0, 0, 512, 512))
result = imr.wait()
self.assertTrue(type(result) == QImage)
result_array = qimage2ndarray.byte_view(result)
assert (result_array[:10, :, -1] == 255).all()
assert (result_array[-10:, :, -1] == 255).all()
assert (result_array[:, :10, -1] == 255).all()
assert (result_array[:, -10:, -1] == 255).all()
def testSetDirty(self):
def checkAllDirty(rect):
self.assertTrue(rect.isEmpty())
def checkDirtyRect(rect):
self.assertEqual(rect.x(), 34)
self.assertEqual(rect.y(), 12)
self.assertEqual(rect.width(), 3)
self.assertEqual(rect.height(), 22)
# should mark everything dirty
self.ims.isDirty.connect(checkAllDirty)
self.ims.setDirty((slice(34, None), slice(12, 34)))
self.ims.isDirty.disconnect(checkAllDirty)
# dirty subrect
self.ims.isDirty.connect(checkDirtyRect)
self.ims.setDirty((slice(34, 37), slice(12, 34)))
self.ims.isDirty.disconnect(checkDirtyRect)
def setUp(self):
self.ds = ConstantSource()
self.layer1 = GrayscaleLayer(self.ds)
self.layer1.visible = False
self.layer1.opacity = 0.1
self.ims1 = GrayscaleImageSource(self.ds, self.layer1)
self.layer2 = GrayscaleLayer(self.ds)
self.layer2.visible = True
self.layer2.opacity = 0.3
self.ims2 = GrayscaleImageSource(self.ds, self.layer2)
self.layer3 = GrayscaleLayer(self.ds)
self.layer3.visible = True
self.layer3.opacity = 1.0
self.ims3 = GrayscaleImageSource(self.ds, self.layer3)
class GrayscaleImageSourceTest2( ImageSourcesTestBase ):
def setUp( self ):
super( GrayscaleImageSourceTest2, self ).setUp()
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], 'lena.npy')).astype( numpy.uint32 )
self.raw = numpy.ma.masked_array(self.raw, numpy.zeros(self.raw.shape, dtype=bool), shrink=False)
self.raw[:10, :] = numpy.ma.masked
self.raw[-10:, :] = numpy.ma.masked
self.raw[:, :10] = numpy.ma.masked
self.raw[:, -10:] = numpy.ma.masked
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource( self.ars, GrayscaleLayer( self.ars ))
def testRequest( self ):
imr = self.ims.request(QRect(0,0,512,512))
def check(result, codon):
self.assertEqual(codon, "unique")
self.assertTrue(type(result) == QImage)
result_array = qimage2ndarray.byte_view(result)
assert((result_array[:10, :, -1] == 255).all())
assert((result_array[-10:, :, -1] == 255).all())
assert((result_array[:, :10, -1] == 255).all())
assert((result_array[:, -10:, -1] == 255).all())
imr.notify(check, codon="unique")
def testSetDirty( self ):
def checkAllDirty( rect ):
self.assertTrue( rect.isEmpty() )
def checkDirtyRect( rect ):
self.assertEqual( rect.x(), 34 )
self.assertEqual( rect.y(), 12 )
self.assertEqual( rect.width(), 3 )
self.assertEqual( rect.height(), 22 )
# should mark everything dirty
self.ims.isDirty.connect( checkAllDirty )
self.ims.setDirty((slice(34,None), slice(12,34)))
self.ims.isDirty.disconnect( checkAllDirty )
# dirty subrect
self.ims.isDirty.connect( checkDirtyRect )
self.ims.setDirty((slice(34,37), slice(12,34)))
self.ims.isDirty.disconnect( checkDirtyRect )
def setUp( self ):
super( GrayscaleImageSourceTest2, self ).setUp()
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], 'lena.npy')).astype( numpy.uint32 )
self.raw = numpy.ma.masked_array(self.raw, numpy.zeros(self.raw.shape, dtype=bool), shrink=False)
self.raw[:10, :] = numpy.ma.masked
self.raw[-10:, :] = numpy.ma.masked
self.raw[:, :10] = numpy.ma.masked
self.raw[:, -10:] = numpy.ma.masked
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource( self.ars, GrayscaleLayer( self.ars ))
def setUp( self ):
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], 'lena.npy'))
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource( self.ars, GrayscaleLayer( self.ars ))
def setUp( self ):
super( GrayscaleImageSourceTest, self ).setUp()
self.raw = numpy.load(os.path.join(volumina._testing.__path__[0], 'lena.npy')).astype( numpy.uint32 )
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource( self.ars, GrayscaleLayer( self.ars ))
def setUp(self):
self.raw = numpy.load(
os.path.join(volumina._testing.__path__[0], 'lena.npy'))
self.ars = _ArraySource2d(self.raw)
self.ims = GrayscaleImageSource(self.ars, GrayscaleLayer(self.ars))