def test_05_07_get_pixel_data_3d(self):
svc = ij2.get_dataset_service(self.context)
result = svc.create1(np.array([10, 7, 3]),
"MyDataset",
[ij2.Axes().Y, ij2.Axes().X, ij2.Axes().CHANNEL],
16, False, False)
imgplus = result.getImgPlus()
script = """
ra = imgplus.randomAccess();
for (x=0;x<imgplus.dimension(0);x++) {
ra.setPosition(x, 0);
for (y=0;y<imgplus.dimension(1);y++) {
ra.setPosition(y, 1);
for (c=0;c<imgplus.dimension(2);c++) {
ra.setPosition(c, 2);
ra.get().set(x + y * 10 + c * 100);
}
}
}
"""
J.run_script(script, dict(imgplus=imgplus))
pixel_data = ij2.get_pixel_data(imgplus)
self.assertSequenceEqual(pixel_data.shape, [10, 7, 3])
i, j, c = np.mgrid[0:10, 0:7, 0:3]
np.testing.assert_array_equal(pixel_data, i + j*10 + c*100)
def test_05_05_get_dataset_pixel_data_axes(self):
svc = ij2.get_dataset_service(self.context)
result = svc.create1(np.array([10, 15]),
"MyDataset", [ij2.Axes().Y, ij2.Axes().X],
8, False, False)
pixel_data = result.get_pixel_data(axes = [ij2.Axes().X, ij2.Axes().Y])
self.assertSequenceEqual(pixel_data.shape, [15, 10])
def test_05_02_create1(self):
svc = ij2.get_dataset_service(self.context)
result = svc.create1(np.array([10, 15]), "MyDataset",
[ij2.Axes().X, ij2.Axes().Y], 8, False, False)
self.assertEqual(result.getName(), "MyDataset")
self.assertTrue(result.isInteger())
self.assertFalse(result.isSigned())
result.getImgPlus()
result.getType()
def test_05_02_create1(self):
svc = ij2.get_dataset_service(self.context)
result = svc.create1(np.array([10, 15]),
"MyDataset", [ij2.Axes().X, ij2.Axes().Y],
8, False, False)
self.assertEqual(result.getName(), "MyDataset")
self.assertTrue(result.isInteger())
self.assertFalse(result.isSigned())
result.getImgPlus()
result.getType()
def test_07_01_wrap_interval(self):
svc = ij2.get_dataset_service(self.context)
result = svc.create1(np.array([10, 15]), "MyDataset",
[ij2.Axes().Y, ij2.Axes().X], 8, False, False)
imgplus = ij2.wrap_interval(result.getImgPlus())
self.assertEqual(imgplus.min1D(0), 0)
self.assertEqual(imgplus.max1D(1), 14)
self.assertSequenceEqual(imgplus.minND(), [0, 0])
self.assertSequenceEqual(imgplus.maxND(), [9, 14])
self.assertSequenceEqual(imgplus.dimensions(), [10, 15])
def test_07_01_wrap_interval(self):
svc = ij2.get_dataset_service(self.context)
result = svc.create1(np.array([10, 15]),
"MyDataset", [ij2.Axes().Y, ij2.Axes().X],
8, False, False)
imgplus = ij2.wrap_interval(result.getImgPlus())
self.assertEqual(imgplus.min1D(0), 0)
self.assertEqual(imgplus.max1D(1), 14)
self.assertSequenceEqual(imgplus.minND(), [0, 0])
self.assertSequenceEqual(imgplus.maxND(), [9, 14])
self.assertSequenceEqual(imgplus.dimensions(), [10, 15])
def test_05_01_dataset_service(self):
svc = ij2.get_dataset_service(self.context)