def setUp(self):
AbstractPlateAnalysisCtx.DEFAULT_ORIGINAL_FILE_PROVIDER = \
FromFileOriginalFileProvider
original_files = list()
# Create our container images and an original file image map
images = list()
n_images = 0
for row in range(16):
for column in range(24):
well = WellI(n_images, True)
well.column = rint(column)
well.row = rint(row)
well_sample = WellSampleI(n_images, True)
well_sample.well = well
image = ImageI(n_images, True)
image.addWellSample(well_sample)
images.append(image)
original_file_image_map = dict()
# Our required original file format
format = rstring('Companion/Flex')
# Create original file representing the result file
o = OriginalFileI(1, True)
o.name = rstring(self.RESULT_FILE)
o.path = rstring(os.path.join(self.ROOT, self.RESULT_FILE))
o.mimetype = format
original_files.append(o) # [1] = o
original_file_image_map[1] = images[0]
sf = TestingServiceFactory()
self.analysis_ctx = FlexPlateAnalysisCtx(images, original_files,
original_file_image_map, 1,
sf)
class FlexParseRoiTest(unittest.TestCase):
ROOT = "/Users/callan/testimages/"
RESULT_FILE = "An_02_Me01_12132846(2009-06-17_11-56-17).res"
def setUp(self):
AbstractPlateAnalysisCtx.DEFAULT_ORIGINAL_FILE_PROVIDER = \
FromFileOriginalFileProvider
original_files = list()
# Create our container images and an original file image map
images = list()
n_images = 0
for row in range(16):
for column in range(24):
well = WellI(n_images, True)
well.column = rint(column)
well.row = rint(row)
well_sample = WellSampleI(n_images, True)
well_sample.well = well
image = ImageI(n_images, True)
image.addWellSample(well_sample)
images.append(image)
original_file_image_map = dict()
# Our required original file format
format = rstring('Companion/Flex')
# Create original file representing the result file
o = OriginalFileI(1, True)
o.name = rstring(self.RESULT_FILE)
o.path = rstring(os.path.join(self.ROOT, self.RESULT_FILE))
o.mimetype = format
original_files.append(o) # [1] = o
original_file_image_map[1] = images[0]
sf = TestingServiceFactory()
self.analysis_ctx = FlexPlateAnalysisCtx(images, original_files,
original_file_image_map, 1,
sf)
def test_get_measurement_ctx(self):
ctx = self.analysis_ctx.get_measurement_ctx(0)
self.assertNotEqual(None, ctx)
def test_get_columns(self):
ctx = self.analysis_ctx.get_measurement_ctx(0)
columns = ctx.parse()
self.assertNotEqual(None, columns)
self.assertEqual(50, len(columns))
for column in columns:
self.assertEqual(384, len(column.values))
class FlexParseRoiTest(unittest.TestCase):
ROOT = "/Users/callan/testimages/"
RESULT_FILE = "An_02_Me01_12132846(2009-06-17_11-56-17).res"
def setUp(self):
AbstractPlateAnalysisCtx.DEFAULT_ORIGINAL_FILE_PROVIDER = \
FromFileOriginalFileProvider
original_files = list()
# Create our container images and an original file image map
images = list()
n_images = 0
for row in range(16):
for column in range(24):
well = WellI(n_images, True)
well.column = rint(column)
well.row = rint(row)
well_sample = WellSampleI(n_images, True)
well_sample.well = well
image = ImageI(n_images, True)
image.addWellSample(well_sample)
images.append(image)
original_file_image_map = dict()
# Our required original file format
format = rstring('Companion/Flex')
# Create original file representing the result file
o = OriginalFileI(1L, True)
o.name = rstring(self.RESULT_FILE)
o.path = rstring(os.path.join(self.ROOT, self.RESULT_FILE))
o.mimetype = format
original_files.append(o) # [1L] = o
original_file_image_map[1L] = images[0]
sf = TestingServiceFactory()
self.analysis_ctx = FlexPlateAnalysisCtx(
images, original_files, original_file_image_map, 1L, sf)
def test_get_measurement_ctx(self):
ctx = self.analysis_ctx.get_measurement_ctx(0)
self.assertNotEqual(None, ctx)
def test_get_columns(self):
ctx = self.analysis_ctx.get_measurement_ctx(0)
columns = ctx.parse()
self.assertNotEqual(None, columns)
self.assertEqual(50, len(columns))
for column in columns:
self.assertEqual(384, len(column.values))
def setUp(self):
AbstractPlateAnalysisCtx.DEFAULT_ORIGINAL_FILE_PROVIDER = \
FromFileOriginalFileProvider
original_files = list()
# Create our container images and an original file image map
images = list()
n_images = 0
for row in range(16):
for column in range(24):
well = WellI(n_images, True)
well.column = rint(column)
well.row = rint(row)
well_sample = WellSampleI(n_images, True)
well_sample.well = well
image = ImageI(n_images, True)
image.addWellSample(well_sample)
images.append(image)
original_file_image_map = dict()
# Our required original file format
format = rstring('Companion/Flex')
# Create original file representing the result file
o = OriginalFileI(1L, True)
o.name = rstring(self.RESULT_FILE)
o.path = rstring(os.path.join(self.ROOT, self.RESULT_FILE))
o.mimetype = format
original_files.append(o) # [1L] = o
original_file_image_map[1L] = images[0]
sf = TestingServiceFactory()
self.analysis_ctx = FlexPlateAnalysisCtx(
images, original_files, original_file_image_map, 1L, sf)