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)