class CalibrationControllerTest(unittest.TestCase):
def setUp(self):
self.app = QtGui.QApplication(sys.argv)
self.img_data = ImgData()
self.mask_data = MaskData()
self.calibration_data = CalibrationData(self.img_data)
self.calibration_data._calibrants_working_dir = 'Data/Calibrants'
self.calibration_view = CalibrationView()
self.working_dir = {}
self.calibration_controller = CalibrationController(working_dir=self.working_dir,
img_data=self.img_data,
mask_data=self.mask_data,
view=self.calibration_view,
calibration_data=self.calibration_data)
def tearDown(self):
del self.app
def test_automatic_calibration1(self):
self.calibration_controller.load_img('Data/LaB6_p49_40keV_006.tif')
self.calibration_controller.search_peaks(1179.6, 1129.4)
self.calibration_controller.search_peaks(1268.5, 1119.8)
self.calibration_controller.view.sv_wavelength_txt.setText('0.31')
self.calibration_controller.view.sv_distance_txt.setText('200')
self.calibration_controller.view.sv_pixel_width_txt.setText('79')
self.calibration_controller.view.sv_pixel_height_txt.setText('79')
self.calibration_controller.view.calibrant_cb.setCurrentIndex(7)
self.calibration_controller.calibrate()
self.calibration_controller.view.cake_view.set_vertical_line_pos(1419.8, 653.4)
def test_automatic_calibration2(self):
self.calibration_controller.load_img('Data/LaB6_WOS_30keV_005.tif')
self.calibration_controller.search_peaks(1245.2, 1919.3)
self.calibration_controller.search_peaks(1334.0, 1823.7)
self.calibration_controller.view.sv_wavelength_txt.setText('0.3344')
self.calibration_controller.view.sv_distance_txt.setText('500')
self.calibration_controller.view.sv_pixel_width_txt.setText('200')
self.calibration_controller.view.sv_pixel_height_txt.setText('200')
self.calibration_controller.view.calibrant_cb.setCurrentIndex(7)
self.calibration_controller.calibrate()
self.calibration_controller.view.cake_view.set_vertical_line_pos(206.5, 171.6)
def test_automatic_calibration3(self):
self.calibration_controller.load_img('Data/CeO2_Oct24_2014_001_0000.tif')
QTest.mouseClick(self.calibration_view.automatic_peak_num_inc_cb, QtCore.Qt.LeftButton)
self.assertFalse(self.calibration_view.automatic_peak_num_inc_cb.isChecked())
self.calibration_controller.search_peaks(517.664434674, 647.529865592)
self.calibration_controller.search_peaks(667.380513299, 525.252854758)
self.calibration_controller.search_peaks(671.110095329, 473.571503774)
self.calibration_controller.search_peaks(592.788872703, 350.495296791)
self.calibration_controller.search_peaks(387.395462348, 390.987901686)
self.calibration_controller.search_peaks(367.94835605, 554.290314848)
self.calibration_controller.view.sv_wavelength_txt.setText('0.406626')
self.calibration_controller.view.sv_distance_txt.setText('200')
self.calibration_controller.view.sv_pixel_width_txt.setText('172')
self.calibration_controller.view.sv_pixel_height_txt.setText('172')
self.calibration_controller.view.calibrant_cb.setCurrentIndex(4)
start_values = self.calibration_view.get_start_values()
self.assertAlmostEqual(start_values['wavelength'], 0.406626e-10)
self.assertAlmostEqual(start_values['pixel_height'], 172e-6)
self.assertAlmostEqual(start_values['pixel_width'], 172e-6)
self.calibration_controller.load_calibrant()
self.assertAlmostEqual(self.calibration_data.calibrant.wavelength, 0.406626e-10)
QTest.mouseClick(self.calibration_view.integrate_btn, QtCore.Qt.LeftButton)
calibration_parameter = self.calibration_data.get_calibration_parameter()[0]
self.assertAlmostEqual(calibration_parameter['dist'], .2086, places=4)
def test_automatic_calibration_with_supersampling(self):
self.calibration_controller.load_img('Data/LaB6_p49_40keV_006.tif')
self.calibration_controller.search_peaks(1179.6, 1129.4)
self.calibration_controller.search_peaks(1268.5, 1119.8)
self.calibration_controller.view.sv_wavelength_txt.setText('0.31')
self.calibration_controller.view.sv_distance_txt.setText('200')
self.calibration_controller.view.sv_pixel_width_txt.setText('79')
self.calibration_controller.view.sv_pixel_height_txt.setText('79')
self.calibration_controller.view.calibrant_cb.setCurrentIndex(7)
self.img_data.set_supersampling(2)
self.calibration_data.set_supersampling(2)
self.calibration_controller.calibrate()
def test_automatic_calibration_with_supersampling_and_mask(self):
self.calibration_controller.load_img('Data/LaB6_p49_40keV_006.tif')
self.calibration_controller.search_peaks(1179.6, 1129.4)
self.calibration_controller.search_peaks(1268.5, 1119.8)
self.calibration_controller.view.sv_wavelength_txt.setText('0.31')
self.calibration_controller.view.sv_distance_txt.setText('200')
self.calibration_controller.view.sv_pixel_width_txt.setText('79')
self.calibration_controller.view.sv_pixel_height_txt.setText('79')
self.calibration_controller.view.calibrant_cb.setCurrentIndex(7)
self.img_data.set_supersampling(2)
self.mask_data.mask_below_threshold(self.img_data._img_data, 1)
self.mask_data.set_supersampling(2)
self.calibration_data.set_supersampling(2)
self.calibration_controller.view.use_mask_cb.setChecked(True)
self.calibration_controller.calibrate()
def test_calibrating_one_image_size_and_loading_different_image_size(self):
self.calibration_controller.load_img('Data/LaB6_p49_40keV_006.tif')
self.calibration_controller.search_peaks(1179.6, 1129.4)
self.calibration_controller.search_peaks(1268.5, 1119.8)
self.calibration_controller.view.sv_wavelength_txt.setText('0.31')
self.calibration_controller.view.sv_distance_txt.setText('200')
self.calibration_controller.view.sv_pixel_width_txt.setText('79')
self.calibration_controller.view.sv_pixel_height_txt.setText('79')
self.calibration_controller.view.calibrant_cb.setCurrentIndex(7)
self.calibration_controller.view.options_automatic_refinement_cb.setChecked(False)
self.calibration_controller.view.use_mask_cb.setChecked(True)
self.calibration_controller.calibrate()
self.calibration_data.integrate_1d()
self.calibration_data.integrate_2d()
self.calibration_controller.load_img('Data/CeO2_Pilatus1M.tif')
self.calibration_data.integrate_1d()
self.calibration_data.integrate_2d()
def test_loading_and_saving_of_calibration_files(self):
self.calibration_controller.load_calibration('Data/calibration.poni')
self.calibration_controller.save_calibration('Data/calibration.poni')
class MainController(object):
"""
Creates a the main controller for Dioptas. Loads all the data objects and connects them with the other controllers
"""
def __init__(self):
self.view = MainView()
#create data
self.img_data = ImgData()
self.calibration_data = CalibrationData(self.img_data)
self.mask_data = MaskData()
self.spectrum_data = SpectrumData()
self.phase_data = PhaseData()
self.settings_directory = os.path.join(os.path.expanduser("~"), '.Dioptas')
self.working_directories = {'calibration': '', 'mask': '', 'image': '', 'spectrum': '', 'overlay': '',
'phase': ''}
self.load_settings()
#create controller
self.calibration_controller = CalibrationController(self.working_directories,
self.view.calibration_widget,
self.img_data,
self.mask_data,
self.calibration_data)
self.mask_controller = MaskController(self.working_directories,
self.view.mask_widget,
self.img_data,
self.mask_data)
self.integration_controller = IntegrationController(self.working_directories,
self.view.integration_widget,
self.img_data,
self.mask_data,
self.calibration_data,
self.spectrum_data,
self.phase_data)
self.create_signals()
self.set_title()
self.raise_window(self.view)
@staticmethod
def raise_window(widget):
widget.show()
widget.setWindowState(widget.windowState() & ~QtCore.Qt.WindowMinimized | QtCore.Qt.WindowActive)
widget.activateWindow()
widget.raise_()
def create_signals(self):
self.view.tabWidget.currentChanged.connect(self.tab_changed)
self.view.closeEvent = self.close_event
self.img_data.subscribe(self.set_title)
self.spectrum_data.subscribe(self.set_title)
def tab_changed(self, ind):
if ind == 2:
self.mask_data.set_supersampling()
self.integration_controller.image_controller.plot_mask()
self.integration_controller.view.calibration_lbl.setText(self.calibration_data.calibration_name)
auto_scale_previous = self.integration_controller.image_controller._auto_scale
self.integration_controller.image_controller._auto_scale = False
self.integration_controller.spectrum_controller.image_changed()
self.integration_controller.image_controller.update_img()
self.integration_controller.image_controller._auto_scale = auto_scale_previous
elif ind == 1:
self.mask_controller.plot_mask()
self.mask_controller.plot_image()
elif ind == 0:
self.calibration_controller.plot_mask()
try:
self.calibration_controller.update_calibration_parameter_in_view()
except (TypeError, AttributeError):
pass
def set_title(self):
img_filename = os.path.basename(self.img_data.filename)
spec_filename = os.path.basename(self.spectrum_data.spectrum_filename)
calibration_name = self.calibration_data.calibration_name
str = 'Dioptas ' + __VERSION__
if img_filename is '' and spec_filename is '':
self.view.setWindowTitle(str + u' - © 2014 C. Prescher')
self.view.integration_widget.img_frame.setWindowTitle(str + u' - © 2014 C. Prescher')
return
if img_filename is not '' or spec_filename is not '':
str += ' - ['
if img_filename is not '':
str += img_filename
elif img_filename is '' and spec_filename is not '':
str += spec_filename
if not img_filename == spec_filename:
str += ', ' + spec_filename
if calibration_name is not None:
str += ', calibration: ' + calibration_name
str += ']'
str += u' - © 2014 C. Prescher'
self.view.setWindowTitle(str)
self.view.integration_widget.img_frame.setWindowTitle(str)
def load_settings(self):
if os.path.exists(self.settings_directory):
self.load_directories()
self.load_xml_settings()
def load_directories(self):
working_directories_path = os.path.join(self.settings_directory, 'working_directories.csv')
if os.path.exists(working_directories_path):
reader = csv.reader(open(working_directories_path, 'r'))
self.working_directories = dict(x for x in reader)
def load_xml_settings(self):
xml_settings_path = os.path.join(self.settings_directory, "settings.xml")
if os.path.exists(xml_settings_path):
tree = ET.parse(xml_settings_path)
root = tree.getroot()
filenames = root.find("filenames")
calibration_path=filenames.find("calibration").text
if os.path.exists(str(calibration_path)):
self.calibration_data.load(calibration_path)
def save_settings(self):
if not os.path.exists(self.settings_directory):
os.mkdir(self.settings_directory)
self.save_directories()
self.save_xml_settings()
def save_directories(self):
working_directories_path = os.path.join(self.settings_directory, 'working_directories.csv')
writer = csv.writer(open(working_directories_path, 'w'))
for key, value in list(self.working_directories.items()):
writer.writerow([key, value])
writer.writerow([key, value])
def save_xml_settings(self):
root = ET.Element("DioptasSettings")
filenames = ET.SubElement(root, "filenames")
calibration_filename = ET.SubElement(filenames, "calibration")
calibration_filename.text = self.calibration_data.filename
tree = ET.ElementTree(root)
tree.write(os.path.join(self.settings_directory, "settings.xml"))
def close_event(self, _):
self.save_settings()
QtGui.QApplication.closeAllWindows()
QtGui.QApplication.quit()