class SaveSettingsTest(unittest.TestCase):
def setUp(self):
self.app = QtGui.QApplication(sys.argv)
def tearDown(self):
del self.app
def create_controller_and_data(self):
self.controller = MainController()
self.img_data = self.controller.img_model
self.mask_data = self.controller.mask_model
self.calibration_data = self.controller.calibration_model
self.spectrum_data = self.controller.spectrum_model
self.phase_data = self.controller.phase_model
def test_calibration_data(self):
self.create_controller_and_data()
self.calibration_data.load(os.path.join(data_path, "LaB6_40keV_MarCCD.poni"))
center_x = self.calibration_data.spectrum_geometry.poni1
self.controller.save_settings()
self.create_controller_and_data()
self.assertEqual(self.calibration_data.spectrum_geometry.poni1, center_x)
def create_controller_and_data(self):
self.controller = MainController()
self.img_model = self.controller.img_model
self.mask_model = self.controller.mask_model
self.calibration_model = self.controller.calibration_model
self.calibration_model.integrate_1d = MagicMock(
return_value=(self.calibration_model.tth,
self.calibration_model.int))
self.spectrum_model = self.controller.spectrum_model
self.phase_model = self.controller.phase_model
def create_controller_and_data(self):
self.controller = MainController()
self.img_data = self.controller.img_model
self.mask_data = self.controller.mask_model
self.calibration_data = self.controller.calibration_model
self.spectrum_data = self.controller.spectrum_model
self.phase_data = self.controller.phase_model
def create_controller_and_data(self):
self.controller = MainController()
self.img_model = self.controller.img_model
self.mask_model = self.controller.mask_model
self.calibration_model = self.controller.calibration_model
self.calibration_model.integrate_1d = MagicMock(return_value=(self.calibration_model.tth,
self.calibration_model.int))
self.spectrum_model = self.controller.spectrum_model
self.phase_model = self.controller.phase_model
class SaveSettingsTest(unittest.TestCase):
@classmethod
def setUpClass(cls):
cls.app = QtGui.QApplication([])
@classmethod
def tearDownClass(cls):
cls.app.quit()
cls.app.deleteLater()
def create_controller_and_data(self):
self.controller = MainController()
self.img_model = self.controller.img_model
self.mask_model = self.controller.mask_model
self.calibration_model = self.controller.calibration_model
self.calibration_model.integrate_1d = MagicMock(
return_value=(self.calibration_model.tth,
self.calibration_model.int))
self.spectrum_model = self.controller.spectrum_model
self.phase_model = self.controller.phase_model
def tearDown(self):
del self.calibration_model.cake_geometry
del self.calibration_model.spectrum_geometry
del self.calibration_model
del self.img_model
del self.mask_model
del self.controller
gc.collect()
def test_calibration_data(self):
self.create_controller_and_data()
self.calibration_model.load(
os.path.join(data_path, "LaB6_40keV_MarCCD.poni"))
center_x = self.calibration_model.spectrum_geometry.poni1
self.controller.save_settings()
self.tearDown()
self.create_controller_and_data()
self.assertEqual(self.calibration_model.spectrum_geometry.poni1,
center_x)
class SaveSettingsTest(unittest.TestCase):
@classmethod
def setUpClass(cls):
cls.app = QtGui.QApplication([])
@classmethod
def tearDownClass(cls):
cls.app.quit()
cls.app.deleteLater()
def create_controller_and_data(self):
self.controller = MainController()
self.img_model = self.controller.img_model
self.mask_model = self.controller.mask_model
self.calibration_model = self.controller.calibration_model
self.calibration_model.integrate_1d = MagicMock(return_value=(self.calibration_model.tth,
self.calibration_model.int))
self.spectrum_model = self.controller.spectrum_model
self.phase_model = self.controller.phase_model
def tearDown(self):
del self.calibration_model.cake_geometry
del self.calibration_model.spectrum_geometry
del self.calibration_model
del self.img_model
del self.mask_model
del self.controller
gc.collect()
def test_calibration_data(self):
self.create_controller_and_data()
self.calibration_model.load(os.path.join(data_path, "LaB6_40keV_MarCCD.poni"))
center_x = self.calibration_model.spectrum_geometry.poni1
self.controller.save_settings()
self.tearDown()
self.create_controller_and_data()
self.assertEqual(self.calibration_model.spectrum_geometry.poni1, center_x)
def __init__(self):
super(Example, self).__init__()
self.mainController = MainController()
self.pw = pg.PlotWidget(name='Plot1')
self.modelTimeEdit = QtGui.QLineEdit()
self.modelTimeEdit.setText(str(SolveModel.MODELING_TIME))
self.stepIntegrationEdit = QtGui.QLineEdit()
self.stepIntegrationEdit.setValidator(QtGui.QDoubleValidator(0.01, 1000.0, 3))
self.stepIntegrationEdit.setText(str(SolveModel.STEP))
self.valueManegeEdit = QtGui.QLineEdit()
self.valueManegeEdit.setText(str(SolveModel.MANAGE_VALUE))
self.manageTimeEdit = QtGui.QLineEdit()
self.manageTimeEdit.setText(str(SolveModel.MANAGE_TIME))
self.initUI()
def run():
app = QtGui.QApplication(sys.argv)
main_controller = MainController()
main_controller.show_view()
app.exec_()
# -*- coding: utf8 -*- # SXRD_Collect - GUI program for collection single crystal X-ray diffraction data # Copyright (C) 2015 Clemens Prescher ([email protected]) # GSECARS, University of Chicago # # This program is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. # # This program is distributed in the hope that it will be useful, # but WITHOUT ANY WARRANTY; without even the implied warranty of # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the # GNU General Public License for more details. # # You should have received a copy of the GNU General Public License # along with this program. If not, see <http://www.gnu.org/licenses/>. __author__ = 'Clemens Prescher' import sys from PyQt4 import QtGui from controller.MainController import MainController if __name__ == '__main__': app = QtGui.QApplication(sys.argv) controller = MainController() app.exec_()
#!/usr/bin/env python3
import sys
from controller.MainController import MainController
import re
if __name__ == '__main__':
dict_regex = {
'file_path': r"^file_path=(.*)$",
'delay_refresh_general':
r"^delay_refresh_general=([0-9]+(\.[0-9]+)?)$",
'delay_refresh_statistics': r"^delay_refresh_statistics=([0-9]+)$",
'delay_refresh_alert': r"^delay_refresh_alert=([0-9]+(\.[0-9]+)?)$",
'threshold': r"^threshold=([0-9]+)$",
}
dict_param = {}
for arg in sys.argv[1:]:
print(arg)
for key, reg in dict_regex.items():
match = re.match(reg, arg)
if match:
dict_param[key] = match.group(1)
del dict_regex[key]
break
application = MainController(dict_param)
# -*- coding: utf8 -*-
__author__ = 'Clemens Prescher'
import sys
from datetime import datetime
from PyQt4 import QtGui
from controller.MainController import MainController
__version__ = 0.24
from sys import platform
app = QtGui.QApplication(sys.argv)
if platform != "darwin":
app.setStyle('plastique')
controller = MainController(__version__)
controller.show_window()
app.exec_()
def setUp(self):
self.app = QtGui.QApplication([])
self.controller = MainController()
self.main_widget = self.controller.main_widget
self.model_widget = self.controller.main_widget.control_widget.model_widget
self.create_spectrum()
class PeakThisFunctionalTest(unittest.TestCase):
def setUp(self):
self.app = QtGui.QApplication([])
self.controller = MainController()
self.main_widget = self.controller.main_widget
self.model_widget = self.controller.main_widget.control_widget.model_widget
self.create_spectrum()
def tearDown(self):
del self.app
def array_almost_equal(self, array1, array2):
self.assertAlmostEqual(np.sum(array1 - array2), 0)
def array_not_almost_equal(self, array1, array2):
self.assertNotAlmostEqual(np.sum(array1 - array2), 0)
def add_peak(self, type_number, click1_pos, click2_pos):
QTest.mouseClick(self.main_widget.model_add_btn, QtCore.Qt.LeftButton)
self.main_widget.model_selector_dialog.model_list.setCurrentRow(type_number)
QTest.mouseClick(self.main_widget.model_selector_dialog.ok_btn, QtCore.Qt.LeftButton)
QTest.mouseClick(self.main_widget.model_define_btn, QtCore.Qt.LeftButton)
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(click1_pos[0], click1_pos[1])
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(click2_pos[0], click2_pos[1])
def copy_model(self, click1_pos, click2_pos):
QTest.mouseClick(self.main_widget.model_copy_btn, QtCore.Qt.LeftButton)
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(click1_pos[0], click1_pos[1])
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(click2_pos[0], click2_pos[1])
def create_spectrum(self):
self.x = np.linspace(0, 10, 1000)
self.y = np.zeros(self.x.shape)
# creating the background:
bkg_x = [0, 3, 7, 10]
bkg_y = [1, 1.2, 1.1, 1]
pchip_interpolator = PchipInterpolator(bkg_x, bkg_y, extrapolate=True)
self.y += pchip_interpolator(self.x)
# creating the models
def create_peak(x, center, intensity, fwhm=0.2):
gauss_curve = PickGaussianModel()
gauss_curve.set_parameter_value('center', center)
gauss_curve.set_parameter_value('intensity', intensity)
gauss_curve.set_parameter_value('fwhm', fwhm)
return gauss_curve.quick_eval(x)
self.y += create_peak(self.x, 1, 10)
self.y += create_peak(self.x, 3, 5)
self.y += create_peak(self.x, 6, 2)
self.y += create_peak(self.x, 7.5, 3)
self.y += create_peak(self.x, 9, 8)
#adding noise
self.y += np.random.normal(0, 0.03 * np.max(self.y), self.y.shape)
self.temp_file = tempfile.NamedTemporaryFile(suffix='.txt', delete=False)
np.savetxt(self.temp_file, np.dstack((self.x, self.y))[0])
self.temp_file.close()
def test_use_case_for_raman_fitting(self):
# Edith opens PeakThis sees the open file button and loads her spectrum into the program
# she clicks the button and loads a spectrum
self.controller.load_data(self.temp_file.name)
# Edith notices that the spectrum is immediately shown in the graph window
QtGui.QApplication.processEvents()
x, y = self.main_widget.spectrum_widget.get_plot_data()
self.array_almost_equal(x, self.x)
self.array_almost_equal(y, self.y)
# then she sees that she can define a background for her Data
# she chooses that the standard pchip should be fine to model her data
# and clicks define and sees that she can add points by clicking into the spectrum
QTest.mouseClick(self.main_widget.background_define_btn, QtCore.Qt.LeftButton)
bkg_click_points_x = [0, 3, 5]
bkg_click_points_y = [1, 1.2, 6]
for ind in range(len(bkg_click_points_x)):
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(bkg_click_points_x[ind],
bkg_click_points_y[ind])
bkg_points_x, bkg_points_y = self.main_widget.spectrum_widget.get_background_points_data()
self.array_almost_equal(bkg_points_x, bkg_click_points_x)
self.array_almost_equal(bkg_points_y, bkg_click_points_y)
# every time she clicks in the spectrum after the first three clicks she sees that the background changes
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(7, 1.1)
x, bkg_y1 = self.main_widget.spectrum_widget.get_background_plot_data()
self.array_almost_equal(self.x, x)
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(10, 1)
x, bkg_y2 = self.main_widget.spectrum_widget.get_background_plot_data()
self.array_not_almost_equal(bkg_y1, bkg_y2)
# after inspecting her data and background model she thinks that 'pchip' is maybe not the best way to
# approximate the background so she tries the spline model, and she notices how the background is change
self.main_widget.background_method_cb.setCurrentIndex(1)
x, bkg_y3 = self.main_widget.spectrum_widget.get_background_plot_data()
self.array_not_almost_equal(bkg_y2, bkg_y3)
# then she sees that spline is actually worse and goes back to pchip
self.main_widget.background_method_cb.setCurrentIndex(0)
x, bkg_y4 = self.main_widget.spectrum_widget.get_background_plot_data()
self.array_almost_equal(bkg_y4, bkg_y2)
# Edith decides that she is finished with the background and clicks the button to finish it
QTest.mouseClick(self.main_widget.background_define_btn, QtCore.Qt.LeftButton)
# she notices that clicking into the spectrum now does not effect background any more...
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(10, 10)
x, bkg_y5 = self.main_widget.spectrum_widget.get_background_plot_data()
self.array_almost_equal(bkg_y5, bkg_y4)
# while playing and being happy that everything works she realizes that there is one point which might be
# better deleted
# She clicks the define button again and moves to the point and tries to delete by pressing x
QTest.mouseClick(self.main_widget.background_define_btn, QtCore.Qt.LeftButton)
class DummyKeyPressEvent():
def __init__(self, text):
self._text = text
def text(self):
return self._text
self.main_widget.spectrum_widget._spectrum_plot_set_current_mouse_position(6.2, 4.5)
self.main_widget.spectrum_widget._spectrum_plot_send_keypress_event(DummyKeyPressEvent('x'))
bkg_scatter_x, bkg_scatter_y = self.main_widget.spectrum_widget.get_background_points_data()
self.array_almost_equal(bkg_scatter_x, [0, 3, 7, 10])
self.array_almost_equal(bkg_scatter_y, [1, 1.2, 1.1, 1])
# Now she is satisfied with the result and finishes the background determination process
QTest.mouseClick(self.main_widget.background_define_btn, QtCore.Qt.LeftButton)
# she notices that pressing x does not delete points anymore
self.main_widget.spectrum_widget._spectrum_plot_send_keypress_event(DummyKeyPressEvent('x'))
bkg_scatter_x, bkg_scatter_y = self.main_widget.spectrum_widget.get_background_points_data()
self.array_almost_equal(bkg_scatter_x, [0, 3, 7, 10])
self.array_almost_equal(bkg_scatter_y, [1, 1.2, 1.1, 1])
# As Edith is now happy with the background she decides to add a peak, because that's what she is here for,
# right?
# She sees that there is an add button an presses it
QTest.mouseClick(self.main_widget.model_add_btn, QtCore.Qt.LeftButton)
# a small dialog appears where she can choose the model she wants to add. She Sees that there are several
# possible she thinks her peaks are
# Gaussian shape like she chooses the Gaussian entry
self.main_widget.model_selector_dialog.model_list.setCurrentRow(0)
QTest.mouseClick(self.main_widget.model_selector_dialog.ok_btn, QtCore.Qt.LeftButton)
# then she sees that a model appears in the list below the add button and that there is a table with
# parameters available for the model
self.assertGreater(self.main_widget.model_list.count(), 0)
self.assertGreater(self.main_widget.model_parameter_table.rowCount(), 0)
# she wonders if it is possible to change the parameters in the text boxes of the parameter table, and sees
# that the spectrum is changing
start_x, start_y = self.main_widget.spectrum_widget.get_model_plot_data(0)
self.model_widget.parameter_table.item(0, 1).setText('20')
self.model_widget.parameter_table.item(1, 1).setText('3')
self.model_widget.parameter_table.item(2, 1).setText('19')
after_x, after_y = self.main_widget.spectrum_widget.get_model_plot_data(0)
self.array_almost_equal(start_x, after_x)
self.array_not_almost_equal(start_y, after_y)
# then she sees the "Define" and wonders, if this also makes it possible to visually define the model, like
# she did before with the Background
QTest.mouseClick(self.main_widget.model_define_btn, QtCore.Qt.LeftButton)
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(1, 10)
self.main_widget.spectrum_widget._spectrum_plot_emit_mouse_click_event(1.3, 4.5)
after_define_x, after_define_y = self.main_widget.spectrum_widget.get_model_plot_data(0)
self.array_not_almost_equal(after_define_y, after_y)
# She decides to add some other peaks for fitting all the peaks she sees:
self.add_peak(0, (3, 5), (3.3, 9.5))
self.add_peak(0, (6, 2), (6.2, 14.6))
self.add_peak(0, (7.5, 3), (7.8, 8))
self.add_peak(0, (9, 8), (9.4, 11))
self.assertEqual(self.main_widget.model_list.count(), 5)
self.assertEqual(self.main_widget.spectrum_widget.get_number_of_model_plots(), 5)
# she sees that there is a copy button and wonders if this will just take of the hassle to always use the
# model selector
QTest.mouseClick(self.main_widget.model_copy_btn, QtCore.Qt.LeftButton)
self.assertEqual(self.main_widget.model_list.count(), 6)
self.assertEqual(self.main_widget.spectrum_widget.get_number_of_model_plots(), 6)
# then she sees that the last peak is doubled now and should be removed from the list
QTest.mouseClick(self.main_widget.model_delete_btn, QtCore.Qt.LeftButton)
self.assertEqual(self.main_widget.model_list.count(), 5)
self.assertEqual(self.main_widget.spectrum_widget.get_number_of_model_plots(), 5)
# now she is satisfied with the initial model and wants to fit the peaks:
before_x, before_y = self.main_widget.spectrum_widget.get_model_plot_data(0)
QTest.mouseClick(self.main_widget.fit_btn, QtCore.Qt.LeftButton)
after_x, after_y = self.main_widget.spectrum_widget.get_model_plot_data(0)
self.array_not_almost_equal(before_y, after_y)
# and she sees that the lower graph now also shows the residual
residual_x, residual_y = self.main_widget.spectrum_widget.get_residual_plot_data()
self.array_almost_equal(after_x, residual_x)
self.assertNotEqual(np.sum(residual_y), 0)
# self.fail("Finish the Test!")
]
FILE_NAME = 'log_test.log'
def create_log_test(threadName, delay):
# with 1s by refresh
# with a threshold set to 200 => alert between 10s to 20s
list_nb_to_send = [20] * 20 + [0] * 60
# creation of the file
fichier = open(FILE_NAME, "w")
fichier.close()
for nb_to_send in list_nb_to_send:
request_to_send = list_request[rd.randint(0, len(list_request) - 1)]
with open(FILE_NAME, 'a') as f:
for i in range(nb_to_send):
time = datetime.utcnow().replace(
tzinfo=timezone.utc).strftime("%d/%b/%Y:%H:%M:%S %z")
to_send = request_to_send.format(time)
f.write(to_send + '\n')
sleep(delay)
if __name__ == '__main__':
_thread.start_new_thread(create_log_test, ("Thread-1", 1))
application = MainController({
'file_path': 'log_test.log',
'threshold': 200
})
from multiprocessing import freeze_support
# launch script, do not try to import this
# (if you import it, it will do nothing - import the classes instead)
if __name__ == '__main__':
freeze_support()
from controller.MainController import MainController
from tkinter import Tk
window = Tk()
mc = MainController(window)
mc.start()
def controller(queue_wr,queue_rd):
controller = MainController(queue_wr,queue_rd)
controller.run()
from controller.MainController import MainController MainController()
sections = [separator, time_string, separator, errmsg, separator, tb_info]
msg = '\n'.join(sections)
try:
f = open(log_file, "w")
f.write(msg)
f.write(version_info)
f.close()
except IOError:
pass
errorbox = ErrorMessageBox()
errorbox.setText(str(notice) + str(msg) + str(version_info))
errorbox.exec_()
sys.excepthook = excepthook
if __name__ == "__main__":
from sys import platform as _platform
from controller.MainController import MainController, get_version
dioptas_version = get_version()
print("Dioptas {}".format(dioptas_version))
if _platform == "linux" or _platform == "linux2" or _platform == "win32" or _platform == 'cygwin':
app.setStyle('plastique')
controller = MainController()
controller.show_window()
app.exec_()
del app
class Example(QtGui.QWidget):
def __init__(self):
super(Example, self).__init__()
self.mainController = MainController()
self.pw = pg.PlotWidget(name='Plot1')
self.modelTimeEdit = QtGui.QLineEdit()
self.modelTimeEdit.setText(str(SolveModel.MODELING_TIME))
self.stepIntegrationEdit = QtGui.QLineEdit()
self.stepIntegrationEdit.setValidator(QtGui.QDoubleValidator(0.01, 1000.0, 3))
self.stepIntegrationEdit.setText(str(SolveModel.STEP))
self.valueManegeEdit = QtGui.QLineEdit()
self.valueManegeEdit.setText(str(SolveModel.MANAGE_VALUE))
self.manageTimeEdit = QtGui.QLineEdit()
self.manageTimeEdit.setText(str(SolveModel.MANAGE_TIME))
self.initUI()
def initUI(self):
self.resize(1000, 700)
self.center()
manageTime = QtGui.QLabel(u'Длительность управляющего воздействия, с')
valueManege = QtGui.QLabel(u'Величина управляющего воздействия')
stepIntegration = QtGui.QLabel(u'Шаг интегрирования')
modelTime = QtGui.QLabel(u'Длительность моделирования')
grid = QtGui.QGridLayout()
grid.setSpacing(10)
grid.addWidget(manageTime, 1, 0)
grid.addWidget(self.manageTimeEdit, 2, 0)
grid.addWidget(valueManege, 3, 0)
grid.addWidget(self.valueManegeEdit, 4, 0)
grid.addWidget(stepIntegration, 5, 0)
grid.addWidget(self.stepIntegrationEdit, 6, 0)
grid.addWidget(modelTime, 7, 0)
grid.addWidget(self.modelTimeEdit, 8, 0)
grid.addWidget(self.pw, 1, 1, 10, 1)
datax = [1, 2, 3, 4, 5, 6]
datay = [1, 4, 7, 2, 3, 3]
confirmParametresBtn = QtGui.QPushButton(u'Применить параметры', self)
solveBtn = QtGui.QPushButton(u'Решить')
saveBtn = QtGui.QPushButton(u'Сохранить')
clearBtn = QtGui.QPushButton(u'Очистить')
confirmParametresBtn.clicked.connect(self.confirmParametrBtnClicked)
solveBtn.clicked.connect(self.solveBtnClicked)
saveBtn.clicked.connect(self.saveBtnClicked)
clearBtn.clicked.connect(self.clearBtnClicked)
grid.addWidget(confirmParametresBtn, 11, 0)
grid.addWidget(solveBtn, 12, 0)
grid.addWidget(saveBtn, 13, 0)
grid.addWidget(clearBtn, 14, 0)
self.setLayout(grid)
self.setWindowTitle('LA Model')
self.show()
def confirmParametrBtnClicked(self):
SolveModel.STEP = float(self.stepIntegrationEdit.text())
if SolveModel.STEP == 0:
SolveModel.STEP = 0.01
self.stepIntegrationEdit.setText("0.01")
SolveModel.MANAGE_TIME = float(self.manageTimeEdit.text())
SolveModel.MANAGE_VALUE = float(self.valueManegeEdit.text())
SolveModel.MODELING_TIME = float(self.modelTimeEdit.text())
def solveBtnClicked(self):
countTimes = int(SolveModel.MODELING_TIME / SolveModel.STEP)
result = [None] * countTimes
times = [None] * countTimes
manage = [None] * countTimes
solve = Solver(result, times, manage)
datax, datay = solve.run()
p1 = self.pw.plot(x=datax, y=datay, pen=(210, 2, 15))
def saveBtnClicked(self):
self.mainController.saveMetaData()
def clearBtnClicked(self):
self.pw.plotItem.clear()
def center(self):
qr = self.frameGeometry()
cp = QtGui.QDesktopWidget().availableGeometry().center()
qr.moveCenter(cp)
self.move(qr.topLeft())
def closeEvent(self, QCloseEvent):
reply = QtGui.QMessageBox.question(self, 'Message', 'Are you sure to quit?',
QtGui.QMessageBox.Yes | QtGui.QMessageBox.No, QtGui.QMessageBox.No)
if reply == QtGui.QMessageBox.Yes:
QCloseEvent.accept()
else:
QCloseEvent.ignore()