def load_spectrum(self):
"""initializes a wraith spectrum"""
self.spectrum = spectra_fitting.Spectrum()
xdata = analysis.xdata_calc(self.cube_data, self.cube_dataview)
ydata = analysis.ydata_calc(self.cube_data, self.cube_dataview)
self.spectrum.EE = xdata
self.spectrum.data = ydata
def load_spectrum(self):
"""initializes a wraith spectrum"""
self.spectrum = spectra_fitting.Spectrum()
xdata = analysis.xdata_calc(self.cube_data, self.cube_dataview)
ydata = analysis.ydata_calc(self.cube_data, self.cube_dataview)
self.spectrum.EE = xdata
self.spectrum.data = ydata
def initialize_vbox(self, label_min, label_max, edit_min, edit_max):
label_min.setText('Min')
label_max.setText('Max')
xdata = analysis.xdata_calc(self.data, self.dataview)
edit_min.setText(str(xdata[0]))
edit_max.setText(str(xdata[-1]))
self.update_visualization_settings()
def __init__(self, data, data_view, spectrum_holder, parent=None):
super(Form, self).__init__(parent)
self.filename = data.filename
self.xdata = module_copy.copy(analysis.xdata_calc(data, data_view))
self.xdata = np.float64(self.xdata)
self.data = data
self.ydata = module_copy.copy(analysis.ydata_calc(data, data_view))
self.x = module_copy.copy(data_view.x)
self.y = module_copy.copy(data_view.y)
self.spectrum_holder = spectrum_holder
self.spectrum_viewer = spectrum_viewer.SpectrumViewer(spectrum_holder)
self.display_ev = copy(data_view.display_ev)
self.setWindowTitle('Interactive XPS Explorer')
self.ignore_signals = False
self.files = {}
#self.data = DataHolder()
self.series_list_model = QStandardItemModel()
self.series_list_root = self.series_list_model.invisibleRootItem()
self.series_list_model.itemChanged.connect(self.update_file_checks)
#self.create_menu()
self.create_main_frame()
self.create_status_bar()
self.load_file()
self.update_file_checks(self.series_list_model.item(0))
self.threadPool = []
self.update_ui()
self.on_show()
def initialize_vbox(self,label_min, label_max,
edit_min, edit_max):
label_min.setText('Min')
label_max.setText('Max')
xdata = analysis.xdata_calc(self.data, self.dataview)
edit_min.setText(str(xdata[0]))
edit_max.setText(str(xdata[-1]))
self.update_visualization_settings()
def update_control(self):
xdata = analysis.xdata_calc(self.data, self.dataview)
slice1 = self.dataview.slider_val
if self.dataview.display_ev:
self.ui.imageslice.setText('%0.2f' % float(xdata[slice1]))
else:
self.ui.imageslice.setText('%0.0f ' % float(xdata[slice1]))
self.ui.graphslicex.setText('%d' % self.dataview.x)
self.ui.graphslicey.setText('%d' % self.dataview.y)
def update_control(self):
xdata = analysis.xdata_calc(self.data, self.dataview)
slice1 = self.dataview.slider_val
if self.dataview.display_ev:
self.ui.imageslice.setText('%0.2f'%float(xdata[slice1]))
else:
self.ui.imageslice.setText('%0.0f '%float(xdata[slice1]))
self.ui.graphslicex.setText('%d'%self.dataview.x)
self.ui.graphslicey.setText('%d'%self.dataview.y)
def export_spectrum(filename, data, data_view):
"""
export the current spectrum to an excel file in the original file's folder
"""
location = 'x' + str(data_view.x) + 'y' + str(data_view.y)
no_ext_filename, ext = os.path.splitext(filename)
out_filename = no_ext_filename + location + '.csv'
xdata = analysis.xdata_calc(data, data_view)
ydata = analysis.ydata_calc(data, data_view)
out = np.c_[xdata, ydata]
np.savetxt(str(out_filename), out, delimiter=",", fmt="%10.5f")
def export_spectrum(filename, data, data_view):
"""
export the current spectrum to an excel file in the original file's folder
"""
location = 'x' + str(data_view.x) + 'y' + str(data_view.y)
no_ext_filename, ext = os.path.splitext(filename)
out_filename = no_ext_filename + location + '.csv'
xdata = analysis.xdata_calc(data,data_view)
ydata = analysis.ydata_calc(data,data_view)
out = np.c_[xdata,ydata]
np.savetxt(str(out_filename), out, delimiter=",", fmt="%10.5f")
def change_display(axes, data, dataview):
"""
changes the view between ev and wavelength for ev and wavelength data
"""
axes.cla()
xdata = analysis.xdata_calc(data, dataview)
ydata = analysis.ydata_calc(data, dataview)
img2, = axes.plot(xdata, ydata, ".")
if dataview.display_ev:
axes.set_xlabel("ev")
else:
axes.set_xlabel("$\lambda$ [nm]")
return img2
def change_display(axes, data, dataview):
"""
changes the view between ev and wavelength for ev and wavelength data
"""
axes.cla()
xdata = analysis.xdata_calc(data, dataview)
ydata = analysis.ydata_calc(data, dataview)
img2, = axes.plot(xdata, ydata, '.')
if dataview.display_ev:
axes.set_xlabel('ev')
else:
axes.set_xlabel('$\lambda$ [nm]')
return img2
def initialize_image(axes, data, dataview):
"Initializes the image from the datacube"
yimage = analysis.yimage_calc(data, dataview)
maxval = analysis.maxval_calc(data, dataview)
img = axes.imshow(yimage, interpolation="nearest", clim=(0, maxval), cmap="spectral")
xdata = analysis.xdata_calc(data, dataview)
slice1 = dataview.slider_val
if dataview.display_ev:
axes.set_title("Current Slice ev:%0.2f" % float(xdata[slice1]))
else:
axes.set_title("Current Slice Wavelength:%0.2f" % float(xdata[slice1]))
plt.yticks([])
plt.xticks([])
return img
def initialize_graph(axes, data, dataview):
"""
initializes the graph on screen
xs and ys start from 0
"""
axes.cla()
xdata = analysis.xdata_calc(data, dataview)
ydata = analysis.ydata_calc(data, dataview)
maxval = analysis.maxval_calc(data, dataview)
axes.set_ylim((-maxval / 10, maxval))
img2, = axes.plot(xdata, ydata, ".")
if dataview.display_ev:
plt.xlabel("ev")
else:
plt.xlabel("$\lambda$ [nm]")
return img2
def initialize_graph(axes, data, dataview):
"""
initializes the graph on screen
xs and ys start from 0
"""
axes.cla()
xdata = analysis.xdata_calc(data, dataview)
ydata = analysis.ydata_calc(data, dataview)
maxval = analysis.maxval_calc(data, dataview)
axes.set_ylim((-maxval / 10, maxval))
img2, = axes.plot(xdata, ydata, '.')
if dataview.display_ev:
plt.xlabel('ev')
else:
plt.xlabel('$\lambda$ [nm]')
return img2
def plot_image(img, axes, data, dataview):
"""updates the image on screen with a new cube slice from slider"""
yimage = analysis.yimage_calc(data, dataview)
img.set_array(yimage)
max_color, min_color = analysis.colors_calc(data, dataview)
if dataview.auto_color:
img.autoscale()
vmin, vmax = img.get_clim()
dataview.mincolor = vmin
dataview.maxcolor = vmax
else:
img.set_clim(vmax=max_color, vmin=min_color)
xdata = analysis.xdata_calc(data, dataview)
slice1 = dataview.slider_val
if dataview.display_ev:
axes.set_title("Current Slice ev:%0.2f" % float(xdata[slice1]))
else:
axes.set_title("Current Slice Wavelength:%0.0f " % float(xdata[slice1]))
img.figure.canvas.draw()
def plot_image(img, axes, data, dataview):
"""updates the image on screen with a new cube slice from slider"""
yimage = analysis.yimage_calc(data, dataview)
img.set_array(yimage)
max_color, min_color = analysis.colors_calc(data, dataview)
if dataview.auto_color:
img.autoscale()
vmin, vmax = img.get_clim()
dataview.mincolor = vmin
dataview.maxcolor = vmax
else:
img.set_clim(vmax=max_color, vmin=min_color)
xdata = analysis.xdata_calc(data, dataview)
slice1 = dataview.slider_val
if dataview.display_ev:
axes.set_title('Current Slice ev:%0.2f' % float(xdata[slice1]))
else:
axes.set_title('Current Slice Wavelength:%0.0f ' %
float(xdata[slice1]))
img.figure.canvas.draw()
def initialize_image(axes, data, dataview):
'Initializes the image from the datacube'
yimage = analysis.yimage_calc(data, dataview)
maxval = analysis.maxval_calc(data, dataview)
img = axes.imshow(yimage,
interpolation='nearest',
clim=(0, maxval),
cmap='spectral')
xdata = analysis.xdata_calc(data, dataview)
slice1 = dataview.slider_val
if dataview.display_ev:
axes.set_title('Current Slice ev:%0.2f' % float(xdata[slice1]))
else:
axes.set_title('Current Slice Wavelength:%0.2f' % float(xdata[slice1]))
plt.yticks([])
plt.xticks([])
return img
def graph_pyqt(curve1, curve2, data, dataview):
xdata = analysis.xdata_calc(data, dataview)
ydata = analysis.ydata_calc(data, dataview)
curve1.setData(xdata, ydata, pen="w")
curve2.setData(xdata, ydata, pen="w")
def graph_pyqt(curve1, curve2, data, dataview):
xdata = analysis.xdata_calc(data, dataview)
ydata = analysis.ydata_calc(data, dataview)
curve1.setData(xdata, ydata, pen="w")
curve2.setData(xdata, ydata, pen="w")
