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optimized imports

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This commit is contained in:
Markus Rosenstihl 2014-09-24 22:09:39 +02:00
parent ffc817f306
commit 582019d7cb
1 changed files with 71 additions and 75 deletions
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132
QDS.py
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@ -4,16 +4,17 @@ from gui import ExtraDifferentialWidget
_author_ = "Markus Rosenstihl"
import hashlib,uuid
import hashlib, uuid
import time
import os,sys,re,signal
import os, sys, re, signal
import matplotlib
matplotlib.use('agg')
from matplotlib import pyplot
from matplotlib.colors import hex2color
#matplotlib.rc_file("default.mplrc")
# matplotlib.rc_file("default.mplrc")
from PyQt4.QtCore import *
@ -32,7 +33,7 @@ from bds_io import bds_file_reader
class AppWindow(QMainWindow):
def __init__(self, files=[], parent=None):
def __init__( self, files=[], parent=None ):
super(AppWindow, self).__init__(parent)
self.ui = QDSMain.Ui_MainWindow()
self.ui.setupUi(self)
@ -40,11 +41,11 @@ class AppWindow(QMainWindow):
self._last_written_header = None
actions = {
self.ui.actionAdd_Peak:self.addPeak,
self.ui.actionAdd_Cond:self.addCond,
self.ui.actionAdd_PowerLaw:self.addPowerComplex,
self.ui.actionAdd_Eps_Infty:self.addEpsInfty,
self.ui.actionYAFF:self.addYaff,
self.ui.actionAdd_Peak: self.addPeak,
self.ui.actionAdd_Cond: self.addCond,
self.ui.actionAdd_PowerLaw: self.addPowerComplex,
self.ui.actionAdd_Eps_Infty: self.addEpsInfty,
self.ui.actionYAFF: self.addYaff,
}
self.myActionGroup = QActionGroup(self)
@ -59,11 +60,10 @@ class AppWindow(QMainWindow):
self.parameterWidget = ParameterWidget()
self.ui.dockWidget_3.setWidget(self.parameterWidget)
self.data = Data()
self.fit_boundary_imag = pg.LinearRegionItem(brush=QColor(0,127,254,15))
self.fit_boundary_real = pg.LinearRegionItem(brush=QColor(0,127,254,15))
self.fit_boundary_imag = pg.LinearRegionItem(brush=QColor(0, 127, 254, 15))
self.fit_boundary_real = pg.LinearRegionItem(brush=QColor(0, 127, 254, 15))
self.ui.pgPlotWidget_imag.addItem(self.data.data_curve_imag)
self.ui.pgPlotWidget_real.addItem(self.data.data_curve_real)
@ -85,7 +85,7 @@ class AppWindow(QMainWindow):
pltwidgt.disableAutoRange()
pltwidgt.setLabel("bottom", "Frequency", units="Hz")
self.ui.pgPlotWidget_imag.setLabel("left", u'Dielectric loss ε"' , units="Debye")
self.ui.pgPlotWidget_imag.setLabel("left", u'Dielectric loss ε"', units="Debye")
self.ui.pgPlotWidget_real.setLabel("left", u"Dielectric loss ε' ", units="Debye")
sc_real = self.ui.pgPlotWidget_real.scene()
@ -96,7 +96,6 @@ class AppWindow(QMainWindow):
sc_imag.sigMouseClicked.connect(self.mousePress)
sc_imag.sigMouseMoved.connect(self.updateCrosshair)
self._fit_thread = QThread()
self._fit_method = FitRoutine()
self._fit_method.moveToThread(self._fit_thread)
@ -110,7 +109,7 @@ class AppWindow(QMainWindow):
self.openFile(unicode(self._file_paths[0]))
self._current_file_index = 0
def _init_menu(self):
def _init_menu( self ):
fileMenu = self.menuBar().addMenu("File")
openFile = QAction("&Open", self)
@ -158,13 +157,12 @@ class AppWindow(QMainWindow):
self.ui.actionShow_Derivative.triggered.connect(self.show_derivative)
def show_derivative(self):
def show_derivative( self ):
self.xtra_wdgt = ExtraDifferentialWidget.DifferentialWidget()
#self.xtra_wdgt.set
deriv_r = np.diff(np.log10(self.data.epsilon.real))
deriv_i = np.diff(np.log10(self.data.epsilon.imag))*0
deriv_i = -np.pi/2 * np.diff(np.log10(self.data.epsilon.real))/np.diff(np.log10(self.data.frequency))
deriv_i = -np.pi/2*np.diff(np.log10(self.data.epsilon.real))/np.diff(np.log10(self.data.frequency))
self.xtra_wdgt.plot(self.data.frequency[:-1], deriv_r, deriv_i)
# self.xtra_wdgt.plot([0,1], [0,1], [0,1])
self.xtra_wdgt.setGeometry(self.ui.pgPlotWidget_real.geometry())
@ -173,7 +171,7 @@ class AppWindow(QMainWindow):
self.xtra_wdgt.raise_()
def updateCrosshair(self,evt):
def updateCrosshair( self, evt ):
vb_real = self.ui.pgPlotWidget_real.getPlotItem().vb
vb_imag = self.ui.pgPlotWidget_imag.getPlotItem().vb
@ -185,7 +183,7 @@ class AppWindow(QMainWindow):
pos = QPointF(0.0, 0.0)
self.last_pos = pos
def mousePress(self, evt):
def mousePress( self, evt ):
data_pos = self.last_pos
mouse_in_imag = self.ui.pgPlotWidget_imag.underMouse()
mouse_in_real = self.ui.pgPlotWidget_real.underMouse()
@ -232,12 +230,12 @@ class AppWindow(QMainWindow):
msgBox.exec_()
def abortFit(self):
def abortFit( self ):
for container in self.function_registry.get_registered_functions():
container.abort(True)
self._fit_thread.terminate()
def saveFitResult(self):
def saveFitResult( self ):
"""
Saving fit parameters to fitresults.log
including temperature
@ -263,18 +261,18 @@ class AppWindow(QMainWindow):
tau_comp = 0
for i_fcn, fcn in enumerate(self.function_registry.get_registered_functions()):
if fcn.id_string == "hn":
for i,varname in enumerate(fcn.widget.names):
for i, varname in enumerate(fcn.widget.names):
if varname == "tau":
if fcn._beta[i] <= tau_comp:
sorted_functions.append(fcn)
else:
sorted_functions.insert(0,fcn)
sorted_functions.insert(0, fcn)
tau_comp = fcn._beta[i]
# eps_infty to the front
for a in self.function_registry.get_registered_functions():
print a.id_string
if a.id_string == "eps_infty":
sorted_functions.insert(0,a)
sorted_functions.insert(0, a)
print a
# sort the rest lexigraphically
for a in self.function_registry.get_registered_functions():
@ -306,7 +304,7 @@ class AppWindow(QMainWindow):
f_fcn.write("# SourceID=%s\n"%file_id)
#else:
# f_fcn.write("# type=%s\n"%fit_function_name)
for i,par in enumerate(fcn._beta): # params # TODO: ughh
for i, par in enumerate(fcn._beta): # params # TODO: ughh
if fcn._selector_mask is not None:
if fcn._selector_mask[i]:
pars.extend([par])
@ -342,36 +340,36 @@ class AppWindow(QMainWindow):
np.savetxt(f, pars, fmt='%-12.3e', delimiter=" ")
f.close()
def _saveFitFigure(self):
def _saveFitFigure( self ):
fig = pyplot.figure(figsize=(3.54*1.4, 2.75*1.4))
font = {'family' : 'sans serif',
'weight' : 'normal',
'size' : 9}
font = { 'family': 'sans serif',
'weight': 'normal',
'size': 9 }
matplotlib.rc('font', **font)
pyplot.grid(linestyle="solid",alpha=0.3, color="0.5")
pyplot.grid(linestyle="solid", alpha=0.3, color="0.5")
pyplot.loglog(self.data.frequency, self.data.epsilon.imag, 'bo', markersize=4, label="Data")
pyplot.loglog(self.data.frequency_fit, self.data.epsilon_fit.imag, 'r-', lw=1.2, label="Fit")
for fcn in self.function_registry.get_registered_functions():
f,eps = fcn.get_data()
f, eps = fcn.get_data()
label = fcn.id_label
color = hex2color(str(fcn.color.name()))
pyplot.loglog(f,eps[1], ls=":", color=color, lw=1, dashes=(1,1), label=label)
pyplot.loglog(f, eps[1], ls=":", color=color, lw=1, dashes=(1, 1), label=label)
for i in (0,1): pyplot.axvline(x=self.data.fit_limits[i], color='b', ls="-", lw=0.5)
pyplot.legend(title = "T=%.1f K"%(self.data.meta["T"]))
for i in (0, 1): pyplot.axvline(x=self.data.fit_limits[i], color='b', ls="-", lw=0.5)
pyplot.legend(title="T=%.1f K"%(self.data.meta["T"]))
pyplot.xlabel('f/Hz')
pyplot.ylabel(u'ε"')
pyplot.ylim(self.data.epsilon.imag.min(), self.data.epsilon.imag.max() )
pyplot.ylim(self.data.epsilon.imag.min(), self.data.epsilon.imag.max())
#pyplot.savefig(os.path.splitext(self.filepath)[0]+".png")
pyplot.savefig(os.path.splitext(self.filepath)[0]+".pdf")
fig.clear()
del (fig)
def _saveFitFigureGrace(self):
def _saveFitFigureGrace( self ):
#agrtemplate = open('template.agr').read()
agrtemplate = """
@ -379,7 +377,7 @@ class AppWindow(QMainWindow):
#TODO: need interface/method for adding function blocks, this is too repetitive
def addYaff(self, pos):
def addYaff( self, pos ):
_yaff = YAFF(plt_real=self.ui.pgPlotWidget_real,
plt_imag=self.ui.pgPlotWidget_imag,
limits=self.data.fit_limits)
@ -388,7 +386,7 @@ class AppWindow(QMainWindow):
_yaff.removeObj.connect(self.delParamterObject)
gg_y = 10**pos.y()*2
gg_x = 1/(10**pos.x()*2*np.pi)
yaff_par = [ gg_y, gg_x , 20.0, 1.0, 0.5, gg_x/100, 1.0, 1.0]
yaff_par = [gg_y, gg_x, 20.0, 1.0, 0.5, gg_x/100, 1.0, 1.0]
_yaff.setParameter(beta=yaff_par)
self.parameterWidget.add(_yaff.widget)
self.function_registry.register_function(_yaff)
@ -396,14 +394,14 @@ class AppWindow(QMainWindow):
_yaff.blockSignals(False)
def addCond(self, pos):
def addCond( self, pos ):
_conductivity = Conductivity(plt_real=self.ui.pgPlotWidget_real,
plt_imag=self.ui.pgPlotWidget_imag,
limits=self.data.fit_limits)
_conductivity.blockSignals(True)
_conductivity.changedData.connect(self.updatePlot)
_conductivity.removeObj.connect(self.delParamterObject)
cond_par = [0.0, 10**(pos.y() + pos.x())*2*np.pi , 1.0]
cond_par = [0.0, 10**(pos.y()+pos.x())*2*np.pi, 1.0]
_conductivity.setParameter(beta=cond_par)
self.parameterWidget.add(_conductivity.widget)
self.function_registry.register_function(_conductivity)
@ -411,19 +409,19 @@ class AppWindow(QMainWindow):
_conductivity.blockSignals(False)
def addPowerComplex(self, pos):
def addPowerComplex( self, pos ):
_power_complex = PowerComplex(plt_imag=self.ui.pgPlotWidget_imag,
plt_real=self.ui.pgPlotWidget_real,
limits=self.data.fit_limits)
_power_complex.changedData.connect(self.updatePlot)
_power_complex.removeObj.connect(self.delParamterObject)
cond_par = [10**(pos.y() + pos.x())*2*np.pi , 1.0]
cond_par = [10**(pos.y()+pos.x())*2*np.pi, 1.0]
_power_complex.setParameter(beta=cond_par)
self.parameterWidget.add(_power_complex.widget)
self.function_registry.register_function(_power_complex)
self.updatePlot()
def addEpsInfty(self, pos):
def addEpsInfty( self, pos ):
_eps_infty = Static(plt_imag=self.ui.pgPlotWidget_imag,
plt_real=self.ui.pgPlotWidget_real,
limits=self.data.fit_limits)
@ -435,12 +433,12 @@ class AppWindow(QMainWindow):
self.function_registry.register_function(_eps_infty)
self.updatePlot()
def delParamterObject(self, obj):
def delParamterObject( self, obj ):
self.function_registry.unregister_function(obj)
self.updatePlot()
def addPeak(self, pos):
id_list = [ key.id_num for key in
def addPeak( self, pos ):
id_list = [key.id_num for key in
self.function_registry.get_registered_functions()
if key.id_string == 'hn']
self.peakId = 1
@ -455,12 +453,12 @@ class AppWindow(QMainWindow):
_peak.changedData.connect(self.updatePlot)
_peak.removeObj.connect(self.delParamterObject)
new_peak_beta0 = [2*10**pos.y(), 1 / (2*np.pi*10**pos.x()), 1, 1]
_peak.setParameter(beta = new_peak_beta0)
new_peak_beta0 = [2*10**pos.y(), 1/(2*np.pi*10**pos.x()), 1, 1]
_peak.setParameter(beta=new_peak_beta0)
self.parameterWidget.add(_peak.widget)
self.updatePlot()
def fitData_start(self, method):
def fitData_start( self, method ):
#fit_methods = [fit_odr_cmplx, fit_odr_imag, fit_lbfgsb, fit_anneal]
self.fit_boundary_real.hide()
self.fit_boundary_imag.hide()
@ -470,7 +468,7 @@ class AppWindow(QMainWindow):
][method]
# build function list
p0,funcs,fixed_params = [],[],[]
p0, funcs, fixed_params = [], [], []
for fcn in self.function_registry.get_registered_functions():
p0.extend(fcn.getParameter())
funcs.append(fcn)
@ -486,10 +484,10 @@ class AppWindow(QMainWindow):
else:
self.ui.statusbar.showMessage("Still fitting ...")
def fitData_update(self):
def fitData_update( self ):
self._fit_thread.quit()
odr_result = self._fit_method.result()
p0,funcs,fixed_params = [],[],[]
p0, funcs, fixed_params = [], [], []
for fcn in self.function_registry.get_registered_functions():
p0.extend(fcn.getParameter())
funcs.append(fcn)
@ -498,11 +496,10 @@ class AppWindow(QMainWindow):
for container in self.function_registry.get_registered_functions():
container.abort(False)
self.data.set_fit(odr_result.beta, funcs)
self.ui.statusbar.showMessage(" ".join(odr_result.stopreason))
ndx = 0
for i,fcn in enumerate(self.function_registry.get_registered_functions()):
for i, fcn in enumerate(self.function_registry.get_registered_functions()):
num_p = len(fcn.getParameter())
beta = odr_result.beta[ndx:num_p+ndx]
if odr_result.sd_beta is not None:
@ -515,7 +512,7 @@ class AppWindow(QMainWindow):
self.fit_boundary_real.show()
self.fit_boundary_imag.show()
def getFileNames(self):
def getFileNames( self ):
tmp = QFileDialog.getOpenFileNames(self, "Open file", "", '*.dat *.TXT')
if len(tmp) != 0:
self._file_paths = tmp
@ -523,7 +520,7 @@ class AppWindow(QMainWindow):
path = unicode(self._file_paths[self._current_file_index])
self.openFile(path)
def nextFile(self):
def nextFile( self ):
lim = self.fit_boundary_imag.getRegion() # store limits
if len(self._file_paths) > self._current_file_index+1: # wrap around
self._current_file_index += 1
@ -533,10 +530,10 @@ class AppWindow(QMainWindow):
self.openFile(path)
self.fit_boundary_imag.setRegion(lim)
def previousFile(self):
def previousFile( self ):
lim = self.fit_boundary_imag.getRegion() # store limits
if self._current_file_index == 0: # wrap around
self._current_file_index = len(self._file_paths) - 1
self._current_file_index = len(self._file_paths)-1
else:
self._current_file_index -= 1
path = unicode(self._file_paths[self._current_file_index])
@ -547,9 +544,9 @@ class AppWindow(QMainWindow):
return QStringList(sorted(files, key=lambda x: re.findall("\d+\.\d+K", x)))
def openFile(self,path):
def openFile( self, path ):
print "opening: %s"%path
self.filepath=path
self.filepath = path
Temp, _die_loss, _die_stor, _freq = bds_file_reader.FileReader.read_datafile(path)
self.setWindowTitle("%s - %.2f K"%(os.path.basename(path), Temp))
@ -557,8 +554,6 @@ class AppWindow(QMainWindow):
self.data.set_data(_freq, _die_stor, _die_loss)
self.data.meta["T"] = Temp
self.fit_boundary_imag.setRegion([np.log10(_freq.min()), np.log10(_freq.max())])
# self.ui.pgPlotWidget_imag.enableAutoRange()
# self.ui.pgPlotWidget_real.enableAutoRange()
self.ui.pgPlotWidget_imag.disableAutoRange()
self.ui.pgPlotWidget_real.disableAutoRange()
@ -574,11 +569,11 @@ class AppWindow(QMainWindow):
self.updatePlot()
def updatePlot(self):
def updatePlot( self ):
log10fmin, log10fmax = self.fit_boundary_imag.getRegion()
self.data.set_fit_xlimits(10**log10fmin, 10**log10fmax)
p0,funcs = [],[]
p0, funcs = [], []
for fcn in self.function_registry.get_registered_functions():
p0.extend(fcn.getParameter())
funcs.append(fcn)
@ -601,7 +596,7 @@ class AppWindow(QMainWindow):
self.data.fitted_curve_imag.setData(x=np.array([np.nan]), y=np.array([np.nan]))
def updateIntermediatePlot(self, freq, intermediate_data):
def updateIntermediatePlot( self, freq, intermediate_data ):
self.data.fitted_curve_real.setData(freq, intermediate_data[0])
self.data.fitted_curve_imag.setData(freq, intermediate_data[1])
@ -619,7 +614,7 @@ class AppWindow(QMainWindow):
self.fit_boundary_imag.setRegion(self.fit_boundary_real.getRegion())
self._update_fit_boundary()
def _update_fit_boundary(self):
def _update_fit_boundary( self ):
"""
Update limits in container.
"""
@ -627,7 +622,8 @@ class AppWindow(QMainWindow):
lims = [10**i for i in self.fit_boundary_real.getRegion()]
container.set_limits(lims)
def sigint_handler(*args):
def sigint_handler( *args ):
"""
Handler for the SIGINT signal (CTRL + C).
"""