def openOptions(self):
tablename, plotName = self.optButtons[self.sender()]
params = dict(allclasses[tablename].plotAptitudes)[plotName]['params']
d = ParamDialog(params,
keyformemory = 'plotOptions/'+plotName ,
applicationdict = self.globalApplicationDict,
)
d.update(self.plotParams[tablename][plotName])
if d.exec_():
self.plotParams[tablename][plotName] = d.get_dict()
def changePreProcessOptions(self):
dia = ParamDialog(preProcessParamDefault ,
keyformemory = 'imageserieviewer/preprocess' ,
applicationdict = self.globalApplicationDict,
title = 'Pre-process parameters',
)
dia.param_widget.update( self.preProcessParams )
ok = dia.exec_()
if ok == QDialog.Accepted:
self.preProcessParams = dia.param_widget.get_dict()
self.changeimageSerie(self.imageserie)
def changePlotOptions(self):
dia = ParamDialog(self.plotParamDefault ,
#~ keyformemory = 'imageserieviewer/plot' ,
#~ applicationdict = self.globalApplicationDict,
title = 'Plot parameters',
)
dia.param_widget.update( self.plotParams )
ok = dia.exec_()
if ok == QDialog.Accepted:
self.plotParams = dia.param_widget.get_dict()
self.refresh()
def changePreProcessOptions(self):
dia = ParamDialog(
preProcessParamDefault,
keyformemory='imageserieviewer/preprocess',
applicationdict=self.globalApplicationDict,
title='Pre-process parameters',
)
dia.param_widget.update(self.preProcessParams)
ok = dia.exec_()
if ok == QDialog.Accepted:
self.preProcessParams = dia.param_widget.get_dict()
self.changeimageSerie(self.imageserie)
def save(self):
params = [
[
'save_waveform', {
'value':
'save filtered waveform',
'label':
'Save waveform in database',
'possible': [
'save filtered waveform', 'do not save',
'save natural waveform'
]
}
],
[
'spiketrain_mode', {
'value': 'standalone',
'label':
'SpikeTrain mode (container = spike table, standalone = more efficient)',
'possible': ['standalone', 'container']
}
],
['save_trash', {
'value': True,
'label': 'Save spike in trash',
}],
[
'create_empty', {
'value':
True,
'label':
'If no spikes have been detected, create an empty neuron',
}
],
]
d = ParamDialog(
params,
applicationdict=self.globalApplicationDict,
keyformemory='spikesorting/databaseoptions',
title='database options',
)
if d.exec_():
try:
self.spikesorter.save_to_db(**d.get_dict())
except:
warn = """A problem occured during saving to db..."""
mb = QMessageBox.warning(
self,
self.tr('Save'),
self.tr(warn),
QMessageBox.Ok,
)
def changePlotOptions(self):
dia = ParamDialog(
self.plotParamDefault,
#~ keyformemory = 'imageserieviewer/plot' ,
#~ applicationdict = self.globalApplicationDict,
title='Plot parameters',
)
dia.param_widget.update(self.plotParams)
ok = dia.exec_()
if ok == QDialog.Accepted:
self.plotParams = dia.param_widget.get_dict()
self.refresh()
def exportImages(self):
param = [
['path' , { 'value' : '' , 'label' : 'path to export images' , 'widgettype' : ChooseDirWidget }],
['dpi' , { 'value' : 80 , 'label' : 'DPI' }],
['width' , { 'value' : 8. , 'label' : 'Width (inch)' }],
['height' , { 'value' : 6. , 'label' : 'Height (inch)' } ],
['force_proportions' , { 'value' : False , 'label' : 'Force proportions' } ],
]
dia = ParamDialog(param ,
keyformemory = 'imageserieviewer/exportImages' ,
applicationdict = self.globalApplicationDict,
title = 'Export all images',
)
dia.param_widget.update( self.preProcessParams )
ok = dia.exec_()
if ok == QDialog.Accepted:
d = dia.param_widget.get_dict()
canvas = SimpleCanvas()
canvas.figure.set_dpi(d['dpi'])
if not d['force_proportions']:
canvas.figure.set_size_inches(d['width'] , d['height'])
dpi = d['dpi']
else:
canvas.figure.set_size_inches(self.images.shape[2]/10. , self.images.shape[1]/10.)
dpi = 10
canvas.figure.set_dpi(dpi)
ax = canvas.figure.add_axes([0., 0., 1., 1.])
ax.set_xticks([ ])
ax.set_yticks([ ])
cax = None
if self.plotParams['plotColorbar']:
cax = canvas.figure.add_axes([.9,.1,.04,.8])
image = ax.imshow(self.images[0] ,
cmap=self.cmap ,
interpolation = 'nearest',
origin='lower',
)
if self.plotParams['plotColorbar']:
canvas.figure.colorbar(image , ax = ax , cax= cax)
for i in range(self.imageserie.images.shape[0]):
image.set_array(self.images[i])
canvas.figure.savefig( os.path.join( d['path'], 'image %04d.png'%i) , dpi = dpi)
def save(self):
params = [ [ 'save_waveform' , {'value' :'save filtered waveform' , 'label' : 'Save waveform in database',
'possible' : ['save filtered waveform','do not save' , 'save natural waveform' ] }],
[ 'spiketrain_mode' , {'value' :'standalone' , 'label' : 'SpikeTrain mode (container = spike table, standalone = more efficient)',
'possible' : ['standalone','container' ] }],
[ 'save_trash' , {'value' : True , 'label' : 'Save spike in trash', } ],
[ 'create_empty' , {'value' : True , 'label' : 'If no spikes have been detected, create an empty neuron', } ],
]
d = ParamDialog(params,
applicationdict = self.globalApplicationDict,
keyformemory = 'spikesorting/databaseoptions' ,
title = 'database options',
)
if d.exec_():
try:
self.spikesorter.save_to_db(**d.get_dict())
except:
warn = """A problem occured during saving to db..."""
mb = QMessageBox.warning(self,self.tr('Save'),self.tr(warn),
QMessageBox.Ok ,)
def openOptions(self):
tablename, plotName = self.optButtons[self.sender()]
params = dict(allclasses[tablename].plotAptitudes)[plotName]['params']
d = ParamDialog(
params,
keyformemory='plotOptions/' + plotName,
applicationdict=self.globalApplicationDict,
)
d.update(self.plotParams[tablename][plotName])
if d.exec_():
self.plotParams[tablename][plotName] = d.get_dict()
def exportImages(self):
param = [
[
'path', {
'value': '',
'label': 'path to export images',
'widgettype': ChooseDirWidget
}
],
['dpi', {
'value': 80,
'label': 'DPI'
}],
['width', {
'value': 8.,
'label': 'Width (inch)'
}],
['height', {
'value': 6.,
'label': 'Height (inch)'
}],
[
'force_proportions', {
'value': False,
'label': 'Force proportions'
}
],
]
dia = ParamDialog(
param,
keyformemory='imageserieviewer/exportImages',
applicationdict=self.globalApplicationDict,
title='Export all images',
)
dia.param_widget.update(self.preProcessParams)
ok = dia.exec_()
if ok == QDialog.Accepted:
d = dia.param_widget.get_dict()
canvas = SimpleCanvas()
canvas.figure.set_dpi(d['dpi'])
if not d['force_proportions']:
canvas.figure.set_size_inches(d['width'], d['height'])
dpi = d['dpi']
else:
canvas.figure.set_size_inches(self.images.shape[2] / 10.,
self.images.shape[1] / 10.)
dpi = 10
canvas.figure.set_dpi(dpi)
ax = canvas.figure.add_axes([0., 0., 1., 1.])
ax.set_xticks([])
ax.set_yticks([])
cax = None
if self.plotParams['plotColorbar']:
cax = canvas.figure.add_axes([.9, .1, .04, .8])
image = ax.imshow(
self.images[0],
cmap=self.cmap,
interpolation='nearest',
origin='lower',
)
if self.plotParams['plotColorbar']:
canvas.figure.colorbar(image, ax=ax, cax=cax)
for i in range(self.imageserie.images.shape[0]):
image.set_array(self.images[i])
canvas.figure.savefig(os.path.join(d['path'],
'image %04d.png' % i),
dpi=dpi)