def __init__(self, parent, id, argsdict=None):
wx.Frame.__init__(self, parent, id, size = (1024,768), title = 'Vesicle Geometry')
self.statusbar = widgets.PlotStatusBar(self)
self.SetStatusBar(self.statusbar)
self.toolbar = widgets.SimpleToolbar(self, *self.ToolbarData())
self.SetToolBar(self.toolbar)
self.toolbar.Realize()
panel = wx.Panel(self, -1)
pansizer = wx.BoxSizer(wx.VERTICAL)
self.figure = Figure(facecolor = widgets.rgba_wx2mplt(panel.GetBackgroundColour()))
self.canvas = FigureCanvas(panel, -1, self.figure)
self.canvas.mpl_connect('motion_notify_event', self.statusbar.SetPosition)
pansizer.Add(self.canvas, 1, wx.GROW)
navtoolbar = NavigationToolbar2(self.canvas)
navtoolbar.Realize()
pansizer.Add(navtoolbar, 0, wx.GROW)
panel.SetSizer(pansizer)
panel.Fit()
self.SetFrameIcons(MEASURE, (16,24,32))
self.title_tmpl = '%%s : %%s - %s'%self.GetTitle()
self.data = {}
self.folder=''
if argsdict:
self.data = argsdict
self.SetWindowTitle(parent.imagedate, parent.imagedir)
self.folder = self.GetParent().folder
self.Draw()
def __init__(self, parent, id, argsdict=None):
wx.Frame.__init__(self,
parent,
id,
size=(1024, 768),
title='Vesicle Geometry')
self.statusbar = widgets.PlotStatusBar(self)
self.SetStatusBar(self.statusbar)
self.toolbar = widgets.SimpleToolbar(self, *self.ToolbarData())
self.SetToolBar(self.toolbar)
self.toolbar.Realize()
panel = wx.Panel(self, -1)
pansizer = wx.BoxSizer(wx.VERTICAL)
self.figure = Figure(
facecolor=widgets.rgba_wx2mplt(panel.GetBackgroundColour()))
self.canvas = FigureCanvas(panel, -1, self.figure)
self.canvas.mpl_connect('motion_notify_event',
self.statusbar.SetPosition)
pansizer.Add(self.canvas, 1, wx.GROW)
navtoolbar = NavigationToolbar2(self.canvas)
navtoolbar.Realize()
pansizer.Add(navtoolbar, 0, wx.GROW)
panel.SetSizer(pansizer)
panel.Fit()
self.SetFrameIcons(MEASURE, (16, 24, 32))
self.title_tmpl = '%%s : %%s - %s' % self.GetTitle()
self.data = {}
self.folder = ''
if argsdict:
self.data = argsdict
self.SetWindowTitle(parent.imagedate, parent.imagedir)
self.folder = self.GetParent().folder
self.Draw()
def MakeImagePanel(self):
self.figure = Figure(facecolor = widgets.rgba_wx2mplt(self.panel.GetBackgroundColour()))
self.canvas = FigureCanvas(self.panel, -1, self.figure)
self.canvas.mpl_connect('motion_notify_event', self.statusbar.SetPosition)
self.axes = self.figure.add_subplot(111)
self.axes.set_aspect('auto')
self.dataplot, = self.axes.plot([], [], 'ro', label = 'Measured')
self.fitplot, = self.axes.plot([],[])
labelfont = {'fontsize':'large'}
self.axes.set_xlabel('$\\tau$, %s'%self.data['tensdim'][1], fontdict = labelfont)
self.axes.set_ylabel('$\\alpha$')
navtoolbar = NavigationToolbar2(self.canvas)
navtoolbar.Realize()
dim = self.data['tension'].shape[-1]
if dim < 3: dim=3
self.slider = widgets.DoubleSlider(self.panel, -1, (1, dim), 1, dim, gap=2)
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.slider)
self.lowlabel = wx.StaticText(self.panel, -1, ' %i'%self.slider.GetLow(), style=wx.ALIGN_CENTER|wx.ST_NO_AUTORESIZE)
self.highlabel = wx.StaticText(self.panel, -1, ' %i'%self.slider.GetHigh(), style=wx.ALIGN_CENTER|wx.ST_NO_AUTORESIZE)
self.imgbox = wx.BoxSizer(wx.VERTICAL)
self.imgbox.Add(self.canvas, 1, wx.GROW)
self.imgbox.Add(navtoolbar, 0, wx.GROW)
labelbox = wx.BoxSizer(wx.VERTICAL)
labelbox.Add(self.lowlabel, 1, wx.GROW)
labelbox.Add(self.highlabel, 1, wx.GROW)
sliderbox = wx.BoxSizer(wx.HORIZONTAL)
sliderbox.Add(labelbox, 0, wx.GROW)
sliderbox.Add(self.slider, 1, wx.GROW)
self.imgbox.Add(sliderbox, 0, wx.GROW)
def __init__(self, parent, id):
wx.Panel.__init__(self, parent, id, style=wx.BORDER_SUNKEN)
self.Imgs = None
vsizer = wx.BoxSizer(wx.VERTICAL)
self.figure = Figure(
facecolor=widgets.rgba_wx2mplt(self.GetBackgroundColour()))
self.axes = self.figure.add_subplot(111)
self.canvas = FigureCanvas(self, -1, self.figure)
self.canvas.mpl_connect('motion_notify_event',
parent.statusbar.SetPosition)
vsizer.Add(self.canvas, 1, wx.ALIGN_LEFT | wx.ALIGN_TOP | wx.GROW)
navtoolbar = NavigationToolbar2(self.canvas)
navtoolbar.Realize()
vsizer.Add(navtoolbar, 0, wx.ALIGN_LEFT | wx.GROW)
slidersizer = wx.FlexGridSizer(cols=2)
self.ImgNoTxt = wx.TextCtrl(self,
-1,
"0",
size=(50, 20),
style=wx.TE_READONLY | wx.TE_CENTER)
slidersizer.Add(self.ImgNoTxt, 0)
self.ImgNoSlider = wx.Slider(self, -1, 1, 0, 1)
self.Bind(wx.EVT_SCROLL, self.OnSlide, self.ImgNoSlider)
slidersizer.Add(self.ImgNoSlider, 1, wx.GROW)
self.paramsliders = []
regionlabel = wx.StaticText(self, -1, 'Aspirated\nVesicle')
slidersizer.Add(regionlabel, 0, wx.ALIGN_RIGHT)
self.regionslider = widgets.DoubleSlider(self,
-1, (0, 1),
0,
1,
gap=2,
name='aspves')
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.regionslider)
self.paramsliders.append(self.regionslider)
slidersizer.Add(self.regionslider, 1, wx.GROW | wx.ALIGN_LEFT)
tiplabel = wx.StaticText(self, -1, 'Pipette Tip')
slidersizer.Add(tiplabel, 0, wx.ALIGN_RIGHT)
self.tipslider = widgets.DoubleSlider(self,
-1, (0, 1),
0,
1,
gap=2,
name='tip')
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.tipslider)
self.paramsliders.append(self.tipslider)
slidersizer.Add(self.tipslider, 1, wx.GROW | wx.ALIGN_LEFT)
slidersizer.AddGrowableCol(1, 1)
vsizer.Add(slidersizer, 0, wx.GROW)
hsizer = wx.BoxSizer()
axslidersizer = wx.FlexGridSizer(rows=2)
name = 'axis'
label = wx.StaticText(self, -1, name)
axslidersizer.Add(label)
self.axisslider = widgets.DoubleSlider(self,
-1, (0, 1),
0,
1,
style=wx.SL_VERTICAL,
name=name)
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.axisslider)
name = 'pipette'
label = wx.StaticText(self, -1, name)
self.pipetteslider = widgets.DoubleSlider(self,
-1, (0, 1),
0,
1,
style=wx.SL_VERTICAL,
name=name)
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.pipetteslider)
axslidersizer.Add(label)
axslidersizer.Add(self.axisslider, 1, wx.GROW | wx.ALIGN_TOP)
axslidersizer.Add(self.pipetteslider, 1, wx.GROW | wx.ALIGN_TOP)
self.paramsliders.append(self.axisslider)
self.paramsliders.append(self.pipetteslider)
axslidersizer.AddGrowableRow(1, 1)
hsizer.Add(axslidersizer, 0, wx.GROW)
hsizer.Add(vsizer, 1, wx.GROW)
for child in self.GetChildren():
child.Enable(False)
self.SetSizer(hsizer)
self.Fit()
def __init__(self, parent, id):
wx.Panel.__init__(self, parent, id, style = wx.BORDER_SUNKEN)
self.Imgs = None
vsizer = wx.BoxSizer(wx.VERTICAL)
self.figure = Figure(facecolor = widgets.rgba_wx2mplt(self.GetBackgroundColour()))
self.axes = self.figure.add_subplot(111)
self.canvas = FigureCanvas(self, -1, self.figure)
self.canvas.mpl_connect('motion_notify_event', parent.statusbar.SetPosition)
vsizer.Add(self.canvas, 1, wx.ALIGN_LEFT|wx.ALIGN_TOP|wx.GROW)
navtoolbar = NavigationToolbar2(self.canvas)
navtoolbar.Realize()
vsizer.Add(navtoolbar, 0, wx.ALIGN_LEFT|wx.GROW)
slidersizer = wx.FlexGridSizer(cols=2)
self.ImgNoTxt = wx.TextCtrl(self, -1, "0", size=(50,20),
style = wx.TE_READONLY | wx.TE_CENTER)
slidersizer.Add(self.ImgNoTxt, 0)
self.ImgNoSlider = wx.Slider(self, -1, 1, 0, 1)
self.Bind(wx.EVT_SCROLL, self.OnSlide, self.ImgNoSlider)
slidersizer.Add(self.ImgNoSlider, 1, wx.GROW)
self.paramsliders = []
regionlabel = wx.StaticText(self, -1, 'Aspirated\nVesicle')
slidersizer.Add(regionlabel, 0, wx.ALIGN_RIGHT)
self.regionslider = widgets.DoubleSlider(self, -1, (0,1), 0, 1, gap=2, name='aspves')
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.regionslider)
self.paramsliders.append(self.regionslider)
slidersizer.Add(self.regionslider, 1, wx.GROW|wx.ALIGN_LEFT)
tiplabel = wx.StaticText(self, -1, 'Pipette Tip')
slidersizer.Add(tiplabel, 0, wx.ALIGN_RIGHT)
self.tipslider = widgets.DoubleSlider(self, -1, (0,1), 0, 1, gap=2, name='tip')
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.tipslider)
self.paramsliders.append(self.tipslider)
slidersizer.Add(self.tipslider, 1, wx.GROW|wx.ALIGN_LEFT)
slidersizer.AddGrowableCol(1,1)
vsizer.Add(slidersizer, 0, wx.GROW)
hsizer = wx.BoxSizer()
axslidersizer = wx.FlexGridSizer(rows=2)
name = 'axis'
label = wx.StaticText(self, -1, name)
axslidersizer.Add(label)
self.axisslider = widgets.DoubleSlider(self, -1, (0,1), 0, 1, style=wx.SL_VERTICAL, name=name)
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.axisslider)
name = 'pipette'
label = wx.StaticText(self, -1, name)
self.pipetteslider = widgets.DoubleSlider(self, -1, (0,1), 0, 1, style=wx.SL_VERTICAL, name=name)
self.Bind(wx.EVT_SLIDER, self.OnSlide, self.pipetteslider)
axslidersizer.Add(label)
axslidersizer.Add(self.axisslider, 1, wx.GROW|wx.ALIGN_TOP)
axslidersizer.Add(self.pipetteslider, 1, wx.GROW|wx.ALIGN_TOP)
self.paramsliders.append(self.axisslider)
self.paramsliders.append(self.pipetteslider)
axslidersizer.AddGrowableRow(1,1)
hsizer.Add(axslidersizer, 0, wx.GROW)
hsizer.Add(vsizer, 1, wx.GROW)
for child in self.GetChildren():
child.Enable(False)
self.SetSizer(hsizer)
self.Fit()
def __init__(self, parent, id, img, out, extra_out):
wx.Frame.__init__(self, parent, id, size=(800,600), title = 'Single Image Debug')
self.statusbar = widgets.PlotStatusBar(self)
self.SetStatusBar(self.statusbar)
panel = wx.Panel(self, -1)
pansizer = wx.BoxSizer(wx.VERTICAL)
self.figure = Figure(facecolor = widgets.rgba_wx2mplt(panel.GetBackgroundColour()))
self.canvas = FigureCanvas(panel, -1, self.figure)
self.canvas.mpl_connect('motion_notify_event', self.statusbar.SetPosition)
pansizer.Add(self.canvas, 1, wx.GROW)
navtoolbar = NavigationToolbar2(self.canvas)
navtoolbar.Realize()
pansizer.Add(navtoolbar, 0, wx.GROW)
profile = extra_out['profile']
self.profileplot = self.figure.add_subplot(221, title = 'Axis brightness profile')
self.profileplot.plot(profile)
order = parent.analysispanel.GetParams()['order']
window = parent.analysispanel.GetParams()['window']
smoothmode = parent.analysispanel.GetParams()['smoothing']
grad = abs(smooth.smooth1d(profile, smoothmode, order, window, diff=1))
multiplier = profile.max()/grad.max()/2
grad *= multiplier
self.profileplot.plot(grad)
self.profileplot.axvline(extra_out['pip'], color = 'blue')
self.profileplot.axvline(extra_out['asp'], color = 'yellow')
self.profileplot.axvline(extra_out['ves'], color = 'green')
self.imgplot = self.figure.add_subplot(222, title = 'Image')
refs = extra_out['refs']
for ref in refs:
self.imgplot.plot([ref[0][1]], [ref[0][0]], 'yo') # due to format of refs
self.imgplot.imshow(img, aspect = 'equal', extent = None, cmap = cm.get_cmap('gray'))
self.pipprofile1 = self.figure.add_subplot(223, title = 'Left pipette section')
xleft = refs[0][0][1]
pipprofile1 = img[:,xleft]
self.pipprofile1.plot(pipprofile1)
self.pipprofile2 = self.figure.add_subplot(224, title = 'Right pipette section')
xright = refs[-1][0][1]
pipprofile2 = img[:,xright]
self.pipprofile2.plot(pipprofile2)
# self.gradpipprofile1 = self.figure.add_subplot(325, title = 'Left pipette section gradient')
# self.gradpipprofile1.plot(utils.get_gradient(pipprofile1, 3))
#
# self.gradpipprofile2 = self.figure.add_subplot(326, title = 'Right pipette section gradient')
# self.gradpipprofile2.plot(utils.get_gradient(pipprofile2, 3))
#
panel.SetSizer(pansizer)
panel.Fit()
title = '%s : %s - Image %s - %s'%(parent.imagedate, parent.imagedir, parent.imgpanel.GetImgNo(), self.GetTitle())
self.SetTitle(title)
self.SetFrameIcons(MICROSCOPE, (16,24,32))
self.canvas.draw()