def __init__(self, panel, glCanvas, visFr):
afp.foldingPane.__init__(self,
panel,
-1,
caption="Display",
pinned=True)
self.glCanvas = glCanvas
self.visFr = visFr
self.scaleBarLengths = {
'<None>': None,
'50nm': 50,
'200nm': 200,
'500nm': 500,
'1um': 1000,
'5um': 5000
}
self._pc_clim_change = False
#Colourmap
cmapnames = pylab.cm.cmapnames
#print((cmapnames, self.glCanvas.cmap.name))
#curCMapName = self.glCanvas.cmap.name
curCMapName = 'hot'
cmapReversed = False
if curCMapName[-2:] == '_r':
cmapReversed = True
curCMapName = curCMapName[:-2]
cmInd = cmapnames.index(curCMapName)
##
pan = wx.Panel(self, -1)
box = wx.StaticBox(pan, -1, 'Colourmap:')
bsizer = wx.StaticBoxSizer(box)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
self.cColourmap = wx.Choice(pan, -1, choices=cmapnames)
self.cColourmap.SetSelection(cmInd)
hsizer.Add(self.cColourmap, 0, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 5)
self.cbCmapReverse = wx.CheckBox(pan, -1, 'Invert')
self.cbCmapReverse.SetValue(cmapReversed)
hsizer.Add(self.cbCmapReverse, 0, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 5)
bsizer.Add(hsizer, 0, wx.ALL, 0)
bdsizer = wx.BoxSizer()
bdsizer.Add(bsizer, 1, wx.EXPAND | wx.ALL, 0)
pan.SetSizer(bdsizer)
bdsizer.Fit(pan)
#self._pnl.AddFoldPanelWindow(self, pan, fpb.FPB_ALIGN_WIDTH, fpb.FPB_DEFAULT_SPACING, 5)
self.AddNewElement(pan)
self.cColourmap.Bind(wx.EVT_CHOICE, self.OnCMapChange)
self.cbCmapReverse.Bind(wx.EVT_CHECKBOX, self.OnCMapChange)
#CLim
pan = wx.Panel(self, -1)
box = wx.StaticBox(pan, -1, 'CLim:')
bsizer = wx.StaticBoxSizer(box, wx.VERTICAL)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(pan, -1, 'Min: '), 0,
wx.LEFT | wx.TOP | wx.BOTTOM | wx.ALIGN_CENTER_VERTICAL, 5)
self.tCLimMin = wx.TextCtrl(pan,
-1,
'%3.2f' % self.glCanvas.clim[0],
size=(40, -1))
hsizer.Add(self.tCLimMin, 0,
wx.RIGHT | wx.TOP | wx.BOTTOM | wx.ALIGN_CENTER_VERTICAL, 5)
hsizer.Add(wx.StaticText(pan, -1, ' Max: '), 0,
wx.LEFT | wx.TOP | wx.BOTTOM | wx.ALIGN_CENTER_VERTICAL, 5)
self.tCLimMax = wx.TextCtrl(pan,
-1,
'%3.2f' % self.glCanvas.clim[1],
size=(40, -1))
hsizer.Add(self.tCLimMax, 0,
wx.RIGHT | wx.TOP | wx.BOTTOM | wx.ALIGN_CENTER_VERTICAL, 5)
bsizer.Add(hsizer, 0, wx.ALL, 0)
self.hlCLim = histLimits.HistLimitPanel(pan,
-1,
self.glCanvas.c,
self.glCanvas.clim[0],
self.glCanvas.clim[1],
size=(150, 100))
bsizer.Add(self.hlCLim, 0, wx.ALL | wx.EXPAND, 5)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
self.tPercentileCLim = wx.TextCtrl(pan, -1, '.95', size=(40, -1))
hsizer.Add(self.tPercentileCLim, 0, wx.ALL | wx.ALIGN_CENTER_VERTICAL,
5)
bPercentile = wx.Button(pan, -1, 'Set Percentile')
hsizer.Add(bPercentile, 0, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 5)
bsizer.Add(hsizer, 0, wx.ALL, 0)
bdsizer = wx.BoxSizer()
bdsizer.Add(bsizer, 1, wx.EXPAND | wx.ALL, 0)
pan.SetSizer(bdsizer)
bdsizer.Fit(pan)
#self.hlCLim.Refresh()
self.AddNewElement(pan)
#self._pnl.AddFoldPanelWindow(self, pan, fpb.FPB_ALIGN_WIDTH, fpb.FPB_DEFAULT_SPACING, 5)
self.tCLimMin.Bind(wx.EVT_TEXT, self.OnCLimChange)
self.tCLimMax.Bind(wx.EVT_TEXT, self.OnCLimChange)
self.hlCLim.Bind(histLimits.EVT_LIMIT_CHANGE, self.OnCLimHistChange)
bPercentile.Bind(wx.EVT_BUTTON, self.OnPercentileCLim)
#self._pnl.AddFoldPanelSeparator(self)
#LUT
cbLUTDraw = wx.CheckBox(self, -1, 'Show LUT')
cbLUTDraw.SetValue(self.glCanvas.LUTDraw)
self.AddNewElement(cbLUTDraw)
#self._pnl.AddFoldPanelWindow(self, cbLUTDraw, fpb.FPB_ALIGN_WIDTH, fpb.FPB_DEFAULT_SPACING, 10)
cbLUTDraw.Bind(wx.EVT_CHECKBOX, self.OnLUTDrawCB)
#Scale Bar
pan = wx.Panel(self, -1)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(pan, -1, 'Scale Bar: '), 0,
wx.LEFT | wx.TOP | wx.BOTTOM | wx.ALIGN_CENTER_VERTICAL, 5)
chInd = list(self.scaleBarLengths.values()).index(
self.glCanvas.scaleBarLength)
chScaleBar = wx.Choice(pan,
-1,
choices=list(self.scaleBarLengths.keys()))
chScaleBar.SetSelection(chInd)
hsizer.Add(chScaleBar, 0,
wx.RIGHT | wx.TOP | wx.BOTTOM | wx.ALIGN_CENTER_VERTICAL, 5)
pan.SetSizer(hsizer)
hsizer.Fit(pan)
self.AddNewElement(pan)
#self._pnl.AddFoldPanelWindow(self, pan, fpb.FPB_ALIGN_WIDTH, fpb.FPB_DEFAULT_SPACING, 10)
chScaleBar.Bind(wx.EVT_CHOICE, self.OnChangeScaleBar)
def __init__(self, parent, sourceImage, destImage):
wx.Panel.__init__(self, parent)
self.cancelled = False
self.parent = parent
self.sourceImage = sourceImage
self.destImage = destImage
self.nChans = self.sourceImage.data.shape[3]
self.numIters = 10
sizer1 = wx.BoxSizer(wx.VERTICAL)
dispSize = (120, 80)
self.hI50 = []
self.tISlopes = []
self.tNeighFracs = []
self.tNSlopes = []
for i in range(self.nChans):
ssizer = wx.StaticBoxSizer(wx.StaticBox(self, -1, self.sourceImage.names[i]), wx.VERTICAL)
ssizer.Add(wx.StaticText(self, -1, 'Intensity for p = .5:'), 0, wx.ALL, 2)
id = wx.NewId()
#self.hIds.append(id)
c = self.sourceImage.data[:,:,:, i].ravel()
#print c.min(), c.max()
hClim = histLimits.HistLimitPanel(self, id, c[::max(1, len(c)/1e4)], c.min(), c.max(), size=dispSize, log=True, threshMode=True)
#hClim.SetThresholdMode(True)
#hClim.Bind(histLimits.EVT_LIMIT_CHANGE, self.OnCLimChanged)
self.hI50.append(hClim)
ssizer.Add(hClim, 0, wx.ALL, 2)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(self, -1, 'Slope:'), 0, wx.ALL, 2)
tSlope = wx.TextCtrl(self, -1, '1.0', size=(30, -1))
self.tISlopes.append(tSlope)
hsizer.Add(tSlope, 1, wx.ALL, 2)
ssizer.Add(hsizer, 0, wx.ALL|wx.EXPAND, 0)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(self, -1, 'N Frac:'), 0, wx.ALL, 2)
tSlope = wx.TextCtrl(self, -1, '0.5', size=(30, -1))
self.tNeighFracs.append(tSlope)
hsizer.Add(tSlope, 1, wx.ALL, 2)
ssizer.Add(hsizer, 0, wx.ALL|wx.EXPAND, 0)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(self, -1, 'N Slope:'), 0, wx.ALL, 2)
tSlope = wx.TextCtrl(self, -1, '1', size=(30, -1))
self.tNSlopes.append(tSlope)
hsizer.Add(tSlope, 1, wx.ALL, 2)
ssizer.Add(hsizer, 0, wx.ALL|wx.EXPAND, 0)
sizer1.Add(ssizer, 0, wx.ALL, 5)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(self, -1, '# Iters:'), 0, wx.ALL, 2)
self.tNIters = wx.TextCtrl(self, -1, '10', size=(30, -1))
hsizer.Add(self.tNIters, 1, wx.ALL, 2)
sizer1.Add(hsizer, 0, wx.ALL|wx.EXPAND, 2)
# self.gProgress = wx.Gauge(self, -1, numIters)
#
# sizer1.Add(self.gProgress, 0, wx.EXPAND|wx.ALIGN_CENTER_HORIZONTAL | wx.ALL, 5)
btn = wx.Button(self, -1, 'Apply')
btn.Bind(wx.EVT_BUTTON, self.OnApply)
sizer1.Add(btn, 0, wx.ALIGN_RIGHT|wx.ALIGN_CENTER_VERTICAL|wx.ALL, 5)
# btn = wx.Button(self, -1, 'Done')
# btn.Bind(wx.EVT_BUTTON, self.OnDone)
#
# sizer1.Add(btn, 0, wx.ALIGN_RIGHT|wx.ALIGN_CENTER_VERTICAL|wx.ALL, 5)
self.SetSizer(sizer1)
sizer1.Fit(self)
def __init__(self, parent, vp):
wx.Panel.__init__(self, parent)
#vsizer = wx.BoxSizer(wx.VERTICAL)
self.vp = vp
#self.ds = vp.ds
if 'ds' in dir(vp.do):
self.dsa = self.vp.do.ds
self.vp.do.Optimise()
else:
self.dsa = self.vp.dsa #[:,:,0].ravel()
self.vp.do.Optimise(self.vp.ds)
print((self.dsa.size))
#self.do = vp.do
self.scale = 2
#self.vp.do.Optimise(self.vp.ds)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
self.hlDispMapping = histLimits.HistLimitPanel(
self,
-1,
self.dsa,
self.vp.do.getDisp1Off(),
self.vp.do.getDisp1Off() + 255. / self.vp.do.getDisp1Gain(),
True,
size=(100, 80))
self.hlDispMapping.Bind(histLimits.EVT_LIMIT_CHANGE,
self.OnMappingChange)
hsizer.Add(self.hlDispMapping, 1,
wx.EXPAND | wx.ALIGN_CENTER_VERTICAL | wx.ALL, 5)
vsizer2 = wx.BoxSizer(wx.VERTICAL)
self.bOptimise = wx.Button(self, -1, 'Optimise', style=wx.BU_EXACTFIT)
self.bOptimise.Bind(wx.EVT_BUTTON, self.OnBOptimise)
vsizer2.Add(self.bOptimise, 0, wx.ALIGN_CENTER_HORIZONTAL, 5)
self.cbAutoOptimise = wx.CheckBox(self, -1, 'Auto')
self.cbAutoOptimise.SetValue(True)
#self.cbAutoOptimise.Bind(wx.EVT_CHECKBOX, self.OnCbAutoOpt)
vsizer2.Add(self.cbAutoOptimise, 0,
wx.ALIGN_CENTER_HORIZONTAL | wx.TOP, 3)
vsizer2.Add((0, 0), 1, 0, 0)
#hsizer.Add(vsizer2, 0, wx.EXPAND|wx.ALIGN_CENTER_VERTICAL|wx.ALL, 5)
#vsizer.Add(hsizer, 0, wx.EXPAND|wx.ALIGN_CENTER_HORIZONTAL|wx.ALL, 5)
#hsizer = wx.BoxSizer(wx.HORIZONTAL)
#scaleSizer = wx.StaticBoxSizer(wx.StaticBox(self, -1, "Scale"), wx.HORIZONTAL)
self.cbScale = wx.ComboBox(self,
-1,
choices=["1:4", "1:2", "1:1", "2:1", "4:1"],
style=wx.CB_DROPDOWN | wx.CB_READONLY,
size=(55, -1))
self.cbScale.Bind(wx.EVT_COMBOBOX, self.OnScaleChanged)
self.cbScale.SetSelection(self.scale)
#scaleSizer.Add(self.cbScale, 0, wx.ALL, 5)
#hsizer.Add(wx.StaticText(self, -1, 'Scale: '), 0, wx.ALIGN_CENTER_VERTICAL|wx.ALL, 5)
vsizer2.Add(self.cbScale, 0, wx.ALIGN_CENTER_HORIZONTAL | wx.EXPAND, 5)
hsizer.Add(vsizer2, 0, wx.EXPAND | wx.ALIGN_CENTER_VERTICAL | wx.ALL,
5)
#vsizer.Add(hsizer, 0, wx.ALIGN_CENTER_HORIZONTAL|wx.ALL, 5)
self.SetSizer(hsizer)
hsizer.Fit(self)
def __init__(self,
parent,
displayOpts,
horizOrientation=False,
thresholdControls=True,
**kwargs):
kwargs['style'] = wx.TAB_TRAVERSAL
wx.Panel.__init__(self, parent, **kwargs)
#self.parent = parent
self.do = displayOpts
vsizer = wx.BoxSizer(wx.VERTICAL)
self.hIds = []
self.cIds = []
self.cbIds = []
self.hcs = []
self.shIds = []
cmapnames = pylab.cm.cmapnames + [
'fastGrey', 'labeled'
] # + [n + '_r' for n in pylab.cm.cmapnames]
cmapnames.sort()
##do = parent.do
dispSize = (120, 80)
if horizOrientation:
hsizer = wx.BoxSizer(wx.HORIZONTAL)
dispSize = (100, 80)
for i in range(len(self.do.Chans)):
ssizer = wx.StaticBoxSizer(
wx.StaticBox(self, -1, self.do.names[i]), wx.VERTICAL)
id = wx.NewId()
self.hIds.append(id)
c = self.do.ds[:, :, self.do.zp, self.do.Chans[i]].real.ravel()
if np.iscomplexobj(c):
if self.do.complexMode == 'real':
c = c.real
elif self.do.complexMode == 'imag':
c = c.imag
elif self.do.complexMode == 'angle':
c = np.angle(c)
else:
c = np.abs(c)
hClim = histLimits.HistLimitPanel(self,
id,
c[::max(1,
len(c) / 1e4)],
self.do.Offs[i],
self.do.Offs[i] +
1. / self.do.Gains[i],
size=dispSize,
log=True)
hClim.Bind(histLimits.EVT_LIMIT_CHANGE, self.OnCLimChanged)
self.hcs.append(hClim)
ssizer.Add(hClim, 0, wx.ALL, 2)
hsizer2 = wx.BoxSizer(wx.HORIZONTAL)
id = wx.NewId()
self.cIds.append(id)
cCmap = wx.Choice(self, id, choices=cmapnames, size=(80, -1))
cCmap.SetSelection(cmapnames.index(self.do.cmaps[i].name))
cCmap.Bind(wx.EVT_CHOICE, self.OnCMapChanged)
hsizer2.Add(cCmap, 1, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 2)
id = wx.NewId()
self.shIds.append(id)
cbShow = wx.CheckBox(self, id)
cbShow.SetValue(self.do.show[i])
cbShow.Bind(wx.EVT_CHECKBOX, self.OnShowChanged)
hsizer2.Add(cbShow, 0, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 2)
ssizer.Add(hsizer2, 0, wx.ALL | wx.EXPAND, 0)
if horizOrientation:
hsizer.Add(ssizer, 0, wx.ALL, 2)
else:
vsizer.Add(ssizer, 0, wx.ALL, 5)
self.bOptimise = wx.Button(self, -1, "Stretch", style=wx.BU_EXACTFIT)
self.cbScale = wx.Choice(self,
-1,
choices=[
"1:16", "1:8", "1:4", "1:2", "1:1", "2:1",
"4:1", "8:1", "16:1"
])
self.cbScale.SetSelection(4)
self.scale_11 = 4
if horizOrientation:
vsizer.Add(hsizer, 0, wx.ALL, 0)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(self.bOptimise, 0, wx.ALL | wx.ALIGN_CENTER, 5)
hsizer.Add(self.cbScale, 0, wx.ALL | wx.ALIGN_CENTER, 5)
vsizer.Add(hsizer, 0, wx.ALL | wx.ALIGN_CENTER, 0)
else:
vsizer.Add(
self.bOptimise, 0,
wx.LEFT | wx.RIGHT | wx.TOP | wx.ALIGN_CENTER | wx.EXPAND, 5)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
#ssizer = wx.StaticBoxSizer(wx.StaticBox(self, -1, 'Slice'), wx.VERTICAL)
self.cbSlice = wx.Choice(self, -1, choices=["X-Y", "X-Z", "Y-Z"])
self.cbSlice.SetSelection(0)
hsizer.Add(self.cbSlice, 1, wx.ALL | wx.EXPAND, 5)
#vsizer.Add(ssizer, 0, wx.ALL|wx.EXPAND, 5)
#ssizer = wx.StaticBoxSizer(wx.StaticBox(self, -1, 'Scale'), wx.VERTICAL)
hsizer.Add(self.cbScale, 1, wx.ALL | wx.EXPAND, 5)
vsizer.Add(hsizer, 0, wx.ALL | wx.EXPAND, 0)
self.cbSlice.Bind(wx.EVT_CHOICE, self.OnSliceChanged)
#self.cbSlice.Bind(wx.EVT_CHOICE, self.OnSliceChanged)
self.cbScale.Bind(wx.EVT_CHOICE, self.OnScaleChanged)
self.bOptimise.Bind(wx.EVT_BUTTON, self.OnOptimise)
if self.do.ds.shape[2] > 1:
hsizer = wx.BoxSizer(wx.HORIZONTAL)
hsizer.Add(wx.StaticText(self, -1, 'Projection:'), 0,
wx.ALL | wx.ALIGN_CENTER_VERTICAL, 0)
self.czProject = wx.Choice(
self, -1, choices=['None', 'Standard', 'Colour Coded'])
self.czProject.SetSelection(0)
self.czProject.Bind(wx.EVT_CHOICE, self.OnZProjChanged)
hsizer.Add(self.czProject, 1, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 2)
vsizer.Add(hsizer, 0, wx.ALL | wx.EXPAND, 0)
if np.iscomplexobj(self.do.ds[0, 0, 0, 0]):
hsizer = wx.BoxSizer(wx.HORIZONTAL)
#hsizer.Add(wx.StaticText(self, -1, 'Projection:'), 0, wx.ALL|wx.ALIGN_CENTER_VERTICAL, 0)
self.cComplex = wx.Choice(
self, -1, choices=['colored', 'real', 'imag', 'angle', 'abs'])
self.cComplex.SetSelection(0)
self.cComplex.Bind(wx.EVT_CHOICE, self.OnComplexChanged)
hsizer.Add(self.cComplex, 1, wx.ALL | wx.ALIGN_CENTER_VERTICAL, 2)
vsizer.Add(hsizer, 0, wx.ALL | wx.EXPAND, 0)
if thresholdControls:
ssizer = wx.StaticBoxSizer(wx.StaticBox(self, -1, 'Segmentation'),
wx.VERTICAL)
self.cbShowThreshold = wx.CheckBox(self, -1, 'Threshold mode')
self.cbShowThreshold.Bind(wx.EVT_CHECKBOX, self.OnShowThreshold)
ssizer.Add(self.cbShowThreshold, 0, wx.ALL, 5)
self.bIsodataThresh = wx.Button(self, -1, 'Isodata')
self.bIsodataThresh.Bind(wx.EVT_BUTTON, self.OnIsodataThresh)
self.bIsodataThresh.Enable(False)
ssizer.Add(self.bIsodataThresh, 0,
wx.ALL | wx.ALIGN_CENTER_HORIZONTAL, 5)
hsizer = wx.BoxSizer(wx.HORIZONTAL)
self.tPercThresh = wx.TextCtrl(self, -1, '.80', size=[30, -1])
self.tPercThresh.Enable(False)
hsizer.Add(self.tPercThresh, 1, wx.ALL | wx.ALIGN_CENTER_VERTICAL,
1)
self.bPercThresh = wx.Button(self, -1, 'Signal Fraction')
self.bPercThresh.Bind(wx.EVT_BUTTON, self.OnSignalFracThresh)
self.bPercThresh.Enable(False)
hsizer.Add(self.bPercThresh, 0, wx.ALL | wx.ALIGN_CENTER_VERTICAL,
1)
ssizer.Add(hsizer, 0, wx.ALL | wx.EXPAND, 5)
vsizer.Add(ssizer, 0, wx.ALL | wx.EXPAND, 5)
self.SetSizer(vsizer)
self.do.WantChangeNotification.append(self.OnDoChange)