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# /*#########################################################################
# Copyright (C) 2004-2018 European Synchrotron Radiation Facility
#
# This file is part of the PyMca X-ray Fluorescence Toolkit developed at
# the ESRF by the Software group.
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
#
# ###########################################################################*/
"""
This plugin opens a stack ROI window providing alternative views:
- Usual sum of counts in the region
- Channel/Energy at data Max in the region.
- Channel/Energy at data Min in the region.
- Map of the counts at the first channel of the region
- Map of the counts at the middle cahnnel of the region
- Map of the counts at the last channel of the region
- Background counts
The background image can be subtracted from the other images to show
a net count.
If positioner data is available, the values corresponding to the mouse cursor
position in the plot are displayed in a widget underneath the plot.
If an external background images, such as a photo of the sample, has been
loaded using the external images plugin, it is displayed on the background
layer. A slider allows to increase the transparency of the foreground data
image to view this background image.
This window also provides a median filter tool, with a configurable filter
width, to smooth the stack image.
The mask of the plot widget is synchronized with the master stack widget.
"""
__authors__ = ["V.A. Sole", "P. Knobel"]
__contact__ = "sole@esrf.fr"
__license__ = "MIT"
from PyMca5 import StackPluginBase
from PyMca5.PyMcaGui.plotting import SilxMaskImageWidget
from PyMca5.PyMcaGui import PyMca_Icons as PyMca_Icons
class SilxRoiStackPlugin(StackPluginBase.StackPluginBase):
def __init__(self, stackWindow):
StackPluginBase.StackPluginBase.__init__(self, stackWindow)
self.methodDict = {'Show': [self._showWidget,
"Show ROIs",
PyMca_Icons.brushselect]}
self.__methodKeys = ['Show']
self.widget = None
def _getStackOriginScale(self):
"""Return origin and scale, as defined in silx plot addImage method
"""
info = self.getStackInfo()
xscale = info.get("xScale", [0.0, 1.0])
yscale = info.get("yScale", [0.0, 1.0])
origin = xscale[0], yscale[0]
scale = xscale[1], yscale[1]
return origin, scale
def _getStackImageShape(self):
"""Return 2D stack image shape"""
image_shape = list(self.getStackOriginalImage().shape)
return image_shape
def stackUpdated(self):
if self.widget is None:
return
if self.widget.isHidden():
return
images, names = self.getStackROIImagesAndNames()
image_shape = self._getStackImageShape()
origin, scale = self._getStackOriginScale()
info = {"positioners": self.getStackInfo().get("positioners", {})}
if info["positioners"]:
self.widget.setMotorPositionsVisible(True)
else:
self.widget.setMotorPositionsVisible(False)
infos = [info] # for _img in images]
h = scale[1] * image_shape[0]
w = scale[0] * image_shape[1]
self.widget.setImages(images, labels=names,
origin=origin, width=w, height=h,
infos=infos)
self.widget.setSelectionMask(self.getStackSelectionMask())
self._updateBgImages()
def _updateBgImages(self):
bgimages = self.getStackInfo().get("bgimages", {})
if bgimages:
datas, labels, origins, heights, widths = [], [], [], [], []
for lab, bgimg in bgimages.items():
labels.append(lab)
datas.append(bgimg["data"])
origins.append(bgimg["origin"])
heights.append(bgimg["height"])
widths.append(bgimg["width"])
self.widget.setBackgroundImages(datas, labels, origins, heights, widths)
def selectionMaskUpdated(self):
if self.widget is None:
return
if self.widget.isHidden():
return
mask = self.getStackSelectionMask()
self.widget.setSelectionMask(mask)
def stackROIImageListUpdated(self):
self.stackUpdated()
def stackClosed(self):
if self.widget is not None:
self.widget.close()
def mySlot(self, ddict):
if ddict['event'] == "selectionMaskChanged":
mask = ddict["current"]
self.setStackSelectionMask(mask)
elif ddict['event'] == "addImageClicked":
self.addImage(ddict['image'], ddict['title'])
elif ddict['event'] == "removeImageClicked":
self.removeImage(ddict['title'])
elif ddict['event'] == "replaceImageClicked":
self.replaceImage(ddict['image'], ddict['title'])
elif ddict['event'] == "resetSelection":
self.setStackSelectionMask(None)
#Methods implemented by the plugin
def getMethods(self):
return self.__methodKeys
def getMethodToolTip(self, name):
return self.methodDict[name][1]
def getMethodPixmap(self, name):
return self.methodDict[name][2]
def applyMethod(self, name):
return self.methodDict[name][0]()
def _showWidget(self):
if self.widget is None:
self.widget = SilxMaskImageWidget.SilxMaskImageWidget()
self.widget.setMedianFilterWidgetVisible(True)
self.widget.setBackgroundActionVisible(True)
self.widget.setProfileToolbarVisible(True)
self.widget.setAlphaSliderVisible(True)
self.widget.sigMaskImageWidget.connect(self.mySlot)
# Show
self.widget.show()
self.widget.raise_()
self.stackUpdated()
MENU_TEXT = "Silx Alternative ROI Options"
def getStackPluginInstance(stackWindow):
ob = SilxRoiStackPlugin(stackWindow)
return ob
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