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#############################################################################
##
## Copyright (C) 2020 The Qt Company Ltd.
## Contact: https://www.qt.io/licensing/
##
## This file is part of the Qt for Python examples of the Qt Toolkit.
##
## $QT_BEGIN_LICENSE:BSD$
## You may use this file under the terms of the BSD license as follows:
##
## "Redistribution and use in source and binary forms, with or without
## modification, are permitted provided that the following conditions are
## met:
## * Redistributions of source code must retain the above copyright
## notice, this list of conditions and the following disclaimer.
## * Redistributions in binary form must reproduce the above copyright
## notice, this list of conditions and the following disclaimer in
## the documentation and/or other materials provided with the
## distribution.
## * Neither the name of The Qt Company Ltd nor the names of its
## contributors may be used to endorse or promote products derived
## from this software without specific prior written permission.
##
##
## THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
## "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
## LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
## A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
## OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
## SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
## LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
## DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
## THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
## (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
## OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE."
##
## $QT_END_LICENSE$
##
#############################################################################
import sys
import numpy as np
from matplotlib.backends.backend_qt5agg import FigureCanvas
from matplotlib.colors import LinearSegmentedColormap
from matplotlib.figure import Figure
from PySide6.QtCore import Qt, Slot
from PySide6.QtGui import QAction, QKeySequence
from PySide6.QtWidgets import (QApplication, QHBoxLayout, QLabel,
QMainWindow, QPushButton, QSizePolicy,
QVBoxLayout, QWidget)
from skimage import data
from skimage.color import rgb2hed
from skimage.exposure import rescale_intensity
class ApplicationWindow(QMainWindow):
"""
Example based on the example by 'scikit-image' gallery:
"Immunohistochemical staining colors separation"
https://scikit-image.org/docs/stable/auto_examples/color_exposure/plot_ihc_color_separation.html
"""
def __init__(self, parent=None):
QMainWindow.__init__(self, parent)
self._main = QWidget()
self.setCentralWidget(self._main)
# Main menu bar
self.menu = self.menuBar()
self.menu_file = self.menu.addMenu("File")
exit = QAction("Exit", self, triggered=qApp.quit)
self.menu_file.addAction(exit)
self.menu_about = self.menu.addMenu("&About")
about = QAction("About Qt", self, shortcut=QKeySequence(QKeySequence.HelpContents),
triggered=qApp.aboutQt)
self.menu_about.addAction(about)
# Create an artificial color close to the original one
self.ihc_rgb = data.immunohistochemistry()
self.ihc_hed = rgb2hed(self.ihc_rgb)
main_layout = QVBoxLayout(self._main)
plot_layout = QHBoxLayout()
button_layout = QHBoxLayout()
label_layout = QHBoxLayout()
self.canvas1 = FigureCanvas(Figure(figsize=(5, 5)))
self.canvas2 = FigureCanvas(Figure(figsize=(5, 5)))
self._ax1 = self.canvas1.figure.subplots()
self._ax2 = self.canvas2.figure.subplots()
self._ax1.imshow(self.ihc_rgb)
plot_layout.addWidget(self.canvas1)
plot_layout.addWidget(self.canvas2)
self.button1 = QPushButton("Hematoxylin")
self.button2 = QPushButton("Eosin")
self.button3 = QPushButton("DAB")
self.button4 = QPushButton("Fluorescence")
self.button1.setSizePolicy(QSizePolicy.Preferred, QSizePolicy.Expanding)
self.button2.setSizePolicy(QSizePolicy.Preferred, QSizePolicy.Expanding)
self.button3.setSizePolicy(QSizePolicy.Preferred, QSizePolicy.Expanding)
self.button4.setSizePolicy(QSizePolicy.Preferred, QSizePolicy.Expanding)
self.button1.clicked.connect(self.plot_hematoxylin)
self.button2.clicked.connect(self.plot_eosin)
self.button3.clicked.connect(self.plot_dab)
self.button4.clicked.connect(self.plot_final)
self.label1 = QLabel("Original", alignment=Qt.AlignCenter)
self.label2 = QLabel("", alignment=Qt.AlignCenter)
font = self.label1.font()
font.setPointSize(16)
self.label1.setFont(font)
self.label2.setFont(font)
label_layout.addWidget(self.label1)
label_layout.addWidget(self.label2)
button_layout.addWidget(self.button1)
button_layout.addWidget(self.button2)
button_layout.addWidget(self.button3)
button_layout.addWidget(self.button4)
main_layout.addLayout(label_layout, 2)
main_layout.addLayout(plot_layout, 88)
main_layout.addLayout(button_layout, 10)
# Default image
self.plot_hematoxylin()
def set_buttons_state(self, states):
self.button1.setEnabled(states[0])
self.button2.setEnabled(states[1])
self.button3.setEnabled(states[2])
self.button4.setEnabled(states[3])
@Slot()
def plot_hematoxylin(self):
cmap_hema = LinearSegmentedColormap.from_list("mycmap", ["white", "navy"])
self._ax2.imshow(self.ihc_hed[:, :, 0], cmap=cmap_hema)
self.canvas2.draw()
self.label2.setText("Hematoxylin")
self.set_buttons_state((False, True, True, True))
@Slot()
def plot_eosin(self):
cmap_eosin = LinearSegmentedColormap.from_list("mycmap", ["darkviolet", "white"])
self._ax2.imshow(self.ihc_hed[:, :, 1], cmap=cmap_eosin)
self.canvas2.draw()
self.label2.setText("Eosin")
self.set_buttons_state((True, False, True, True))
@Slot()
def plot_dab(self):
cmap_dab = LinearSegmentedColormap.from_list("mycmap", ["white", "saddlebrown"])
self._ax2.imshow(self.ihc_hed[:, :, 2], cmap=cmap_dab)
self.canvas2.draw()
self.label2.setText("DAB")
self.set_buttons_state((True, True, False, True))
@Slot()
def plot_final(self):
h = rescale_intensity(self.ihc_hed[:, :, 0], out_range=(0, 1))
d = rescale_intensity(self.ihc_hed[:, :, 2], out_range=(0, 1))
zdh = np.dstack((np.zeros_like(h), d, h))
self._ax2.imshow(zdh)
self.canvas2.draw()
self.label2.setText("Stain separated image")
self.set_buttons_state((True, True, True, False))
if __name__ == "__main__":
app = QApplication(sys.argv)
w = ApplicationWindow()
w.show()
app.exec_()
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