def __init__(self, parent, xml):
super().__init__(parent)
self.setWindowTitle("Information")
tree = QTreeWidget()
tree.setColumnCount(2)
tree.setHeaderLabels(["Name", "Value"])
tree.setColumnWidth(0, 200)
tree.setColumnWidth(1, 350)
for stream in xml:
header = xml[stream][2]
header.tag = "Header"
footer = xml[stream][6]
footer.tag = "Footer"
root = ETree.Element(f"Stream {stream}")
root.extend([header, footer])
populate_tree(tree, root)
tree.expandAll()
vbox = QVBoxLayout(self)
vbox.addWidget(tree)
buttonbox = QDialogButtonBox(QDialogButtonBox.Ok)
vbox.addWidget(buttonbox)
buttonbox.accepted.connect(self.accept)
self.resize(650, 550)
import sys
from PySide6.QtWidgets import QApplication, QTreeWidget, QTreeWidgetItem
data = {
"Project A": ["file_a.py", "file_a.txt", "something.xls"],
"Project B": ["file_b.csv", "photo.jpg"],
"Project C": []
}
app = QApplication()
tree = QTreeWidget()
tree.setColumnCount(3)
tree.setHeaderLabels(["Name", "Type", "Comment"])
items = []
for key, values in data.items():
item = QTreeWidgetItem([key])
for value in values:
ext = value.split(".")[-1].upper()
child = QTreeWidgetItem([value, ext, "XXX"])
item.addChild(child)
items.append(item)
tree.insertTopLevelItems(0, items)
tree.show()
sys.exit(app.exec_())
class UIOpenPatientWindow(object):
patient_info_initialized = QtCore.Signal(object)
def setup_ui(self, open_patient_window_instance):
if platform.system() == 'Darwin':
self.stylesheet_path = "res/stylesheet.qss"
else:
self.stylesheet_path = "res/stylesheet-win-linux.qss"
window_icon = QIcon()
window_icon.addPixmap(QPixmap(resource_path("res/images/icon.ico")),
QIcon.Normal, QIcon.Off)
open_patient_window_instance.setObjectName("OpenPatientWindowInstance")
open_patient_window_instance.setWindowIcon(window_icon)
open_patient_window_instance.resize(840, 530)
# Create a vertical box for containing the other elements and layouts
self.open_patient_window_instance_vertical_box = QVBoxLayout()
self.open_patient_window_instance_vertical_box.setObjectName(
"OpenPatientWindowInstanceVerticalBox")
# Create a label to prompt the user to enter the path to the directory that contains the DICOM files
self.open_patient_directory_prompt = QLabel()
self.open_patient_directory_prompt.setObjectName(
"OpenPatientDirectoryPrompt")
self.open_patient_directory_prompt.setAlignment(Qt.AlignLeft)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_directory_prompt)
# Create a horizontal box to hold the input box for the directory and the choose button
self.open_patient_directory_input_horizontal_box = QHBoxLayout()
self.open_patient_directory_input_horizontal_box.setObjectName(
"OpenPatientDirectoryInputHorizontalBox")
# Create a textbox to contain the path to the directory that contains the DICOM files
self.open_patient_directory_input_box = UIOpenPatientWindowDragAndDropEvent(
self)
self.open_patient_directory_input_box.setObjectName(
"OpenPatientDirectoryInputBox")
self.open_patient_directory_input_box.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_directory_input_box.returnPressed.connect(
self.scan_directory_for_patient)
self.open_patient_directory_input_horizontal_box.addWidget(
self.open_patient_directory_input_box)
# Create a choose button to open the file dialog
self.open_patient_directory_choose_button = QPushButton()
self.open_patient_directory_choose_button.setObjectName(
"OpenPatientDirectoryChooseButton")
self.open_patient_directory_choose_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_directory_choose_button.resize(
self.open_patient_directory_choose_button.sizeHint().width(),
self.open_patient_directory_input_box.height())
self.open_patient_directory_choose_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_directory_input_horizontal_box.addWidget(
self.open_patient_directory_choose_button)
self.open_patient_directory_choose_button.clicked.connect(
self.choose_button_clicked)
# Create a widget to hold the input fields
self.open_patient_directory_input_widget = QWidget()
self.open_patient_directory_input_horizontal_box.setStretch(0, 4)
self.open_patient_directory_input_widget.setLayout(
self.open_patient_directory_input_horizontal_box)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_directory_input_widget)
# Create a horizontal box to hold the stop button and direction to the user on where to select the patient
self.open_patient_appear_prompt_and_stop_horizontal_box = QHBoxLayout()
self.open_patient_appear_prompt_and_stop_horizontal_box.setObjectName(
"OpenPatientAppearPromptAndStopHorizontalBox")
# Create a label to show direction on where the files will appear
self.open_patient_directory_appear_prompt = QLabel()
self.open_patient_directory_appear_prompt.setObjectName(
"OpenPatientDirectoryAppearPrompt")
self.open_patient_directory_appear_prompt.setAlignment(Qt.AlignLeft)
self.open_patient_appear_prompt_and_stop_horizontal_box.addWidget(
self.open_patient_directory_appear_prompt)
self.open_patient_appear_prompt_and_stop_horizontal_box.addStretch(1)
# Create a button to stop searching
self.open_patient_window_stop_button = QPushButton()
self.open_patient_window_stop_button.setObjectName(
"OpenPatientWindowStopButton")
self.open_patient_window_stop_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_stop_button.resize(
self.open_patient_window_stop_button.sizeHint().width(),
self.open_patient_window_stop_button.sizeHint().height())
self.open_patient_window_stop_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_window_stop_button.clicked.connect(
self.stop_button_clicked)
self.open_patient_window_stop_button.setProperty(
"QPushButtonClass", "fail-button")
self.open_patient_window_stop_button.setVisible(
False) # Button doesn't show until a search commences
self.open_patient_appear_prompt_and_stop_horizontal_box.addWidget(
self.open_patient_window_stop_button)
# Create a widget to hold the layout
self.open_patient_appear_prompt_and_stop_widget = QWidget()
self.open_patient_appear_prompt_and_stop_widget.setLayout(
self.open_patient_appear_prompt_and_stop_horizontal_box)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_appear_prompt_and_stop_widget)
# Create a tree view list to list out all patients in the directory selected above
self.open_patient_window_patients_tree = QTreeWidget()
self.open_patient_window_patients_tree.setObjectName(
"OpenPatientWindowPatientsTree")
self.open_patient_window_patients_tree.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_patients_tree.resize(
self.open_patient_window_patients_tree.sizeHint().width(),
self.open_patient_window_patients_tree.sizeHint().height())
self.open_patient_window_patients_tree.setHeaderHidden(False)
self.open_patient_window_patients_tree.setHeaderLabels([""])
self.open_patient_window_patients_tree.itemChanged.connect(
self.tree_item_changed)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_window_patients_tree)
self.last_patient = None
# Create a label to show what would happen if they select the patient
self.open_patient_directory_result_label = QtWidgets.QLabel()
self.open_patient_directory_result_label.setObjectName(
"OpenPatientDirectoryResultLabel")
self.open_patient_directory_result_label.setAlignment(Qt.AlignLeft)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_directory_result_label)
# Create a horizontal box to hold the Cancel and Open button
self.open_patient_window_patient_open_actions_horizontal_box = QHBoxLayout(
)
self.open_patient_window_patient_open_actions_horizontal_box.setObjectName(
"OpenPatientWindowPatientOpenActionsHorizontalBox")
self.open_patient_window_patient_open_actions_horizontal_box.addStretch(
1)
# Add a button to go back/exit from the application
self.open_patient_window_exit_button = QPushButton()
self.open_patient_window_exit_button.setObjectName(
"OpenPatientWindowExitButton")
self.open_patient_window_exit_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_exit_button.resize(
self.open_patient_window_stop_button.sizeHint().width(),
self.open_patient_window_stop_button.sizeHint().height())
self.open_patient_window_exit_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_window_exit_button.clicked.connect(
self.exit_button_clicked)
self.open_patient_window_exit_button.setProperty(
"QPushButtonClass", "fail-button")
self.open_patient_window_patient_open_actions_horizontal_box.addWidget(
self.open_patient_window_exit_button)
# Add a button to confirm opening of the patient
self.open_patient_window_confirm_button = QPushButton()
self.open_patient_window_confirm_button.setObjectName(
"OpenPatientWindowConfirmButton")
self.open_patient_window_confirm_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_confirm_button.resize(
self.open_patient_window_confirm_button.sizeHint().width(),
self.open_patient_window_confirm_button.sizeHint().height())
self.open_patient_window_confirm_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_window_confirm_button.setDisabled(True)
self.open_patient_window_confirm_button.clicked.connect(
self.confirm_button_clicked)
self.open_patient_window_confirm_button.setProperty(
"QPushButtonClass", "success-button")
self.open_patient_window_patient_open_actions_horizontal_box.addWidget(
self.open_patient_window_confirm_button)
# Create a widget to house all of the actions button for open patient window
self.open_patient_window_patient_open_actions_widget = QWidget()
self.open_patient_window_patient_open_actions_widget.setLayout(
self.open_patient_window_patient_open_actions_horizontal_box)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_window_patient_open_actions_widget)
# Set the vertical box fourth element, the tree view, to stretch out as far as possible
self.open_patient_window_instance_vertical_box.setStretch(
3, 4) # Stretch the treeview out as far as possible
self.open_patient_window_instance_central_widget = QWidget()
self.open_patient_window_instance_central_widget.setObjectName(
"OpenPatientWindowInstanceCentralWidget")
self.open_patient_window_instance_central_widget.setLayout(
self.open_patient_window_instance_vertical_box)
# Create threadpool for multithreading
self.threadpool = QThreadPool()
print("Multithreading with maximum %d threads" %
self.threadpool.maxThreadCount())
# Create interrupt event for stopping the directory search
self.interrupt_flag = threading.Event()
# Bind all texts into the buttons and labels
self.retranslate_ui(open_patient_window_instance)
# Set the central widget, ready for display
open_patient_window_instance.setCentralWidget(
self.open_patient_window_instance_central_widget)
# Set the current stylesheet to the instance and connect it back to the caller through slot
_stylesheet = open(resource_path(self.stylesheet_path)).read()
open_patient_window_instance.setStyleSheet(_stylesheet)
QtCore.QMetaObject.connectSlotsByName(open_patient_window_instance)
def retranslate_ui(self, open_patient_window_instance):
_translate = QtCore.QCoreApplication.translate
open_patient_window_instance.setWindowTitle(
_translate("OpenPatientWindowInstance",
"OnkoDICOM - Select Patient"))
self.open_patient_directory_prompt.setText(
_translate(
"OpenPatientWindowInstance",
"Choose the path of the folder containing DICOM files to load Patient's details:"
))
self.open_patient_directory_input_box.setPlaceholderText(
_translate(
"OpenPatientWindowInstance",
"Enter DICOM Files Path (For example, C:\path\\to\your\DICOM\Files)"
))
self.open_patient_directory_choose_button.setText(
_translate("OpenPatientWindowInstance", "Choose"))
self.open_patient_directory_appear_prompt.setText(
_translate(
"OpenPatientWindowInstance",
"Patient File directory shown below once file path chosen. Please select the file(s) you want to open:"
))
self.open_patient_directory_result_label.setText(
"The selected directory(s) above will be opened in the OnkoDICOM program."
)
self.open_patient_window_stop_button.setText(
_translate("OpenPatientWindowInstance", "Stop Search"))
self.open_patient_window_exit_button.setText(
_translate("OpenPatientWindowInstance", "Exit"))
self.open_patient_window_confirm_button.setText(
_translate("OpenPatientWindowInstance", "Confirm"))
def exit_button_clicked(self):
QCoreApplication.exit(0)
def scan_directory_for_patient(self):
# Reset tree view header and last patient
self.open_patient_window_patients_tree.setHeaderLabels([""])
self.last_patient = None
self.filepath = self.open_patient_directory_input_box.text()
# Proceed if a folder was selected
if self.filepath != "":
# Update the QTreeWidget to reflect data being loaded
# First, clear the widget of any existing data
self.open_patient_window_patients_tree.clear()
# Next, update the tree widget
self.open_patient_window_patients_tree.addTopLevelItem(
QTreeWidgetItem(["Loading selected directory..."]))
# The choose button is disabled until the thread finishes executing
self.open_patient_directory_choose_button.setEnabled(False)
# Reveals the Stop Search button for the duration of the search
self.open_patient_window_stop_button.setVisible(True)
# The interrupt flag is then un-set if a previous search has been stopped.
self.interrupt_flag.clear()
# Then, create a new thread that will load the selected folder
worker = Worker(DICOMDirectorySearch.get_dicom_structure,
self.filepath,
self.interrupt_flag,
progress_callback=True)
worker.signals.result.connect(self.on_search_complete)
worker.signals.progress.connect(self.search_progress)
# Execute the thread
self.threadpool.start(worker)
def choose_button_clicked(self):
"""
Executes when the choose button is clicked.
Gets filepath from the user and loads all files and subdirectories.
"""
# Get folder path from pop up dialog box
self.filepath = QtWidgets.QFileDialog.getExistingDirectory(
None, 'Select patient folder...', '')
self.open_patient_directory_input_box.setText(self.filepath)
self.scan_directory_for_patient()
def stop_button_clicked(self):
self.interrupt_flag.set()
def search_progress(self, progress_update):
"""
Current progress of the file search.
"""
self.open_patient_window_patients_tree.clear()
self.open_patient_window_patients_tree.addTopLevelItem(
QTreeWidgetItem([
"Loading selected directory... (%s files searched)" %
progress_update
]))
def on_search_complete(self, dicom_structure):
"""
Executes once the directory search is complete.
:param dicom_structure: DICOMStructure object constructed by the directory search.
"""
self.open_patient_directory_choose_button.setEnabled(True)
self.open_patient_window_stop_button.setVisible(False)
self.open_patient_window_patients_tree.clear()
if dicom_structure is None: # dicom_structure will be None if function was interrupted.
return
for patient_item in dicom_structure.get_tree_items_list():
self.open_patient_window_patients_tree.addTopLevelItem(
patient_item)
if len(dicom_structure.patients) == 0:
QMessageBox.about(self, "No files found",
"Selected directory contains no DICOM files.")
def tree_item_changed(self, item, _):
"""
Executes when a tree item is checked or unchecked.
If a different patient is checked, uncheck the previous patient.
Inform user about missing DICOM files.
"""
selected_patient = item
# If the item is not top-level, bubble up to see which top-level item this item belongs to
if self.open_patient_window_patients_tree.invisibleRootItem(
).indexOfChild(item) == -1:
while self.open_patient_window_patients_tree.invisibleRootItem(
).indexOfChild(selected_patient) == -1:
selected_patient = selected_patient.parent()
# Uncheck previous patient if a different patient is selected
if item.checkState(
0
) == Qt.CheckState.Checked and self.last_patient != selected_patient:
if self.last_patient is not None:
self.last_patient.setCheckState(0, Qt.CheckState.Unchecked)
self.last_patient.setSelected(False)
self.last_patient = selected_patient
# Get the types of all selected leaves
self.selected_series_types = set()
for checked_item in self.get_checked_leaves():
series_type = checked_item.dicom_object.get_series_type()
if type(series_type) == str:
self.selected_series_types.add(series_type)
else:
self.selected_series_types.update(series_type)
# Check the existence of IMAGE, RTSTRUCT and RTDOSE files
if len(list({'CT', 'MR', 'PT'} & self.selected_series_types)) == 0:
header = "Cannot proceed without an image file."
self.open_patient_window_confirm_button.setDisabled(True)
elif 'RTSTRUCT' not in self.selected_series_types:
header = "DVH and Radiomics calculations are not available without a RTSTRUCT file."
elif 'RTDOSE' not in self.selected_series_types:
header = "DVH calculations are not available without a RTDOSE file."
else:
header = ""
self.open_patient_window_patients_tree.setHeaderLabel(header)
if len(list({'CT', 'MR', 'PT'} & self.selected_series_types)) != 0:
self.open_patient_window_confirm_button.setDisabled(False)
def confirm_button_clicked(self):
"""
Begins loading of the selected files.
"""
selected_files = []
for item in self.get_checked_leaves():
selected_files += item.dicom_object.get_files()
self.progress_window = ProgressWindow(
self, QtCore.Qt.WindowTitleHint | QtCore.Qt.WindowCloseButtonHint)
self.progress_window.signal_loaded.connect(self.on_loaded)
self.progress_window.signal_error.connect(self.on_loading_error)
self.progress_window.start_loading(selected_files)
self.progress_window.exec_()
def on_loaded(self, results):
"""
Executes when the progress bar finishes loaded the selected files.
"""
if results[0] is True: # Will be NoneType if loading was interrupted.
self.patient_info_initialized.emit(
results[1]) # Emits the progress window.
def on_loading_error(self, error_code):
"""
Error handling for progress window.
"""
if error_code == 0:
QMessageBox.about(
self.progress_window, "Unable to open selection",
"Selected files cannot be opened as they are not a DICOM-RT set."
)
self.progress_window.close()
elif error_code == 1:
QMessageBox.about(
self.progress_window, "Unable to open selection",
"Selected files cannot be opened as they contain unsupported DICOM classes."
)
self.progress_window.close()
def get_checked_leaves(self):
"""
:return: A list of all QTreeWidgetItems in the QTreeWidget that are both leaves and checked.
"""
checked_items = []
def recurse(parent_item: QTreeWidgetItem):
for i in range(parent_item.childCount()):
child = parent_item.child(i)
grand_children = child.childCount()
if grand_children > 0:
recurse(child)
else:
if child.checkState(0) == Qt.Checked:
checked_items.append(child)
recurse(self.open_patient_window_patients_tree.invisibleRootItem())
return checked_items
class UIImageFusionWindow(object):
image_fusion_info_initialized = QtCore.Signal(object)
def setup_ui(self, open_image_fusion_select_instance):
"""Sets up a UI"""
if platform.system() == 'Darwin':
self.stylesheet_path = "res/stylesheet.qss"
else:
self.stylesheet_path = "res/stylesheet-win-linux.qss"
window_icon = QIcon()
window_icon.addPixmap(QPixmap(resource_path("res/images/icon.ico")),
QIcon.Normal, QIcon.Off)
open_image_fusion_select_instance.setObjectName(
"OpenPatientWindowInstance")
open_image_fusion_select_instance.setWindowIcon(window_icon)
open_image_fusion_select_instance.resize(840, 530)
# Create a vertical box for containing the other elements and layouts
self.open_patient_window_instance_vertical_box = QVBoxLayout()
self.open_patient_window_instance_vertical_box.setObjectName(
"OpenPatientWindowInstanceVerticalBox")
# Create a label to prompt the user to enter the path to the
# directory that contains the DICOM files
self.open_patient_directory_prompt = QLabel()
self.open_patient_directory_prompt.setObjectName(
"OpenPatientDirectoryPrompt")
self.open_patient_directory_prompt.setAlignment(Qt.AlignLeft)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_directory_prompt)
# Create a horizontal box to hold the input box for the directory
# and the choose button
self.open_patient_directory_input_horizontal_box = QHBoxLayout()
self.open_patient_directory_input_horizontal_box.setObjectName(
"OpenPatientDirectoryInputHorizontalBox")
# Create a textbox to contain the path to the directory that contains
# the DICOM files
self.open_patient_directory_input_box = \
UIImageFusionWindowDragAndDropEvent(self)
self.open_patient_directory_input_box.setObjectName(
"OpenPatientDirectoryInputBox")
self.open_patient_directory_input_box.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_directory_input_box.returnPressed.connect(
self.scan_directory_for_patient)
self.open_patient_directory_input_horizontal_box.addWidget(
self.open_patient_directory_input_box)
# Create a choose button to open the file dialog
self.open_patient_directory_choose_button = QPushButton()
self.open_patient_directory_choose_button.setObjectName(
"OpenPatientDirectoryChooseButton")
self.open_patient_directory_choose_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_directory_choose_button.resize(
self.open_patient_directory_choose_button.sizeHint().width(),
self.open_patient_directory_input_box.height())
self.open_patient_directory_choose_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_directory_input_horizontal_box.addWidget(
self.open_patient_directory_choose_button)
self.open_patient_directory_choose_button.clicked.connect(
self.choose_button_clicked)
# Create a widget to hold the input fields
self.open_patient_directory_input_widget = QWidget()
self.open_patient_directory_input_horizontal_box.setStretch(0, 4)
self.open_patient_directory_input_widget.setLayout(
self.open_patient_directory_input_horizontal_box)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_directory_input_widget)
# Create a horizontal box to hold the stop button and direction to
# the user on where to select the patient
self.open_patient_appear_prompt_and_stop_horizontal_box = QHBoxLayout()
self.open_patient_appear_prompt_and_stop_horizontal_box.setObjectName(
"OpenPatientAppearPromptAndStopHorizontalBox")
# Create a label to show direction on where the files will appear
self.open_patient_directory_appear_prompt = QLabel()
self.open_patient_directory_appear_prompt.setObjectName(
"OpenPatientDirectoryAppearPrompt")
self.open_patient_directory_appear_prompt.setAlignment(Qt.AlignLeft)
self.open_patient_appear_prompt_and_stop_horizontal_box.addWidget(
self.open_patient_directory_appear_prompt)
self.open_patient_appear_prompt_and_stop_horizontal_box.addStretch(1)
# Create a button to stop searching
self.open_patient_window_stop_button = QPushButton()
self.open_patient_window_stop_button.setObjectName(
"OpenPatientWindowStopButton")
self.open_patient_window_stop_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_stop_button.resize(
self.open_patient_window_stop_button.sizeHint().width(),
self.open_patient_window_stop_button.sizeHint().height())
self.open_patient_window_stop_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_window_stop_button.clicked.connect(
self.stop_button_clicked)
self.open_patient_window_stop_button.setProperty(
"QPushButtonClass", "fail-button")
self.open_patient_window_stop_button.setVisible(False)
self.open_patient_appear_prompt_and_stop_horizontal_box.addWidget(
self.open_patient_window_stop_button)
# Create a widget to hold the layout
self.open_patient_appear_prompt_and_stop_widget = QWidget()
self.open_patient_appear_prompt_and_stop_widget.setLayout(
self.open_patient_appear_prompt_and_stop_horizontal_box)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_appear_prompt_and_stop_widget)
# Create a tree view list to list out all patients in the directory
# selected above
self.open_patient_window_patients_tree = QTreeWidget()
self.open_patient_window_patients_tree.setObjectName(
"OpenPatientWindowPatientsTree")
self.open_patient_window_patients_tree.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_patients_tree.resize(
self.open_patient_window_patients_tree.sizeHint().width(),
self.open_patient_window_patients_tree.sizeHint().height())
self.open_patient_window_patients_tree.setHeaderHidden(False)
self.open_patient_window_patients_tree.setHeaderLabels([""])
self.open_patient_window_patients_tree.itemChanged.connect(
self.tree_item_clicked)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_window_patients_tree)
self.last_patient = None
# Create a label to show what would happen if they select the patient
self.open_patient_directory_result_label = QtWidgets.QLabel()
self.open_patient_directory_result_label.setObjectName(
"OpenPatientDirectoryResultLabel")
self.open_patient_directory_result_label.setAlignment(Qt.AlignLeft)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_directory_result_label)
# Create a horizontal box to hold the Cancel and Open button
self.open_patient_window_patient_open_actions_horizontal_box = \
QHBoxLayout()
self.open_patient_window_patient_open_actions_horizontal_box. \
setObjectName("OpenPatientWindowPatientOpenActionsHorizontalBox")
self.open_patient_window_patient_open_actions_horizontal_box. \
addStretch(1)
# Add a button to go back/close from the application
self.open_patient_window_close_button = QPushButton()
self.open_patient_window_close_button.setObjectName(
"OpenPatientWindowcloseButton")
self.open_patient_window_close_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_close_button.resize(
self.open_patient_window_stop_button.sizeHint().width(),
self.open_patient_window_stop_button.sizeHint().height())
self.open_patient_window_close_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_window_close_button.clicked.connect(
self.close_button_clicked)
self.open_patient_window_close_button.setProperty(
"QPushButtonClass", "fail-button")
self.open_patient_window_patient_open_actions_horizontal_box. \
addWidget(self.open_patient_window_close_button)
# Add a button to confirm opening of the patient
self.open_patient_window_confirm_button = QPushButton()
self.open_patient_window_confirm_button.setObjectName(
"OpenPatientWindowConfirmButton")
self.open_patient_window_confirm_button.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.open_patient_window_confirm_button.resize(
self.open_patient_window_confirm_button.sizeHint().width(),
self.open_patient_window_confirm_button.sizeHint().height())
self.open_patient_window_confirm_button.setCursor(
QtGui.QCursor(QtCore.Qt.PointingHandCursor))
self.open_patient_window_confirm_button.setDisabled(True)
self.open_patient_window_confirm_button.clicked.connect(
self.confirm_button_clicked)
self.open_patient_window_confirm_button.setProperty(
"QPushButtonClass", "success-button")
self.open_patient_window_patient_open_actions_horizontal_box. \
addWidget(
self.open_patient_window_confirm_button)
# Create a widget to house all of the actions button for open patient
# window
self.open_patient_window_patient_open_actions_widget = QWidget()
self.open_patient_window_patient_open_actions_widget.setLayout(
self.open_patient_window_patient_open_actions_horizontal_box)
self.open_patient_window_instance_vertical_box.addWidget(
self.open_patient_window_patient_open_actions_widget)
# Set the vertical box fourth element, the tree view, to stretch
# out as far as possible
self.open_patient_window_instance_vertical_box.setStretch(3, 4)
self.open_patient_window_instance_central_widget = QWidget()
self.open_patient_window_instance_central_widget.setObjectName(
"OpenPatientWindowInstanceCentralWidget")
self.open_patient_window_instance_central_widget.setLayout(
self.open_patient_window_instance_vertical_box)
# Create threadpool for multithreading
self.threadpool = QThreadPool()
# print("Multithreading with maximum %d threads" % self.threadpool.
# maxThreadCount())
# Create interrupt event for stopping the directory search
self.interrupt_flag = threading.Event()
# Bind all texts into the buttons and labels
self.retranslate_ui(open_image_fusion_select_instance)
# Set the central widget, ready for display
open_image_fusion_select_instance.setCentralWidget(
self.open_patient_window_instance_central_widget)
# Set the current stylesheet to the instance and connect it back
# to the caller through slot
_stylesheet = open(resource_path(self.stylesheet_path)).read()
open_image_fusion_select_instance.setStyleSheet(_stylesheet)
QtCore.QMetaObject.connectSlotsByName(
open_image_fusion_select_instance)
def retranslate_ui(self, open_image_fusion_select_instance):
"""Translates UI"""
_translate = QtCore.QCoreApplication.translate
open_image_fusion_select_instance.setWindowTitle(
_translate("OpenPatientWindowInstance",
"OnkoDICOM - Select Patient"))
self.open_patient_directory_prompt.setText(_translate(
"OpenPatientWindowInstance",
"Choose an image to merge with:"))
self.open_patient_directory_input_box.setPlaceholderText(
_translate("OpenPatientWindowInstance",
"Enter DICOM Files Path (For example, "
"C:\path\\to\your\DICOM\Files)"))
self.open_patient_directory_choose_button.setText(_translate(
"OpenPatientWindowInstance",
"Choose"))
self.open_patient_directory_appear_prompt.setText(_translate(
"OpenPatientWindowInstance",
"Please select below the image set you wish to overlay:"))
self.open_patient_directory_result_label. \
setText("The selected imageset(s) above will be "
"co-registered with the current imageset.")
self.open_patient_window_stop_button.setText(_translate(
"OpenPatientWindowInstance", "Stop Search"))
self.open_patient_window_close_button.setText(_translate(
"OpenPatientWindowInstance", "Close"))
self.open_patient_window_confirm_button.setText(_translate(
"OpenPatientWindowInstance", "Confirm"))
def update_patient(self):
self.clear_checked_leaves()
self.patient_dict_container = PatientDictContainer()
self.patient = self.patient_dict_container.get("basic_info")
self.patient_id = self.patient['id']
dataset = self.patient_dict_container.dataset[0]
self.patient_current_image_series_uid = \
dataset.get("SeriesInstanceUID")
def clear_checked_leaves(self):
"""
Resets all leaves to their unchecked state
"""
def recurse(parent_item: QTreeWidgetItem):
for i in range(parent_item.childCount()):
child = parent_item.child(i)
grand_children = child.childCount()
if grand_children > 0:
recurse(child)
else:
if child.checkState(0) == Qt.Checked:
child.setCheckState(0, Qt.CheckState.Unchecked)
child.setSelected(False)
recurse(self.open_patient_window_patients_tree.invisibleRootItem())
self.open_patient_window_patients_tree.collapseAll()
def close_button_clicked(self):
"""Closes the window."""
self.close()
def scan_directory_for_patient(self):
# Reset tree view header and last patient
self.open_patient_window_confirm_button.setDisabled(True)
self.open_patient_window_patients_tree.setHeaderLabels([""])
self.last_patient = None
self.filepath = self.open_patient_directory_input_box.text()
# Proceed if a folder was selected
if self.filepath != "":
# Update the QTreeWidget to reflect data being loaded
# First, clear the widget of any existing data
self.open_patient_window_patients_tree.clear()
# Next, update the tree widget
self.open_patient_window_patients_tree.addTopLevelItem(
QTreeWidgetItem(["Loading selected directory..."]))
# The choose button is disabled until the thread finishes executing
self.open_patient_directory_choose_button.setEnabled(False)
# Reveals the Stop Search button for the duration of the search
self.open_patient_window_stop_button.setVisible(True)
# The interrupt flag is then un-set if a previous search has been
# stopped.
self.interrupt_flag.clear()
# Then, create a new thread that will load the selected folder
worker = Worker(DICOMDirectorySearch.get_dicom_structure,
self.filepath,
self.interrupt_flag, progress_callback=True)
worker.signals.result.connect(self.on_search_complete)
worker.signals.progress.connect(self.search_progress)
# Execute the thread
self.threadpool.start(worker)
def choose_button_clicked(self):
"""
Executes when the choose button is clicked.
Gets filepath from the user and loads all files and subdirectories.
"""
# Get folder path from pop up dialog box
self.filepath = QtWidgets.QFileDialog.getExistingDirectory(
None, 'Select patient folder...', '')
self.open_patient_directory_input_box.setText(self.filepath)
self.scan_directory_for_patient()
def stop_button_clicked(self):
self.interrupt_flag.set()
def search_progress(self, progress_update):
"""
Current progress of the file search.
"""
self.open_patient_window_patients_tree.clear()
self.open_patient_window_patients_tree.addTopLevelItem(
QTreeWidgetItem(["Loading selected directory... "
"(%s files searched)" % progress_update]))
def on_search_complete(self, dicom_structure):
"""
Executes once the directory search is complete.
:param dicom_structure: DICOMStructure object constructed by the
directory search.
"""
self.open_patient_directory_choose_button.setEnabled(True)
self.open_patient_window_stop_button.setVisible(False)
self.open_patient_window_patients_tree.clear()
# dicom_structure will be None if function was interrupted.
if dicom_structure is None:
return
for patient_item in dicom_structure.get_tree_items_list():
self.open_patient_window_patients_tree.addTopLevelItem(
patient_item)
patient_item.setExpanded(True) # Display all studies
# Display all image sets
for i in range(patient_item.childCount()):
study = patient_item.child(i)
study.setExpanded(True)
if len(dicom_structure.patients) == 0:
QMessageBox.about(self, "No files found",
"Selected directory contains no DICOM files.")
def tree_item_clicked(self, item, _):
"""
Executes when a tree item is checked or unchecked.
If a different patient is checked, uncheck the previous patient.
Inform user about missing DICOM files.
"""
# If patient is only selected, but not checked, set it to "focus" to
# coincide with stylesheet. And if the selected item is an image set,
# display its child branches.
if item.checkState(0) == Qt.CheckState.Unchecked:
self.open_patient_window_patients_tree.setCurrentItem(item)
else: # Otherwise don't "focus", then set patient as selected
self.open_patient_window_patients_tree.setCurrentItem(None)
item.setSelected(True)
# Expand or collapse the tree branch if item is an image series
# Only collapse if the selected image series is expanded but unchecked
# Otherwise, expand its tree branch to show RT files
is_expanded = False \
if (item.isExpanded() is True and
item.checkState(0) == Qt.CheckState.Unchecked) else True
self.display_a_tree_branch(item, is_expanded)
selected_patient = item
# If the item is not top-level, bubble up to see which top-level item
# this item belongs to
if self.open_patient_window_patients_tree.invisibleRootItem(). \
indexOfChild(item) == -1:
while self.open_patient_window_patients_tree.invisibleRootItem(). \
indexOfChild(selected_patient) == -1:
selected_patient = selected_patient.parent()
# Uncheck previous patient if a different patient is selected
if item.checkState(0) == Qt.CheckState.Checked and self.last_patient \
!= selected_patient:
if self.last_patient is not None:
last_patient_checked_items = self.get_checked_nodes(
self.last_patient)
for checked_item in last_patient_checked_items:
checked_item.setCheckState(0, Qt.Unchecked)
self.last_patient = selected_patient
# Check selected items and display warning messages
self.check_selected_items(selected_patient)
def display_a_tree_branch(self, node, is_expanded):
# TO DO:
# Could Team 23 please update the defintion of this docstring as
# well as same function presented in OpenPatientWindow.
"""
Displays a tree branch
Parameters:
node : root node the tree
is_expanded (boolean): flag for checking if a particular
node/leaf is expanded.
"""
node.setExpanded(is_expanded)
if node.childCount() > 0:
for i in range(node.childCount()):
self.display_a_tree_branch(node.child(i), is_expanded)
else:
return
def check_selected_items(self, selected_patient):
"""
Check and display warning messages based on the existence and quantity
of image series, RTSTRUCT, RTPLAN, RTDOSE and SR files
Parameters:
selected_patient (DICOMStructure): DICOM Object of patient
"""
# Get the types of all selected leaves & Get the names of all selected
# studies
checked_nodes = self.get_checked_nodes(
self.open_patient_window_patients_tree.invisibleRootItem())
selected_series_types = [checked_node.dicom_object.get_series_type()
for checked_node in checked_nodes]
selected_series_id = [checked_node.dicom_object.series_uid
for checked_node in checked_nodes]
# Total number of selected image series
total_selected_image_series = selected_series_types.count('CT') + \
selected_series_types.count('MR') + \
selected_series_types.count('PT')
# Check the existence of IMAGE, RTSTRUCT, RTPLAN and RTDOSE files
proceed = True
if total_selected_image_series < 1:
header = "Cannot proceed without an image."
proceed = False
elif total_selected_image_series > 1:
header = "Cannot proceed with more than 1 selected image."
proceed = False
elif selected_patient.dicom_object.patient_id.strip() != \
self.patient_id:
header = "Cannot proceed with different patient."
proceed = False
elif self.patient_current_image_series_uid in selected_series_id:
header = "Cannot fuse with the same series."
proceed = False
elif not self.check_selected_items_referencing(checked_nodes):
# Check that selected items properly reference each other
header = "Selected series do not reference each other."
proceed = False
elif 'RTSTRUCT' not in selected_series_types and \
self.check_existing_rtss(checked_nodes):
header = "The associated RTSTRUCT must be selected."
proceed = False
elif 'RTDOSE' in selected_series_types:
header = "Cannot fuse with a RTDOSE file."
proceed = False
else:
header = ""
self.open_patient_window_confirm_button.setDisabled(not proceed)
# Set the tree header
self.open_patient_window_patients_tree.setHeaderLabel(header)
def check_selected_items_referencing(self, items):
"""
Check if selected tree items properly reference each other.
:param items: List of selected DICOMWidgetItems.
:return: True if the selected items belong to the same tree branch.
"""
# Dictionary of series of different file types
series = {
"IMAGE": None,
"RTSTRUCT": None,
"RTPLAN": None,
"RTDOSE": None,
"SR": None
}
for item in items:
series_type = item.dicom_object.get_series_type()
if series_type in series:
series[series_type] = item
else:
series["IMAGE"] = item
# Check if the RTSTRUCT, RTPLAN, and RTDOSE are a child item of the
# image series
if series["IMAGE"]:
if series["RTSTRUCT"] and series["RTSTRUCT"].parent() != \
series["IMAGE"]:
return False
if series["RTPLAN"] and \
series["RTPLAN"].parent().parent() != series["IMAGE"]:
return False
if series["SR"] and series["SR"].parent() != series["IMAGE"]:
return False
return True
def check_existing_rtss(self, items):
"""
Check for existing rtss
:return: bool, whether there is a rtss associated with the selected
image series
"""
image_series = ['CT', 'MR', 'PT']
for item in items:
if item.dicom_object.get_series_type() in image_series:
for i in range(item.childCount()):
if item.child(i).dicom_object:
return True
return False
def get_checked_nodes(self, root):
"""
:param root: QTreeWidgetItem as a root.
:return: A list of all QTreeWidgetItems in the QTreeWidget that are
checked under the root.
"""
checked_items = []
def recurse(parent_item: QTreeWidgetItem):
for i in range(parent_item.childCount()):
child = parent_item.child(i)
if int(child.flags()) & int(Qt.ItemIsUserCheckable) and \
child.checkState(0) == Qt.Checked:
checked_items.append(child)
grand_children = child.childCount()
if grand_children > 0:
recurse(child)
recurse(root)
return checked_items
def confirm_button_clicked(self):
"""
Begins loading of the selected files.
"""
selected_files = []
for item in self.get_checked_nodes(
self.open_patient_window_patients_tree.invisibleRootItem()):
selected_files += item.dicom_object.get_files()
self.progress_window = ImageFusionProgressWindow(self)
self.progress_window.signal_loaded.connect(self.on_loaded)
self.progress_window.signal_error.connect(self.on_loading_error)
self.progress_window.start_loading(selected_files)
def on_loaded(self, results):
"""
Executes when the progress bar finishes loaded the selected files.
"""
if results[0] is True: # Will be NoneType if loading was interrupted.
self.image_fusion_info_initialized.emit(results[1])
def on_loading_error(self, exception):
"""
Error handling for progress window.
"""
if type(exception[1]) == ImageLoading.NotRTSetError:
QMessageBox.about(self.progress_window,
"Unable to open selection",
"Selected files cannot be opened as they are not"
" a DICOM-RT set.")
self.progress_window.close()
elif type(exception[1]) == ImageLoading.NotAllowedClassError:
QMessageBox.about(self.progress_window,
"Unable to open selection",
"Selected files cannot be opened as they contain"
" unsupported DICOM classes.")
self.progress_window.close()