def askyesno_qt(title, message, parent=None, buttons_text=None):
"""
Wrapper to a Yes/no dialog in PyQt. If 'buttons_text' is 'None', the default
"Yes" and "No" buttons will be used. If 'buttons_text' is a list with two
strings, the first string will be the text of the "Yes" button and the second
one will be the text of the "No" button.
"""
# Use yes and no buttons.
if buttons_text is None:
answer = QtWidgets.QMessageBox.question(parent, title, message,
QtWidgets.QMessageBox.Yes,
QtWidgets.QMessageBox.No)
return answer == QtWidgets.QMessageBox.Yes
# Set custom text on the buttons.
else:
dialog = QtWidgets.QMessageBox(parent)
dialog.setWindowTitle(title)
dialog.setText(message)
yesbutton = dialog.addButton(buttons_text[0],
QtWidgets.QMessageBox.YesRole)
nobutton = dialog.addButton(buttons_text[1],
QtWidgets.QMessageBox.NoRole)
answer = dialog.exec_()
return dialog.clickedButton() is yesbutton
def openDocumentation(self):
if not self.readTheDocsURL:
if not self.settings['local_docs']:
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("Location of docs not configured")
msg.setStandardButtons(QtWidgets.QMessageBox.Ok
| QtWidgets.QMessageBox.Cancel)
msg.setText(
'Press <OK> and specify the path of the local docs.')
returnValue = msg.exec_()
if returnValue == QtWidgets.QMessageBox.Ok:
self.set_localdocsDir()
if not self.settings['browser']:
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("Web browser not configured")
msg.setStandardButtons(QtWidgets.QMessageBox.Ok
| QtWidgets.QMessageBox.Cancel)
msg.setText(
'For the documentation to be displayed, the path to a web browser needs to be configured. Press <OK> and search for the browser executable (Firefox, Chrome or Edge).'
)
returnValue = msg.exec_()
if returnValue == QtWidgets.QMessageBox.Ok:
self.set_browser()
if self.settings['browser']:
try:
browser = webbrowser.get('{} %s'.format(
self.settings['browser']))
browser.open('file://{}/index.html'.format(
self.settings['local_docs']))
except webbrowser.Error:
self.settings['browser'] = None
print('Browser not found!')
with open(
'{}/.fretraj_settings.conf'.format(package_directory),
'w') as f:
json.dump(self.settings, f, indent=2)
except FileNotFoundError:
self.settings['local_docs'] = None
print('Local docs not found!')
with open(
'{}/.fretraj_settings.conf'.format(package_directory),
'w') as f:
json.dump(self.settings, f, indent=2)
def error_msg(text, informative_text=None):
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Critical)
msg.setWindowTitle("PyViewDock")
msg.setText(text)
if informative_text:
msg.setInformativeText(informative_text)
msg.exec_()
def openErrorWin(self, title, message):
"""
Open Error Window
"""
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Critical)
msg.setWindowTitle(title)
msg.setText(message)
msg.exec_()
def openExample(self, name, fileformat):
"""
Load an example file and calculate an ACV
"""
fileNamePath_pdb = '{}/{}{}'.format(self.exampleDataPath, name,
fileformat)
fileNamePath_param = '{}/{}_labels{}'.format(self.exampleDataPath,
name, '.json')
pdb_load = self.loadPDB(fileNamePath_pdb)
if pdb_load:
param_load = self.loadParameterFile(fileNamePath_param)
if param_load:
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("Calculate ACV?")
msg.setStandardButtons(QtWidgets.QMessageBox.Yes
| QtWidgets.QMessageBox.No)
msg.setText('Would you like to calculate an ACV?')
returnValue = msg.exec_()
if returnValue == QtWidgets.QMessageBox.Yes:
n_pos = 0
for pos in self.labels['Position'].keys():
if pos != self.labelName_default:
index = self.comboBox_labelName.findText(
pos, QtCore.Qt.MatchExactly)
self.comboBox_labelName.setCurrentIndex(index)
self.computeACV()
n_pos += 1
if n_pos > 1:
self.comboBox_donorName.setStyleSheet(
'QComboBox {background-color: rgb(229,134,145);}')
self.comboBox_acceptorName.setStyleSheet(
'QComboBox {background-color: rgb(229,134,145);}')
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("Calculate FRET?")
msg.setText(
'To calculate FRET select the donor and acceptor position from the highlighted dropdown menu and press on <Calculate FRET>'
)
returnValue = msg.exec_()
self.comboBox_donorName.setStyleSheet('')
self.comboBox_acceptorName.setStyleSheet('')
def openAbout(self):
"""
Open About Window
"""
msg = QtWidgets.QMessageBox()
pixmap = utils.QtGui.QPixmap(self.uiIcon)
msg.setIconPixmap(pixmap.scaledToWidth(64))
msg.setWindowTitle("About FRETraj")
msg.setText('{} {}\n\n{}\n\n(C) {}'.format(about['__title__'],
str(about['__version__']),
about['__description__'],
about['__copyright__']))
msg.exec_()
def update_pyvol(form):
""" GUI wrapper for updating PyVOL using pip
"""
update_pypi_pyvol()
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("PyVOL Updated")
msg.setInformativeText("The PyVOL backend has been updated; however, PyMOL will not load the new code until it is restarted.")
msg.setStandardButtons(QtWidgets.QMessageBox.Ok)
msg.setMinimumSize(QtCore.QSize(600, 200)) # Doesn't seem to work
msg.exec_()
refresh_installation_status(form)
def uninstall_pyvol(form):
""" Attempts to uninstall PyVOL using pip
"""
subprocess.check_output([sys.executable, "-m", "pip", "uninstall", "-y", "bio-pyvol"])
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("PyVOL Backend Uninstalled")
msg.setInformativeText("The PyVOL backend has been uninstalled; however, the plugin must also be uninstalled using PyMOL's plugin manager.")
msg.setStandardButtons(QtWidgets.QMessageBox.Ok)
msg.setMinimumSize(QtCore.QSize(600, 200)) # Doesn't seem to work
msg.exec_()
refresh_installation_status(form)
def update_pyvol():
""" Attempts to update PyVOL using conda
"""
from conda.cli import python_api
python_api.run_command(python_api.Commands.UPDATE, "bio-pyvol")
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("PyVOL Updated")
msg.setInformativeText(
"The PyVOL backend has been updated; however, PyMOL will not load the new code until it is restarted."
)
msg.setStandardButtons(QtWidgets.QMessageBox.Ok)
msg.setMinimumSize(QtCore.QSize(600, 200)) # Doesn't seem to work
msg.exec_()
refresh_installation_status(form)
def update_pyvol(form):
""" Attempts to update PyVOL using pip
"""
import subprocess
import sys
form.status_label.setText("Updating PyVOL")
subprocess.check_output(
[sys.executable, "-m", "pip", "install", "--upgrade", "bio-pyvol"])
msg = QtWidgets.QMessageBox()
msg.setIcon(QtWidgets.QMessageBox.Information)
msg.setWindowTitle("PyVOL Updated")
msg.setInformativeText(
"The PyVOL backend has been updated; however, PyMOL will not load the new code until it is restarted."
)
msg.setStandardButtons(QtWidgets.QMessageBox.Ok)
msg.setMinimumSize(QtCore.QSize(600, 200)) # Doesn't seem to work
msg.exec_()
refresh_installation_status(form)