class Preferences(object):
"""docstring for Preferences"""
def __init__(self):
self.qs = QSettings()
self.ui_prefs = Ui_Preferences()
self.widget = QWidget()
self.ui_prefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.ui_prefs.actionClose)
self.ui_prefs.actionClose.triggered.connect(self.hideDialog)
self.ui_prefs.honeycomb_rows_spin_box.valueChanged.connect(
self.setHoneycombRows)
self.ui_prefs.honeycomb_cols_spin_box.valueChanged.connect(
self.setHoneycombCols)
self.ui_prefs.honeycomb_steps_spin_box.valueChanged.connect(
self.setHoneycombSteps)
self.ui_prefs.square_rows_spin_box.valueChanged.connect(
self.setSquareRows)
self.ui_prefs.square_cols_spin_box.valueChanged.connect(
self.setSquareCols)
self.ui_prefs.square_steps_spin_box.valueChanged.connect(
self.setSquareSteps)
self.ui_prefs.auto_scaf_combo_box.currentIndexChanged.connect(
self.setAutoScaf)
self.ui_prefs.default_tool_combo_box.currentIndexChanged.connect(
self.setStartupTool)
self.ui_prefs.zoom_speed_slider.valueChanged.connect(self.setZoomSpeed)
# self.ui_prefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.ui_prefs.button_box.clicked.connect(self.handleButtonClick)
self.ui_prefs.add_plugin_button.clicked.connect(self.addPlugin)
def showDialog(self):
# self.exec_()
self.readPreferences()
self.widget.show() # launch prefs in mode-less dialog
def hideDialog(self):
self.widget.hide()
# @pyqtSlot(object)
def handleButtonClick(self, button):
"""
Restores defaults. Other buttons are ignored because connections
are already set up in qt designer.
"""
if self.ui_prefs.button_box.buttonRole(
button) == QDialogButtonBox.ResetRole:
self.restoreDefaults()
def readPreferences(self):
self.qs.beginGroup("Preferences")
self.honeycomb_rows = self.qs.value("honeycomb_rows",
styles.HONEYCOMB_PART_MAXROWS)
self.honeycomb_cols = self.qs.value("honeycomb_cols",
styles.HONEYCOMB_PART_MAXCOLS)
self.honeycomb_steps = self.qs.value("honeycomb_steps",
styles.HONEYCOMB_PART_MAXSTEPS)
self.square_rows = self.qs.value("square_rows",
styles.SQUARE_PART_MAXROWS)
self.square_cols = self.qs.value("square_cols",
styles.SQUARE_PART_MAXCOLS)
self.square_steps = self.qs.value("square_steps",
styles.SQUARE_PART_MAXSTEPS)
self.auto_scaf_index = self.qs.value("autoScaf",
styles.PREF_AUTOSCAF_INDEX)
self.startup_tool_index = self.qs.value("startup_tool",
styles.PREF_STARTUP_TOOL_INDEX)
self.zoom_speed = self.qs.value("zoom_speed", styles.PREF_ZOOM_SPEED)
self.zoom_on_helix_add = self.qs.value(
"zoom_on_helix_add", styles.PREF_ZOOM_AFTER_HELIX_ADD)
self.qs.endGroup()
self.ui_prefs.honeycomb_rows_spin_box.setProperty(
"value", self.honeycomb_rows)
self.ui_prefs.honeycomb_cols_spin_box.setProperty(
"value", self.honeycomb_cols)
self.ui_prefs.honeycomb_steps_spin_box.setProperty(
"value", self.honeycomb_steps)
self.ui_prefs.square_rows_spin_box.setProperty("value",
self.square_rows)
self.ui_prefs.square_cols_spin_box.setProperty("value",
self.square_cols)
self.ui_prefs.square_steps_spin_box.setProperty(
"value", self.square_steps)
self.ui_prefs.auto_scaf_combo_box.setCurrentIndex(self.auto_scaf_index)
self.ui_prefs.default_tool_combo_box.setCurrentIndex(
self.startup_tool_index)
self.ui_prefs.zoom_speed_slider.setProperty("value", self.zoom_speed)
ptw = self.ui_prefs.plugin_table_widget
loaded_plugin_paths = util.loadedPlugins.keys()
ptw.setRowCount(len(loaded_plugin_paths))
for i in range(len(loaded_plugin_paths)):
row = QTableWidgetItem(loaded_plugin_paths[i])
row.setFlags(Qt.ItemIsEnabled | Qt.ItemIsSelectable)
ptw.setItem(i, 0, row)
# self.ui_prefs.helixAddCheckBox.setChecked(self.zoom_on_helix_add)
def restoreDefaults(self):
self.ui_prefs.honeycomb_rows_spin_box.setProperty(
"value", styles.HONEYCOMB_PART_MAXROWS)
self.ui_prefs.honeycomb_cols_spin_box.setProperty(
"value", styles.HONEYCOMB_PART_MAXCOLS)
self.ui_prefs.honeycomb_steps_spin_box.setProperty(
"value", styles.HONEYCOMB_PART_MAXSTEPS)
self.ui_prefs.square_rows_spin_box.setProperty(
"value", styles.SQUARE_PART_MAXROWS)
self.ui_prefs.square_cols_spin_box.setProperty(
"value", styles.SQUARE_PART_MAXCOLS)
self.ui_prefs.square_steps_spin_box.setProperty(
"value", styles.SQUARE_PART_MAXSTEPS)
self.ui_prefs.auto_scaf_combo_box.setCurrentIndex(
styles.PREF_AUTOSCAF_INDEX)
self.ui_prefs.default_tool_combo_box.setCurrentIndex(
styles.PREF_STARTUP_TOOL_INDEX)
self.ui_prefs.zoom_speed_slider.setProperty("value",
styles.PREF_ZOOM_SPEED)
# self.ui_prefs.helixAddCheckBox.setChecked(styles.PREF_ZOOM_AFTER_HELIX_ADD)
def setHoneycombRows(self, rows):
self.honeycomb_rows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycomb_rows", self.honeycomb_rows)
self.qs.endGroup()
def setHoneycombCols(self, cols):
self.honeycomb_cols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycomb_cols", self.honeycomb_cols)
self.qs.endGroup()
def setHoneycombSteps(self, steps):
self.honeycomb_steps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycomb_steps", self.honeycomb_steps)
self.qs.endGroup()
def setSquareRows(self, rows):
self.square_rows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("square_rows", self.square_rows)
self.qs.endGroup()
def setSquareCols(self, cols):
self.square_cols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("square_cols", self.square_cols)
self.qs.endGroup()
def setSquareSteps(self, steps):
self.square_steps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("square_steps", self.square_steps)
self.qs.endGroup()
def setAutoScaf(self, index):
self.auto_scaf_index = index
self.qs.beginGroup("Preferences")
self.qs.setValue("autoScaf", self.auto_scaf_index)
self.qs.endGroup()
def setStartupTool(self, index):
self.startup_tool_index = index
self.qs.beginGroup("Preferences")
self.qs.setValue("startup_tool", self.startup_tool_index)
self.qs.endGroup()
def setZoomSpeed(self, speed):
self.zoom_speed = speed
self.qs.beginGroup("Preferences")
self.qs.setValue("zoom_speed", self.zoom_speed)
self.qs.endGroup()
# def setZoomToFitOnHelixAddition(self, checked):
# self.zoom_on_helix_add = checked
# self.qs.beginGroup("Preferences")
# self.qs.setValue("zoom_on_helix_add", self.zoom_on_helix_add)
# self.qs.endGroup()
def getAutoScafType(self):
return ['Mid-seam', 'Raster'][self.auto_scaf_index]
def getStartupToolName(self):
return ['Select', 'Pencil', 'Paint', 'AddSeq'][self.startup_tool_index]
def addPlugin(self):
fdialog = QFileDialog(self.widget, "Install Plugin", util.this_path(),
"Cadnano Plugins (*.cnp)")
fdialog.setAcceptMode(QFileDialog.AcceptOpen)
fdialog.setWindowFlags(Qt.Sheet)
fdialog.setWindowModality(Qt.WindowModal)
fdialog.filesSelected.connect(self.addPluginAtPath)
self.fileopendialog = fdialog
fdialog.open()
def addPluginAtPath(self, fname):
self.fileopendialog.close()
fname = str(fname[0])
print("Attempting to open plugin %s" % fname)
try:
zf = zipfile.ZipFile(fname, 'r')
except Exception as e:
self.failWithMsg("Plugin file seems corrupt: %s." % e)
return
tdir = tempfile.mkdtemp()
try:
for f in zf.namelist():
if f.endswith('/'):
os.makedirs(os.path.join(tdir, f))
for f in zf.namelist():
if not f.endswith('/'):
zf.extract(f, tdir)
except Exception as e:
self.failWithMsg("Extraction of plugin archive failed: %s." % e)
return
files_in_zip = [(f, os.path.join(tdir, f)) for f in os.listdir(tdir)]
try:
self.confirmDestructiveIfNecessary(files_in_zip)
self.removePluginsToBeOverwritten(files_in_zip)
self.movePluginsIntoPluginsFolder(files_in_zip)
except OSError:
print("Couldn't copy files into plugin directory, attempting\
again after boosting privileges.")
if platform.system() == 'Darwin':
self.darwinAuthedMvPluginsIntoPluginsFolder(files_in_zip)
elif platform.system() == 'Linux':
self.linuxAuthedMvPluginsIntoPluginsFolder(files_in_zip)
else:
print("Can't boost privelages on platform %s" %
platform.system())
loadedAPlugin = util.loadAllPlugins()
if not loadedAPlugin:
print("Unable to load anythng from plugin %s" % fname)
self.readPreferences()
shutil.rmtree(tdir)
def darwinAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
envirn = {"DST": util.this_path() + '/plugins'}
srcstr = ''
for i in range(len(files_in_zip)):
file_name, file_path = files_in_zip[i]
srcstr += ' \\"$SRC' + str(i) + '\\"'
envirn['SRC' + str(i)] = file_path
proc = subprocess.Popen(['osascript','-e',\
'do shell script "cp -fR ' + srcstr +\
' \\"$DST\\"" with administrator privileges'],\
env=envirn)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i' % retval)
def linuxAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
args = ['gksudo', 'cp', '-fR']
args.extend(file_path for file_name, file_path in files_in_zip)
args.append(util.this_path() + '/plugins')
proc = subprocess.Popen(args)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i' % retval)
def confirmDestructiveIfNecessary(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
return self.confirmDestructive()
elif os.path.isdir(target):
return self.confirmDestructive()
def confirmDestructive(self):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText("The plugin you are trying to install\
has already been installed. Replace the currently installed one?")
mb.setStandardButtons(QMessageBox.No | QMessageBox.Yes)
mb.exec_()
return mb.clickedButton() == mb.button(QMessageBox.Yes)
def removePluginsToBeOverwritten(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
os.unlink(target)
elif os.path.isdir(target):
shutil.rmtree(target)
def movePluginsIntoPluginsFolder(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
shutil.move(file_path, target)
def waitForProcExit(self, proc):
procexit = False
while not procexit:
try:
retval = proc.wait()
procexit = True
except OSError as e:
if e.errno != errno.EINTR:
raise ose
return retval
def failWithMsg(self, str):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText(str)
mb.buttonClicked.connect(self.closeFailDialog)
self.fail_message_box = mb
mb.open()
def closeFailDialog(self, button):
self.fail_message_box.close()
del self.fail_message_box
self.fail_message_box = None
class Preferences(object):
"""docstring for Preferences"""
def __init__(self):
self.qs = QSettings()
self.ui_prefs = Ui_Preferences()
self.widget = QWidget()
self.ui_prefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.ui_prefs.actionClose)
self.ui_prefs.actionClose.triggered.connect(self.hideDialog)
self.ui_prefs.grid_appearance_type_combo_box.currentIndexChanged.connect(
self.setGridAppearanceType)
self.ui_prefs.zoom_speed_slider.valueChanged.connect(self.setZoomSpeed)
self.ui_prefs.button_box.clicked.connect(self.handleButtonClick)
self.ui_prefs.add_plugin_button.clicked.connect(self.addPlugin)
self.ui_prefs.show_icon_labels.clicked.connect(self.setShowIconLabels)
self.ui_prefs.grid_appearance_type_combo_box.activated.connect(
self.updateGrid)
self.document = None
# end def
def showDialog(self):
self.readPreferences()
self.widget.show() # launch prefs in mode-less dialog
# end def
def updateGrid(self, index):
self.setGridAppearanceType(index)
value = self.getGridAppearanceType()
for part in self.document.getParts():
part.partDocumentSettingChangedSignal.emit(part, 'grid', value)
# end def
def hideDialog(self):
self.widget.hide()
# end def
def handleButtonClick(self, button):
"""
Restores defaults. Other buttons are ignored because connections
are already set up in qt designer.
"""
if self.ui_prefs.button_box.buttonRole(
button) == QDialogButtonBox.ResetRole:
self.restoreDefaults()
# end def
def readPreferences(self):
self.qs.beginGroup("Preferences")
self.grid_appearance_type_index = self.qs.value(
"grid_appearance_type_index",
styles.PREF_GRID_APPEARANCE_TYPE_INDEX)
self.zoom_speed = self.qs.value("zoom_speed", styles.PREF_ZOOM_SPEED)
self.show_icon_labels = self.qs.value("ui_icons_labels",
styles.PREF_SHOW_ICON_LABELS)
self.qs.endGroup()
self.ui_prefs.grid_appearance_type_combo_box.setCurrentIndex(
self.grid_appearance_type_index)
self.ui_prefs.zoom_speed_slider.setProperty("value", self.zoom_speed)
self.ui_prefs.show_icon_labels.setChecked(self.show_icon_labels)
ptw = self.ui_prefs.plugin_table_widget
loaded_plugin_paths = util.loadedPlugins.keys()
ptw.setRowCount(len(loaded_plugin_paths))
for i in range(len(loaded_plugin_paths)):
row = QTableWidgetItem(loaded_plugin_paths[i])
row.setFlags(Qt.ItemIsEnabled | Qt.ItemIsSelectable)
ptw.setItem(i, 0, row)
# end def
def restoreDefaults(self):
self.ui_prefs.grid_appearance_type_combo_box.setCurrentIndex(
styles.PREF_GRID_APPEARANCE_TYPE_INDEX)
self.ui_prefs.zoom_speed_slider.setProperty("value",
styles.PREF_ZOOM_SPEED)
self.ui_prefs.show_icon_labels.setChecked(styles.PREF_SHOW_ICON_LABELS)
# end def
def setGridAppearanceType(self, grid_appearance_type_index):
self.grid_appearance_type_index = grid_appearance_type_index
self.qs.beginGroup("Preferences")
self.qs.setValue("grid_appearance_type_index",
grid_appearance_type_index)
self.qs.endGroup()
# end def
def getGridAppearanceType(self):
return ['circles', 'lines and points',
'points'][self.grid_appearance_type_index]
# end def
def setZoomSpeed(self, speed):
self.zoom_speed = speed
self.qs.beginGroup("Preferences")
self.qs.setValue("zoom_speed", self.zoom_speed)
self.qs.endGroup()
# end def
def setShowIconLabels(self, checked):
self.show_icon_labels = checked
self.qs.beginGroup("Preferences")
self.qs.setValue("ui_icons_labels", self.show_icon_labels)
self.qs.endGroup()
# end def
def addPlugin(self):
fdialog = QFileDialog(self.widget, "Install Plugin", util.this_path(),
"Cadnano Plugins (*.cnp)")
fdialog.setAcceptMode(QFileDialog.AcceptOpen)
fdialog.setWindowFlags(Qt.Sheet)
fdialog.setWindowModality(Qt.WindowModal)
fdialog.filesSelected.connect(self.addPluginAtPath)
self.fileopendialog = fdialog
fdialog.open()
# end def
def addPluginAtPath(self, fname):
self.fileopendialog.close()
fname = str(fname[0])
print("Attempting to open plugin %s" % fname)
try:
zf = zipfile.ZipFile(fname, 'r')
except Exception as e:
self.failWithMsg("Plugin file seems corrupt: %s." % e)
return
tdir = tempfile.mkdtemp()
try:
for f in zf.namelist():
if f.endswith('/'):
os.makedirs(os.path.join(tdir, f))
for f in zf.namelist():
if not f.endswith('/'):
zf.extract(f, tdir)
except Exception as e:
self.failWithMsg("Extraction of plugin archive failed: %s." % e)
return
files_in_zip = [(f, os.path.join(tdir, f)) for f in os.listdir(tdir)]
try:
self.confirmDestructiveIfNecessary(files_in_zip)
self.removePluginsToBeOverwritten(files_in_zip)
self.movePluginsIntoPluginsFolder(files_in_zip)
except OSError:
print("Couldn't copy files into plugin directory, attempting\
again after boosting privileges.")
if platform.system() == 'Darwin':
self.darwinAuthedMvPluginsIntoPluginsFolder(files_in_zip)
elif platform.system() == 'Linux':
self.linuxAuthedMvPluginsIntoPluginsFolder(files_in_zip)
else:
print("Can't boost privelages on platform %s" %
platform.system())
loadedAPlugin = util.loadAllPlugins()
if not loadedAPlugin:
print("Unable to load anythng from plugin %s" % fname)
self.readPreferences()
shutil.rmtree(tdir)
# end def
def darwinAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
envirn = {"DST": util.this_path() + '/plugins'}
srcstr = ''
for i in range(len(files_in_zip)):
file_name, file_path = files_in_zip[i]
srcstr += ' \\"$SRC' + str(i) + '\\"'
envirn['SRC' + str(i)] = file_path
proc = subprocess.Popen(['osascript','-e',\
'do shell script "cp -fR ' + srcstr +\
' \\"$DST\\"" with administrator privileges'],\
env=envirn)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i' % retval)
# end def
def linuxAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
args = ['gksudo', 'cp', '-fR']
args.extend(file_path for file_name, file_path in files_in_zip)
args.append(util.this_path() + '/plugins')
proc = subprocess.Popen(args)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i' % retval)
# end def
def confirmDestructiveIfNecessary(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
return self.confirmDestructive()
elif os.path.isdir(target):
return self.confirmDestructive()
# end def
def confirmDestructive(self):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText("The plugin you are trying to install\
has already been installed. Replace the currently installed one?")
mb.setStandardButtons(QMessageBox.No | QMessageBox.Yes)
mb.exec_()
return mb.clickedButton() == mb.button(QMessageBox.Yes)
# end def
def removePluginsToBeOverwritten(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
os.unlink(target)
elif os.path.isdir(target):
shutil.rmtree(target)
# end def
def movePluginsIntoPluginsFolder(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
shutil.move(file_path, target)
# end def
def waitForProcExit(self, proc):
procexit = False
while not procexit:
try:
retval = proc.wait()
procexit = True
except OSError as e:
if e.errno != errno.EINTR:
raise ose
return retval
# end def
def failWithMsg(self, str):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText(str)
mb.buttonClicked.connect(self.closeFailDialog)
self.fail_message_box = mb
mb.open()
# end def
def closeFailDialog(self, button):
self.fail_message_box.close()
del self.fail_message_box
self.fail_message_box = None
class Preferences(object):
"""docstring for Preferences"""
def __init__(self):
self.qs = QSettings()
self.ui_prefs = Ui_Preferences()
self.widget = QWidget()
self.ui_prefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.ui_prefs.actionClose)
self.ui_prefs.actionClose.triggered.connect(self.hideDialog)
self.ui_prefs.honeycomb_rows_spin_box.valueChanged.connect(self.setHoneycombRows)
self.ui_prefs.honeycomb_cols_spin_box.valueChanged.connect(self.setHoneycombCols)
self.ui_prefs.honeycomb_steps_spin_box.valueChanged.connect(self.setHoneycombSteps)
self.ui_prefs.square_rows_spin_box.valueChanged.connect(self.setSquareRows)
self.ui_prefs.square_cols_spin_box.valueChanged.connect(self.setSquareCols)
self.ui_prefs.square_steps_spin_box.valueChanged.connect(self.setSquareSteps)
self.ui_prefs.auto_scaf_combo_box.currentIndexChanged.connect(self.setAutoScaf)
self.ui_prefs.default_tool_combo_box.currentIndexChanged.connect(self.setStartupTool)
self.ui_prefs.zoom_speed_slider.valueChanged.connect(self.setZoomSpeed)
# self.ui_prefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.ui_prefs.button_box.clicked.connect(self.handleButtonClick)
self.ui_prefs.add_plugin_button.clicked.connect(self.addPlugin)
def showDialog(self):
# self.exec_()
self.readPreferences()
self.widget.show() # launch prefs in mode-less dialog
def hideDialog(self):
self.widget.hide()
# @pyqtSlot(object)
def handleButtonClick(self, button):
"""
Restores defaults. Other buttons are ignored because connections
are already set up in qt designer.
"""
if self.ui_prefs.button_box.buttonRole(button) == QDialogButtonBox.ResetRole:
self.restoreDefaults()
def readPreferences(self):
self.qs.beginGroup("Preferences")
self.honeycomb_rows = self.qs.value("honeycomb_rows", slicestyles.HONEYCOMB_PART_MAXROWS)
self.honeycomb_cols = self.qs.value("honeycomb_cols", slicestyles.HONEYCOMB_PART_MAXCOLS)
self.honeycomb_steps = self.qs.value("honeycomb_steps", slicestyles.HONEYCOMB_PART_MAXSTEPS)
self.square_rows = self.qs.value("square_rows", slicestyles.SQUARE_PART_MAXROWS)
self.square_cols = self.qs.value("square_cols", slicestyles.SQUARE_PART_MAXCOLS)
self.square_steps = self.qs.value("square_steps", slicestyles.SQUARE_PART_MAXSTEPS)
self.auto_scaf_index = self.qs.value("autoScaf", styles.PREF_AUTOSCAF_INDEX)
self.startup_tool_index = self.qs.value("startup_tool", styles.PREF_STARTUP_TOOL_INDEX)
self.zoom_speed = self.qs.value("zoom_speed", styles.PREF_ZOOM_SPEED)
self.zoom_on_helix_add = self.qs.value("zoom_on_helix_add", styles.PREF_ZOOM_AFTER_HELIX_ADD)
self.qs.endGroup()
self.ui_prefs.honeycomb_rows_spin_box.setProperty("value", self.honeycomb_rows)
self.ui_prefs.honeycomb_cols_spin_box.setProperty("value", self.honeycomb_cols)
self.ui_prefs.honeycomb_steps_spin_box.setProperty("value", self.honeycomb_steps)
self.ui_prefs.square_rows_spin_box.setProperty("value", self.square_rows)
self.ui_prefs.square_cols_spin_box.setProperty("value", self.square_cols)
self.ui_prefs.square_steps_spin_box.setProperty("value", self.square_steps)
self.ui_prefs.auto_scaf_combo_box.setCurrentIndex(self.auto_scaf_index)
self.ui_prefs.default_tool_combo_box.setCurrentIndex(self.startup_tool_index)
self.ui_prefs.zoom_speed_slider.setProperty("value", self.zoom_speed)
ptw = self.ui_prefs.plugin_table_widget
loaded_plugin_paths = util.loadedPlugins.keys()
ptw.setRowCount(len(loaded_plugin_paths))
for i in range(len(loaded_plugin_paths)):
row = QTableWidgetItem(loaded_plugin_paths[i])
row.setFlags(Qt.ItemIsEnabled | Qt.ItemIsSelectable)
ptw.setItem(i, 0, row)
# self.ui_prefs.helixAddCheckBox.setChecked(self.zoom_on_helix_add)
def restoreDefaults(self):
self.ui_prefs.honeycomb_rows_spin_box.setProperty("value", slicestyles.HONEYCOMB_PART_MAXROWS)
self.ui_prefs.honeycomb_cols_spin_box.setProperty("value", slicestyles.HONEYCOMB_PART_MAXCOLS)
self.ui_prefs.honeycomb_steps_spin_box.setProperty("value", slicestyles.HONEYCOMB_PART_MAXSTEPS)
self.ui_prefs.square_rows_spin_box.setProperty("value", slicestyles.SQUARE_PART_MAXROWS)
self.ui_prefs.square_cols_spin_box.setProperty("value", slicestyles.SQUARE_PART_MAXCOLS)
self.ui_prefs.square_steps_spin_box.setProperty("value", slicestyles.SQUARE_PART_MAXSTEPS)
self.ui_prefs.auto_scaf_combo_box.setCurrentIndex(styles.PREF_AUTOSCAF_INDEX)
self.ui_prefs.default_tool_combo_box.setCurrentIndex(styles.PREF_STARTUP_TOOL_INDEX)
self.ui_prefs.zoom_speed_slider.setProperty("value", styles.PREF_ZOOM_SPEED)
# self.ui_prefs.helixAddCheckBox.setChecked(styles.PREF_ZOOM_AFTER_HELIX_ADD)
def setHoneycombRows(self, rows):
self.honeycomb_rows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycomb_rows", self.honeycomb_rows)
self.qs.endGroup()
def setHoneycombCols(self, cols):
self.honeycomb_cols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycomb_cols", self.honeycomb_cols)
self.qs.endGroup()
def setHoneycombSteps(self, steps):
self.honeycomb_steps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycomb_steps", self.honeycomb_steps)
self.qs.endGroup()
def setSquareRows(self, rows):
self.square_rows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("square_rows", self.square_rows)
self.qs.endGroup()
def setSquareCols(self, cols):
self.square_cols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("square_cols", self.square_cols)
self.qs.endGroup()
def setSquareSteps(self, steps):
self.square_steps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("square_steps", self.square_steps)
self.qs.endGroup()
def setAutoScaf(self, index):
self.auto_scaf_index = index
self.qs.beginGroup("Preferences")
self.qs.setValue("autoScaf", self.auto_scaf_index)
self.qs.endGroup()
def setStartupTool(self, index):
self.startup_tool_index = index
self.qs.beginGroup("Preferences")
self.qs.setValue("startup_tool", self.startup_tool_index)
self.qs.endGroup()
def setZoomSpeed(self, speed):
self.zoom_speed = speed
self.qs.beginGroup("Preferences")
self.qs.setValue("zoom_speed", self.zoom_speed)
self.qs.endGroup()
# def setZoomToFitOnHelixAddition(self, checked):
# self.zoom_on_helix_add = checked
# self.qs.beginGroup("Preferences")
# self.qs.setValue("zoom_on_helix_add", self.zoom_on_helix_add)
# self.qs.endGroup()
def getAutoScafType(self):
return ['Mid-seam', 'Raster'][self.auto_scaf_index]
def getStartupToolName(self):
return ['Select', 'Pencil', 'Paint', 'AddSeq'][self.startup_tool_index]
def addPlugin(self):
fdialog = QFileDialog(
self.widget,
"Install Plugin",
util.this_path(),
"Cadnano Plugins (*.cnp)")
fdialog.setAcceptMode(QFileDialog.AcceptOpen)
fdialog.setWindowFlags(Qt.Sheet)
fdialog.setWindowModality(Qt.WindowModal)
fdialog.filesSelected.connect(self.addPluginAtPath)
self.fileopendialog = fdialog
fdialog.open()
def addPluginAtPath(self, fname):
self.fileopendialog.close()
fname = str(fname[0])
print("Attempting to open plugin %s" % fname)
try:
zf = zipfile.ZipFile(fname, 'r')
except Exception as e:
self.failWithMsg("Plugin file seems corrupt: %s."%e)
return
tdir = tempfile.mkdtemp()
try:
for f in zf.namelist():
if f.endswith('/'):
os.makedirs(os.path.join(tdir,f))
for f in zf.namelist():
if not f.endswith('/'):
zf.extract(f, tdir)
except Exception as e:
self.failWithMsg("Extraction of plugin archive failed: %s."%e)
return
files_in_zip = [(f, os.path.join(tdir, f)) for f in os.listdir(tdir)]
try:
self.confirmDestructiveIfNecessary(files_in_zip)
self.removePluginsToBeOverwritten(files_in_zip)
self.movePluginsIntoPluginsFolder(files_in_zip)
except OSError:
print("Couldn't copy files into plugin directory, attempting\
again after boosting privileges.")
if platform.system() == 'Darwin':
self.darwinAuthedMvPluginsIntoPluginsFolder(files_in_zip)
elif platform.system() == 'Linux':
self.linuxAuthedMvPluginsIntoPluginsFolder(files_in_zip)
else:
print("Can't boost privelages on platform %s" % platform.system())
loadedAPlugin = util.loadAllPlugins()
if not loadedAPlugin:
print("Unable to load anythng from plugin %s" % fname)
self.readPreferences()
shutil.rmtree(tdir)
def darwinAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
envirn={"DST":util.this_path()+'/plugins'}
srcstr = ''
for i in range(len(files_in_zip)):
file_name, file_path = files_in_zip[i]
srcstr += ' \\"$SRC' + str(i) + '\\"'
envirn['SRC'+str(i)] = file_path
proc = subprocess.Popen(['osascript','-e',\
'do shell script "cp -fR ' + srcstr +\
' \\"$DST\\"" with administrator privileges'],\
env=envirn)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i'%retval)
def linuxAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
args = ['gksudo', 'cp', '-fR']
args.extend(file_path for file_name, file_path in files_in_zip)
args.append(util.this_path()+'/plugins')
proc = subprocess.Popen(args)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i'%retval)
def confirmDestructiveIfNecessary(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
return self.confirmDestructive()
elif os.path.isdir(target):
return self.confirmDestructive()
def confirmDestructive(self):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText("The plugin you are trying to install\
has already been installed. Replace the currently installed one?")
mb.setStandardButtons(QMessageBox.No | QMessageBox.Yes)
mb.exec_()
return mb.clickedButton() == mb.button(QMessageBox.Yes)
def removePluginsToBeOverwritten(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
os.unlink(target)
elif os.path.isdir(target):
shutil.rmtree(target)
def movePluginsIntoPluginsFolder(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
shutil.move(file_path, target)
def waitForProcExit(self, proc):
procexit = False
while not procexit:
try:
retval = proc.wait()
procexit = True
except OSError as e:
if e.errno != errno.EINTR:
raise ose
return retval
def failWithMsg(self, str):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText(str)
mb.buttonClicked.connect(self.closeFailDialog)
self.fail_message_box = mb
mb.open()
def closeFailDialog(self, button):
self.fail_message_box.close()
del self.fail_message_box
self.fail_message_box = None
class Preferences(object):
"""docstring for Preferences"""
def __init__(self):
self.qs = QSettings()
self.ui_prefs = Ui_Preferences()
self.widget = QWidget()
self.ui_prefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.ui_prefs.actionClose)
self.ui_prefs.actionClose.triggered.connect(self.hideDialog)
self.ui_prefs.grid_appearance_type_combo_box.currentIndexChanged.connect(self.setGridAppearanceType)
self.ui_prefs.zoom_speed_slider.valueChanged.connect(self.setZoomSpeed)
self.ui_prefs.button_box.clicked.connect(self.handleButtonClick)
self.ui_prefs.add_plugin_button.clicked.connect(self.addPlugin)
self.ui_prefs.show_icon_labels.clicked.connect(self.setShowIconLabels)
self.ui_prefs.grid_appearance_type_combo_box.activated.connect(self.updateGrid)
self.document = None
# end def
def showDialog(self):
self.readPreferences()
self.widget.show() # launch prefs in mode-less dialog
# end def
def updateGrid(self, index):
self.setGridAppearanceType(index)
value = self.getGridAppearanceType()
for part in self.document.getParts():
part.partDocumentSettingChangedSignal.emit(part, 'grid', value)
# end def
def hideDialog(self):
self.widget.hide()
# end def
def handleButtonClick(self, button):
"""
Restores defaults. Other buttons are ignored because connections
are already set up in qt designer.
"""
if self.ui_prefs.button_box.buttonRole(button) == QDialogButtonBox.ResetRole:
self.restoreDefaults()
# end def
def readPreferences(self):
self.qs.beginGroup("Preferences")
self.grid_appearance_type_index = self.qs.value("grid_appearance_type_index", styles.PREF_GRID_APPEARANCE_TYPE_INDEX)
self.zoom_speed = self.qs.value("zoom_speed", styles.PREF_ZOOM_SPEED)
self.show_icon_labels = self.qs.value("ui_icons_labels", styles.PREF_SHOW_ICON_LABELS)
self.qs.endGroup()
self.ui_prefs.grid_appearance_type_combo_box.setCurrentIndex(self.grid_appearance_type_index)
self.ui_prefs.zoom_speed_slider.setProperty("value", self.zoom_speed)
self.ui_prefs.show_icon_labels.setChecked(self.show_icon_labels)
ptw = self.ui_prefs.plugin_table_widget
loaded_plugin_paths = util.loadedPlugins.keys()
ptw.setRowCount(len(loaded_plugin_paths))
for i in range(len(loaded_plugin_paths)):
row = QTableWidgetItem(loaded_plugin_paths[i])
row.setFlags(Qt.ItemIsEnabled | Qt.ItemIsSelectable)
ptw.setItem(i, 0, row)
# end def
def restoreDefaults(self):
self.ui_prefs.grid_appearance_type_combo_box.setCurrentIndex(styles.PREF_GRID_APPEARANCE_TYPE_INDEX)
self.ui_prefs.zoom_speed_slider.setProperty("value", styles.PREF_ZOOM_SPEED)
self.ui_prefs.show_icon_labels.setChecked(styles.PREF_SHOW_ICON_LABELS)
# end def
def setGridAppearanceType(self, grid_appearance_type_index):
self.grid_appearance_type_index = grid_appearance_type_index
self.qs.beginGroup("Preferences")
self.qs.setValue("grid_appearance_type_index", grid_appearance_type_index)
self.qs.endGroup()
# end def
def getGridAppearanceType(self):
return ['circles', 'lines and points', 'points'][self.grid_appearance_type_index]
# end def
def setZoomSpeed(self, speed):
self.zoom_speed = speed
self.qs.beginGroup("Preferences")
self.qs.setValue("zoom_speed", self.zoom_speed)
self.qs.endGroup()
# end def
def setShowIconLabels(self, checked):
self.show_icon_labels = checked
self.qs.beginGroup("Preferences")
self.qs.setValue("ui_icons_labels", self.show_icon_labels)
self.qs.endGroup()
# end def
def addPlugin(self):
fdialog = QFileDialog(
self.widget,
"Install Plugin",
util.this_path(),
"Cadnano Plugins (*.cnp)")
fdialog.setAcceptMode(QFileDialog.AcceptOpen)
fdialog.setWindowFlags(Qt.Sheet)
fdialog.setWindowModality(Qt.WindowModal)
fdialog.filesSelected.connect(self.addPluginAtPath)
self.fileopendialog = fdialog
fdialog.open()
# end def
def addPluginAtPath(self, fname):
self.fileopendialog.close()
fname = str(fname[0])
print("Attempting to open plugin %s" % fname)
try:
zf = zipfile.ZipFile(fname, 'r')
except Exception as e:
self.failWithMsg("Plugin file seems corrupt: %s."%e)
return
tdir = tempfile.mkdtemp()
try:
for f in zf.namelist():
if f.endswith('/'):
os.makedirs(os.path.join(tdir,f))
for f in zf.namelist():
if not f.endswith('/'):
zf.extract(f, tdir)
except Exception as e:
self.failWithMsg("Extraction of plugin archive failed: %s."%e)
return
files_in_zip = [(f, os.path.join(tdir, f)) for f in os.listdir(tdir)]
try:
self.confirmDestructiveIfNecessary(files_in_zip)
self.removePluginsToBeOverwritten(files_in_zip)
self.movePluginsIntoPluginsFolder(files_in_zip)
except OSError:
print("Couldn't copy files into plugin directory, attempting\
again after boosting privileges.")
if platform.system() == 'Darwin':
self.darwinAuthedMvPluginsIntoPluginsFolder(files_in_zip)
elif platform.system() == 'Linux':
self.linuxAuthedMvPluginsIntoPluginsFolder(files_in_zip)
else:
print("Can't boost privelages on platform %s" % platform.system())
loadedAPlugin = util.loadAllPlugins()
if not loadedAPlugin:
print("Unable to load anythng from plugin %s" % fname)
self.readPreferences()
shutil.rmtree(tdir)
# end def
def darwinAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
envirn={"DST":util.this_path()+'/plugins'}
srcstr = ''
for i in range(len(files_in_zip)):
file_name, file_path = files_in_zip[i]
srcstr += ' \\"$SRC' + str(i) + '\\"'
envirn['SRC'+str(i)] = file_path
proc = subprocess.Popen(['osascript','-e',\
'do shell script "cp -fR ' + srcstr +\
' \\"$DST\\"" with administrator privileges'],\
env=envirn)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i'%retval)
# end def
def linuxAuthedMvPluginsIntoPluginsFolder(self, files_in_zip):
args = ['gksudo', 'cp', '-fR']
args.extend(file_path for file_name, file_path in files_in_zip)
args.append(util.this_path()+'/plugins')
proc = subprocess.Popen(args)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i'%retval)
# end def
def confirmDestructiveIfNecessary(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
return self.confirmDestructive()
elif os.path.isdir(target):
return self.confirmDestructive()
# end def
def confirmDestructive(self):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText("The plugin you are trying to install\
has already been installed. Replace the currently installed one?")
mb.setStandardButtons(QMessageBox.No | QMessageBox.Yes)
mb.exec_()
return mb.clickedButton() == mb.button(QMessageBox.Yes)
# end def
def removePluginsToBeOverwritten(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
if os.path.isfile(target):
os.unlink(target)
elif os.path.isdir(target):
shutil.rmtree(target)
# end def
def movePluginsIntoPluginsFolder(self, files_in_zip):
for file_name, file_path in files_in_zip:
target = os.path.join(util.this_path(), 'plugins', file_name)
shutil.move(file_path, target)
# end def
def waitForProcExit(self, proc):
procexit = False
while not procexit:
try:
retval = proc.wait()
procexit = True
except OSError as e:
if e.errno != errno.EINTR:
raise ose
return retval
# end def
def failWithMsg(self, str):
mb = QMessageBox(self.widget)
mb.setIcon(QMessageBox.Warning)
mb.setInformativeText(str)
mb.buttonClicked.connect(self.closeFailDialog)
self.fail_message_box = mb
mb.open()
# end def
def closeFailDialog(self, button):
self.fail_message_box.close()
del self.fail_message_box
self.fail_message_box = None