def __init__(self):
self.qs = QSettings()
self.uiPrefs = Ui_Preferences()
self.widget = QWidget()
self.uiPrefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.uiPrefs.actionClose)
self.uiPrefs.actionClose.triggered.connect(self.hideDialog)
self.uiPrefs.honeycombRowsSpinBox.valueChanged.connect(
self.setHoneycombRows)
self.uiPrefs.honeycombColsSpinBox.valueChanged.connect(
self.setHoneycombCols)
self.uiPrefs.honeycombStepsSpinBox.valueChanged.connect(
self.setHoneycombSteps)
self.uiPrefs.squareRowsSpinBox.valueChanged.connect(self.setSquareRows)
self.uiPrefs.squareColsSpinBox.valueChanged.connect(self.setSquareCols)
self.uiPrefs.squareStepsSpinBox.valueChanged.connect(
self.setSquareSteps)
self.uiPrefs.autoScafComboBox.currentIndexChanged.connect(
self.setAutoScaf)
self.uiPrefs.defaultToolComboBox.currentIndexChanged.connect(
self.setStartupTool)
self.uiPrefs.zoomSpeedSlider.valueChanged.connect(self.setZoomSpeed)
# self.uiPrefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.uiPrefs.buttonBox.clicked.connect(self.handleButtonClick)
self.uiPrefs.addPluginButton.clicked.connect(self.addPlugin)
def __init__(self):
self.qs = QSettings()
self.dialog = QDialog()
self.uiPrefs = Ui_Preferences()
self.uiPrefs.setupUi(self.dialog)
self.readPreferences()
self.uiPrefs.honeycombRowsSpinBox.valueChanged.connect(self.setHoneycombRows)
self.uiPrefs.honeycombColsSpinBox.valueChanged.connect(self.setHoneycombCols)
self.uiPrefs.honeycombStepsSpinBox.valueChanged.connect(self.setHoneycombSteps)
self.uiPrefs.squareRowsSpinBox.valueChanged.connect(self.setSquareRows)
self.uiPrefs.squareColsSpinBox.valueChanged.connect(self.setSquareCols)
self.uiPrefs.squareStepsSpinBox.valueChanged.connect(self.setSquareSteps)
self.uiPrefs.defaulttoolComboBox.currentIndexChanged.connect(self.setStartupTool)
self.uiPrefs.zoomSpeedSlider.valueChanged.connect(self.setZoomSpeed)
# self.uiPrefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.uiPrefs.buttonBox.clicked.connect(self.handleButtonClick)
def __init__(self):
self.qs = QSettings()
self.uiPrefs = Ui_Preferences()
self.widget = QWidget()
self.uiPrefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.uiPrefs.actionClose)
self.uiPrefs.actionClose.triggered.connect(self.hideDialog)
self.uiPrefs.honeycombRowsSpinBox.valueChanged.connect(self.setHoneycombRows)
self.uiPrefs.honeycombColsSpinBox.valueChanged.connect(self.setHoneycombCols)
self.uiPrefs.honeycombStepsSpinBox.valueChanged.connect(self.setHoneycombSteps)
self.uiPrefs.squareRowsSpinBox.valueChanged.connect(self.setSquareRows)
self.uiPrefs.squareColsSpinBox.valueChanged.connect(self.setSquareCols)
self.uiPrefs.squareStepsSpinBox.valueChanged.connect(self.setSquareSteps)
self.uiPrefs.autoScafComboBox.currentIndexChanged.connect(self.setAutoScaf)
self.uiPrefs.defaultToolComboBox.currentIndexChanged.connect(self.setStartupTool)
self.uiPrefs.zoomSpeedSlider.valueChanged.connect(self.setZoomSpeed)
# self.uiPrefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.uiPrefs.buttonBox.clicked.connect(self.handleButtonClick)
self.uiPrefs.addPluginButton.clicked.connect(self.addPlugin)
class Preferences(object):
"""
Preferences class used to:
1) Create a preferences Qt widget, self.uiPrefs, which is bound to another new parent, self.widget.
2) Read settings and set up event bindings (So changes in UI status is linked to the settings store).
"""
def __init__(self):
self.qs = QSettings()
self.uiPrefs = Ui_Preferences()
self.widget = QWidget()
self.uiPrefs.setupUi(self.widget)
self.readPreferences()
self.widget.addAction(self.uiPrefs.actionClose)
self.uiPrefs.actionClose.triggered.connect(self.hideDialog)
self.uiPrefs.honeycombRowsSpinBox.valueChanged.connect(self.setHoneycombRows)
self.uiPrefs.honeycombColsSpinBox.valueChanged.connect(self.setHoneycombCols)
self.uiPrefs.honeycombStepsSpinBox.valueChanged.connect(self.setHoneycombSteps)
self.uiPrefs.squareRowsSpinBox.valueChanged.connect(self.setSquareRows)
self.uiPrefs.squareColsSpinBox.valueChanged.connect(self.setSquareCols)
self.uiPrefs.squareStepsSpinBox.valueChanged.connect(self.setSquareSteps)
self.uiPrefs.autoScafComboBox.currentIndexChanged.connect(self.setAutoScaf)
self.uiPrefs.defaultToolComboBox.currentIndexChanged.connect(self.setStartupTool)
self.uiPrefs.zoomSpeedSlider.valueChanged.connect(self.setZoomSpeed)
# self.uiPrefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.uiPrefs.buttonBox.clicked.connect(self.handleButtonClick)
self.uiPrefs.addPluginButton.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.uiPrefs.buttonBox.buttonRole(button) == QDialogButtonBox.ResetRole:
self.restoreDefaults()
def readPreferences(self):
self.qs.beginGroup("Preferences")
self.honeycombRows = self.qs.value("honeycombRows", styles.HONEYCOMB_PART_MAXROWS).toInt()[0]
self.honeycombCols = self.qs.value("honeycombCols", styles.HONEYCOMB_PART_MAXCOLS).toInt()[0]
self.honeycombSteps = self.qs.value("honeycombSteps", styles.HONEYCOMB_PART_MAXSTEPS).toInt()[0]
self.squareRows = self.qs.value("squareRows", styles.SQUARE_PART_MAXROWS).toInt()[0]
self.squareCols = self.qs.value("squareCols", styles.SQUARE_PART_MAXCOLS).toInt()[0]
self.squareSteps = self.qs.value("squareSteps", styles.SQUARE_PART_MAXSTEPS).toInt()[0]
self.autoScafIndex = self.qs.value("autoScaf", styles.PREF_AUTOSCAF_INDEX).toInt()[0]
self.startupToolIndex = self.qs.value("startupTool", styles.PREF_STARTUP_TOOL_INDEX).toInt()[0]
self.zoomSpeed = self.qs.value("zoomSpeed", styles.PREF_ZOOM_SPEED).toInt()[0]
self.zoomOnHelixAdd = self.qs.value("zoomOnHelixAdd", styles.PREF_ZOOM_AFTER_HELIX_ADD).toBool()
self.qs.endGroup()
self.uiPrefs.honeycombRowsSpinBox.setProperty("value", self.honeycombRows)
self.uiPrefs.honeycombColsSpinBox.setProperty("value", self.honeycombCols)
self.uiPrefs.honeycombStepsSpinBox.setProperty("value", self.honeycombSteps)
self.uiPrefs.squareRowsSpinBox.setProperty("value", self.squareRows)
self.uiPrefs.squareColsSpinBox.setProperty("value", self.squareCols)
self.uiPrefs.squareStepsSpinBox.setProperty("value", self.squareSteps)
self.uiPrefs.autoScafComboBox.setCurrentIndex(self.autoScafIndex)
self.uiPrefs.defaultToolComboBox.setCurrentIndex(self.startupToolIndex)
self.uiPrefs.zoomSpeedSlider.setProperty("value", self.zoomSpeed)
ptw = self.uiPrefs.pluginTableWidget
loadedPluginPaths = cadnano.loadedPlugins.keys()
ptw.setRowCount(len(loadedPluginPaths))
for i in range(len(loadedPluginPaths)):
row = QTableWidgetItem(loadedPluginPaths[i])
row.setFlags(Qt.ItemIsEnabled | Qt.ItemIsSelectable)
ptw.setItem(i, 0, row)
# self.uiPrefs.helixAddCheckBox.setChecked(self.zoomOnHelixAdd)
def restoreDefaults(self):
self.uiPrefs.honeycombRowsSpinBox.setProperty("value", styles.HONEYCOMB_PART_MAXROWS)
self.uiPrefs.honeycombColsSpinBox.setProperty("value", styles.HONEYCOMB_PART_MAXCOLS)
self.uiPrefs.honeycombStepsSpinBox.setProperty("value", styles.HONEYCOMB_PART_MAXSTEPS)
self.uiPrefs.squareRowsSpinBox.setProperty("value", styles.SQUARE_PART_MAXROWS)
self.uiPrefs.squareColsSpinBox.setProperty("value", styles.SQUARE_PART_MAXCOLS)
self.uiPrefs.squareStepsSpinBox.setProperty("value", styles.SQUARE_PART_MAXSTEPS)
self.uiPrefs.autoScafComboBox.setCurrentIndex(styles.PREF_AUTOSCAF_INDEX)
self.uiPrefs.defaultToolComboBox.setCurrentIndex(styles.PREF_STARTUP_TOOL_INDEX)
self.uiPrefs.zoomSpeedSlider.setProperty("value", styles.PREF_ZOOM_SPEED)
# self.uiPrefs.helixAddCheckBox.setChecked(styles.PREF_ZOOM_AFTER_HELIX_ADD)
def setHoneycombRows(self, rows):
self.honeycombRows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycombRows", self.honeycombRows)
self.qs.endGroup()
def setHoneycombCols(self, cols):
self.honeycombCols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycombCols", self.honeycombCols)
self.qs.endGroup()
def setHoneycombSteps(self, steps):
self.honeycombSteps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycombSteps", self.honeycombSteps)
self.qs.endGroup()
def setSquareRows(self, rows):
self.squareRows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("squareRows", self.squareRows)
self.qs.endGroup()
def setSquareCols(self, cols):
self.squareCols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("squareCols", self.squareCols)
self.qs.endGroup()
def setSquareSteps(self, steps):
self.squareSteps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("squareSteps", self.squareSteps)
self.qs.endGroup()
def setAutoScaf(self, index):
self.autoScafIndex = index
self.qs.beginGroup("Preferences")
self.qs.setValue("autoScaf", self.autoScafIndex)
self.qs.endGroup()
def setStartupTool(self, index):
self.startupToolIndex = index
self.qs.beginGroup("Preferences")
self.qs.setValue("startupTool", self.startupToolIndex)
self.qs.endGroup()
def setZoomSpeed(self, speed):
self.zoomSpeed = speed
self.qs.beginGroup("Preferences")
self.qs.setValue("zoomSpeed", self.zoomSpeed)
self.qs.endGroup()
# def setZoomToFitOnHelixAddition(self, checked):
# self.zoomOnHelixAdd = checked
# self.qs.beginGroup("Preferences")
# self.qs.setValue("zoomOnHelixAdd", self.zoomOnHelixAdd)
# self.qs.endGroup()
def getAutoScafType(self):
return ['Mid-seam', 'Raster'][self.autoScafIndex]
def getStartupToolName(self):
return ['Select', 'Pencil', 'Paint', 'AddSeq'][self.startupToolIndex]
def addPlugin(self):
fdialog = QFileDialog(
self.widget,
"Install Plugin",
cadnano.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
filesInZip = [(f, os.path.join(tdir, f)) for f in os.listdir(tdir)]
try:
self.confirmDestructiveIfNecessary(filesInZip)
self.removePluginsToBeOverwritten(filesInZip)
self.movePluginsIntoPluginsFolder(filesInZip)
except OSError:
print "Couldn't copy files into plugin directory, attempting\
again after boosting privileges."
if platform.system() == 'Darwin':
self.darwinAuthedMvPluginsIntoPluginsFolder(filesInZip)
elif platform.system() == 'Linux':
self.linuxAuthedMvPluginsIntoPluginsFolder(filesInZip)
else:
print "Can't boost privelages on platform %s"%platform.system()
loadedAPlugin = cadnano.loadAllPlugins()
if not loadedAPlugin:
print "Unable to load anythng from plugin %s"%fname
self.readPreferences()
shutil.rmtree(tdir)
def darwinAuthedMvPluginsIntoPluginsFolder(self, filesInZip):
envirn={"DST":cadnano.path()+'/plugins'}
srcstr = ''
for i in range(len(filesInZip)):
fileName, filePath = filesInZip[i]
srcstr += ' \\"$SRC' + str(i) + '\\"'
envirn['SRC'+str(i)] = filePath
proc = subprocess.Popen(['osascript','-e',\
'do shell script "cp -fR ' + srcstr +\
' \\"$DST\\"" with administrator privileges'],\
env=envirn)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i'%retval)
def linuxAuthedMvPluginsIntoPluginsFolder(self, filesInZip):
args = ['gksudo', 'cp', '-fR']
args.extend(filePath for fileName, filePath in filesInZip)
args.append(cadnano.path()+'/plugins')
proc = subprocess.Popen(args)
retval = self.waitForProcExit(proc)
if retval != 0:
self.failWithMsg('cp failed with code %i'%retval)
def confirmDestructiveIfNecessary(self, filesInZip):
for fileName, filePath in filesInZip:
target = os.path.join(cadnano.path(), 'plugins', fileName)
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, filesInZip):
for fileName, filePath in filesInZip:
target = os.path.join(cadnano.path(), 'plugins', fileName)
if os.path.isfile(target):
os.unlink(target)
elif os.path.isdir(target):
shutil.rmtree(target)
def movePluginsIntoPluginsFolder(self, filesInZip):
for fileName, filePath in filesInZip:
target = os.path.join(cadnano.path(), 'plugins', fileName)
shutil.move(filePath, 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.failMessageBox = mb
mb.open()
def closeFailDialog(self, button):
self.failMessageBox.close()
del self.failMessageBox
class Preferences():
"""docstring for Preferences"""
def __init__(self):
self.qs = QSettings()
self.dialog = QDialog()
self.uiPrefs = Ui_Preferences()
self.uiPrefs.setupUi(self.dialog)
self.readPreferences()
self.uiPrefs.honeycombRowsSpinBox.valueChanged.connect(self.setHoneycombRows)
self.uiPrefs.honeycombColsSpinBox.valueChanged.connect(self.setHoneycombCols)
self.uiPrefs.honeycombStepsSpinBox.valueChanged.connect(self.setHoneycombSteps)
self.uiPrefs.squareRowsSpinBox.valueChanged.connect(self.setSquareRows)
self.uiPrefs.squareColsSpinBox.valueChanged.connect(self.setSquareCols)
self.uiPrefs.squareStepsSpinBox.valueChanged.connect(self.setSquareSteps)
self.uiPrefs.defaulttoolComboBox.currentIndexChanged.connect(self.setStartupTool)
self.uiPrefs.zoomSpeedSlider.valueChanged.connect(self.setZoomSpeed)
# self.uiPrefs.helixAddCheckBox.toggled.connect(self.setZoomToFitOnHelixAddition)
self.uiPrefs.buttonBox.clicked.connect(self.handleButtonClick)
def showDialog(self):
self.dialog.exec_()
# self.dialog.show() # launch prefs in mode-less dialog
def handleButtonClick(self, button):
"""
Restores defaults. Other buttons are ignored because connections
are already set up in qt designer.
"""
if self.uiPrefs.buttonBox.buttonRole(button) == QDialogButtonBox.ResetRole:
self.restoreDefaults()
def readPreferences(self):
self.qs.beginGroup("Preferences")
self.honeycombRows = self.qs.value("honeycombRows", styles.HONEYCOMB_PART_MAXROWS).toInt()[0]
self.honeycombCols = self.qs.value("honeycombCols", styles.HONEYCOMB_PART_MAXCOLS).toInt()[0]
self.honeycombSteps = self.qs.value("honeycombSteps", styles.HONEYCOMB_PART_MAXSTEPS).toInt()[0]
self.squareRows = self.qs.value("squareRows", styles.SQUARE_PART_MAXROWS).toInt()[0]
self.squareCols = self.qs.value("squareCols", styles.SQUARE_PART_MAXCOLS).toInt()[0]
self.squareSteps = self.qs.value("squareSteps", styles.SQUARE_PART_MAXSTEPS).toInt()[0]
self.startupToolIndex = self.qs.value("startupTool", styles.PREF_STARTUP_TOOL_INDEX).toInt()[0]
self.zoomSpeed = self.qs.value("zoomSpeed", styles.PREF_ZOOM_SPEED).toInt()[0]
self.zoomOnHelixAdd = self.qs.value("zoomOnHelixAdd", styles.PREF_ZOOM_AFTER_HELIX_ADD).toBool()
self.qs.endGroup()
self.uiPrefs.honeycombRowsSpinBox.setProperty("value", self.honeycombRows)
self.uiPrefs.honeycombColsSpinBox.setProperty("value", self.honeycombCols)
self.uiPrefs.honeycombStepsSpinBox.setProperty("value", self.honeycombSteps)
self.uiPrefs.squareRowsSpinBox.setProperty("value", self.squareRows)
self.uiPrefs.squareColsSpinBox.setProperty("value", self.squareCols)
self.uiPrefs.squareStepsSpinBox.setProperty("value", self.squareSteps)
self.uiPrefs.defaulttoolComboBox.setCurrentIndex(self.startupToolIndex)
self.uiPrefs.zoomSpeedSlider.setProperty("value", self.zoomSpeed)
# self.uiPrefs.helixAddCheckBox.setChecked(self.zoomOnHelixAdd)
def restoreDefaults(self):
self.uiPrefs.honeycombRowsSpinBox.setProperty("value", styles.HONEYCOMB_PART_MAXROWS)
self.uiPrefs.honeycombColsSpinBox.setProperty("value", styles.HONEYCOMB_PART_MAXCOLS)
self.uiPrefs.honeycombStepsSpinBox.setProperty("value", styles.HONEYCOMB_PART_MAXSTEPS)
self.uiPrefs.squareRowsSpinBox.setProperty("value", styles.SQUARE_PART_MAXROWS)
self.uiPrefs.squareColsSpinBox.setProperty("value", styles.SQUARE_PART_MAXCOLS)
self.uiPrefs.squareStepsSpinBox.setProperty("value", styles.SQUARE_PART_MAXSTEPS)
self.uiPrefs.defaulttoolComboBox.setCurrentIndex(styles.PREF_STARTUP_TOOL_INDEX)
self.uiPrefs.zoomSpeedSlider.setProperty("value", styles.PREF_ZOOM_SPEED)
# self.uiPrefs.helixAddCheckBox.setChecked(styles.PREF_ZOOM_AFTER_HELIX_ADD)
def setHoneycombRows(self, rows):
self.honeycombRows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycombRows", self.honeycombRows)
self.qs.endGroup()
def setHoneycombCols(self, cols):
self.honeycombCols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycombCols", self.honeycombCols)
self.qs.endGroup()
def setHoneycombSteps(self, steps):
self.honeycombSteps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("honeycombSteps", self.honeycombSteps)
self.qs.endGroup()
def setSquareRows(self, rows):
self.squareRows = rows
self.qs.beginGroup("Preferences")
self.qs.setValue("squareRows", self.squareRows)
self.qs.endGroup()
def setSquareCols(self, cols):
self.squareCols = cols
self.qs.beginGroup("Preferences")
self.qs.setValue("squareCols", self.squareCols)
self.qs.endGroup()
def setSquareSteps(self, steps):
self.squareSteps = steps
self.qs.beginGroup("Preferences")
self.qs.setValue("squareSteps", self.squareSteps)
self.qs.endGroup()
def setStartupTool(self, index):
self.startupToolIndex = index
self.qs.beginGroup("Preferences")
self.qs.setValue("startupTool", self.startupToolIndex)
self.qs.endGroup()
def setZoomSpeed(self, speed):
self.zoomSpeed = speed
self.qs.beginGroup("Preferences")
self.qs.setValue("zoomSpeed", self.zoomSpeed)
self.qs.endGroup()
# def setZoomToFitOnHelixAddition(self, checked):
# self.zoomOnHelixAdd = checked
# self.qs.beginGroup("Preferences")
# self.qs.setValue("zoomOnHelixAdd", self.zoomOnHelixAdd)
# self.qs.endGroup()
def getStartupToolName(self):
return ['Select', 'Pencil', 'Paint', 'AddSeq'][self.startupToolIndex]