def clearConfiguration(self):
self.mainTab.deleteLater()
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.mainWidget.layout().setCurrentWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS:
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
def generate_tabs(self, formsetdict):
"""
Generate QTabWidget for the module form
@param formset: Tab form configuration
@type formset: dict
"""
tabs = QTabWidget(self)
for key, item in sorted(formsetdict.items()):
ctrl = self.generate_panel(item)
tabs.addTab(ctrl, key[key.find(':') + 1:])
return tabs
def clearConfiguration(self):
self.mainTab.deleteLater()
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.mainWidget.layout().setCurrentWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS:
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
def __init__(self, parent=None):
super().__init__(parent)
self.selectedDatabase = 0
self.uniqueRows = True
gui.button(gui.widgetBox(self.controlArea, "Cache", addSpace=True),
self, "Clear cache",
tooltip="Clear saved query results",
callback=self.clearCache)
self.serviceindex = 0
self.serviceCombo = gui.comboBox(
self.controlArea, self, "serviceindex", "Mart Service",
callback=self._setServiceUrl
)
for name, url in MartServices:
self.serviceCombo.addItem(name, userData=url)
idx = self.serviceCombo.findData(self.selectedService, Qt.UserRole)
self.serviceCombo.setCurrentIndex(idx)
# self.selectedService = self.serviceCombo.itemData(self.serviceCombo.currentItem())
self.martsCombo = gui.comboBox(
self.controlArea, self, "selectedDatabase", "Database",
callback=self.setSelectedMart,
addSpace=True)
self.martsCombo.setMaximumWidth(250)
self.datasetsCombo = gui.comboBox(
self.controlArea, self, "selectedDataset", "Dataset",
callback=self.setSelectedDataset,
addSpace=True)
self.datasetsCombo.setMaximumWidth(250)
gui.rubber(self.controlArea)
box = gui.widgetBox(self.controlArea, "Results")
gui.checkBox(
box, self, "uniqueRows", "Unique results only",
tooltip="Return unique results only.",)
self.commitButton = gui.button(
box, self, "Get Results", callback=self.commit,
tooltip="Query the BioMart server and output the results",
autoDefault=True)
self.commitButton.setEnabled(False)
self.mainWidget = gui.widgetBox(
self.mainArea, orientation=QStackedLayout())
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS: # ??
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
self.error(0)
self.setEnabled(False)
self._task = None
self._executor = concurrent.ThreadExecutor(
threadPool=QThreadPool(maxThreadCount=2)
)
service = self.selectedService
self._task = task = concurrent.Task(
function=partial(self._get_registry, url=service))
task.resultReady.connect(self.setBioMartRegistry)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
self._setServiceUrl()
self._afterInitQueue = []
try:
from Bio import SeqIO
self.hasBiopython = True
except ImportError:
self.warning(100, "Biopython package not found.\nTo retrieve FASTA sequence data from BioMart install Biopython.")
self.hasBiopython = False
class OWBioMart(widget.OWWidget):
name = "BioMart"
description = "Query BioMart service"
icon = "../widgets/icons/BioMart.svg"
priority = 2010
outputs = [("Data", Orange.data.Table)]
SHOW_FILTERS = True
selectedService = settings.Setting(MartServices[0][1])
selectedDataset = settings.Setting(0)
def __init__(self, parent=None):
super().__init__(parent)
self.selectedDatabase = 0
self.uniqueRows = True
gui.button(gui.widgetBox(self.controlArea, "Cache", addSpace=True),
self, "Clear cache",
tooltip="Clear saved query results",
callback=self.clearCache)
self.serviceindex = 0
self.serviceCombo = gui.comboBox(
self.controlArea, self, "serviceindex", "Mart Service",
callback=self._setServiceUrl
)
for name, url in MartServices:
self.serviceCombo.addItem(name, userData=url)
idx = self.serviceCombo.findData(self.selectedService, Qt.UserRole)
self.serviceCombo.setCurrentIndex(idx)
# self.selectedService = self.serviceCombo.itemData(self.serviceCombo.currentItem())
self.martsCombo = gui.comboBox(
self.controlArea, self, "selectedDatabase", "Database",
callback=self.setSelectedMart,
addSpace=True)
self.martsCombo.setMaximumWidth(250)
self.datasetsCombo = gui.comboBox(
self.controlArea, self, "selectedDataset", "Dataset",
callback=self.setSelectedDataset,
addSpace=True)
self.datasetsCombo.setMaximumWidth(250)
gui.rubber(self.controlArea)
box = gui.widgetBox(self.controlArea, "Results")
gui.checkBox(
box, self, "uniqueRows", "Unique results only",
tooltip="Return unique results only.",)
self.commitButton = gui.button(
box, self, "Get Results", callback=self.commit,
tooltip="Query the BioMart server and output the results",
autoDefault=True)
self.commitButton.setEnabled(False)
self.mainWidget = gui.widgetBox(
self.mainArea, orientation=QStackedLayout())
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS: # ??
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
self.error(0)
self.setEnabled(False)
self._task = None
self._executor = concurrent.ThreadExecutor(
threadPool=QThreadPool(maxThreadCount=2)
)
service = self.selectedService
self._task = task = concurrent.Task(
function=partial(self._get_registry, url=service))
task.resultReady.connect(self.setBioMartRegistry)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
self._setServiceUrl()
self._afterInitQueue = []
try:
from Bio import SeqIO
self.hasBiopython = True
except ImportError:
self.warning(100, "Biopython package not found.\nTo retrieve FASTA sequence data from BioMart install Biopython.")
self.hasBiopython = False
def sizeHint(self):
return QSize(800, 600)
def _setServiceUrl(self):
service = self.serviceCombo.itemData(self.serviceCombo.currentIndex())
if service is not None:
self.selectedService = service
self._task = task = concurrent.Task(
function=partial(self._get_registry, url=service))
task.resultReady.connect(self.setBioMartRegistry)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
@staticmethod
def _get_registry(url=None, precache=True):
if url is None:
url = MartServices[0][1]
con = biomart.BioMartConnection(address=url, timeout=30)
reg = biomart.BioMartRegistry(con)
if precache:
_ = reg.marts()
return reg
@Slot(Exception)
def _handleException(self, exception):
assert(QThread.currentThread() is self.thread())
print("Task failed with:", exception, file=sys.stderr)
import logging
log = logging.getLogger(__name__)
log.exception("Error:", exc_info=exception)
self.error(0, str(exception))
self.setEnabled(True)
@Slot(object)
def setBioMartRegistry(self, registry):
assert(QThread.currentThread() is self.thread())
self.setEnabled(True)
self.registry = registry
self.marts = [mart for mart in self.registry.marts()
if getattr(mart, "visible", "0") != "0"]
self.martsCombo.clear()
for mart in self.marts:
self.martsCombo.addItem(mart.displayName)
def setSelectedMart(self):
self.mart = self.marts[self.selectedDatabase]
self.error(0)
self.setEnabled(False)
self._task = task = concurrent.Task(function=self.mart.datasets)
task.resultReady.connect(self.setBioMartDatasets)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
@Slot(object)
def setBioMartDatasets(self, datasets):
assert(QThread.currentThread() is self.thread())
self.setEnabled(True)
self.datasets = [data for data in datasets if
getattr(data, "visible", "0") != "0"]
self.datasetsCombo.clear()
self.datasetsCombo.addItems([data.displayName for data in self.datasets])
def setSelectedDataset(self):
self.dataset = self.datasets[self.selectedDataset]
self.error(0)
self.setEnabled(False)
def get_configuration(dataset):
connection = dataset.connection
stream = connection.configuration(
dataset=dataset.internalName,
virtualSchema=dataset.serverVirtualSchema)
response = stream.read()
return response
self._task = task = concurrent.Task(
function=partial(get_configuration, self.dataset))
task.resultReady.connect(self.setBioMartConfiguration)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
@Slot(object)
def setBioMartConfiguration(self, configuration):
assert(QThread.currentThread() is self.thread())
self.setEnabled(True)
# parse the xml in the main thread (a long time ago this step was
# done in a thread but would frequently cause `expat` to segfault.
doc = biomart.parseXML(io.BytesIO(configuration))
config = list(doc.elements("DatasetConfig"))[0]
configuration = biomart.DatasetConfig(
self.registry, config.tag, config.attributes, config.children)
self.clearConfiguration()
self.configuration = configuration
def hidden(tree):
return getattr(tree, "hidden", "false") != "false" or \
getattr(tree, "hideDisplay", "false") != "false"
self.attributePagesTabWidget = tabs = gui.tabWidget(self.attributesConfigurationBox)
for page in configuration.elements("AttributePage"):
if not hidden(page):
page_widget = PageWidget(page, self.dataset, self)
gui.createTabPage(tabs, getattr(page, "displayName", ""),
widgetToAdd=page_widget, canScroll=True)
if self.SHOW_FILTERS:
self.filterPagesTabWidget = tabs = gui.tabWidget(self.filtersConfigurationBox)
for page in configuration.elements("FilterPage"):
if not hidden(page):
page_widget = PageWidget(page, self.dataset, self)
gui.createTabPage(tabs, getattr(page, "displayName", ""),
widgetToAdd=page_widget, canScroll=True)
self.afterInit()
self.commitButton.setEnabled(True)
def clearConfiguration(self):
self.mainTab.deleteLater()
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.mainWidget.layout().setCurrentWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS:
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
def commit(self):
pageconf = self.attributePagesTabWidget.currentWidget().widget()
format = pageconf.outFormats
self.error(100)
if not self.hasBiopython and format.lower() == "fasta":
self.error(100, "Cannot parse FASTA format")
return
query = pageconf.query()
bydatasets = defaultdict(lambda: ([], []))
for conftype, tree, val in query:
dataset = self.dataset
if conftype == "Attribute":
bydatasets[dataset][0].append(tree.internalName)
elif conftype == "Filter":
bydatasets[dataset][1].append((tree.internalName, val))
if self.SHOW_FILTERS:
pageconf = self.filterPagesTabWidget.currentWidget().widget()
query = pageconf.query()
for conftype, tree, val in query:
dataset = self.dataset
if conftype == "Attribute":
bydatasets[dataset][0].append(tree.internalName)
elif conftype == "Filter":
bydatasets[dataset][1].append((tree.internalName, val))
query = self.registry.query(
format="TSV" if "tsv" in format.lower() else format.upper(),
uniqueRows=self.uniqueRows,
virtualSchema=dataset.virtualSchema,
serverVirtualSchema=dataset.serverVirtualSchema
)
for dataset, (attributes, filters) in bydatasets.items():
query.set_dataset(dataset if dataset else self.dataset)
for attr in attributes:
query.add_attribute(attr)
for filter, value in filters:
query.add_filter(filter, value)
self.error(0)
self.setEnabled(False)
self._task = task = concurrent.Task(function=query.get_table)
task.resultReady.connect(self.dataReady)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
def dataReady(self, data):
self.setEnabled(True)
self.send("Data", data)
def pushAction(self, action):
ref = action.ref
ref_widget = self.findChild(QWidget, ref)
if hasattr(ref_widget, "setOptions"):
ref_widget.setOptions(action.subelements_top("Option"))
def registerDelayedCall(self, call):
self._afterInitQueue.append(call)
def afterInit(self):
while self._afterInitQueue:
call = self._afterInitQueue.pop(0)
call()
def clearCache(self):
self.registry.connection.clear_cache()
def __setupUi(self):
"""Set up the UI.
"""
if self.__macUnified:
self.tab = QToolBar(
floatable=False,
movable=False,
allowedAreas=Qt.TopToolBarArea,
)
self.addToolBar(Qt.TopToolBarArea, self.tab)
self.setUnifiedTitleAndToolBarOnMac(True)
# This does not seem to work
self.setWindowFlags(self.windowFlags() & \
~Qt.MacWindowToolBarButtonHint)
self.tab.actionTriggered[QAction].connect(
self.__macOnToolBarAction)
central = QStackedWidget()
central.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
else:
self.tab = central = QTabWidget(self)
# Add a close button to the bottom of the dialog
# (to satisfy GNOME 3 which shows the dialog without a title bar).
container = container_widget_helper()
container.layout().addWidget(central)
buttonbox = QDialogButtonBox(QDialogButtonBox.Close)
buttonbox.rejected.connect(self.close)
container.layout().addWidget(buttonbox)
self.setCentralWidget(container)
self.stack = central
# General Tab
tab = QWidget()
self.addTab(tab,
self.tr("General"),
toolTip=self.tr("General Options"))
form = FormLayout()
tab.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
nodes = QWidget(self, objectName="nodes")
nodes.setLayout(QVBoxLayout())
nodes.layout().setContentsMargins(0, 0, 0, 0)
cb_anim = QCheckBox(self.tr("Enable node animations"),
objectName="enable-node-animations",
toolTip=self.tr(
"Enable shadow and ping animations for nodes "
"in the workflow."))
self.bind(cb_anim, "checked", "schemeedit/enable-node-animations")
nodes.layout().addWidget(cb_anim)
form.addRow(self.tr("Nodes"), nodes)
links = QWidget(self, objectName="links")
links.setLayout(QVBoxLayout())
links.layout().setContentsMargins(0, 0, 0, 0)
cb_show = QCheckBox(self.tr("Show channel names between widgets"),
objectName="show-channel-names",
toolTip=self.tr(
"Show source and sink channel names "
"over the links."))
self.bind(cb_show, "checked", "schemeedit/show-channel-names")
links.layout().addWidget(cb_show)
form.addRow(self.tr("Links"), links)
quickmenu = QWidget(self, objectName="quickmenu-options")
quickmenu.setLayout(QVBoxLayout())
quickmenu.layout().setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("Open on double click"),
toolTip=self.tr("Open quick menu on a double click "
"on an empty spot in the canvas"))
cb2 = QCheckBox(self.tr("Open on right click"),
toolTip=self.tr("Open quick menu on a right click "
"on an empty spot in the canvas"))
cb3 = QCheckBox(self.tr("Open on space key press"),
toolTip=self.tr(
"Open quick menu on Space key press "
"while the mouse is hovering over the canvas."))
cb4 = QCheckBox(self.tr("Open on any key press"),
toolTip=self.tr(
"Open quick menu on any key press "
"while the mouse is hovering over the canvas."))
cb5 = QCheckBox(self.tr("Show categories"),
toolTip=self.tr(
"In addition to searching, allow filtering "
"by categories."))
self.bind(cb1, "checked", "quickmenu/trigger-on-double-click")
self.bind(cb2, "checked", "quickmenu/trigger-on-right-click")
self.bind(cb3, "checked", "quickmenu/trigger-on-space-key")
self.bind(cb4, "checked", "quickmenu/trigger-on-any-key")
self.bind(cb5, "checked", "quickmenu/show-categories")
quickmenu.layout().addWidget(cb1)
quickmenu.layout().addWidget(cb2)
quickmenu.layout().addWidget(cb3)
quickmenu.layout().addWidget(cb4)
quickmenu.layout().addWidget(cb5)
form.addRow(self.tr("Quick menu"), quickmenu)
startup = QWidget(self, objectName="startup-group")
startup.setLayout(QVBoxLayout())
startup.layout().setContentsMargins(0, 0, 0, 0)
cb_splash = QCheckBox(self.tr("Show splash screen"),
self,
objectName="show-splash-screen")
cb_welcome = QCheckBox(self.tr("Show welcome screen"),
self,
objectName="show-welcome-screen")
cb_crash = QCheckBox(self.tr("Load crashed scratch workflows"),
self,
objectName="load-crashed-workflows")
self.bind(cb_splash, "checked", "startup/show-splash-screen")
self.bind(cb_welcome, "checked", "startup/show-welcome-screen")
self.bind(cb_crash, "checked", "startup/load-crashed-workflows")
startup.layout().addWidget(cb_splash)
startup.layout().addWidget(cb_welcome)
startup.layout().addWidget(cb_crash)
form.addRow(self.tr("On startup"), startup)
toolbox = QWidget(self, objectName="toolbox-group")
toolbox.setLayout(QVBoxLayout())
toolbox.layout().setContentsMargins(0, 0, 0, 0)
exclusive = QCheckBox(self.tr("Only one tab can be open at a time"))
self.bind(exclusive, "checked", "mainwindow/toolbox-dock-exclusive")
toolbox.layout().addWidget(exclusive)
form.addRow(self.tr("Tool box"), toolbox)
tab.setLayout(form)
# Style tab
tab = StyleConfigWidget()
self.addTab(tab, self.tr("&Style"), toolTip="Application style")
self.bind(tab, "selectedStyle_", "application-style/style-name")
self.bind(tab, "selectedPalette_", "application-style/palette")
# Output Tab
tab = QWidget()
self.addTab(tab, self.tr("Output"), toolTip="Output Redirection")
form = FormLayout()
combo = QComboBox()
combo.addItems([
self.tr("Critical"),
self.tr("Error"),
self.tr("Warn"),
self.tr("Info"),
self.tr("Debug")
])
self.bind(combo, "currentIndex", "logging/level")
form.addRow(self.tr("Logging"), combo)
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("Open in external browser"),
objectName="open-in-external-browser")
self.bind(cb1, "checked", "help/open-in-external-browser")
layout.addWidget(cb1)
box.setLayout(layout)
form.addRow(self.tr("Help window"), box)
tab.setLayout(form)
# Categories Tab
tab = QWidget()
layout = QVBoxLayout()
view = QListView(editTriggers=QListView.NoEditTriggers)
from .. import registry
reg = registry.global_registry()
model = QStandardItemModel()
settings = QSettings()
for cat in reg.categories():
item = QStandardItem()
item.setText(cat.name)
item.setCheckable(True)
visible, _ = category_state(cat, settings)
item.setCheckState(Qt.Checked if visible else Qt.Unchecked)
model.appendRow([item])
view.setModel(model)
layout.addWidget(view)
tab.setLayout(layout)
model.itemChanged.connect(lambda item: save_category_state(
reg.category(str(item.text())),
_State(item.checkState() == Qt.Checked, -1), settings))
self.addTab(tab, "Categories")
# Add-ons Tab
tab = QWidget()
self.addTab(tab,
self.tr("Add-ons"),
toolTip="Settings related to add-on installation")
form = FormLayout()
conda = QWidget(self, objectName="conda-group")
conda.setLayout(QVBoxLayout())
conda.layout().setContentsMargins(0, 0, 0, 0)
cb_conda_install = QCheckBox(self.tr("Install add-ons with conda"),
self,
objectName="allow-conda")
self.bind(cb_conda_install, "checked", "add-ons/allow-conda")
conda.layout().addWidget(cb_conda_install)
form.addRow(self.tr("Conda"), conda)
form.addRow(self.tr("Pip"), QLabel("Pip install arguments:"))
line_edit_pip = QLineEdit()
self.bind(line_edit_pip, "text", "add-ons/pip-install-arguments")
form.addRow("", line_edit_pip)
tab.setLayout(form)
# Network Tab
tab = QWidget()
self.addTab(tab,
self.tr("Network"),
toolTip="Settings related to networking")
form = FormLayout()
line_edit_http_proxy = QLineEdit()
self.bind(line_edit_http_proxy, "text", "network/http-proxy")
form.addRow("HTTP proxy:", line_edit_http_proxy)
line_edit_https_proxy = QLineEdit()
self.bind(line_edit_https_proxy, "text", "network/https-proxy")
form.addRow("HTTPS proxy:", line_edit_https_proxy)
tab.setLayout(form)
if self.__macUnified:
# Need some sensible size otherwise mac unified toolbar 'takes'
# the space that should be used for layout of the contents
self.adjustSize()
def __setupUi(self):
"""Set up the UI.
"""
if self.__macUnified:
self.tab = QToolBar()
self.addToolBar(Qt.TopToolBarArea, self.tab)
self.setUnifiedTitleAndToolBarOnMac(True)
# This does not seem to work
self.setWindowFlags(self.windowFlags() & \
~Qt.MacWindowToolBarButtonHint)
self.tab.actionTriggered[QAction].connect(
self.__macOnToolBarAction)
central = QStackedWidget()
central.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
else:
self.tab = central = QTabWidget(self)
self.stack = central
self.setCentralWidget(central)
# General Tab
tab = QWidget()
self.addTab(tab,
self.tr("General"),
toolTip=self.tr("General Options"))
form = QFormLayout()
tab.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
nodes = QWidget(self, objectName="nodes")
nodes.setLayout(QVBoxLayout())
nodes.layout().setContentsMargins(0, 0, 0, 0)
cb_anim = QCheckBox(self.tr("Enable node animations"),
objectName="enable-node-animations",
toolTip=self.tr(
"Enable shadow and ping animations for nodes "
"in the workflow."))
self.bind(cb_anim, "checked", "schemeedit/enable-node-animations")
nodes.layout().addWidget(cb_anim)
form.addRow(self.tr("Nodes"), nodes)
links = QWidget(self, objectName="links")
links.setLayout(QVBoxLayout())
links.layout().setContentsMargins(0, 0, 0, 0)
cb_show = QCheckBox(self.tr("Show channel names between widgets"),
objectName="show-channel-names",
toolTip=self.tr(
"Show source and sink channel names "
"over the links."))
self.bind(cb_show, "checked", "schemeedit/show-channel-names")
links.layout().addWidget(cb_show)
form.addRow(self.tr("Links"), links)
quickmenu = QWidget(self, objectName="quickmenu-options")
quickmenu.setLayout(QVBoxLayout())
quickmenu.layout().setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("On double click"),
toolTip=self.tr("Open quick menu on a double click "
"on an empty spot in the canvas"))
cb2 = QCheckBox(self.tr("On right click"),
toolTip=self.tr("Open quick menu on a right click "
"on an empty spot in the canvas"))
cb3 = QCheckBox(self.tr("On space key press"),
toolTip=self.tr("On Space key press while the mouse"
"is hovering over the canvas."))
cb4 = QCheckBox(self.tr("On any key press"),
toolTip=self.tr("On any key press while the mouse"
"is hovering over the canvas."))
self.bind(cb1, "checked", "quickmenu/trigger-on-double-click")
self.bind(cb2, "checked", "quickmenu/trigger-on-right-click")
self.bind(cb3, "checked", "quickmenu/trigger-on-space-key")
self.bind(cb4, "checked", "quickmenu/trigger-on-any-key")
quickmenu.layout().addWidget(cb1)
quickmenu.layout().addWidget(cb2)
quickmenu.layout().addWidget(cb3)
quickmenu.layout().addWidget(cb4)
form.addRow(self.tr("Open quick menu on"), quickmenu)
startup = QWidget(self, objectName="startup-group")
startup.setLayout(QVBoxLayout())
startup.layout().setContentsMargins(0, 0, 0, 0)
cb_splash = QCheckBox(self.tr("Show splash screen"),
self,
objectName="show-splash-screen")
cb_welcome = QCheckBox(self.tr("Show welcome screen"),
self,
objectName="show-welcome-screen")
cb_updates = QCheckBox(self.tr("Check for updates"),
self,
objectName="check-updates")
self.bind(cb_splash, "checked", "startup/show-splash-screen")
self.bind(cb_welcome, "checked", "startup/show-welcome-screen")
self.bind(cb_updates, "checked", "startup/check-updates")
startup.layout().addWidget(cb_splash)
startup.layout().addWidget(cb_welcome)
startup.layout().addWidget(cb_updates)
form.addRow(self.tr("On startup"), startup)
toolbox = QWidget(self, objectName="toolbox-group")
toolbox.setLayout(QVBoxLayout())
toolbox.layout().setContentsMargins(0, 0, 0, 0)
exclusive = QCheckBox(self.tr("Only one tab can be open at a time"))
self.bind(exclusive, "checked", "mainwindow/toolbox-dock-exclusive")
toolbox.layout().addWidget(exclusive)
form.addRow(self.tr("Tool box"), toolbox)
tab.setLayout(form)
# Output Tab
tab = QWidget()
self.addTab(tab, self.tr("Output"), toolTip="Output Redirection")
form = QFormLayout()
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
combo = QComboBox()
combo.addItems([
self.tr("Critical"),
self.tr("Error"),
self.tr("Warn"),
self.tr("Info"),
self.tr("Debug")
])
self.bind(combo, "currentIndex", "logging/level")
layout.addWidget(combo)
box.setLayout(layout)
form.addRow(self.tr("Logging"), box)
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("Open in external browser"),
objectName="open-in-external-browser")
self.bind(cb1, "checked", "help/open-in-external-browser")
layout.addWidget(cb1)
box.setLayout(layout)
form.addRow(self.tr("Help window"), box)
tab.setLayout(form)
# Error Reporting Tab
tab = QWidget()
self.addTab(tab,
self.tr("Error Reporting"),
toolTip="Settings related to error reporting")
form = QFormLayout()
line_edit_mid = QLineEdit()
self.bind(line_edit_mid, "text", "error-reporting/machine-id")
form.addRow("Machine ID:", line_edit_mid)
tab.setLayout(form)
if self.__macUnified:
# Need some sensible size otherwise mac unified toolbar 'takes'
# the space that should be used for layout of the contents
self.adjustSize()
def __init__(self, parent=None):
super().__init__(parent)
self.selectedDatabase = 0
self.uniqueRows = True
gui.button(gui.widgetBox(self.controlArea, "Cache", addSpace=True),
self, "Clear cache",
tooltip="Clear saved query results",
callback=self.clearCache)
self.serviceindex = 0
self.serviceCombo = gui.comboBox(
self.controlArea, self, "serviceindex", "Mart Service",
callback=self._setServiceUrl
)
for name, url in MartServices:
self.serviceCombo.addItem(name, userData=url)
idx = self.serviceCombo.findData(self.selectedService, Qt.UserRole)
self.serviceCombo.setCurrentIndex(idx)
# self.selectedService = self.serviceCombo.itemData(self.serviceCombo.currentItem())
self.martsCombo = gui.comboBox(
self.controlArea, self, "selectedDatabase", "Database",
callback=self.setSelectedMart,
addSpace=True)
self.martsCombo.setMaximumWidth(250)
self.datasetsCombo = gui.comboBox(
self.controlArea, self, "selectedDataset", "Dataset",
callback=self.setSelectedDataset,
addSpace=True)
self.datasetsCombo.setMaximumWidth(250)
gui.rubber(self.controlArea)
box = gui.widgetBox(self.controlArea, "Results")
gui.checkBox(
box, self, "uniqueRows", "Unique results only",
tooltip="Return unique results only.",)
self.commitButton = gui.button(
box, self, "Get Results", callback=self.commit,
tooltip="Query the BioMart server and output the results",
autoDefault=True)
self.commitButton.setEnabled(False)
self.mainWidget = gui.widgetBox(
self.mainArea, orientation=QStackedLayout())
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS: # ??
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
self.error(0)
self.setEnabled(False)
self._task = None
self._executor = concurrent.ThreadExecutor(
threadPool=QThreadPool(maxThreadCount=2)
)
service = self.selectedService
self._task = task = concurrent.Task(
function=partial(self._get_registry, url=service))
task.resultReady.connect(self.setBioMartRegistry)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
self._setServiceUrl()
self._afterInitQueue = []
try:
from Bio import SeqIO
self.hasBiopython = True
except ImportError:
self.warning(100, "Biopython package not found.\nTo retrieve FASTA sequence data from BioMart install Biopython.")
self.hasBiopython = False
class OWBioMart(widget.OWWidget):
name = "BioMart"
description = "Query BioMart service"
icon = "../widgets/icons/BioMart.svg"
priority = 2010
outputs = [("Data", Orange.data.Table)]
SHOW_FILTERS = True
selectedService = settings.Setting(MartServices[0][1])
selectedDataset = settings.Setting(0)
def __init__(self, parent=None):
super().__init__(parent)
self.selectedDatabase = 0
self.uniqueRows = True
gui.button(gui.widgetBox(self.controlArea, "Cache", addSpace=True),
self, "Clear cache",
tooltip="Clear saved query results",
callback=self.clearCache)
self.serviceindex = 0
self.serviceCombo = gui.comboBox(
self.controlArea, self, "serviceindex", "Mart Service",
callback=self._setServiceUrl
)
for name, url in MartServices:
self.serviceCombo.addItem(name, userData=url)
idx = self.serviceCombo.findData(self.selectedService, Qt.UserRole)
self.serviceCombo.setCurrentIndex(idx)
# self.selectedService = self.serviceCombo.itemData(self.serviceCombo.currentItem())
self.martsCombo = gui.comboBox(
self.controlArea, self, "selectedDatabase", "Database",
callback=self.setSelectedMart,
addSpace=True)
self.martsCombo.setMaximumWidth(250)
self.datasetsCombo = gui.comboBox(
self.controlArea, self, "selectedDataset", "Dataset",
callback=self.setSelectedDataset,
addSpace=True)
self.datasetsCombo.setMaximumWidth(250)
gui.rubber(self.controlArea)
box = gui.widgetBox(self.controlArea, "Results")
gui.checkBox(
box, self, "uniqueRows", "Unique results only",
tooltip="Return unique results only.",)
self.commitButton = gui.button(
box, self, "Get Results", callback=self.commit,
tooltip="Query the BioMart server and output the results",
autoDefault=True)
self.commitButton.setEnabled(False)
self.mainWidget = gui.widgetBox(
self.mainArea, orientation=QStackedLayout())
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS: # ??
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
self.error(0)
self.setEnabled(False)
self._task = None
self._executor = concurrent.ThreadExecutor(
threadPool=QThreadPool(maxThreadCount=2)
)
service = self.selectedService
self._task = task = concurrent.Task(
function=partial(self._get_registry, url=service))
task.resultReady.connect(self.setBioMartRegistry)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
self._setServiceUrl()
self._afterInitQueue = []
try:
from Bio import SeqIO
self.hasBiopython = True
except ImportError:
self.warning(100, "Biopython package not found.\nTo retrieve FASTA sequence data from BioMart install Biopython.")
self.hasBiopython = False
def sizeHint(self):
return QSize(800, 600)
def _setServiceUrl(self):
service = self.serviceCombo.itemData(self.serviceCombo.currentIndex())
if service is not None:
self.selectedService = service
self._task = task = concurrent.Task(
function=partial(self._get_registry, url=service))
task.resultReady.connect(self.setBioMartRegistry)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
@staticmethod
def _get_registry(url=None, precache=True):
if url is None:
url = MartServices[0][1]
con = biomart.BioMartConnection(address=url, timeout=30)
reg = biomart.BioMartRegistry(con)
if precache:
_ = reg.marts()
return reg
@Slot(Exception)
def _handleException(self, exception):
assert(QThread.currentThread() is self.thread())
print("Task failed with:", exception, file=sys.stderr)
import logging
log = logging.getLogger(__name__)
log.exception("Error:", exc_info=exception)
self.error(0, str(exception))
self.setEnabled(True)
@Slot(object)
def setBioMartRegistry(self, registry):
assert(QThread.currentThread() is self.thread())
self.setEnabled(True)
self.registry = registry
self.marts = [mart for mart in self.registry.marts()
if getattr(mart, "visible", "0") != "0"]
self.martsCombo.clear()
for mart in self.marts:
self.martsCombo.addItem(mart.displayName)
def setSelectedMart(self):
self.mart = self.marts[self.selectedDatabase]
self.error(0)
self.setEnabled(False)
self._task = task = concurrent.Task(function=self.mart.datasets)
task.resultReady.connect(self.setBioMartDatasets)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
@Slot(object)
def setBioMartDatasets(self, datasets):
assert(QThread.currentThread() is self.thread())
self.setEnabled(True)
self.datasets = [data for data in datasets if
getattr(data, "visible", "0") != "0"]
self.datasetsCombo.clear()
self.datasetsCombo.addItems([data.displayName for data in self.datasets])
def setSelectedDataset(self):
self.dataset = self.datasets[self.selectedDataset]
self.error(0)
self.setEnabled(False)
def get_configuration(dataset):
connection = dataset.connection
stream = connection.configuration(
dataset=dataset.internalName,
virtualSchema=dataset.serverVirtualSchema)
response = stream.read()
return response
self._task = task = concurrent.Task(
function=partial(get_configuration, self.dataset))
task.resultReady.connect(self.setBioMartConfiguration)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
@Slot(object)
def setBioMartConfiguration(self, configuration):
assert(QThread.currentThread() is self.thread())
self.setEnabled(True)
# parse the xml in the main thread (a long time ago this step was
# done in a thread but would frequently cause `expat` to segfault.
doc = biomart.parseXML(io.BytesIO(configuration))
config = list(doc.elements("DatasetConfig"))[0]
configuration = biomart.DatasetConfig(
self.registry, config.tag, config.attributes, config.children)
self.clearConfiguration()
self.configuration = configuration
def hidden(tree):
return getattr(tree, "hidden", "false") != "false" or \
getattr(tree, "hideDisplay", "false") != "false"
self.attributePagesTabWidget = tabs = gui.tabWidget(self.attributesConfigurationBox)
for page in configuration.elements("AttributePage"):
if not hidden(page):
page_widget = PageWidget(page, self.dataset, self)
gui.createTabPage(tabs, getattr(page, "displayName", ""),
widgetToAdd=page_widget, canScroll=True)
if self.SHOW_FILTERS:
self.filterPagesTabWidget = tabs = gui.tabWidget(self.filtersConfigurationBox)
for page in configuration.elements("FilterPage"):
if not hidden(page):
page_widget = PageWidget(page, self.dataset, self)
gui.createTabPage(tabs, getattr(page, "displayName", ""),
widgetToAdd=page_widget, canScroll=True)
self.afterInit()
self.commitButton.setEnabled(True)
def clearConfiguration(self):
self.mainTab.deleteLater()
self.mainTab = QTabWidget()
self.mainWidget.layout().addWidget(self.mainTab)
self.mainWidget.layout().setCurrentWidget(self.mainTab)
self.attributesConfigurationBox = gui.createTabPage(self.mainTab, "Attributes")
if self.SHOW_FILTERS:
self.filtersConfigurationBox = gui.createTabPage(self.mainTab, "Filters")
def commit(self):
pageconf = self.attributePagesTabWidget.currentWidget().widget()
format = pageconf.outFormats
self.error(100)
if not self.hasBiopython and format.lower() == "fasta":
self.error(100, "Cannot parse FASTA format")
return
query = pageconf.query()
bydatasets = defaultdict(lambda: ([], []))
for conftype, tree, val in query:
dataset = self.dataset
if conftype == "Attribute":
bydatasets[dataset][0].append(tree.internalName)
elif conftype == "Filter":
bydatasets[dataset][1].append((tree.internalName, val))
if self.SHOW_FILTERS:
pageconf = self.filterPagesTabWidget.currentWidget().widget()
query = pageconf.query()
for conftype, tree, val in query:
dataset = self.dataset
if conftype == "Attribute":
bydatasets[dataset][0].append(tree.internalName)
elif conftype == "Filter":
bydatasets[dataset][1].append((tree.internalName, val))
query = self.registry.query(
format="TSV" if "tsv" in format.lower() else format.upper(),
uniqueRows=self.uniqueRows,
virtualSchema=dataset.virtualSchema,
serverVirtualSchema=dataset.serverVirtualSchema
)
for dataset, (attributes, filters) in bydatasets.items():
query.set_dataset(dataset if dataset else self.dataset)
for attr in attributes:
query.add_attribute(attr)
for filter, value in filters:
query.add_filter(filter, value)
self.error(0)
self.setEnabled(False)
self._task = task = concurrent.Task(function=query.get_table)
task.resultReady.connect(self.dataReady)
task.exceptionReady.connect(self._handleException)
self._executor.submit(task)
def dataReady(self, data):
self.setEnabled(True)
self.send("Data", data)
def pushAction(self, action):
ref = action.ref
ref_widget = self.findChild(QWidget, ref)
if hasattr(ref_widget, "setOptions"):
ref_widget.setOptions(action.subelements_top("Option"))
def registerDelayedCall(self, call):
self._afterInitQueue.append(call)
def afterInit(self):
while self._afterInitQueue:
call = self._afterInitQueue.pop(0)
call()
def clearCache(self):
self.registry.connection.clear_cache()
def __setupUi(self):
"""Set up the UI.
"""
if self.__macUnified:
self.tab = QToolBar()
self.addToolBar(Qt.TopToolBarArea, self.tab)
self.setUnifiedTitleAndToolBarOnMac(True)
# This does not seem to work
self.setWindowFlags(self.windowFlags() & \
~Qt.MacWindowToolBarButtonHint)
self.tab.actionTriggered[QAction].connect(
self.__macOnToolBarAction)
central = QStackedWidget()
central.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
else:
self.tab = central = QTabWidget(self)
self.stack = central
self.setCentralWidget(central)
# General Tab
tab = QWidget()
self.addTab(tab, self.tr("通用"), toolTip=self.tr("通用选项"))
form = QFormLayout()
tab.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
nodes = QWidget(self, objectName="nodes")
nodes.setLayout(QVBoxLayout())
nodes.layout().setContentsMargins(0, 0, 0, 0)
cb_anim = QCheckBox(self.tr("启用节点动画"),
objectName="enable-node-animations",
toolTip=self.tr("启用数据挖掘流程中节点的阴影和动画"))
self.bind(cb_anim, "checked", "schemeedit/enable-node-animations")
nodes.layout().addWidget(cb_anim)
form.addRow(self.tr("节点"), nodes)
links = QWidget(self, objectName="links")
links.setLayout(QVBoxLayout())
links.layout().setContentsMargins(0, 0, 0, 0)
cb_show = QCheckBox(self.tr("显示部件之间的通道名称"),
objectName="show-channel-names",
toolTip=self.tr("在链接上显示来源和接收的通道名称。"))
self.bind(cb_show, "checked", "schemeedit/show-channel-names")
links.layout().addWidget(cb_show)
form.addRow(self.tr("连接"), links)
quickmenu = QWidget(self, objectName="quickmenu-options")
quickmenu.setLayout(QVBoxLayout())
quickmenu.layout().setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("双击"), toolTip=self.tr("双击画布空白处打开快捷菜单"))
cb2 = QCheckBox(self.tr("右击"), toolTip=self.tr("右击画布空白处打开快捷菜单"))
cb3 = QCheckBox(self.tr("按空格键"), toolTip=self.tr("鼠标停在画布上，按空格键打开快捷菜单"))
cb4 = QCheckBox(self.tr("按任意键"), toolTip=self.tr("鼠标停在画布上，按任意键打开快捷菜单"))
self.bind(cb1, "checked", "quickmenu/trigger-on-double-click")
self.bind(cb2, "checked", "quickmenu/trigger-on-right-click")
self.bind(cb3, "checked", "quickmenu/trigger-on-space-key")
self.bind(cb4, "checked", "quickmenu/trigger-on-any-key")
quickmenu.layout().addWidget(cb1)
quickmenu.layout().addWidget(cb2)
quickmenu.layout().addWidget(cb3)
quickmenu.layout().addWidget(cb4)
form.addRow(self.tr("打开快捷菜单"), quickmenu)
startup = QWidget(self, objectName="startup-group")
startup.setLayout(QVBoxLayout())
startup.layout().setContentsMargins(0, 0, 0, 0)
cb_splash = QCheckBox(self.tr("显示初始屏幕"),
self,
objectName="show-splash-screen")
cb_welcome = QCheckBox(self.tr("显示欢迎屏幕"),
self,
objectName="show-welcome-screen")
cb_updates = QCheckBox(self.tr("检查更新"),
self,
objectName="check-updates")
self.bind(cb_splash, "checked", "startup/show-splash-screen")
self.bind(cb_welcome, "checked", "startup/show-welcome-screen")
self.bind(cb_updates, "checked", "startup/check-updates")
startup.layout().addWidget(cb_splash)
startup.layout().addWidget(cb_welcome)
startup.layout().addWidget(cb_updates)
form.addRow(self.tr("启动"), startup)
toolbox = QWidget(self, objectName="toolbox-group")
toolbox.setLayout(QVBoxLayout())
toolbox.layout().setContentsMargins(0, 0, 0, 0)
exclusive = QCheckBox(self.tr("一次只能打开一个选项卡 "))
self.bind(exclusive, "checked", "mainwindow/toolbox-dock-exclusive")
toolbox.layout().addWidget(exclusive)
form.addRow(self.tr("工具箱"), toolbox)
tab.setLayout(form)
# Output Tab
tab = QWidget()
self.addTab(tab, self.tr("输出"), toolTip="输出重定向")
form = QFormLayout()
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
combo = QComboBox()
combo.addItems([
self.tr("Critical"),
self.tr("Error"),
self.tr("Warn"),
self.tr("Info"),
self.tr("Debug")
])
self.bind(combo, "currentIndex", "logging/level")
layout.addWidget(combo)
box.setLayout(layout)
form.addRow(self.tr("日志"), box)
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("用外部浏览器打开"),
objectName="open-in-external-browser")
self.bind(cb1, "checked", "help/open-in-external-browser")
layout.addWidget(cb1)
box.setLayout(layout)
form.addRow(self.tr("帮助"), box)
tab.setLayout(form)
# Error Reporting Tab
tab = QWidget()
self.addTab(tab, self.tr("错误报告"), toolTip="错误报告相关的设置")
form = QFormLayout()
line_edit_mid = QLineEdit()
self.bind(line_edit_mid, "text", "error-reporting/machine-id")
form.addRow("Machine ID:", line_edit_mid)
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(
self.tr(""),
toolTip=self.tr(
"Share anonymous usage statistics to improve Orange"))
self.bind(cb1, "checked", "error-reporting/send-statistics")
layout.addWidget(cb1)
box.setLayout(layout)
form.addRow(self.tr("共享匿名统计信息"), box)
tab.setLayout(form)
# Add-ons Tab
tab = QWidget()
self.addTab(tab, self.tr("附加"), toolTip="附加组件安装相关的设置")
form = QFormLayout()
conda = QWidget(self, objectName="conda-group")
conda.setLayout(QVBoxLayout())
conda.layout().setContentsMargins(0, 0, 0, 0)
cb_conda_install = QCheckBox(self.tr("Conda安装附加组件"),
self,
objectName="allow-conda")
self.bind(cb_conda_install, "checked", "add-ons/allow-conda")
conda.layout().addWidget(cb_conda_install)
form.addRow(self.tr("Conda"), conda)
form.addRow(self.tr("Pip"), QLabel("Pip安装参数:"))
line_edit_pip = QLineEdit()
self.bind(line_edit_pip, "text", "add-ons/pip-install-arguments")
form.addRow("", line_edit_pip)
tab.setLayout(form)
# Network Tab
tab = QWidget()
self.addTab(tab, self.tr("网络"), toolTip="网络相关的设置")
form = QFormLayout()
line_edit_http_proxy = QLineEdit()
self.bind(line_edit_http_proxy, "text", "network/http-proxy")
form.addRow("HTTP代理:", line_edit_http_proxy)
line_edit_https_proxy = QLineEdit()
self.bind(line_edit_https_proxy, "text", "network/https-proxy")
form.addRow("HTTPS代理:", line_edit_https_proxy)
tab.setLayout(form)
if self.__macUnified:
# Need some sensible size otherwise mac unified toolbar 'takes'
# the space that should be used for layout of the contents
self.adjustSize()
def __setupUi(self):
"""Set up the UI.
"""
if self.__macUnified:
self.tab = QToolBar(
floatable=False, movable=False, allowedAreas=Qt.TopToolBarArea,
)
self.addToolBar(Qt.TopToolBarArea, self.tab)
self.setUnifiedTitleAndToolBarOnMac(True)
# This does not seem to work
self.setWindowFlags(self.windowFlags() & \
~Qt.MacWindowToolBarButtonHint)
self.tab.actionTriggered[QAction].connect(
self.__macOnToolBarAction
)
central = QStackedWidget()
central.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
else:
self.tab = central = QTabWidget(self)
# Add a close button to the bottom of the dialog
# (to satisfy GNOME 3 which shows the dialog without a title bar).
container = container_widget_helper()
container.layout().addWidget(central)
buttonbox = QDialogButtonBox(QDialogButtonBox.Close)
buttonbox.rejected.connect(self.close)
container.layout().addWidget(buttonbox)
self.setCentralWidget(container)
self.stack = central
# General Tab
tab = QWidget()
self.addTab(tab, self.tr("常规"),
toolTip=self.tr("常规选项"))
form = FormLayout()
tab.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
nodes = QWidget(self, objectName="nodes")
nodes.setLayout(QVBoxLayout())
nodes.layout().setContentsMargins(0, 0, 0, 0)
cb_anim = QCheckBox(
self.tr("启用节点动画"),
objectName="enable-node-animations",
toolTip=self.tr("为工作流中的节点启用阴影和ping动画。")
)
self.bind(cb_anim, "checked", "schemeedit/enable-node-animations")
nodes.layout().addWidget(cb_anim)
form.addRow(self.tr("结点"), nodes)
links = QWidget(self, objectName="links")
links.setLayout(QVBoxLayout())
links.layout().setContentsMargins(0, 0, 0, 0)
cb_show = QCheckBox(
self.tr("在窗口小部件之间显示通道名称"),
objectName="show-channel-names",
toolTip=self.tr("在链接上显示源和接收器通道名称。")
)
self.bind(cb_show, "checked", "schemeedit/show-channel-names")
links.layout().addWidget(cb_show)
form.addRow(self.tr("链接"), links)
quickmenu = QWidget(self, objectName="quickmenu-options")
quickmenu.setLayout(QVBoxLayout())
quickmenu.layout().setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("双击时打开"),
toolTip=self.tr("双击画布中的空白位置打开快捷菜单"))
cb2 = QCheckBox(self.tr("单击鼠标右键时打开"),
toolTip=self.tr("右键单击画布中的空白处打开快捷菜单"))
cb3 = QCheckBox(self.tr("按空格键时打开"),
toolTip=self.tr("当鼠标悬停在画布上时，按空格键。"))
cb4 = QCheckBox(self.tr("按任意按键时打开"),
toolTip=self.tr("当鼠标悬停在画布上时，按任意键。"))
cb5 = QCheckBox(self.tr("显示分类"),
toolTip=self.tr("In addition to searching, allow filtering "
"by categories."))
self.bind(cb1, "checked", "quickmenu/trigger-on-double-click")
self.bind(cb2, "checked", "quickmenu/trigger-on-right-click")
self.bind(cb3, "checked", "quickmenu/trigger-on-space-key")
self.bind(cb4, "checked", "quickmenu/trigger-on-any-key")
self.bind(cb5, "checked", "quickmenu/show-categories")
quickmenu.layout().addWidget(cb1)
quickmenu.layout().addWidget(cb2)
quickmenu.layout().addWidget(cb3)
quickmenu.layout().addWidget(cb4)
quickmenu.layout().addWidget(cb5)
form.addRow(self.tr("快捷菜单"), quickmenu)
startup = QWidget(self, objectName="startup-group")
startup.setLayout(QVBoxLayout())
startup.layout().setContentsMargins(0, 0, 0, 0)
cb_splash = QCheckBox(self.tr("显示启动画面"), self,
objectName="show-splash-screen")
cb_welcome = QCheckBox(self.tr("显示欢迎界面"), self,
objectName="show-welcome-screen")
cb_crash = QCheckBox(self.tr("加载崩溃的工作流"), self,
objectName="load-crashed-workflows")
self.bind(cb_splash, "checked", "startup/show-splash-screen")
self.bind(cb_welcome, "checked", "startup/show-welcome-screen")
self.bind(cb_crash, "checked", "startup/load-crashed-workflows")
startup.layout().addWidget(cb_splash)
startup.layout().addWidget(cb_welcome)
startup.layout().addWidget(cb_crash)
form.addRow(self.tr("启动时"), startup)
toolbox = QWidget(self, objectName="toolbox-group")
toolbox.setLayout(QVBoxLayout())
toolbox.layout().setContentsMargins(0, 0, 0, 0)
exclusive = QCheckBox(self.tr("一次只能打开一个选项卡"))
self.bind(exclusive, "checked", "mainwindow/toolbox-dock-exclusive")
toolbox.layout().addWidget(exclusive)
form.addRow(self.tr("工具箱"), toolbox)
tab.setLayout(form)
# Style tab
tab = StyleConfigWidget()
self.addTab(tab, self.tr("&Style"), toolTip="Application style")
self.bind(tab, "selectedStyle_", "application-style/style-name")
self.bind(tab, "selectedPalette_", "application-style/palette")
# Output Tab
tab = QWidget()
self.addTab(tab, self.tr("输出"),
toolTip="输出重定向")
form = FormLayout()
combo = QComboBox()
combo.addItems([self.tr("关键"),
self.tr("错误"),
self.tr("警告"),
self.tr("信息"),
self.tr("调试")])
self.bind(combo, "currentIndex", "logging/level")
form.addRow(self.tr("记录"), combo)
box = QWidget()
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
cb1 = QCheckBox(self.tr("在外部浏览器中打开"),
objectName="open-in-external-browser")
self.bind(cb1, "checked", "help/open-in-external-browser")
layout.addWidget(cb1)
box.setLayout(layout)
form.addRow(self.tr("帮助窗口"), box)
tab.setLayout(form)
# Categories Tab
tab = QWidget()
layout = QVBoxLayout()
view = QListView(
editTriggers=QListView.NoEditTriggers
)
from .. import registry
reg = registry.global_registry()
model = QStandardItemModel()
settings = QSettings()
for cat in reg.categories():
item = QStandardItem()
item.setText(cat.name)
item.setCheckable(True)
visible, _ = category_state(cat, settings)
item.setCheckState(Qt.Checked if visible else Qt.Unchecked)
model.appendRow([item])
view.setModel(model)
layout.addWidget(view)
tab.setLayout(layout)
model.itemChanged.connect(
lambda item:
save_category_state(
reg.category(str(item.text())),
_State(item.checkState() == Qt.Checked, -1),
settings
)
)
self.addTab(tab, "类别")
# Add-ons Tab
tab = QWidget()
self.addTab(tab, self.tr("插件"),
toolTip="与插件安装相关的设置")
form = FormLayout()
conda = QWidget(self, objectName="conda-group")
conda.setLayout(QVBoxLayout())
conda.layout().setContentsMargins(0, 0, 0, 0)
mirror_install = QCheckBox(self.tr("使用国内镜像安装"), self,
objectName="allow-conda")
self.bind(mirror_install, "checked", "add-ons/allow-conda")
conda.layout().addWidget(mirror_install)
form.addRow(self.tr("镜像"), conda)
form.addRow(self.tr("Pip"), QLabel("Pip 安装参数:"))
line_edit_pip = QLineEdit()
# line_edit_pip.setText('-i https://mirrors.aliyun.com/pypi/simple')
self.bind(line_edit_pip, "text", "add-ons/pip-install-arguments")
form.addRow("", line_edit_pip)
tab.setLayout(form)
# Network Tab
tab = QWidget()
self.addTab(tab, self.tr("网络"),
toolTip="与网络相关的设置")
form = FormLayout()
line_edit_http_proxy = QLineEdit()
self.bind(line_edit_http_proxy, "text", "network/http-proxy")
form.addRow("HTTP 代理:", line_edit_http_proxy)
line_edit_https_proxy = QLineEdit()
self.bind(line_edit_https_proxy, "text", "network/https-proxy")
form.addRow("HTTPS 代理:", line_edit_https_proxy)
tab.setLayout(form)
if self.__macUnified:
# Need some sensible size otherwise mac unified toolbar 'takes'
# the space that should be used for layout of the contents
self.adjustSize()
