def __init__(self, master):
"""Initialize the attributes and set up the interface"""
QDialog.__init__(self, windowTitle=self.captionTitle)
WidgetMessagesMixin.__init__(self)
self.setLayout(QVBoxLayout())
self.insert_message_bar()
self.layout().insertWidget(0, self.message_bar)
self.master = master
self.keep_running = False
self.scheduled_call = None
self.saved_state = None
self.saved_progress = 0
self.scores = []
self.rank_model = QStandardItemModel(self)
self.rank_table = view = QTableView(
selectionBehavior=QTableView.SelectRows,
selectionMode=QTableView.SingleSelection,
showGrid=False)
view.setItemDelegate(HorizontalGridDelegate())
view.setModel(self.rank_model)
view.selectionModel().selectionChanged.connect(
self.on_selection_changed)
view.horizontalHeader().setStretchLastSection(True)
view.horizontalHeader().hide()
self.layout().addWidget(view)
self.button = gui.button(self,
self,
"Start",
callback=self.toggle,
default=True)
def __init_main_area(self) -> None:
"""Init all controls in the main area"""
# aggregation table
self.agg_table_view = tableview = QTableView()
tableview.setModel(self.agg_table_model)
tableview.setSelectionBehavior(QAbstractItemView.SelectRows)
tableview.selectionModel().selectionChanged.connect(
self.__rows_selected)
tableview.horizontalHeader().setSectionResizeMode(QHeaderView.Stretch)
vbox = gui.vBox(self.mainArea, " ")
vbox.layout().addWidget(tableview)
# aggregations checkboxes
grid_layout = QGridLayout()
gui.widgetBox(self.mainArea,
orientation=grid_layout,
box="Aggregations")
col = 0
row = 0
break_rows = (5, 5, 99)
for agg in AGGREGATIONS:
self.agg_checkboxes[agg] = cb = CheckBox(agg, self)
cb.setDisabled(True)
cb.stateChanged.connect(partial(self.__aggregation_changed, agg))
grid_layout.addWidget(cb, row, col)
row += 1
if row == break_rows[col]:
row = 0
col += 1
def __init__(self):
super().__init__()
ConcurrentWidgetMixin.__init__(self)
self.corpus = None # Corpus
self.n_matching = '' # Info on docs matching the word
self.n_tokens = '' # Info on tokens
self.n_types = '' # Info on types (unique tokens)
self.is_word_on_input = False
# Info attributes
info_box = gui.widgetBox(self.controlArea, 'Info')
gui.label(info_box, self, 'Tokens: %(n_tokens)s')
gui.label(info_box, self, 'Types: %(n_types)s')
gui.label(info_box, self, 'Matching: %(n_matching)s')
# Width parameter
gui.spin(self.controlArea,
self,
'context_width',
3,
10,
box=True,
label="Number of words:",
callback=self.set_width)
gui.rubber(self.controlArea)
# Search
c_box = gui.widgetBox(self.mainArea, orientation=Qt.Horizontal)
self.input = gui.lineEdit(c_box,
self,
'word',
orientation=Qt.Horizontal,
sizePolicy=QSizePolicy(
QSizePolicy.MinimumExpanding,
QSizePolicy.Fixed),
label='Query:',
callback=self.set_word,
callbackOnType=True)
self.input.setFocus()
# Concordances view
self.conc_view = QTableView()
self.model = ConcordanceModel()
self.conc_view.setModel(self.model)
self.conc_view.setWordWrap(False)
self.conc_view.setSelectionBehavior(QTableView.SelectRows)
self.conc_view.setSelectionModel(DocumentSelectionModel(self.model))
self.conc_view.setItemDelegate(HorizontalGridDelegate())
self.conc_view.selectionModel().selectionChanged.connect(
self.selection_changed)
self.conc_view.horizontalHeader().hide()
self.conc_view.setShowGrid(False)
self.mainArea.layout().addWidget(self.conc_view)
self.set_width()
# Auto-commit box
gui.auto_commit(self.controlArea, self, 'autocommit', 'Commit',
'Auto commit is on')
def __init__(self):
super().__init__()
self.distances = None
self.items = None
self.tablemodel = DistanceMatrixModel()
view = self.tableview = QTableView()
view.setEditTriggers(QTableView.NoEditTriggers)
view.setItemDelegate(TableBorderItem())
view.setModel(self.tablemodel)
view.setShowGrid(False)
for header in (view.horizontalHeader(), view.verticalHeader()):
header.setSectionResizeMode(QHeaderView.ResizeToContents)
header.setHighlightSections(True)
header.setSectionsClickable(False)
view.verticalHeader().setDefaultAlignment(
Qt.AlignRight | Qt.AlignVCenter)
selmodel = SymmetricSelectionModel(view.model(), view)
view.setSelectionModel(selmodel)
view.setSelectionBehavior(QTableView.SelectItems)
self.mainArea.layout().addWidget(view)
settings_box = gui.hBox(self.mainArea)
self.annot_combo = gui.comboBox(
settings_box, self, "annotation_idx", label="Labels: ",
orientation=Qt.Horizontal,
callback=self._invalidate_annotations, contentsLength=12)
self.annot_combo.setModel(VariableListModel())
self.annot_combo.model()[:] = ["None", "Enumeration"]
gui.rubber(settings_box)
acb = gui.auto_send(settings_box, self, "auto_commit", box=None)
acb.setFixedWidth(200)
# Signal must be connected after self.commit is redirected
selmodel.selectionChanged.connect(self.commit)
def __init__(self, master):
"""Initialize the attributes and set up the interface"""
QDialog.__init__(self, master, windowTitle=self.captionTitle)
WidgetMessagesMixin.__init__(self)
self.setLayout(QVBoxLayout())
self.insert_message_bar()
self.layout().insertWidget(0, self.message_bar)
self.master = master
self.keep_running = False
self.scheduled_call = None
self.saved_state = None
self.saved_progress = 0
self.scores = []
self.add_to_model = queue.Queue()
self.update_timer = QTimer(self)
self.update_timer.timeout.connect(self._update)
self.update_timer.setInterval(200)
self._thread = None
self._worker = None
self.filter = QLineEdit()
self.filter.setPlaceholderText("Filter ...")
self.filter.textChanged.connect(self.filter_changed)
self.layout().addWidget(self.filter)
# Remove focus from line edit
self.setFocus(Qt.ActiveWindowFocusReason)
self.rank_model = QStandardItemModel(self)
self.model_proxy = QSortFilterProxyModel(self,
filterCaseSensitivity=False)
self.model_proxy.setSourceModel(self.rank_model)
self.rank_table = view = QTableView(
selectionBehavior=QTableView.SelectRows,
selectionMode=QTableView.SingleSelection,
showGrid=False,
editTriggers=gui.TableView.NoEditTriggers)
if self._has_bars:
view.setItemDelegate(TableBarItem())
else:
view.setItemDelegate(HorizontalGridDelegate())
view.setModel(self.model_proxy)
view.selectionModel().selectionChanged.connect(
self.on_selection_changed)
view.horizontalHeader().setStretchLastSection(True)
view.horizontalHeader().hide()
self.layout().addWidget(view)
self.button = gui.button(self,
self,
"Start",
callback=self.toggle,
default=True)
def __init__(self):
super().__init__()
self.data = None
self.results = None
self.learners = []
self.headers = []
self.learners_box = gui.listBox(
self.controlArea, self, "selected_learner", "learners", box=True,
callback=self._learner_changed
)
self.outputbox = gui.vBox(self.controlArea, "Output")
box = gui.hBox(self.outputbox)
gui.checkBox(box, self, "append_predictions",
"Predictions", callback=self._invalidate)
gui.checkBox(box, self, "append_probabilities",
"Probabilities",
callback=self._invalidate)
gui.auto_commit(self.outputbox, self, "autocommit",
"Send Selected", "Send Automatically", box=False)
self.mainArea.layout().setContentsMargins(0, 0, 0, 0)
box = gui.vBox(self.mainArea, box=True)
sbox = gui.hBox(box)
gui.rubber(sbox)
gui.comboBox(sbox, self, "selected_quantity",
items=self.quantities, label="Show: ",
orientation=Qt.Horizontal, callback=self._update)
self.tablemodel = QStandardItemModel(self)
view = self.tableview = QTableView(
editTriggers=QTableView.NoEditTriggers)
view.setModel(self.tablemodel)
view.horizontalHeader().hide()
view.verticalHeader().hide()
view.horizontalHeader().setMinimumSectionSize(60)
view.selectionModel().selectionChanged.connect(self._invalidate)
view.setShowGrid(False)
view.setItemDelegate(BorderedItemDelegate(Qt.white))
view.setSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding)
view.clicked.connect(self.cell_clicked)
box.layout().addWidget(view)
selbox = gui.hBox(box)
gui.button(selbox, self, "Select Correct",
callback=self.select_correct, autoDefault=False)
gui.button(selbox, self, "Select Misclassified",
callback=self.select_wrong, autoDefault=False)
gui.button(selbox, self, "Clear Selection",
callback=self.select_none, autoDefault=False)
def test_qabstractitemview_view_options(self):
view = QTableView()
with warnings.catch_warnings(record=True):
opt1 = view.viewOptions()
self.assertIs(opt1.widget, view)
self.assertTrue(opt1.showDecorationSelected)
opt2 = QStyleOptionViewItem()
view.initViewItemOption(opt2)
self.assertIs(opt2.widget, view)
self.assertTrue(opt2.showDecorationSelected)
def __init__(self):
super().__init__()
self.data: Optional[Table] = None
self.reference: Optional[Table] = None
self.filter_edit = QLineEdit(textChanged=self.__filter_edit_changed,
placeholderText="Filter...")
self.view = QTableView(sortingEnabled=True,
contextMenuPolicy=Qt.CustomContextMenu,
selectionMode=QTableView.NoSelection)
self.view.customContextMenuRequested.connect(self.__menu_requested)
self.view.setItemDelegateForColumn(self.Header.variable,
VariableDelegate(self))
self.view.verticalHeader().hide()
self.view.horizontalHeader().setStretchLastSection(True)
self.view.horizontalHeader().setMaximumSectionSize(350)
self.model = VariableItemModel(self)
self.model.setHorizontalHeaderLabels([x for _, x in self.HEADER])
self.model.dataChanged.connect(self.__table_data_changed)
self.model.dataHasNanColumn.connect(self.Information.nans_removed)
self.proxy_model = QSortFilterProxyModel()
self.proxy_model.setFilterKeyColumn(-1)
self.proxy_model.setFilterCaseSensitivity(False)
self.proxy_model.setSourceModel(self.model)
self.view.setModel(self.proxy_model)
vbox = gui.vBox(self.controlArea, box=True)
vbox.layout().addWidget(self.filter_edit)
vbox.layout().addWidget(self.view)
box = gui.hBox(vbox)
gui.rubber(box)
for name in self.ACTIONS:
gui.button(box,
self,
name.capitalize(),
lambda *args, fun=name: self._initialize_values(fun),
autoDefault=False)
gui.rubber(box)
box = gui.auto_apply(self.controlArea, self, "auto_commit")
box.button.setFixedWidth(180)
box.layout().insertStretch(0)
# pylint: disable=unnecessary-lambda
append = gui.checkBox(None,
self,
"append_to_data",
"Append this instance to input data",
callback=lambda: self.commit())
box.layout().insertWidget(0, append)
self._set_input_summary()
self._set_output_summary()
self.settingsAboutToBePacked.connect(self.pack_settings)
def test_model():
app = QApplication([])
view = QTableView(sortingEnabled=True)
data = Orange.data.Table("lenses")
model = TableModel(data)
view.setModel(model)
view.show()
view.raise_()
return app.exec()
def test_qabstratitemview_item_delegate_for_index(self):
view = QTableView()
model = QStringListModel()
model.setStringList(["AA", "BB"])
view.setModel(model)
idx1 = model.index(0, 0)
idx2 = model.index(1, 0)
delegate = QStyledItemDelegate()
view.setItemDelegate(delegate)
with warnings.catch_warnings(record=True):
self.assertIs(view.itemDelegate(idx1), delegate)
self.assertIs(view.itemDelegate(idx2), delegate)
def __init__(self, *args, **kwargs):
super().__init__(*args, **kwargs)
self.ow = kwargs.get('parent', None)
# set layout
layout = QVBoxLayout()
layout.setContentsMargins(0, 0, 0, 0)
self.setLayout(layout)
# set splitter
self.splitter = QSplitter()
self.splitter.setOrientation(Qt.Horizontal)
# data models
self.genes_model = None
self.info_model = None
# left side list view
self.genes_view = QTableView()
self.genes_view.horizontalHeader().hide()
self.genes_view.setItemDelegate(GeneItemDelegate())
self.genes_view.horizontalHeader().setSectionResizeMode(
QHeaderView.Stretch)
# right side list view
self.info_view = QTableView()
self.info_view.setItemDelegate(HTMLDelegate())
self.info_view.horizontalHeader().hide()
self.info_view.horizontalHeader().setSectionResizeMode(
QHeaderView.Stretch)
self.splitter.addWidget(self.genes_view)
self.splitter.addWidget(self.info_view)
# self.splitter.setStretchFactor(0, 60)
# self.splitter.setStretchFactor(1, 40)
self.layout().addWidget(self.splitter)
def __init__(self):
super().__init__()
self.data: Optional[Table] = None
self.reference: Optional[Table] = None
self.filter_edit = QLineEdit(textChanged=self.__filter_edit_changed,
placeholderText="筛选...")
self.view = QTableView(sortingEnabled=True,
contextMenuPolicy=Qt.CustomContextMenu,
selectionMode=QTableView.NoSelection)
self.view.customContextMenuRequested.connect(self.__menu_requested)
self.view.setItemDelegateForColumn(self.Header.variable,
VariableDelegate(self))
self.view.verticalHeader().hide()
self.view.horizontalHeader().setStretchLastSection(True)
self.view.horizontalHeader().setMaximumSectionSize(350)
self.model = VariableItemModel(self)
self.model.setHorizontalHeaderLabels([x for _, x in self.HEADER])
self.model.dataChanged.connect(self.__table_data_changed)
self.model.dataHasNanColumn.connect(self.Information.nans_removed)
self.proxy_model = QSortFilterProxyModel()
self.proxy_model.setFilterKeyColumn(-1)
self.proxy_model.setFilterCaseSensitivity(Qt.CaseInsensitive)
self.proxy_model.setSourceModel(self.model)
self.view.setModel(self.proxy_model)
vbox = gui.vBox(self.controlArea, box=True)
vbox.layout().addWidget(self.filter_edit)
vbox.layout().addWidget(self.view)
box = gui.hBox(vbox, objectName="buttonBox")
gui.rubber(box)
for action, name in zip(self.ACTIONS, self.ACTIONS_NAME):
gui.button(box,
self,
name.capitalize(),
lambda *args, fun=action: self._initialize_values(fun),
autoDefault=False)
gui.rubber(box)
gui.checkBox(self.buttonsArea,
self,
"append_to_data",
"将此实例追加到输入数据",
callback=self.commit.deferred)
gui.rubber(self.buttonsArea)
gui.auto_apply(self.buttonsArea, self, "auto_commit")
self.settingsAboutToBePacked.connect(self.pack_settings)
def populate_main_area(self):
grid = QWidget()
grid.setLayout(QGridLayout(grid))
self.mainArea.layout().addWidget(grid)
col_type = gui.label(None, self, '%(col_type)s')
grid.layout().addWidget(col_type, 0, 1)
grid.layout().setAlignment(col_type, Qt.AlignHCenter)
row_type = gui.label(None, self, '%(row_type)s')
grid.layout().addWidget(row_type, 1, 0)
grid.layout().setAlignment(row_type, Qt.AlignVCenter)
self.view = QTableView()
self.model = None
grid.layout().addWidget(self.view, 1, 1)
def __init__(self):
super().__init__()
self.data = None
table = self.table = QTableView(self,
showGrid=False,
sortingEnabled=True,
alternatingRowColors=True)
table.verticalHeader().setVisible(False)
table.verticalHeader().setDefaultSectionSize(
table.verticalHeader().minimumSectionSize())
table.horizontalHeader().setStretchLastSection(True)
table.setModel(QStandardItemModel(table))
self.mainArea.layout().addWidget(table)
self.sampling_box = gui.vBox(self.controlArea, "Sampling Type")
sampling = gui.radioButtons(self.sampling_box, self, "sampling_type")
fq_button = gui.appendRadioButton(sampling, "Frequent")
k_button = gui.appendRadioButton(sampling, "Top-K")
self.param_box = gui.vBox(self.controlArea, "Parameters")
gui.spin(self.param_box,
self,
'min_support',
1,
10**2,
label='Min. support(%):')
gui.spin(self.param_box, self, 'k', 1, 10**3, label='K:')
gui.spin(self.param_box,
self,
'min_len',
1,
10**2,
label='Min. length:')
gui.checkBox(self.param_box, self, 'closed', label='Closed patterns')
#gui.checkBox(self.param_box, self, 'generator', label='Generator patterns')
box = gui.widgetBox(self.controlArea, 'Find sequantual patterns')
self.button = gui.auto_commit(
box,
self,
'auto_find',
'Find Patterns',
commit=lambda: self.find_patterns(),
callback=lambda: self.auto_find and self.find_patterns())
def __init__(self):
super().__init__()
options = {"labelWidth": 100, "controlWidth": 50}
box = gui.vBox(self.controlArea, "Control")
self.r_spin = gui.spin(box,
self,
"n_rows",
1,
20,
1,
**options,
label="Rows:",
callback=self.rows_changed)
self.c_spin = gui.spin(box,
self,
"n_columns",
1,
20,
1,
**options,
label="Columns:",
callback=self.columns_changed)
box.setMinimumWidth(200)
gui.rubber(self.controlArea)
gui.auto_send(self.buttonsArea, self, "auto_commit")
box = gui.vBox(self.mainArea, True, margin=0)
self.table = QTableView(box)
self.table.setItemDelegate(EditableTableItemDelegate())
box.layout().addWidget(self.table)
self.table_model = EditableTableModel()
self.table.setModel(self.table_model)
self.table_model.dataChanged.connect(self.data_changed)
self.rows_changed()
self.columns_changed()
self.set_dataset(None) # to init the context
def __init__(self):
super().__init__()
self.data = None # type: Optional[Table]
self.clusterings = {}
self.__executor = ThreadExecutor(parent=self)
self.__task = None # type: Optional[Task]
layout = QGridLayout()
bg = gui.radioButtonsInBox(
self.controlArea,
self,
"optimize_k",
orientation=layout,
box="Number of Clusters",
callback=self.update_method,
)
layout.addWidget(
gui.appendRadioButton(bg, "Fixed:", addToLayout=False), 1, 1)
sb = gui.hBox(None, margin=0)
gui.spin(sb,
self,
"k",
minv=2,
maxv=30,
controlWidth=60,
alignment=Qt.AlignRight,
callback=self.update_k)
gui.rubber(sb)
layout.addWidget(sb, 1, 2)
layout.addWidget(gui.appendRadioButton(bg, "From", addToLayout=False),
2, 1)
ftobox = gui.hBox(None)
ftobox.layout().setContentsMargins(0, 0, 0, 0)
layout.addWidget(ftobox, 2, 2)
gui.spin(ftobox,
self,
"k_from",
minv=2,
maxv=29,
controlWidth=60,
alignment=Qt.AlignRight,
callback=self.update_from)
gui.widgetLabel(ftobox, "to")
gui.spin(ftobox,
self,
"k_to",
minv=3,
maxv=30,
controlWidth=60,
alignment=Qt.AlignRight,
callback=self.update_to)
gui.rubber(ftobox)
box = gui.vBox(self.controlArea, "Initialization")
gui.comboBox(box,
self,
"smart_init",
items=[m[0] for m in self.INIT_METHODS],
callback=self.invalidate)
layout = QGridLayout()
gui.widgetBox(box, orientation=layout)
layout.addWidget(gui.widgetLabel(None, "Re-runs: "), 0, 0,
Qt.AlignLeft)
sb = gui.hBox(None, margin=0)
layout.addWidget(sb, 0, 1)
gui.lineEdit(sb,
self,
"n_init",
controlWidth=60,
valueType=int,
validator=QIntValidator(),
callback=self.invalidate)
layout.addWidget(gui.widgetLabel(None, "Maximum iterations: "), 1, 0,
Qt.AlignLeft)
sb = gui.hBox(None, margin=0)
layout.addWidget(sb, 1, 1)
gui.lineEdit(sb,
self,
"max_iterations",
controlWidth=60,
valueType=int,
validator=QIntValidator(),
callback=self.invalidate)
self.apply_button = gui.auto_commit(self.buttonsArea,
self,
"auto_commit",
"Apply",
box=None,
commit=self.commit)
gui.rubber(self.controlArea)
box = gui.vBox(self.mainArea, box="Silhouette Scores")
self.mainArea.setVisible(self.optimize_k)
self.table_model = ClusterTableModel(self)
table = self.table_view = QTableView(self.mainArea)
table.setModel(self.table_model)
table.setSelectionMode(QTableView.SingleSelection)
table.setSelectionBehavior(QTableView.SelectRows)
table.setItemDelegate(gui.ColoredBarItemDelegate(self, color=Qt.cyan))
table.selectionModel().selectionChanged.connect(self.select_row)
table.setMaximumWidth(200)
table.horizontalHeader().setStretchLastSection(True)
table.horizontalHeader().hide()
table.setShowGrid(False)
box.layout().addWidget(table)
def __init__(self):
super().__init__()
self.measure_scores = None
self.update_scores = True
self.usefulAttributes = []
self.learners = {}
self.labels = []
self.out_domain_desc = None
self.all_measures = SCORES
self.selectedMeasures = dict([(m.name, True) for m
in self.all_measures])
# Discrete (0) or continuous (1) class mode
self.rankMode = 0
self.data = None
self.discMeasures = [m for m in self.all_measures if
issubclass(DiscreteVariable, m.score.class_type)]
self.contMeasures = [m for m in self.all_measures if
issubclass(ContinuousVariable, m.score.class_type)]
self.score_checks = []
self.cls_scoring_box = gui.vBox(None, "Scoring for Classification")
self.reg_scoring_box = gui.vBox(None, "Scoring for Regression")
boxes = [self.cls_scoring_box] * 7 + [self.reg_scoring_box] * 2
for _score, var, box in zip(SCORES, self._score_vars, boxes):
check = gui.checkBox(
box, self, var, label=_score.name,
callback=lambda val=_score: self.measuresSelectionChanged(val))
self.score_checks.append(check)
self.score_stack = QStackedWidget(self)
self.score_stack.addWidget(self.cls_scoring_box)
self.score_stack.addWidget(self.reg_scoring_box)
self.score_stack.addWidget(QWidget())
self.controlArea.layout().addWidget(self.score_stack)
gui.rubber(self.controlArea)
selMethBox = gui.vBox(
self.controlArea, "Select Attributes", addSpace=True)
grid = QGridLayout()
grid.setContentsMargins(6, 0, 6, 0)
self.selectButtons = QButtonGroup()
self.selectButtons.buttonClicked[int].connect(self.setSelectMethod)
def button(text, buttonid, toolTip=None):
b = QRadioButton(text)
self.selectButtons.addButton(b, buttonid)
if toolTip is not None:
b.setToolTip(toolTip)
return b
b1 = button(self.tr("None"), OWRank.SelectNone)
b2 = button(self.tr("All"), OWRank.SelectAll)
b3 = button(self.tr("Manual"), OWRank.SelectManual)
b4 = button(self.tr("Best ranked:"), OWRank.SelectNBest)
s = gui.spin(selMethBox, self, "nSelected", 1, 100,
callback=self.nSelectedChanged)
grid.addWidget(b1, 0, 0)
grid.addWidget(b2, 1, 0)
grid.addWidget(b3, 2, 0)
grid.addWidget(b4, 3, 0)
grid.addWidget(s, 3, 1)
self.selectButtons.button(self.selectMethod).setChecked(True)
selMethBox.layout().addLayout(grid)
gui.auto_commit(selMethBox, self, "auto_apply", "Send", box=False)
# Discrete, continuous and no_class table views are stacked
self.ranksViewStack = QStackedLayout()
self.mainArea.layout().addLayout(self.ranksViewStack)
self.discRanksView = QTableView()
self.ranksViewStack.addWidget(self.discRanksView)
self.discRanksView.setSelectionBehavior(QTableView.SelectRows)
self.discRanksView.setSelectionMode(QTableView.MultiSelection)
self.discRanksView.setSortingEnabled(True)
self.discRanksLabels = ["#"] + [m.shortname for m in self.discMeasures]
self.discRanksModel = QStandardItemModel(self)
self.discRanksModel.setHorizontalHeaderLabels(self.discRanksLabels)
self.discRanksProxyModel = MySortProxyModel(self)
self.discRanksProxyModel.setSourceModel(self.discRanksModel)
self.discRanksView.setModel(self.discRanksProxyModel)
self.discRanksView.setColumnWidth(0, 20)
self.discRanksView.selectionModel().selectionChanged.connect(
self.commit
)
self.discRanksView.pressed.connect(self.onSelectItem)
self.discRanksView.horizontalHeader().sectionClicked.connect(
self.headerClick
)
self.discRanksView.verticalHeader().sectionClicked.connect(
self.onSelectItem
)
if self.headerState[0] is not None:
self.discRanksView.horizontalHeader().restoreState(
self.headerState[0])
self.contRanksView = QTableView()
self.ranksViewStack.addWidget(self.contRanksView)
self.contRanksView.setSelectionBehavior(QTableView.SelectRows)
self.contRanksView.setSelectionMode(QTableView.MultiSelection)
self.contRanksView.setSortingEnabled(True)
self.contRanksLabels = ["#"] + [m.shortname for m in self.contMeasures]
self.contRanksModel = QStandardItemModel(self)
self.contRanksModel.setHorizontalHeaderLabels(self.contRanksLabels)
self.contRanksProxyModel = MySortProxyModel(self)
self.contRanksProxyModel.setSourceModel(self.contRanksModel)
self.contRanksView.setModel(self.contRanksProxyModel)
self.contRanksView.setColumnWidth(0, 20)
self.contRanksView.selectionModel().selectionChanged.connect(
self.commit
)
self.contRanksView.pressed.connect(self.onSelectItem)
self.contRanksView.horizontalHeader().sectionClicked.connect(
self.headerClick
)
self.contRanksView.verticalHeader().sectionClicked.connect(
self.onSelectItem
)
if self.headerState[1] is not None:
self.contRanksView.horizontalHeader().restoreState(
self.headerState[1])
self.noClassRanksView = QTableView()
self.ranksViewStack.addWidget(self.noClassRanksView)
self.noClassRanksView.setSelectionBehavior(QTableView.SelectRows)
self.noClassRanksView.setSelectionMode(QTableView.MultiSelection)
self.noClassRanksView.setSortingEnabled(True)
self.noClassRanksLabels = ["#"]
self.noClassRanksModel = QStandardItemModel(self)
self.noClassRanksModel.setHorizontalHeaderLabels(self.noClassRanksLabels)
self.noClassRanksProxyModel = MySortProxyModel(self)
self.noClassRanksProxyModel.setSourceModel(self.noClassRanksModel)
self.noClassRanksView.setModel(self.noClassRanksProxyModel)
self.noClassRanksView.setColumnWidth(0, 20)
self.noClassRanksView.selectionModel().selectionChanged.connect(
self.commit
)
self.noClassRanksView.pressed.connect(self.onSelectItem)
self.noClassRanksView.horizontalHeader().sectionClicked.connect(
self.headerClick
)
self.noClassRanksView.verticalHeader().sectionClicked.connect(
self.onSelectItem
)
if self.headerState[2] is not None:
self.noClassRanksView.horizontalHeader().restoreState(
self.headerState[2])
# Switch the current view to Discrete
self.switchRanksMode(0)
self.resetInternals()
self.updateDelegates()
self.updateVisibleScoreColumns()
self.resize(690, 500)
self.measure_scores = table((len(self.measures), 0), None)
def __init__(self):
super().__init__()
self.corpus = None # Corpus
self.corpus_docs = None # Documents generated from Corpus
self.output_mask = [] # Output corpus indices
self.doc_webview = None # WebView for showing content
self.search_features = [
] # two copies are needed since Display allows drag & drop
self.display_list_indices = [0]
# Info attributes
self.update_info()
info_box = gui.widgetBox(self.controlArea, 'Info')
gui.label(info_box, self, 'Documents: %(n_documents)s')
gui.label(info_box, self, 'Preprocessed: %(is_preprocessed)s')
gui.label(info_box, self, ' ◦ Tokens: %(n_tokens)s')
gui.label(info_box, self, ' ◦ Types: %(n_types)s')
gui.label(info_box, self, 'POS tagged: %(is_pos_tagged)s')
gui.label(info_box, self, 'N-grams range: %(ngram_range)s')
gui.label(info_box, self, 'Matching: %(n_matching)s')
# Search features
self.search_listbox = gui.listBox(
self.controlArea,
self,
'search_indices',
'search_features',
selectionMode=QListView.ExtendedSelection,
box='Search features',
callback=self.search_features_changed)
# Display features
display_box = gui.widgetBox(self.controlArea, 'Display features')
self.display_listbox = gui.listBox(
display_box,
self,
'display_list_indices',
'display_features',
selectionMode=QListView.ExtendedSelection,
callback=self.show_docs,
enableDragDrop=True)
self.show_tokens_checkbox = gui.checkBox(display_box,
self,
'show_tokens',
'Show Tokens && Tags',
callback=self.show_docs)
# Auto-commit box
gui.auto_commit(self.controlArea, self, 'autocommit', 'Send data',
'Auto send is on')
# Search
self.filter_input = gui.lineEdit(self.mainArea,
self,
'regexp_filter',
orientation=Qt.Horizontal,
sizePolicy=QSizePolicy(
QSizePolicy.MinimumExpanding,
QSizePolicy.Fixed),
label='RegExp Filter:')
self.filter_input.textChanged.connect(self.refresh_search)
# Main area
self.splitter = QSplitter(
orientation=Qt.Horizontal,
childrenCollapsible=False,
)
# Document list
self.doc_list = QTableView()
self.doc_list.setSelectionBehavior(QTableView.SelectRows)
self.doc_list.setSelectionMode(QTableView.ExtendedSelection)
self.doc_list.setEditTriggers(QAbstractItemView.NoEditTriggers)
self.doc_list.horizontalHeader().setSectionResizeMode(
QHeaderView.Stretch)
self.doc_list.horizontalHeader().setVisible(False)
self.splitter.addWidget(self.doc_list)
self.doc_list_model = QStandardItemModel(self)
self.doc_list.setModel(self.doc_list_model)
self.doc_list.selectionModel().selectionChanged.connect(self.show_docs)
# Document contents
self.doc_webview = gui.WebviewWidget(self.splitter, debug=False)
self.doc_webview.loadFinished.connect(self.highlight_docs)
self.mainArea.layout().addWidget(self.splitter)
def __init__(self):
OWWidget.__init__(self)
ConcurrentWidgetMixin.__init__(self)
# ATTRIBUTES #
self.target_database = ENTREZ_ID
# input data
self.input_data = None
self.input_genes = None
self.tax_id = None
self.column_candidates = []
# input options
self.organisms = []
# gene matcher
self.gene_matcher = None
# progress bar
self.progress_bar = None
self._timer = QTimer()
self._timer.timeout.connect(self._apply_filter)
self._timer.setSingleShot(True)
# GUI SECTION #
# Control area
self.info_box = widgetLabel(
widgetBox(self.controlArea, "Info", addSpace=True),
'No data on input.\n')
organism_box = vBox(self.controlArea, 'Organism')
self.organism_select_combobox = comboBox(
organism_box,
self,
'selected_organism',
callback=self.on_input_option_change)
self.get_available_organisms()
self.organism_select_combobox.setCurrentIndex(self.selected_organism)
box = widgetBox(self.controlArea, 'Gene IDs in the input data')
self.gene_columns_model = itemmodels.DomainModel(
valid_types=(StringVariable, DiscreteVariable))
self.gene_column_combobox = comboBox(
box,
self,
'selected_gene_col',
label='Stored in data column',
model=self.gene_columns_model,
sendSelectedValue=True,
callback=self.on_input_option_change,
)
self.attr_names_checkbox = checkBox(
box,
self,
'use_attr_names',
'Stored as feature (column) names',
disables=[(-1, self.gene_column_combobox)],
callback=self.on_input_option_change,
)
self.gene_column_combobox.setDisabled(bool(self.use_attr_names))
output_box = vBox(self.controlArea, 'Output')
# separator(output_box)
# output_box.layout().addWidget(horizontal_line())
# separator(output_box)
self.exclude_radio = checkBox(output_box,
self,
'exclude_unmatched',
'Exclude unmatched genes',
callback=self.commit)
self.replace_radio = checkBox(output_box,
self,
'replace_id_with_symbol',
'Replace feature IDs with gene names',
callback=self.commit)
auto_commit(self.controlArea,
self,
"auto_commit",
"&Commit",
box=False)
rubber(self.controlArea)
# Main area
self.filter = lineEdit(self.mainArea,
self,
'search_pattern',
'Filter:',
callbackOnType=True,
callback=self.handle_filter_callback)
# rubber(self.radio_group)
self.mainArea.layout().addWidget(self.filter)
# set splitter
self.splitter = QSplitter()
self.splitter.setOrientation(Qt.Vertical)
self.table_model = GeneInfoModel()
self.table_view = QTableView()
self.table_view.setAlternatingRowColors(True)
self.table_view.viewport().setMouseTracking(True)
self.table_view.setSortingEnabled(True)
self.table_view.setShowGrid(False)
self.table_view.verticalHeader().hide()
# self.table_view.horizontalHeader().setSectionResizeMode(QHeaderView.Stretch)
self.unknown_model = UnknownGeneInfoModel()
self.unknown_view = QTableView()
self.unknown_view.setModel(self.unknown_model)
self.unknown_view.verticalHeader().hide()
self.unknown_view.setShowGrid(False)
self.unknown_view.setSelectionMode(QAbstractItemView.NoSelection)
self.unknown_view.horizontalHeader().setSectionResizeMode(
QHeaderView.Stretch)
self.splitter.addWidget(self.table_view)
self.splitter.addWidget(self.unknown_view)
self.splitter.setStretchFactor(0, 90)
self.splitter.setStretchFactor(1, 10)
self.mainArea.layout().addWidget(self.splitter)
def set_dataset(self, data, tid=None):
"""Set the input dataset."""
self.closeContext()
if data is not None:
if tid in self._inputs:
# update existing input slot
slot = self._inputs[tid]
view = slot.view
# reset the (header) view state.
view.setModel(None)
view.horizontalHeader().setSortIndicator(-1, Qt.AscendingOrder)
else:
view = QTableView()
view.setSortingEnabled(True)
view.setHorizontalScrollMode(QTableView.ScrollPerPixel)
if self.select_rows:
view.setSelectionBehavior(QTableView.SelectRows)
header = view.horizontalHeader()
header.setSectionsMovable(True)
header.setSectionsClickable(True)
header.setSortIndicatorShown(True)
header.setSortIndicator(-1, Qt.AscendingOrder)
# QHeaderView does not 'reset' the model sort column,
# because there is no guaranty (requirement) that the
# models understand the -1 sort column.
def sort_reset(index, order):
if view.model() is not None and index == -1:
view.model().sort(index, order)
header.sortIndicatorChanged.connect(sort_reset)
view.dataset = data
self.tabs.addTab(view, getattr(data, "name", "Data"))
self._setup_table_view(view, data)
slot = TableSlot(tid, data, table_summary(data), view)
view._input_slot = slot
self._inputs[tid] = slot
self.tabs.setCurrentIndex(self.tabs.indexOf(view))
self.set_info(slot.summary)
if isinstance(slot.summary.len, concurrent.futures.Future):
def update(f):
QMetaObject.invokeMethod(self, "_update_info",
Qt.QueuedConnection)
slot.summary.len.add_done_callback(update)
elif tid in self._inputs:
slot = self._inputs.pop(tid)
view = slot.view
view.hide()
view.deleteLater()
self.tabs.removeTab(self.tabs.indexOf(view))
current = self.tabs.currentWidget()
if current is not None:
self.set_info(current._input_slot.summary)
self.tabs.tabBar().setVisible(self.tabs.count() > 1)
self.openContext(data)
if self.__pending_selected_rows is not None:
self.selected_rows = self.__pending_selected_rows
self.__pending_selected_rows = None
else:
self.selected_rows = []
if self.__pending_selected_cols is not None:
self.selected_cols = self.__pending_selected_cols
self.__pending_selected_cols = None
else:
self.selected_cols = []
self.set_selection()
self.commit()
def __init__(self):
OWWidget.__init__(self)
ConcurrentWidgetMixin.__init__(self)
self.gds_info: Optional[GDSInfo] = GDSInfo(
) # TODO: handle possible exceptions
self.gds_data: Optional[Table] = None
# Control area
box = widgetBox(self.controlArea, 'Info', addSpace=True)
self.infoBox = widgetLabel(box, 'Initializing\n\n')
box = widgetBox(self.controlArea, 'Output', addSpace=True)
radioButtonsInBox(box,
self,
'genes_as_rows',
['Samples in rows', 'Genes in rows'],
callback=self._run)
separator(box)
rubber(self.controlArea)
auto_commit(self.controlArea,
self,
'auto_commit',
'&Commit',
box=False)
# Main Area
# Filter widget
self.filter = lineEdit(self.mainArea,
self,
'search_pattern',
'Filter:',
callbackOnType=True,
callback=self._apply_filter)
self.mainArea.layout().addWidget(self.filter)
splitter_vertical = QSplitter(Qt.Vertical, self.mainArea)
self.mainArea.layout().addWidget(splitter_vertical)
# set table view
self.table_view = QTableView(splitter_vertical)
self.table_view.setShowGrid(False)
self.table_view.setSortingEnabled(True)
self.table_view.sortByColumn(1, Qt.AscendingOrder)
self.table_view.setAlternatingRowColors(True)
self.table_view.verticalHeader().setVisible(False)
self.table_view.setSelectionBehavior(QAbstractItemView.SelectRows)
self.table_view.setSelectionMode(QAbstractItemView.SingleSelection)
self.table_view.viewport().setMouseTracking(True)
self.table_view.setSizeAdjustPolicy(
QAbstractScrollArea.AdjustToContents)
self.table_model = GEODatasetsModel()
self.table_model.initialize(self.gds_info)
self.table_view.setModel(self.table_model)
self.table_model.show_table()
self.table_view.horizontalHeader().setStretchLastSection(True)
self.table_view.resizeColumnsToContents()
v_header = self.table_view.verticalHeader()
option = self.table_view.viewOptions()
size = self.table_view.style().sizeFromContents(
QStyle.CT_ItemViewItem, option, QSize(20, 20), self.table_view)
v_header.setDefaultSectionSize(size.height() + 2)
v_header.setMinimumSectionSize(5)
# set item delegates
self.table_view.setItemDelegateForColumn(
self.table_model.pubmedid_col,
LinkStyledItemDelegate(self.table_view))
self.table_view.setItemDelegateForColumn(
self.table_model.gds_id_col,
LinkStyledItemDelegate(self.table_view))
self.table_view.setItemDelegateForColumn(
self.table_model.indicator_col,
IndicatorItemDelegate(self.table_view, role=Qt.DisplayRole),
)
splitter_horizontal = QSplitter(Qt.Horizontal, splitter_vertical)
# Description Widget
box = widgetBox(splitter_horizontal, 'Description')
self.description_widget = widgetLabel(box, '')
self.description_widget.setWordWrap(True)
rubber(box)
# Sample Annotations Widget
box = widgetBox(splitter_horizontal, 'Sample Annotations')
self.annotations_widget = QTreeWidget(box)
self.annotations_widget.setHeaderLabels(
['Type (Sample annotations)', 'Sample count'])
self.annotations_widget.setRootIsDecorated(True)
box.layout().addWidget(self.annotations_widget)
self._annotations_updating = False
self.annotations_widget.itemChanged.connect(
self.on_annotation_selection_changed)
self.splitters = splitter_vertical, splitter_horizontal
for sp, setting in zip(self.splitters, self.splitter_settings):
sp.splitterMoved.connect(self._splitter_moved)
sp.restoreState(setting)
self.table_view.selectionModel().selectionChanged.connect(
self.on_gds_selection_changed)
self._apply_filter()
self._run()
def __init__(self):
super().__init__()
# widget attributes
self.input_data = None
self.store_input_domain = None
self.input_genes_names = []
self.input_genes_ids = []
self.tax_id = None
self.use_attr_names = None
self.gene_id_attribute = None
# custom gene set input
self.feature_model = itemmodels.DomainModel(
valid_types=(DiscreteVariable, StringVariable))
self.custom_data = None
self.custom_tax_id = None
self.custom_use_attr_names = None
self.custom_gene_id_attribute = None
self.custom_gene_id_column = None
self.num_of_custom_sets = None
self.rows_by_cluster = None
self.rows_by_batch = None
self.clusters = []
self.new_cluster_profile = []
# data model
self.cluster_info_model = None
# Info
info_box = vBox(self.controlArea, 'Info')
self.input_info = widgetLabel(info_box)
# Cluster selection
self.cluster_indicator_model = itemmodels.DomainModel(
valid_types=(DiscreteVariable, ), separators=False)
self.cluster_indicator_box = widgetBox(self.controlArea,
'Cluster Indicator')
self.cluster_indicator_view = listView(
self.cluster_indicator_box,
self,
'cluster_indicators',
model=self.cluster_indicator_model,
selectionMode=QListWidget.MultiSelection,
callback=self.invalidate,
sizeHint=QSize(256, 70))
# Batch selection
self.batch_indicator_model = itemmodels.DomainModel(
valid_types=(DiscreteVariable, ), separators=False, placeholder="")
box = widgetBox(self.controlArea, 'Batch Indicator')
self.batch_indicator_combobox = comboBox(
box,
self,
'batch_indicator',
model=self.batch_indicator_model,
sendSelectedValue=True,
callback=self.batch_indicator_changed)
# Gene scoring
box = widgetBox(self.controlArea, 'Gene Scoring')
self.gene_scoring = GeneScoringWidget(box, self)
self.gene_scoring.set_method_selection_area('scoring_method_selection')
self.gene_scoring.set_method_design_area('scoring_method_design')
self.gene_scoring.set_test_type('scoring_test_type')
# Gene Sets widget
gene_sets_box = widgetBox(self.controlArea, "Gene Sets")
self.gs_widget = GeneSetsSelection(gene_sets_box, self,
'stored_gene_sets_selection')
self.gs_widget.hierarchy_tree_widget.itemClicked.connect(
self.__gene_sets_enrichment)
# custom gene sets area
box = vBox(self.controlArea, "Custom Gene Sets")
if self.custom_gene_set_indicator not in self.feature_model:
self.custom_gene_set_indicator = None
self.gs_label_combobox = comboBox(
box,
self,
"custom_gene_set_indicator",
sendSelectedValue=True,
model=self.feature_model,
callback=self.handle_custom_gene_sets)
self.gs_label_combobox.setDisabled(True)
# main area
splitter = QSplitter(Qt.Horizontal, self.mainArea)
self.mainArea.layout().addWidget(splitter)
genes_filter = widgetBox(splitter,
'Filter Genes',
orientation=QHBoxLayout())
spin(genes_filter,
self,
'max_gene_count',
0,
10000,
label='Count',
tooltip='Minimum genes count',
checked='use_gene_count_filter',
callback=self.filter_genes,
callbackOnReturn=True,
checkCallback=self.filter_genes)
doubleSpin(genes_filter,
self,
'max_gene_p_value',
0.0,
1.0,
0.0001,
label='p-value',
tooltip='Maximum p-value of the enrichment score',
checked='use_gene_pval_filter',
callback=self.filter_genes,
callbackOnReturn=True,
checkCallback=self.filter_genes)
doubleSpin(genes_filter,
self,
'max_gene_fdr',
0.0,
1.0,
0.0001,
label='FDR',
tooltip='Maximum false discovery rate',
checked='use_gene_fdr_filter',
callback=self.filter_genes,
callbackOnReturn=True,
checkCallback=self.filter_genes)
gene_sets_filter = widgetBox(splitter,
'Filter Gene Sets',
orientation=QHBoxLayout())
spin(gene_sets_filter,
self,
'min_gs_count',
0,
DISPLAY_GENE_SETS_COUNT,
label='Count',
tooltip='Minimum genes count',
checked='use_gs_count_filter',
callback=self.filter_gene_sets,
callbackOnReturn=True,
checkCallback=self.filter_gene_sets)
doubleSpin(gene_sets_filter,
self,
'max_gs_p_value',
0.0,
1.0,
0.0001,
label='p-value',
tooltip='Maximum p-value of the enrichment score',
checked='use_gs_pval_filter',
callback=self.filter_gene_sets,
callbackOnReturn=True,
checkCallback=self.filter_gene_sets)
doubleSpin(gene_sets_filter,
self,
'max_gs_fdr',
0.0,
1.0,
0.0001,
label='FDR',
tooltip='Maximum false discovery rate',
checked='use_gs_max_fdr',
callback=self.filter_gene_sets,
callbackOnReturn=True,
checkCallback=self.filter_gene_sets)
self.cluster_info_view = QTableView()
self.cluster_info_view.verticalHeader().setVisible(False)
self.cluster_info_view.setItemDelegate(HTMLDelegate())
self.cluster_info_view.horizontalHeader().hide()
self.cluster_info_view.horizontalHeader().setSectionResizeMode(
QHeaderView.Stretch)
auto_commit(self.controlArea,
self,
"auto_commit",
"&Commit",
box=False)
self.mainArea.layout().addWidget(self.cluster_info_view)
def __init__(self):
super().__init__()
ConcurrentWidgetMixin.__init__(self)
self._res: Optional[resolwe.resapi.ResolweAPI] = None
# Store collection ID from currently selected row
self.selected_collection_id: Optional[str] = None
# Store data output options
self.data_output_options: Optional[DataOutputOptions] = None
# Cache output data table
self.data_table: Optional[Table] = None
# Cache clinical metadata
self.clinical_metadata: Optional[Table] = None
# Control area
self.info_box = gui.widgetLabel(
gui.widgetBox(self.controlArea, "Info", margin=3),
'No data on output.')
self.exp_type_combo = gui.comboBox(
self.controlArea,
self,
'exp_type',
label='Expression Type',
callback=self.on_output_option_changed)
self.proc_slug_combo = gui.comboBox(
self.controlArea,
self,
'proc_slug',
label='Process Name',
callback=self.on_output_option_changed)
self.exp_source_combo = gui.comboBox(
self.controlArea,
self,
'exp_source',
label='Expression source',
callback=self.on_output_option_changed,
)
self.norm_component = NormalizationComponent(self, self.controlArea)
self.norm_component.options_changed.connect(
self.on_normalization_changed)
box = gui.widgetBox(self.controlArea, 'Sample QC')
gui.checkBox(box,
self,
'append_qc_data',
'Append QC data',
callback=self.on_output_option_changed)
gui.rubber(self.controlArea)
box = gui.widgetBox(self.controlArea, 'Sign in')
self.user_info = gui.label(box, self, '')
self.server_info = gui.label(box, self, '')
box = gui.widgetBox(box, orientation=Qt.Horizontal)
self.sign_in_btn = gui.button(box,
self,
'Sign In',
callback=self.sign_in,
autoDefault=False)
self.sign_out_btn = gui.button(box,
self,
'Sign Out',
callback=self.sign_out,
autoDefault=False)
self.commit_button = gui.auto_commit(self.controlArea,
self,
'auto_commit',
'&Commit',
box=False)
self.commit_button.button.setAutoDefault(False)
# Main area
self.table_view = QTableView()
self.table_view.setAlternatingRowColors(True)
self.table_view.viewport().setMouseTracking(True)
self.table_view.setShowGrid(False)
self.table_view.verticalHeader().hide()
self.table_view.horizontalHeader().setSectionResizeMode(
QHeaderView.ResizeToContents)
self.table_view.horizontalHeader().setStretchLastSection(True)
self.table_view.setSelectionBehavior(QAbstractItemView.SelectRows)
self.table_view.setSelectionMode(QAbstractItemView.SingleSelection)
# self.table_view.setStyleSheet('QTableView::item:selected{background-color: palette(highlight); color: palette(highlightedText);};')
self.model = GenialisExpressionsModel(self)
self.model.setHorizontalHeaderLabels(TableHeader.labels())
self.table_view.setModel(self.model)
self.table_view.selectionModel().selectionChanged.connect(
self.on_selection_changed)
self.filter_component = CollapsibleFilterComponent(self, self.mainArea)
self.filter_component.options_changed.connect(self.on_filter_changed)
self.mainArea.layout().addWidget(self.table_view)
self.pagination_component = PaginationComponent(self, self.mainArea)
self.pagination_component.options_changed.connect(
self.update_collections_view)
self.sign_in(silent=True)
def __init__(self):
super().__init__()
self.data = None
self.model = None
self.to_explain = None
self.explanations = None
self.stop = True
self.e = None
self._task = None
self._executor = ThreadExecutor()
self.dataview = QTableView(verticalScrollBarPolicy=Qt.ScrollBarAlwaysOn,
sortingEnabled=True,
selectionMode=QTableView.NoSelection,
focusPolicy=Qt.StrongFocus)
self.dataview.sortByColumn(2, Qt.DescendingOrder)
self.dataview.horizontalHeader().setResizeMode(QHeaderView.Stretch)
domain = Domain([ContinuousVariable("Score"),
ContinuousVariable("Error")],
metas=[StringVariable(name="Feature"), StringVariable(name="Value")])
self.placeholder_table_model = TableModel(
Table.from_domain(domain), parent=None)
self.dataview.setModel(self.placeholder_table_model)
info_box = gui.vBox(self.controlArea, "Info")
self.data_info = gui.widgetLabel(info_box, "Data: N/A")
self.model_info = gui.widgetLabel(info_box, "Model: N/A")
self.sample_info = gui.widgetLabel(info_box, "Sample: N/A")
criteria_box = gui.vBox(self.controlArea, "Stopping criteria")
self.error_spin = gui.spin(criteria_box,
self,
"gui_error",
0.01,
1,
step=0.01,
label="Error < ",
spinType=float,
callback=self._update_error_spin,
controlWidth=80,
keyboardTracking=False)
self.p_val_spin = gui.spin(criteria_box,
self,
"gui_p_val",
0.01,
1,
step=0.01,
label="Error p-value < ",
spinType=float,
callback=self._update_p_val_spin,
controlWidth=80, keyboardTracking=False)
gui.rubber(self.controlArea)
self.cancel_button = gui.button(self.controlArea,
self,
"Stop Computation",
callback=self.toggle_button,
autoDefault=True,
tooltip="Stops and restarts computation")
self.cancel_button.setDisabled(True)
predictions_box = gui.vBox(self.mainArea, "Model prediction")
self.predict_info = gui.widgetLabel(predictions_box, "")
self.mainArea.layout().addWidget(self.dataview)
self.resize(640, 480)
def __init__(self):
super().__init__()
self.data = None # type: Optional[Table]
self.model = None # type: Optional[FeatureStatisticsTableModel]
# Information panel
info_box = gui.vBox(self.controlArea, 'Info')
info_box.setMinimumWidth(200)
self.info_summary = gui.widgetLabel(info_box, wordWrap=True)
self.info_attr = gui.widgetLabel(info_box, wordWrap=True)
self.info_class = gui.widgetLabel(info_box, wordWrap=True)
self.info_meta = gui.widgetLabel(info_box, wordWrap=True)
self.set_info()
# TODO: Implement filtering on the model
# filter_box = gui.vBox(self.controlArea, 'Filter')
# self.filter_text = gui.lineEdit(
# filter_box, self, value='filter_string',
# placeholderText='Filter variables by name',
# callback=self._filter_table_variables, callbackOnType=True,
# )
# shortcut = QShortcut(QKeySequence('Ctrl+f'), self, self.filter_text.setFocus)
# shortcut.setWhatsThis('Filter variables by name')
self.color_var_model = DomainModel(
valid_types=(ContinuousVariable, DiscreteVariable),
placeholder='None',
)
box = gui.vBox(self.controlArea, 'Histogram')
self.cb_color_var = gui.comboBox(
box, master=self, value='color_var',
model=self.color_var_model, label='Color:', orientation=Qt.Horizontal,
)
self.cb_color_var.currentIndexChanged.connect(self.__color_var_changed)
gui.rubber(self.controlArea)
gui.auto_commit(
self.buttonsArea, self, 'auto_commit', 'Send Selected Rows',
'Send Automatically'
)
# Main area
self.view = QTableView(
showGrid=False,
cornerButtonEnabled=False,
sortingEnabled=True,
selectionBehavior=QTableView.SelectRows,
selectionMode=QTableView.MultiSelection,
horizontalScrollMode=QTableView.ScrollPerPixel,
verticalScrollMode=QTableView.ScrollPerPixel,
)
hheader = self.view.horizontalHeader()
hheader.setStretchLastSection(False)
# Contents precision specifies how many rows should be taken into
# account when computing the sizes, 0 being the visible rows. This is
# crucial, since otherwise the `ResizeToContents` section resize mode
# would call `sizeHint` on every single row in the data before first
# render. However this, this cannot be used here, since this only
# appears to work properly when the widget is actually shown. When the
# widget is not shown, size `sizeHint` is called on every row.
hheader.setResizeContentsPrecision(5)
# Set a nice default size so that headers have some space around titles
hheader.setDefaultSectionSize(120)
# Set individual column behaviour in `set_data` since the logical
# indices must be valid in the model, which requires data.
hheader.setSectionResizeMode(QHeaderView.Interactive)
vheader = self.view.verticalHeader()
vheader.setVisible(False)
vheader.setSectionResizeMode(QHeaderView.Fixed)
def bind_histogram_aspect_ratio(logical_index, _, new_size):
"""Force the horizontal and vertical header to maintain the defined
aspect ratio specified for the histogram."""
# Prevent function being exectued more than once per resize
if logical_index is not self.model.Columns.DISTRIBUTION.index:
return
ratio_width, ratio_height = self.HISTOGRAM_ASPECT_RATIO
unit_width = new_size / ratio_width
new_height = unit_width * ratio_height
effective_height = max(new_height, self.MINIMUM_HISTOGRAM_HEIGHT)
effective_height = min(effective_height, self.MAXIMUM_HISTOGRAM_HEIGHT)
vheader.setDefaultSectionSize(effective_height)
def keep_row_centered(logical_index, old_size, new_size):
"""When resizing the widget when scrolled further down, the
positions of rows changes. Obviously, the user resized in order to
better see the row of interest. This keeps that row centered."""
# TODO: This does not work properly
# Prevent function being exectued more than once per resize
if logical_index is not self.model.Columns.DISTRIBUTION.index:
return
top_row = self.view.indexAt(self.view.rect().topLeft()).row()
bottom_row = self.view.indexAt(self.view.rect().bottomLeft()).row()
middle_row = top_row + (bottom_row - top_row) // 2
self.view.scrollTo(self.model.index(middle_row, 0), QTableView.PositionAtCenter)
hheader.sectionResized.connect(bind_histogram_aspect_ratio)
hheader.sectionResized.connect(keep_row_centered)
self.distribution_delegate = DistributionDelegate()
self.view.setItemDelegate(self.distribution_delegate)
self.mainArea.layout().addWidget(self.view)
def __init__(self):
super().__init__()
ConcurrentWidgetMixin.__init__(self)
self._res = None
self._data_objects: Optional[List[Data]] = None
self.data_output_options: Optional[DataOutputOptions] = None
self.data_table: Optional[Table] = None
# Control area
box = gui.widgetBox(self.controlArea, 'Sign in')
self.user_info = gui.label(box, self, '')
self.server_info = gui.label(box, self, '')
box = gui.widgetBox(box, orientation=Qt.Horizontal)
self.sign_in_btn = gui.button(box, self, 'Sign In', callback=self.sign_in, autoDefault=False)
self.sign_out_btn = gui.button(box, self, 'Sign Out', callback=self.sign_out, autoDefault=False)
self.exp_type_box = gui.widgetBox(self.controlArea, 'Expression Type')
self.exp_type_options = gui.radioButtons(
self.exp_type_box, self, 'exp_type', callback=self.on_data_output_option_changed
)
self.proc_type_box = gui.widgetBox(self.controlArea, 'Process Name')
self.proc_type_options = gui.radioButtons(
self.proc_type_box, self, 'proc_type', callback=self.on_data_output_option_changed
)
self.input_anno_box = gui.widgetBox(self.controlArea, 'Expression source')
self.input_anno_options = gui.radioButtons(
self.input_anno_box, self, 'input_annotation', callback=self.on_data_output_option_changed
)
self.norm_component = NormalizationComponent(self, self.controlArea)
self.norm_component.options_changed.connect(self.on_normalization_changed)
gui.rubber(self.controlArea)
self.commit_button = gui.auto_commit(self.controlArea, self, 'auto_commit', '&Commit', box=False)
self.commit_button.button.setAutoDefault(False)
# Main area
self.table_view = QTableView()
self.table_view.setAlternatingRowColors(True)
self.table_view.viewport().setMouseTracking(True)
self.table_view.setShowGrid(False)
self.table_view.verticalHeader().hide()
self.table_view.horizontalHeader().setSectionResizeMode(QHeaderView.ResizeToContents)
self.table_view.horizontalHeader().setStretchLastSection(True)
self.table_view.setSelectionBehavior(QAbstractItemView.SelectRows)
self.table_view.setSelectionMode(QAbstractItemView.SingleSelection)
# self.table_view.setStyleSheet('QTableView::item:selected{background-color: palette(highlight); color: palette(highlightedText);};')
self.model = GenialisExpressionsModel(self)
self.model.setHorizontalHeaderLabels(TableHeader.labels())
self.table_view.setModel(self.model)
self.table_view.selectionModel().selectionChanged.connect(self.on_selection_changed)
self.filter_component = CollapsibleFilterComponent(self, self.mainArea)
self.filter_component.options_changed.connect(self.on_filter_changed)
self.mainArea.layout().addWidget(self.table_view)
self.pagination_component = PaginationComponent(self, self.mainArea)
self.pagination_component.options_changed.connect(self.update_collections_view)
self.sign_in(silent=True)
def __init__(self):
super().__init__()
self.data = None
self.km = None
self.optimization_runs = []
box = gui.vBox(self.controlArea, "Number of Clusters")
layout = QGridLayout()
self.n_clusters = bg = gui.radioButtonsInBox(box,
self,
"optimize_k", [],
orientation=layout,
callback=self.update)
layout.addWidget(
gui.appendRadioButton(bg, "Fixed:", addToLayout=False), 1, 1)
sb = gui.hBox(None, margin=0)
self.fixedSpinBox = gui.spin(sb,
self,
"k",
minv=2,
maxv=30,
controlWidth=60,
alignment=Qt.AlignRight,
callback=self.update_k)
gui.rubber(sb)
layout.addWidget(sb, 1, 2)
layout.addWidget(
gui.appendRadioButton(bg, "Optimized from", addToLayout=False), 2,
1)
ftobox = gui.hBox(None)
ftobox.layout().setContentsMargins(0, 0, 0, 0)
layout.addWidget(ftobox)
gui.spin(ftobox,
self,
"k_from",
minv=2,
maxv=29,
controlWidth=60,
alignment=Qt.AlignRight,
callback=self.update_from)
gui.widgetLabel(ftobox, "to")
self.fixedSpinBox = gui.spin(ftobox,
self,
"k_to",
minv=3,
maxv=30,
controlWidth=60,
alignment=Qt.AlignRight,
callback=self.update_to)
gui.rubber(ftobox)
layout.addWidget(gui.widgetLabel(None, "Scoring: "), 5, 1,
Qt.AlignRight)
layout.addWidget(
gui.comboBox(None,
self,
"scoring",
label="Scoring",
items=list(zip(*self.SCORING_METHODS))[0],
callback=self.update), 5, 2)
box = gui.vBox(self.controlArea, "Initialization")
gui.comboBox(box,
self,
"smart_init",
items=self.INIT_METHODS,
callback=self.update)
layout = QGridLayout()
box2 = gui.widgetBox(box, orientation=layout)
box2.setSizePolicy(QSizePolicy.Maximum, QSizePolicy.Maximum)
layout.addWidget(gui.widgetLabel(None, "Re-runs: "), 0, 0,
Qt.AlignLeft)
sb = gui.hBox(None, margin=0)
layout.addWidget(sb, 0, 1)
gui.lineEdit(sb,
self,
"n_init",
controlWidth=60,
valueType=int,
validator=QIntValidator(),
callback=self.update)
layout.addWidget(gui.widgetLabel(None, "Maximal iterations: "), 1, 0,
Qt.AlignLeft)
sb = gui.hBox(None, margin=0)
layout.addWidget(sb, 1, 1)
gui.lineEdit(sb,
self,
"max_iterations",
controlWidth=60,
valueType=int,
validator=QIntValidator(),
callback=self.update)
box = gui.vBox(self.controlArea, "Output")
gui.comboBox(box,
self,
"place_cluster_ids",
label="Append cluster ID as:",
orientation=Qt.Horizontal,
callback=self.send_data,
items=self.OUTPUT_METHODS)
gui.lineEdit(box,
self,
"output_name",
label="Name:",
orientation=Qt.Horizontal,
callback=self.send_data)
gui.separator(self.buttonsArea, 30)
self.apply_button = gui.auto_commit(self.buttonsArea,
self,
"auto_run",
"Apply",
box=None,
commit=self.commit)
gui.rubber(self.controlArea)
self.table_model = QStandardItemModel(self)
self.table_model.setHorizontalHeaderLabels(["k", "Score"])
self.table_model.setColumnCount(2)
self.table_box = gui.vBox(self.mainArea,
"Optimization Report",
addSpace=0)
table = self.table_view = QTableView(self.table_box)
table.setHorizontalScrollMode(QTableView.ScrollPerPixel)
table.setHorizontalScrollBarPolicy(Qt.ScrollBarAlwaysOff)
table.setSelectionMode(QTableView.SingleSelection)
table.setSelectionBehavior(QTableView.SelectRows)
table.verticalHeader().hide()
self.bar_delegate = gui.ColoredBarItemDelegate(self, color=Qt.cyan)
table.setItemDelegateForColumn(1, self.bar_delegate)
table.setModel(self.table_model)
table.selectionModel().selectionChanged.connect(
self.table_item_selected)
table.setColumnWidth(0, 40)
table.setColumnWidth(1, 120)
table.horizontalHeader().setStretchLastSection(True)
self.setSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred)
self.mainArea.setSizePolicy(QSizePolicy.Maximum, QSizePolicy.Preferred)
self.table_box.setSizePolicy(QSizePolicy.Fixed,
QSizePolicy.MinimumExpanding)
self.table_view.setSizePolicy(QSizePolicy.Preferred,
QSizePolicy.MinimumExpanding)
self.table_box.layout().addWidget(self.table_view)
self.hide_show_opt_results()
def setUp(self) -> None:
super().setUp()
self.view = QTableView()
self.model = create_model(5, 2)
self.delegate = BarItemDataDelegate(self.view)
self.view.setItemDelegate(self.delegate)
