def setColumnLinks(self, column, links):
font = QFont()
font.setUnderline(True)
for i, link in enumerate(links):
self._roleData[gui.LinkRole][i][column] = link
self._roleData[Qt.FontRole][i][column] = font
self._roleData[Qt.ForegroundRole][i][column] = QColor(Qt.blue)
def splash_screen():
"""
"""
pm = QPixmap(
pkg_resources.resource_filename(
__name__, "icons/orange-splash-screen.png")
)
version = QCoreApplication.applicationVersion()
size = 21 if len(version) < 5 else 16
font = QFont("Helvetica")
font.setPixelSize(size)
font.setBold(True)
font.setItalic(True)
font.setLetterSpacing(QFont.AbsoluteSpacing, 2)
metrics = QFontMetrics(font)
br = metrics.boundingRect(version).adjusted(-5, 0, 5, 0)
br.moveCenter(QPoint(436, 224))
p = QPainter(pm)
p.setRenderHint(QPainter.Antialiasing)
p.setRenderHint(QPainter.TextAntialiasing)
p.setFont(font)
p.setPen(QColor("#231F20"))
p.drawText(br, Qt.AlignCenter, version)
p.end()
return pm, QRect(88, 193, 200, 20)
def data(self, index, role=Qt.DisplayRole):
# pylint: disable=missing-docstring
# Only valid for the first column
row = index.row()
if role == Qt.DisplayRole or role == Qt.EditRole:
return self.variables[row].name
if role == Qt.FontRole:
font = QFont()
font.setBold(True)
return font
if role == Qt.TextAlignmentRole:
return Qt.AlignRight | Qt.AlignVCenter
def __init__(self):
super().__init__()
self.results = None
self.classifier_names = []
self.colors = []
self._curve_data = {}
box = gui.vBox(self.controlArea, "Plot")
tbox = gui.vBox(box, "Target Class")
tbox.setFlat(True)
self.target_cb = gui.comboBox(
tbox, self, "target_index", callback=self._on_target_changed,
contentsLength=8)
cbox = gui.vBox(box, "Classifiers")
cbox.setFlat(True)
self.classifiers_list_box = gui.listBox(
cbox, self, "selected_classifiers", "classifier_names",
selectionMode=QtWidgets.QListView.MultiSelection,
callback=self._on_classifiers_changed)
gui.checkBox(box, self, "display_convex_hull",
"Show lift convex hull", callback=self._replot)
self.plotview = pg.GraphicsView(background="w")
self.plotview.setFrameStyle(QtWidgets.QFrame.StyledPanel)
self.plot = pg.PlotItem(enableMenu=False)
self.plot.setMouseEnabled(False, False)
self.plot.hideButtons()
pen = QPen(self.palette().color(QPalette.Text))
tickfont = QFont(self.font())
tickfont.setPixelSize(max(int(tickfont.pixelSize() * 2 // 3), 11))
axis = self.plot.getAxis("bottom")
axis.setTickFont(tickfont)
axis.setPen(pen)
axis.setLabel("P Rate")
axis = self.plot.getAxis("left")
axis.setTickFont(tickfont)
axis.setPen(pen)
axis.setLabel("TP Rate")
self.plot.showGrid(True, True, alpha=0.1)
self.plot.setRange(xRange=(0.0, 1.0), yRange=(0.0, 1.0), padding=0.05)
self.plotview.setCentralItem(self.plot)
self.mainArea.layout().addWidget(self.plotview)
def font_resize(font, factor, minsize=None, maxsize=None):
font = QFont(font)
fontinfo = QFontInfo(font)
size = fontinfo.pointSizeF() * factor
if minsize is not None:
size = max(size, minsize)
if maxsize is not None:
size = min(size, maxsize)
font.setPointSizeF(size)
return font
def data(self, index, role):
if role == self.IsSelected:
return self.is_selected(index)
elif role == Qt.FontRole:
font = QFont()
font.setBold(self.is_selected(index))
return font
elif role == self.SortRole:
if self.is_selected(index):
return self.selected_vars.index(self[index.row()])
else:
return len(self.selected_vars) + index.row()
else:
return super().data(index, role)
def data(self, index, role):
if role == self.IsSelected:
return self.is_selected(index)
elif role == Qt.FontRole:
font = QFont()
font.setBold(self.is_selected(index))
return font
elif role == self.SortRole:
if self.is_selected(index):
return self.selected_vars.index(self[index.row()])
else:
return len(self.selected_vars) + index.row()
else:
return super().data(index, role)
def __init__(self, form=None, parent=None):
"Create and display the GUI, but do not start it."
self.result = None
self.form = form
log.info("Creating GUI object")
super().__init__(parent=parent)
self.ui_font = QFont("Microsoft Sans Serif", 12, QFont.Bold)
self.body_font = QFont("Cooper", 48, QFont.Bold)
self.setFont(self.ui_font)
self.app_title = "JSON Forms"
self.initUI()
self.tr_thread = TimerThread(self)
self.tr_thread.start()
self.show()
def set_column_links(self):
domain = self._data.domain
ref_col = domain.metas.index(
domain[HeaderLabels[HeaderIndex.REFERENCE]])
font = QFont()
font.setUnderline(True)
color = QColor(Qt.blue)
for i, row in enumerate(self.source):
link = row[HeaderLabels[HeaderIndex.URL]].value
if len(link) and 'http' in link:
self._roleData[gui.LinkRole][i][ref_col] = link
self._roleData[Qt.FontRole][i][ref_col] = font
self._roleData[Qt.ForegroundRole][i][ref_col] = color
def effective_point_size_for_width(
font: QFont,
width: float,
width_for_font: Callable[[QFont], float],
step=1.0,
minsize=1.,
) -> float:
start = max(QFontInfo(font).pointSizeF(), minsize)
font.setPointSizeF(start)
fix = 0
while width_for_font(font) > width and start - (fix + step) >= minsize:
fix += step
font.setPointSizeF(start - fix)
return QFontInfo(font).pointSizeF()
def createButton(self, action, background="light-orange"):
"""Create a tool button for action.
"""
button = WelcomeActionButton(self)
button.setDefaultAction(action)
button.setText(action.iconText())
button.setIcon(decorate_welcome_icon(action.icon(), background))
button.setToolTip(action.toolTip())
button.setFixedSize(100, 100)
button.setToolButtonStyle(Qt.ToolButtonTextUnderIcon)
font = QFont(button.font())
font.setPointSize(13)
button.setFont(font)
return button
def createButton(self, action, background="light-orange"):
"""Create a tool button for action.
"""
button = WelcomeActionButton(self)
button.setDefaultAction(action)
button.setText(action.iconText())
button.setIcon(decorate_welcome_icon(action.icon(), background))
button.setToolTip(action.toolTip())
button.setFixedSize(100, 100)
button.setToolButtonStyle(Qt.ToolButtonTextUnderIcon)
font = QFont(button.font())
font.setPointSize(13)
button.setFont(font)
return button
def setColumnLinks(self):
font = QFont()
font.setUnderline(True)
for i, link in enumerate(self._data):
self._roleData[gui.LinkRole][i][0] = gene.NCBI_DETAIL_LINK.format(
self._roleData[Qt.DisplayRole][i][0])
self._roleData[Qt.FontRole][i][0] = font
self._roleData[Qt.ForegroundRole][i][0] = QColor(Qt.blue)
self._roleData[
gui.LinkRole][i][1] = gene.ENSEMBL_DETAIL_LINK.format(
self._roleData[Qt.DisplayRole][i][1])
self._roleData[Qt.FontRole][i][1] = font
self._roleData[Qt.ForegroundRole][i][1] = QColor(Qt.blue)
def documentForScript(self, script=0):
if not isinstance(script, Script):
script = self.libraryList[script]
if script not in self._cachedDocuments:
doc = QTextDocument(self)
doc.setDocumentLayout(QPlainTextDocumentLayout(doc))
doc.setPlainText(script.script)
doc.setDefaultFont(QFont(self.defaultFont))
doc.highlighter = PygmentsHighlighter(doc)
doc.highlighter.set_style(self.pygments_style_class)
doc.setDefaultFont(
QFont(self.defaultFont, pointSize=self.defaultFontSize))
doc.modificationChanged[bool].connect(self.onModificationChanged)
doc.setModified(False)
self._cachedDocuments[script] = doc
return self._cachedDocuments[script]
def update_axes_ticks_font(items: List[pg.AxisItem],
**settings: _SettingType):
for item in items:
font = item.style["tickFont"] or QFont()
# remove when contained in setTickFont() - version 0.11.0
item.style['tickFont'] = font
item.setTickFont(Updater.change_font(font, settings))
def __init__(self, parent=None, orientation=Qt.Vertical, domain=None,
items=None, bg_color=QColor(232, 232, 232, 196),
font=None, color_indicator_cls=LegendItemSquare, **kwargs):
super().__init__(parent, **kwargs)
self._layout = None
self.orientation = orientation
self.bg_color = QBrush(bg_color)
self.color_indicator_cls = color_indicator_cls
# Set default font if none is given
if font is None:
self.font = QFont()
self.font.setPointSize(10)
else:
self.font = font
self.setFlags(QGraphicsWidget.ItemIsMovable |
QGraphicsItem.ItemIgnoresTransformations)
self._setup_layout()
if domain is not None:
self.set_domain(domain)
elif items is not None:
self.set_items(items)
def __init__(self,
parent: Optional[QGraphicsItem] = None,
items: Iterable[str] = (),
alignment: Union[Qt.AlignmentFlag,
Qt.Alignment] = Qt.AlignLeading,
orientation: Qt.Orientation = Qt.Vertical,
autoScale=False,
**kwargs: Any) -> None:
self.__items: List[str] = []
self.__textitems: List[QGraphicsSimpleTextItem] = []
self.__group: Optional[QGraphicsItemGroup] = None
self.__spacing = 0
self.__alignment = Qt.AlignmentFlag(alignment)
self.__orientation = orientation
self.__autoScale = autoScale
# The effective font when autoScale is in effect
self.__effectiveFont = QFont()
self.__widthCache = {}
sizePolicy = kwargs.pop("sizePolicy",
None) # type: Optional[QSizePolicy]
super().__init__(None, **kwargs)
self.setFlag(QGraphicsWidget.ItemClipsChildrenToShape, True)
sp = QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred)
sp.setWidthForHeight(True)
self.setSizePolicy(sp)
if sizePolicy is not None:
self.setSizePolicy(sizePolicy)
if parent is not None:
self.setParentItem(parent)
if items is not None:
self.setItems(items)
def _create_layout(self):
box = gui.widgetBox(self.mainArea, 'RMSE')
BOLD_FONT = QFont()
BOLD_FONT.setWeight(QFont.DemiBold)
widget = self
class HereTableWidget(QTableWidget):
def __init__(self, parent):
super().__init__(parent)
parent.layout().addWidget(self)
self.setHorizontalScrollMode(self.ScrollPerPixel)
self.setVerticalScrollMode(self.ScrollPerPixel)
def update_table(self, fusers, relations):
self.clear()
self.setRowCount(0)
self.setColumnCount(len(fusers))
self.setHorizontalHeaderLabels([fuser[0].name for fuser in fusers.values()])
for id, relation in relations.items():
row = self.rowCount()
self.insertRow(row)
if not np.ma.is_masked(relation.data):
widget.warning(id, 'Relation "{}" has no missing values '
'(mask)'.format(relation_str(relation)))
rmses = []
for fuser in fusers.values():
rep_rmse = []
for fuserfit in fuser:
if not fuserfit.can_complete(relation):
break
completion = fuserfit.complete(relation)
rep_rmse.append(RMSE(relation.data, completion))
rmses.append(np.mean(rep_rmse) if rep_rmse else None)
try: min_rmse = min(e for e in rmses if e is not None)
except ValueError: continue # No fuser could complete this relation
for col, rmse in enumerate(rmses):
if rmse is None: continue
item = QTableWidgetItem('{:.05f}'.format(rmse))
item.setFlags(Qt.ItemIsEnabled)
if rmse == min_rmse and len(rmses) > 1:
item.setFont(BOLD_FONT)
self.setItem(row, col, item)
self.setVerticalHeaderLabels([relation_str(i) for i in relations.values()])
self.resizeColumnsToContents()
self.resizeRowsToContents()
self.table = HereTableWidget(box)
def __init__(self, master):
super().__init__(master)
self.reg_line_label_font = QFont()
self.reg_line_settings = {
Updater.WIDTH_LABEL: self.DEFAULT_LINE_WIDTH,
Updater.ALPHA_LABEL: self.DEFAULT_LINE_ALPHA,
Updater.STYLE_LABEL: Updater.DEFAULT_LINE_STYLE,
}
def test_widget(self):
w = HeatmapGridWidget()
self.scene.addItem(w)
for p in self._Data.values():
w.setHeatmaps(p)
w.headerGeometry()
w.footerGeometry()
# Trigger the change events.
p = QPalette()
p.setColor(QPalette.All, QPalette.Text, Qt.red)
w.setPalette(p)
f = QFont()
f.setPointSizeF(19.5)
w.setFont(f)
def __init__(self, parent):
self.value_label_font = Updater.change_font(
QFont(), VariableItem.VALUE_FONT_SETTING)
self.label_len_setting = {
self.LABEL_LENGTH: VariableItem.MAX_LABEL_LEN
}
super().__init__()
self.master: FeaturesPlot = parent
def _init_table(self, nclasses):
item = self._item(0, 2)
item.setData("Predicted", Qt.DisplayRole)
item.setTextAlignment(Qt.AlignCenter)
item.setFlags(Qt.NoItemFlags)
self._set_item(0, 2, item)
item = self._item(2, 0)
item.setData("Actual", Qt.DisplayRole)
item.setTextAlignment(Qt.AlignHCenter | Qt.AlignBottom)
item.setFlags(Qt.NoItemFlags)
self.tableview.setItemDelegateForColumn(0, gui.VerticalItemDelegate())
self._set_item(2, 0, item)
self.tableview.setSpan(0, 2, 1, nclasses)
self.tableview.setSpan(2, 0, nclasses, 1)
font = self.tablemodel.invisibleRootItem().font()
bold_font = QFont(font)
bold_font.setBold(True)
for i in (0, 1):
for j in (0, 1):
item = self._item(i, j)
item.setFlags(Qt.NoItemFlags)
self._set_item(i, j, item)
for p, label in enumerate(self.headers):
for i, j in ((1, p + 2), (p + 2, 1)):
item = self._item(i, j)
item.setData(label, Qt.DisplayRole)
item.setFont(bold_font)
item.setTextAlignment(Qt.AlignRight | Qt.AlignVCenter)
item.setFlags(Qt.ItemIsEnabled)
if p < len(self.headers) - 1:
item.setData("br"[j == 1], BorderRole)
item.setData(QColor(192, 192, 192), BorderColorRole)
self._set_item(i, j, item)
hor_header = self.tableview.horizontalHeader()
if len(' '.join(self.headers)) < 120:
hor_header.setSectionResizeMode(QHeaderView.ResizeToContents)
else:
hor_header.setDefaultSectionSize(60)
self.tablemodel.setRowCount(nclasses + 3)
self.tablemodel.setColumnCount(nclasses + 3)
def _init_table(self, nclasses):
item = self._item(0, 2)
item.setData("Predicted", Qt.DisplayRole)
item.setTextAlignment(Qt.AlignCenter)
item.setFlags(Qt.NoItemFlags)
self._set_item(0, 2, item)
item = self._item(2, 0)
item.setData("Actual", Qt.DisplayRole)
item.setTextAlignment(Qt.AlignHCenter | Qt.AlignBottom)
item.setFlags(Qt.NoItemFlags)
self.tableview.setItemDelegateForColumn(0, gui.VerticalItemDelegate())
self._set_item(2, 0, item)
self.tableview.setSpan(0, 2, 1, nclasses)
self.tableview.setSpan(2, 0, nclasses, 1)
font = self.tablemodel.invisibleRootItem().font()
bold_font = QFont(font)
bold_font.setBold(True)
for i in (0, 1):
for j in (0, 1):
item = self._item(i, j)
item.setFlags(Qt.NoItemFlags)
self._set_item(i, j, item)
for p, label in enumerate(self.headers):
for i, j in ((1, p + 2), (p + 2, 1)):
item = self._item(i, j)
item.setData(label, Qt.DisplayRole)
item.setFont(bold_font)
item.setTextAlignment(Qt.AlignRight | Qt.AlignVCenter)
item.setFlags(Qt.ItemIsEnabled)
if p < len(self.headers) - 1:
item.setData("br"[j == 1], BorderRole)
item.setData(QColor(192, 192, 192), BorderColorRole)
self._set_item(i, j, item)
hor_header = self.tableview.horizontalHeader()
if len(' '.join(self.headers)) < 120:
hor_header.setSectionResizeMode(QHeaderView.ResizeToContents)
else:
hor_header.setDefaultSectionSize(60)
self.tablemodel.setRowCount(nclasses + 3)
self.tablemodel.setColumnCount(nclasses + 3)
def __width_for_font(self, font: QFont) -> float:
"""Return item width for the font"""
key = font.key()
if key in self.__widthCache:
return self.__widthCache[key]
fm = QFontMetricsF(font)
width = max((fm.width(text) for text in self.__items), default=0)
self.__widthCache[key] = width
return width
class FakeSignatureMixin:
def __init__(self, parent, highlighting_scheme, font):
super().__init__(parent)
self.highlighting_scheme = highlighting_scheme
self.setFont(font)
self.bold_font = QFont(font)
self.bold_font.setBold(True)
self.indentation_level = 0
self._char_4_width = QFontMetrics(font).horizontalAdvance('4444')
def setIndent(self, margins_width):
self.setContentsMargins(
max(
0,
round(margins_width) +
((self.indentation_level - 1) * self._char_4_width)), 0, 0, 0)
def paintEvent(self, e):
"""
:param e:
:return:
"""
self._is_painting = True
super(EventsWidget, self).paintEvent(e)
painter = QPainter()
painter.begin(self)
painter.setRenderHint(QPainter.Antialiasing)
painter.setFont(QFont('Decorative', 8))
slider_pos = self._scroll.sliderPosition()
start = slider_pos * self._scale
end = start + self.width() * self._scale
for i, track in enumerate(self._tracks):
if self._break_draw:
break
track.draw_events(painter,
start,
end,
track_index=i,
left_shift=-self._scroll.sliderPosition(),
scale=self._scale)
# Draw only from pixel start to end
painter.setPen(QtCore.Qt.DashLine)
painter.setOpacity(0.3)
# print('Draw', start, end, self._scale, self._scroll.sliderPosition(), self.width())
# Draw vertical lines
for x in range(start - (start % (100 * self._scale)), end,
100 * self._scale):
x2draw = (x - slider_pos * self._scale) // self._scale
painter.drawLine(x2draw, 20, x2draw, self.height())
string = str(x)
boundtext = painter.boundingRect(QtCore.QRectF(), string)
painter.drawText(x2draw - boundtext.width() / 2, 15, string)
for index, track in enumerate(self._tracks):
top = self.which_top(index)
# print(top)
painter.drawLine(0, top, self.width(), top)
painter.drawText(10, top + 15, track.title)
painter.setOpacity(1.0)
self._pointer.draw(painter, left_shift=-slider_pos,
scale=self._scale) # Draw the time pointer
painter.end()
self._break_draw = False
self._is_painting = False
def splash_screen():
# type: () -> Tuple[QPixmap, QRect]
"""
Return a splash screen pixmap and an text area within it.
The text area is used for displaying text messages during application
startup.
The default implementation returns a bland rectangle splash screen.
Returns
-------
t : Tuple[QPixmap, QRect]
A QPixmap and a rect area within it.
"""
path = pkg_resources.resource_filename(
__name__, "icons/orange-canvas-core-splash.svg")
pm = QPixmap(path)
version = QCoreApplication.applicationVersion()
if version:
version_parsed = LooseVersion(version)
version_comp = version_parsed.version
version = ".".join(map(str, version_comp[:2]))
size = 21 if len(version) < 5 else 16
font = QFont()
font.setPixelSize(size)
font.setBold(True)
font.setItalic(True)
font.setLetterSpacing(QFont.AbsoluteSpacing, 2)
metrics = QFontMetrics(font)
br = metrics.boundingRect(version).adjusted(-5, 0, 5, 0)
br.moveBottomRight(QPoint(pm.width() - 15, pm.height() - 15))
p = QPainter(pm)
p.setRenderHint(QPainter.Antialiasing)
p.setRenderHint(QPainter.TextAntialiasing)
p.setFont(font)
p.setPen(QColor("#231F20"))
p.drawText(br, Qt.AlignCenter, version)
p.end()
textarea = QRect(15, 15, 170, 20)
return pm, textarea
def __init__(self, parent, label: str):
self.__name: str = None
self.__value: Optional[str] = None
self.__name_item = QGraphicsSimpleTextItem()
self.__value_item = QGraphicsSimpleTextItem()
font = Updater.change_font(QFont(), self.VALUE_FONT_SETTING)
self.__value_item.setFont(font)
self.__max_len = self.MAX_LABEL_LEN
super().__init__(parent)
self._set_data(label)
def paintEvent(self, e):
# call the base implementation to paint normal interface
super(GaugeWidgetVertical, self).paintEvent(e)
draw = QPainter()
draw.begin(self)
window_with = self.width() - 1
diff = (self._higher - self._lower) * self.scale
try:
self._step = float(self.height()) / float(diff)
except ZeroDivisionError:
self._step = 0
y_start = self.height() - (self._minVal -
self._lower) * self._step * self.scale
y_end = self.height() - (self._maxVal -
self._lower) * self._step * self.scale
draw.setOpacity(1.0)
draw.setBrush(QtCore.Qt.NoBrush)
draw.setPen(QColor(200, 200, 255))
b = int(self.height() / 5)
e = int(self.height() - (self.height() / 5) + 1)
s = int(self.height() / 5)
for i in range(b, e, s):
draw.drawLine(0, i, window_with, i)
draw.setBrush(QColor(33, 133, 208))
draw.setPen(QColor(33, 133, 208))
draw.setOpacity(0.7)
draw.drawRect(0, y_start, window_with, y_end - y_start)
draw.setFont(QFont('Decorative', 8))
draw.setPen(QColor(30, 30, 30))
draw.drawText(
3,
self.height() - 3,
str(self._lower) if self._use_float else str(
int(round(self._lower))))
draw.drawText(
3, 10,
str(self._higher) if self._use_float else str(
int(round(self._higher))))
draw.drawText(
3, y_start + 11,
str(self._minVal) if self._use_float else str(
int(round(self._minVal))))
draw.drawText(
3, y_end - 4,
str(self._maxVal) if self._use_float else str(
int(round(self._maxVal))))
draw.end()
def font_from_dict(font_dict, font=None):
if font is None:
font = QFont()
else:
font = QFont(font)
if "family" in font_dict:
font.setFamily(font_dict["family"])
if "size" in font_dict:
font.setPixelSize(font_dict["size"])
return font
def _updateFontSize(self):
crect = self.contentsRect()
if self.orientation() == Qt.Vertical:
h = crect.height()
else:
h = crect.width()
n = self.count()
if n == 0:
return
if self.scene() is not None:
maxfontsize = self.scene().font().pointSize()
else:
maxfontsize = QApplication.instance().font().pointSize()
lineheight = max(1., h / n)
fontsize = min(self._point_size(lineheight), maxfontsize)
font_ = QFont()
font_.setPointSize(fontsize)
self.setFont(font_)
def paintEvent(self, event):
"""
Paint event
:param event:
"""
super(TimelineWidget, self).paintEvent(event)
painter = QPainter()
painter.begin(self)
painter.setRenderHint(QPainter.Antialiasing)
painter.setFont(QFont('Decorative', 8))
# find the start and end X coordinate to draw
start = self.scrollbar.sliderPosition()
end = start + self.parent().width() + 50
# Draw graphs ##########################################################
if len(self._graphs) > 0:
painter.setPen(QtCore.Qt.black)
middle = self.height() // 2
painter.setOpacity(0.1)
painter.drawLine(start, middle, end, middle)
for chart in self._graphs:
chart.draw(painter, start, end, 0, self.height())
# End draw graph #######################################################
for track in self.tracks:
track.draw_title(painter, start, end)
self.__draw_track_lines(painter, start, end)
if self._selected_track is not None:
self._selected_track.draw_background(painter, start, end)
for track in self.tracks:
track.draw_events(painter, start, end)
# Draw the selected element
if self._selected != None:
painter.setBrush(QColor(255, 0, 0))
self._selected.draw(painter, showvalues=True)
# Draw the time pointer
self._pointer.draw(painter, highlight=self._creating_event)
painter.end()
if not hasattr(self, '_is_refreshing'):
self._is_refreshing = True
self.update()
else:
del self._is_refreshing
def __init__(self):
def update_font_family(**settings):
for label in self.initial_settings[self.LABELS_BOX]:
if label != self.FONT_FAMILY_LABEL:
setter = self._setters[self.LABELS_BOX][label]
setter(**settings)
def update_title(**settings):
Updater.update_plot_title_font(self.title_item, **settings)
def update_label(**settings):
self.label_font = Updater.change_font(self.label_font, settings)
Updater.update_label_font(self.labels, self.label_font)
def update_axes_titles(**settings):
Updater.update_axes_titles_font(self.axis_items, **settings)
def update_axes_ticks(**settings):
Updater.update_axes_ticks_font(self.axis_items, **settings)
def update_legend(**settings):
self.legend_settings.update(**settings)
Updater.update_legend_font(self.legend_items, **settings)
def update_title_text(**settings):
Updater.update_plot_title_text(self.title_item,
settings[self.TITLE_LABEL])
def update_axis(axis, **settings):
Updater.update_axis_title_text(self.getAxis(axis),
settings[self.TITLE_LABEL])
self.label_font = QFont()
self.legend_settings = {}
self._setters = {
self.LABELS_BOX: {
self.FONT_FAMILY_LABEL: update_font_family,
self.TITLE_LABEL: update_title,
self.LABEL_LABEL: update_label,
self.AXIS_TITLE_LABEL: update_axes_titles,
self.AXIS_TICKS_LABEL: update_axes_ticks,
self.LEGEND_LABEL: update_legend,
},
self.ANNOT_BOX: {
self.TITLE_LABEL: update_title_text,
self.X_AXIS_LABEL: lambda **kw: update_axis("bottom", **kw),
self.Y_AXIS_LABEL: lambda **kw: update_axis("left", **kw),
}
}
self.update_setters()
self._check_setters()
def qfont_scaled(font, factor):
scaled = QFont(font)
if font.pointSizeF() != -1:
scaled.setPointSizeF(font.pointSizeF() * factor)
elif font.pixelSize() != -1:
scaled.setPixelSize(int(font.pixelSize() * factor))
return scaled
def font_from_dict(font_dict, font=None):
# type: (dict, Optional[QFont]) -> QFont
if font is None:
font = QFont()
else:
font = QFont(font)
if "family" in font_dict:
font.setFamily(font_dict["family"])
if "size" in font_dict:
font.setPixelSize(font_dict["size"])
return font
def paintEvent(self, e):
# call the base implementation to paint normal interface
QWidget.paintEvent(self, e);
draw = QPainter();
draw.begin(self)
h = self.height() - 1
diff = (self._higher - self._lower) * self.scale
try:
self._step = float(self.width()) / float(diff)
except ZeroDivisionError:
self._step = 0
x_start = (self._minVal - self._lower) * self._step * self.scale
x_end = (self._maxVal - self._lower) * self._step * self.scale
draw.setOpacity(1.0)
draw.setBrush(QtCore.Qt.NoBrush)
draw.setPen(QColor(200, 200, 255))
for i in range( int(self.width()/5), int(self.width()-self.width()/5) + 1, int(self.width()/5) ):
draw.drawLine(i, 0, i, h)
draw.setBrush(QColor(238, 238, 238))
draw.setPen(QColor(238, 238, 238))
draw.drawRoundedRect(0, 2, self.width(), h - 4, 3, 3)
draw.setBrush(QColor(33, 133, 208))
draw.setPen(QColor(33, 133, 208))
draw.drawRoundedRect(int(round(x_start)), 2, int(round(x_end - x_start)), h - 4, 3, 3)
# draw.setOpacity(1.0)
draw.setFont(QFont('Decorative', 8))
draw.setPen(QColor(80, 80, 80))
str(self._maxVal) if self._use_float else str(int(round(self._maxVal)))
boundtext = draw.boundingRect(QtCore.QRectF(),
str(self._higher) if self._use_float else str(int(round(self._higher))))
draw.drawText(self.width() - boundtext.width(), 14,
str(self._higher) if self._use_float else str(int(round(self._higher))))
draw.drawText(0, 14, str(self._lower) if self._use_float else str(int(round(self._lower))))
draw.setPen(QColor(255, 255, 255))
boundtext = draw.boundingRect(QtCore.QRectF(),
str(self._minVal) if self._use_float else str(int(round(self._minVal))))
draw.drawText(x_start + 2, 14, str(self._minVal) if self._use_float else str(int(round(self._minVal))))
boundtext = draw.boundingRect(QtCore.QRectF(),
str(self._maxVal) if self._use_float else str(int(round(self._maxVal))))
draw.drawText(x_end - boundtext.width(), 14,
str(self._maxVal) if self._use_float else str(int(round(self._maxVal))))
draw.end()
def documentForScript(self, script=0):
if type(script) != Script:
script = self.libraryList[script]
if script not in self._cachedDocuments:
doc = QTextDocument(self)
doc.setDocumentLayout(QPlainTextDocumentLayout(doc))
doc.setPlainText(script.script)
doc.setDefaultFont(QFont(self.defaultFont))
doc.highlighter = PythonSyntaxHighlighter(doc)
doc.modificationChanged[bool].connect(self.onModificationChanged)
doc.setModified(False)
self._cachedDocuments[script] = doc
return self._cachedDocuments[script]
def default_font_size() -> int:
"""
Function returns default font size in points used in Qt application.
Can be used to instantiate initial dialog state.
Returns
-------
size: int
Default font size in points.
"""
if not QApplication.instance():
_ = QApplication(sys.argv)
return QFont().pointSize()
def default_font_family() -> str:
"""
Function returns default font family used in Qt application.
Can be used to instantiate initial dialog state.
Returns
-------
font: str
Default font family.
"""
if not QApplication.instance():
_ = QApplication(sys.argv)
return QFont().family()
def test_combobox(self):
cb = ItemStyledComboBox()
cb.setPlaceholderText("...")
self.assertEqual(cb.placeholderText(), "...")
cb.grab()
cb.addItems(["1"])
cb.setCurrentIndex(0)
model = cb.model()
model.setItemData(model.index(0, 0), {
Qt.ForegroundRole: QColor(Qt.blue),
Qt.FontRole: QFont("Windings")
})
cb.grab()
def splash_screen():
# type: () -> Tuple[QPixmap, QRect]
"""
Return a splash screen pixmap and an text area within it.
The text area is used for displaying text messages during application
startup.
The default implementation returns a bland rectangle splash screen.
Returns
-------
t : Tuple[QPixmap, QRect]
A QPixmap and a rect area within it.
"""
path = pkg_resources.resource_filename(
__name__, "icons/orange-canvas-core-splash.svg")
pm = QPixmap(path)
version = QCoreApplication.applicationVersion()
if version:
version_parsed = LooseVersion(version)
version_comp = version_parsed.version
version = ".".join(map(str, version_comp[:2]))
size = 21 if len(version) < 5 else 16
font = QFont()
font.setPixelSize(size)
font.setBold(True)
font.setItalic(True)
font.setLetterSpacing(QFont.AbsoluteSpacing, 2)
metrics = QFontMetrics(font)
br = metrics.boundingRect(version).adjusted(-5, 0, 5, 0)
br.moveBottomRight(QPoint(pm.width() - 15, pm.height() - 15))
p = QPainter(pm)
p.setRenderHint(QPainter.Antialiasing)
p.setRenderHint(QPainter.TextAntialiasing)
p.setFont(font)
p.setPen(QColor("#231F20"))
p.drawText(br, Qt.AlignCenter, version)
p.end()
textarea = QRect(15, 15, 170, 20)
return pm, textarea
def font_from_dict(font_dict, font=None):
if font is None:
font = QFont()
else:
font = QFont(font)
if "family" in font_dict:
font.setFamily(font_dict["family"])
if "size" in font_dict:
font.setPixelSize(font_dict["size"])
return font
def fix_osx_10_9_private_font():
# Fix fonts on Os X (QTBUG 47206, 40833, 32789)
if sys.platform == "darwin":
import platform
try:
version = platform.mac_ver()[0]
version = float(version[:version.rfind(".")])
if version >= 10.11: # El Capitan
QFont.insertSubstitution(".SF NS Text", "Helvetica Neue")
elif version >= 10.10: # Yosemite
QFont.insertSubstitution(".Helvetica Neue DeskInterface",
"Helvetica Neue")
elif version >= 10.9:
QFont.insertSubstitution(".Lucida Grande UI", "Lucida Grande")
except AttributeError:
pass
def add_main_layout(self):
self.data = None
self.preprocessors = None
self.learner = None
self.scatterplot_item = None
self.plot_item = None
self.x_label = 'x'
self.y_label = 'y'
box = gui.vBox(self.controlArea, "Variables")
self.x_var_model = itemmodels.VariableListModel()
self.comboBoxAttributesX = gui.comboBox(
box, self, value='x_var_index', label="Input: ",
orientation=Qt.Horizontal, callback=self.apply, contentsLength=12)
self.comboBoxAttributesX.setSizePolicy(
QSizePolicy.MinimumExpanding, QSizePolicy.Fixed)
self.comboBoxAttributesX.setModel(self.x_var_model)
gui.doubleSpin(
gui.indentedBox(box),
self, "polynomialexpansion", 0, 10,
label="Polynomial expansion:", callback=self.apply)
gui.separator(box, height=8)
self.y_var_model = itemmodels.VariableListModel()
self.comboBoxAttributesY = gui.comboBox(
box, self, value="y_var_index", label="Target: ",
orientation=Qt.Horizontal, callback=self.apply, contentsLength=12)
self.comboBoxAttributesY.setSizePolicy(
QSizePolicy.MinimumExpanding, QSizePolicy.Fixed)
self.comboBoxAttributesY.setModel(self.y_var_model)
gui.rubber(self.controlArea)
# main area GUI
self.plotview = pg.PlotWidget(background="w")
self.plot = self.plotview.getPlotItem()
axis_color = self.palette().color(QPalette.Text)
axis_pen = QPen(axis_color)
tickfont = QFont(self.font())
tickfont.setPixelSize(max(int(tickfont.pixelSize() * 2 // 3), 11))
axis = self.plot.getAxis("bottom")
axis.setLabel(self.x_label)
axis.setPen(axis_pen)
axis.setTickFont(tickfont)
axis = self.plot.getAxis("left")
axis.setLabel(self.y_label)
axis.setPen(axis_pen)
axis.setTickFont(tickfont)
self.plot.setRange(xRange=(0.0, 1.0), yRange=(0.0, 1.0),
disableAutoRange=True)
self.mainArea.layout().addWidget(self.plotview)
class Legend(Anchorable):
"""Base legend class.
This class provides common attributes for any legend subclasses:
- Behaviour on `QGraphicsScene`
- Appearance of legend
Parameters
----------
parent : QGraphicsItem, optional
orientation : Qt.Orientation, optional
The default orientation is vertical
domain : Orange.data.domain.Domain, optional
This field is left optional as in some cases, we may want to simply
pass in a list that represents the legend.
items : Iterable[QColor, str]
bg_color : QColor, optional
font : QFont, optional
color_indicator_cls : ColorIndicator
The color indicator class that will be used to render the indicators.
See Also
--------
OWDiscreteLegend
OWContinuousLegend
OWContinuousLegend
Notes
-----
.. warning:: If the domain parameter is supplied, the items parameter will
be ignored.
"""
def __init__(self, parent=None, orientation=Qt.Vertical, domain=None,
items=None, bg_color=QColor(232, 232, 232, 196),
font=None, color_indicator_cls=LegendItemSquare, **kwargs):
super().__init__(parent, **kwargs)
self._layout = None
self.orientation = orientation
self.bg_color = QBrush(bg_color)
self.color_indicator_cls = color_indicator_cls
# Set default font if none is given
if font is None:
self.font = QFont()
self.font.setPointSize(10)
else:
self.font = font
self.setFlags(QGraphicsWidget.ItemIsMovable |
QGraphicsItem.ItemIgnoresTransformations)
self._setup_layout()
if domain is not None:
self.set_domain(domain)
elif items is not None:
self.set_items(items)
def _clear_layout(self):
self._layout = None
for child in self.children():
child.setParent(None)
def _setup_layout(self):
self._clear_layout()
self._layout = QGraphicsLinearLayout(self.orientation)
self._layout.setContentsMargins(10, 5, 10, 5)
# If horizontal, there needs to be horizontal space between the items
if self.orientation == Qt.Horizontal:
self._layout.setSpacing(10)
# If vertical spacing, vertical space is provided by child layouts
else:
self._layout.setSpacing(0)
self.setLayout(self._layout)
def set_domain(self, domain):
"""Handle receiving the domain object.
Parameters
----------
domain : Orange.data.domain.Domain
Returns
-------
Raises
------
AttributeError
If the domain does not contain the correct type of class variable.
"""
raise NotImplementedError()
def set_items(self, values):
"""Handle receiving an array of items.
Parameters
----------
values : iterable[object, QColor]
Returns
-------
"""
raise NotImplementedError()
@staticmethod
def _convert_to_color(obj):
if isinstance(obj, QColor):
return obj
elif isinstance(obj, tuple) or isinstance(obj, list):
assert len(obj) in (3, 4)
return QColor(*obj)
else:
return QColor(obj)
def setVisible(self, is_visible):
"""Only display the legend if it contains any items."""
return super().setVisible(is_visible and len(self._layout) > 0)
def paint(self, painter, options, widget=None):
painter.save()
pen = QPen(QColor(196, 197, 193, 200), 1)
brush = QBrush(QColor(self.bg_color))
painter.setPen(pen)
painter.setBrush(brush)
painter.drawRect(self.contentsRect())
painter.restore()
def __init__(self, data):
icon = QApplication.style().standardIcon(QStyle.SP_MessageBoxWarning)
F = self.DataField
def _finished(*, key=(data.get(F.MODULE),
data.get(F.WIDGET_MODULE)),
filename=data.get(F.WIDGET_SCHEME)):
self._cache.add(key)
try:
os.remove(filename)
except Exception:
pass
super().__init__(None, Qt.Window, modal=True,
sizeGripEnabled=True, windowIcon=icon,
windowTitle='Unexpected Error',
finished=_finished)
self._data = data
layout = QVBoxLayout(self)
self.setLayout(layout)
labels = QWidget(self)
labels_layout = QHBoxLayout(self)
labels.setLayout(labels_layout)
labels_layout.addWidget(QLabel(pixmap=icon.pixmap(50, 50)))
labels_layout.addWidget(QLabel(
'The program encountered an unexpected error. Please<br>'
'report it anonymously to the developers.<br><br>'
'The following data will be reported:'))
labels_layout.addStretch(1)
layout.addWidget(labels)
font = QFont('Monospace', 10)
font.setStyleHint(QFont.Monospace)
font.setFixedPitch(True)
textbrowser = QTextBrowser(self,
font=font,
openLinks=False,
lineWrapMode=QTextBrowser.NoWrap,
anchorClicked=QDesktopServices.openUrl)
layout.addWidget(textbrowser)
def _reload_text():
add_scheme = cb.isChecked()
settings.setValue('error-reporting/add-scheme', add_scheme)
lines = ['<table>']
for k, v in data.items():
if k.startswith('_'):
continue
_v, v = v, escape(str(v))
if k == F.WIDGET_SCHEME:
if not add_scheme:
continue
v = '<a href="{}">{}</a>'.format(urljoin('file:', pathname2url(_v)), v)
if k in (F.STACK_TRACE, F.LOCALS):
v = v.replace('\n', '<br>').replace(' ', ' ')
lines.append('<tr><th align="left">{}:</th><td>{}</td></tr>'.format(k, v))
lines.append('</table>')
textbrowser.setHtml(''.join(lines))
settings = QSettings()
cb = QCheckBox(
'Include workflow (data will NOT be transmitted)', self,
checked=settings.value('error-reporting/add-scheme', True, type=bool))
cb.stateChanged.connect(_reload_text)
_reload_text()
layout.addWidget(cb)
buttons = QWidget(self)
buttons_layout = QHBoxLayout(self)
buttons.setLayout(buttons_layout)
buttons_layout.addWidget(
QPushButton('Send Report (Thanks!)', default=True, clicked=self.accept))
buttons_layout.addWidget(QPushButton("Don't Send", default=False, clicked=self.reject))
layout.addWidget(buttons)
def update_font(basefont, weight=None, italic=None, underline=None,
pixelSize=None, pointSize=None):
"""
Return a copy of `basefont` :class:`QFont` with updated properties.
"""
font = QFont(basefont)
if weight is not None:
font.setWeight(weight)
if italic is not None:
font.setItalic(italic)
if underline is not None:
font.setUnderline(underline)
if pixelSize is not None:
font.setPixelSize(pixelSize)
if pointSize is not None:
font.setPointSize(pointSize)
return font
def _init_ui(self):
namesBox = gui.vBox(self.controlArea, "Names")
hbox = gui.hBox(namesBox, margin=0, spacing=0)
gui.lineEdit(hbox, self, "attr1", "Variable X: ",
controlWidth=80, orientation=Qt.Horizontal,
callback=self._attr_name_changed)
gui.separator(hbox, 21)
hbox = gui.hBox(namesBox, margin=0, spacing=0)
attr2 = gui.lineEdit(hbox, self, "attr2", "Variable Y: ",
controlWidth=80, orientation=Qt.Horizontal,
callback=self._attr_name_changed)
gui.separator(hbox)
gui.checkBox(hbox, self, "hasAttr2", '', disables=attr2,
labelWidth=0,
callback=self.set_dimensions)
gui.separator(namesBox)
gui.widgetLabel(namesBox, "Labels")
self.classValuesView = listView = QListView(
selectionMode=QListView.SingleSelection,
sizePolicy=QSizePolicy(QSizePolicy.Ignored,
QSizePolicy.Maximum)
)
listView.setModel(self.class_model)
itemmodels.select_row(listView, 0)
namesBox.layout().addWidget(listView)
self.addClassLabel = QAction(
"+", self,
toolTip="Add new class label",
triggered=self.add_new_class_label
)
self.removeClassLabel = QAction(
unicodedata.lookup("MINUS SIGN"), self,
toolTip="Remove selected class label",
triggered=self.remove_selected_class_label
)
actionsWidget = itemmodels.ModelActionsWidget(
[self.addClassLabel, self.removeClassLabel], self
)
actionsWidget.layout().addStretch(10)
actionsWidget.layout().setSpacing(1)
namesBox.layout().addWidget(actionsWidget)
tBox = gui.vBox(self.controlArea, "Tools", addSpace=True)
buttonBox = gui.hBox(tBox)
toolsBox = gui.widgetBox(buttonBox, orientation=QGridLayout())
self.toolActions = QActionGroup(self)
self.toolActions.setExclusive(True)
self.toolButtons = []
for i, (name, tooltip, tool, icon) in enumerate(self.TOOLS):
action = QAction(
name, self,
toolTip=tooltip,
checkable=tool.checkable,
icon=QIcon(icon),
)
action.triggered.connect(partial(self.set_current_tool, tool))
button = QToolButton(
iconSize=QSize(24, 24),
toolButtonStyle=Qt.ToolButtonTextUnderIcon,
sizePolicy=QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.Fixed)
)
button.setDefaultAction(action)
self.toolButtons.append((button, tool))
toolsBox.layout().addWidget(button, i / 3, i % 3)
self.toolActions.addAction(action)
for column in range(3):
toolsBox.layout().setColumnMinimumWidth(column, 10)
toolsBox.layout().setColumnStretch(column, 1)
undo = self.undo_stack.createUndoAction(self)
redo = self.undo_stack.createRedoAction(self)
undo.setShortcut(QKeySequence.Undo)
redo.setShortcut(QKeySequence.Redo)
self.addActions([undo, redo])
self.undo_stack.indexChanged.connect(lambda _: self.invalidate())
gui.separator(tBox)
indBox = gui.indentedBox(tBox, sep=8)
form = QFormLayout(
formAlignment=Qt.AlignLeft,
labelAlignment=Qt.AlignLeft,
fieldGrowthPolicy=QFormLayout.AllNonFixedFieldsGrow
)
indBox.layout().addLayout(form)
slider = gui.hSlider(
indBox, self, "brushRadius", minValue=1, maxValue=100,
createLabel=False
)
form.addRow("Radius:", slider)
slider = gui.hSlider(
indBox, self, "density", None, minValue=1, maxValue=100,
createLabel=False
)
form.addRow("Intensity:", slider)
self.btResetToInput = gui.button(
tBox, self, "Reset to Input Data", self.reset_to_input)
self.btResetToInput.setDisabled(True)
gui.rubber(self.controlArea)
gui.auto_commit(self.left_side, self, "autocommit",
"Send")
# main area GUI
viewbox = PaintViewBox(enableMouse=False)
self.plotview = pg.PlotWidget(background="w", viewBox=viewbox)
self.plotview.sizeHint = lambda: QSize(200, 100) # Minimum size for 1-d painting
self.plot = self.plotview.getPlotItem()
axis_color = self.palette().color(QPalette.Text)
axis_pen = QPen(axis_color)
tickfont = QFont(self.font())
tickfont.setPixelSize(max(int(tickfont.pixelSize() * 2 // 3), 11))
axis = self.plot.getAxis("bottom")
axis.setLabel(self.attr1)
axis.setPen(axis_pen)
axis.setTickFont(tickfont)
axis = self.plot.getAxis("left")
axis.setLabel(self.attr2)
axis.setPen(axis_pen)
axis.setTickFont(tickfont)
if not self.hasAttr2:
self.plot.hideAxis('left')
self.plot.hideButtons()
self.plot.setXRange(0, 1, padding=0.01)
self.mainArea.layout().addWidget(self.plotview)
# enable brush tool
self.toolActions.actions()[0].setChecked(True)
self.set_current_tool(self.TOOLS[0][2])
self.set_dimensions()
def add_main_layout(self):
self.data = None
self.learner = None
self.scatterplot_item = None
self.plot_item = None
self.x_label = 'x'
self.y_label = 'y'
self.rmse = ""
self.mae = ""
self.regressor_name = self.default_learner_name
# info box
info_box = gui.vBox(self.controlArea, "Info")
self.regressor_label = gui.label(
widget=info_box, master=self,
label="Regressor: %(regressor_name).30s")
gui.label(widget=info_box, master=self,
label="Mean absolute error: %(mae).6s")
gui.label(widget=info_box, master=self,
label="Root mean square error: %(rmse).6s")
box = gui.vBox(self.controlArea, "Variables")
self.x_var_model = itemmodels.VariableListModel()
self.comboBoxAttributesX = gui.comboBox(
box, self, value='x_var_index', label="Input: ",
orientation=Qt.Horizontal, callback=self.apply,
maximumContentsLength=15)
self.comboBoxAttributesX.setModel(self.x_var_model)
self.expansion_spin = gui.doubleSpin(
gui.indentedBox(box),
self, "polynomialexpansion", 0, 10,
label="Polynomial expansion:", callback=self.apply)
gui.separator(box, height=8)
self.y_var_model = itemmodels.VariableListModel()
self.comboBoxAttributesY = gui.comboBox(
box, self, value="y_var_index", label="Target: ",
orientation=Qt.Horizontal, callback=self.apply,
maximumContentsLength=15)
self.comboBoxAttributesY.setModel(self.y_var_model)
properties_box = gui.vBox(self.controlArea, "Properties")
self.error_bars_checkbox = gui.checkBox(
widget=properties_box, master=self, value='error_bars_enabled',
label="Show error bars", callback=self.apply)
gui.rubber(self.controlArea)
# main area GUI
self.plotview = pg.PlotWidget(background="w")
self.plot = self.plotview.getPlotItem()
axis_color = self.palette().color(QPalette.Text)
axis_pen = QPen(axis_color)
tickfont = QFont(self.font())
tickfont.setPixelSize(max(int(tickfont.pixelSize() * 2 // 3), 11))
axis = self.plot.getAxis("bottom")
axis.setLabel(self.x_label)
axis.setPen(axis_pen)
axis.setTickFont(tickfont)
axis = self.plot.getAxis("left")
axis.setLabel(self.y_label)
axis.setPen(axis_pen)
axis.setTickFont(tickfont)
self.plot.setRange(xRange=(0.0, 1.0), yRange=(0.0, 1.0),
disableAutoRange=True)
self.mainArea.layout().addWidget(self.plotview)
def __on_enrichment_finished(self, results):
assert QThread.currentThread() is self.thread()
self.__state &= ~OWSetEnrichment.RunningEnrichment
query, reference, results = results
results = results # type: List[Tuple[geneset.GeneSet, enrichment_res]]
nquery = len(query)
nref = len(reference)
maxcount = max((len(e.query_mapped) for _, e in results),
default=1)
maxrefcount = max((len(e.reference_mapped) for _, e in results),
default=1)
nspaces = int(math.ceil(math.log10(maxcount or 1)))
refspaces = int(math.ceil(math.log(maxrefcount or 1)))
query_fmt = "%" + str(nspaces) + "s (%.2f%%)"
ref_fmt = "%" + str(refspaces) + "s (%.2f%%)"
def fmt_count(fmt, count, total):
return fmt % (count, 100.0 * count / (total or 1))
fmt_query_count = partial(fmt_count, query_fmt, total=nquery)
fmt_ref_count = partial(fmt_count, ref_fmt, total=nref)
view = self.annotationsChartView
delegate = view.itemDelegateForColumn(ResultsModel.Count)
if delegate is not None:
delegate.deleteLater()
delegate = view.itemDelegateForColumn(ResultsModel.Reference)
if delegate is not None:
delegate.deleteLater()
view.setItemDelegateForColumn(
ResultsModel.Count, FormatItemDelegate(fmt_query_count, self)
)
view.setItemDelegateForColumn(
ResultsModel.Reference, FormatItemDelegate(fmt_ref_count, self)
)
linkFont = QFont(self.annotationsChartView.viewOptions().font)
linkFont.setUnderline(True)
def item(value=None, tooltip=None, user=None):
si = QStandardItem()
if value is not None:
si.setData(value, Qt.DisplayRole)
if tooltip is not None:
si.setData(tooltip, Qt.ToolTipRole)
if user is not None:
si.setData(user, Qt.UserRole)
else:
si.setData(value, Qt.UserRole)
return si
model = ResultsModel(parent=self)
for i, (gset, enrich) in enumerate(results):
if len(enrich.query_mapped) == 0:
continue
nquery_mapped = len(enrich.query_mapped)
nref_mapped = len(enrich.reference_mapped)
row = [
item(", ".join(gset.hierarchy)),
item(gsname(gset), tooltip=gset.link),
item(nquery_mapped, tooltip=nquery_mapped, user=nquery_mapped),
item(nref_mapped, tooltip=nref_mapped, user=nref_mapped),
item(enrich.p_value, user=enrich.p_value),
item(np.nan), # column 5, FDR, is computed in _updateFDR
item(enrich.enrichment_score,
tooltip="%.3f" % enrich.enrichment_score,
user=enrich.enrichment_score)
]
row[0].geneset = gset
row[0].enrichment = enrich
if gset.link:
row[1].setData(gset.link, gui.LinkRole)
row[1].setFont(linkFont)
row[1].setForeground(QColor(Qt.blue))
model.appendRow(row)
currmodel = self.proxy.sourceModel()
currmodel.deleteLater()
self.proxy.setSourceModel(model)
if not model.rowCount():
self.warning(0, "No enriched sets found.")
else:
self.warning(0)
allnames = set(gsname(geneset)
for geneset, (count, _, _, _) in results if count)
allnames |= reduce(operator.ior,
(set(word_split(name)) for name in allnames),
set())
self.filterCompleter.setModel(None)
self.completerModel = QStringListModel(sorted(allnames))
self.filterCompleter.setModel(self.completerModel)
if results:
max_score = max((e.enrichment_score for _, e in results
if np.isfinite(e.enrichment_score)),
default=1)
self.annotationsChartView.setItemDelegateForColumn(
ResultsModel.Enrichment,
BarItemDelegate(self, scale=(0.0, max_score))
)
self.annotationsChartView.setItemDelegateForColumn(
ResultsModel.TermID,
gui.LinkStyledItemDelegate(self.annotationsChartView)
)
self._updateFDR()
self.filterAnnotationsChartView()
header = self.annotationsChartView.header()
for i in range(model.columnCount()):
sh = self.annotationsChartView.sizeHintForColumn(i)
sh = max(header.sectionSizeHint(i), sh)
width = self.annotationsChartView.columnWidth(i)
if min(sh, 300) > width:
self.annotationsChartView.setColumnWidth(i, max(min(sh, 300), 30))
self.progressBarFinished()
self.setStatusMessage("")
def __init__(self):
super().__init__()
self.results = None
self.classifier_names = []
self.perf_line = None
self.colors = []
self._curve_data = {}
self._plot_curves = {}
self._rocch = None
self._perf_line = None
box = gui.vBox(self.controlArea, "Plot")
tbox = gui.vBox(box, "Target Class")
tbox.setFlat(True)
self.target_cb = gui.comboBox(
tbox, self, "target_index", callback=self._on_target_changed,
contentsLength=8)
cbox = gui.vBox(box, "Classifiers")
cbox.setFlat(True)
self.classifiers_list_box = gui.listBox(
cbox, self, "selected_classifiers", "classifier_names",
selectionMode=QListView.MultiSelection,
callback=self._on_classifiers_changed)
abox = gui.vBox(box, "Combine ROC Curves From Folds")
abox.setFlat(True)
gui.comboBox(abox, self, "roc_averaging",
items=["Merge Predictions from Folds", "Mean TP Rate",
"Mean TP and FP at Threshold", "Show Individual Curves"],
callback=self._replot)
hbox = gui.vBox(box, "ROC Convex Hull")
hbox.setFlat(True)
gui.checkBox(hbox, self, "display_convex_curve",
"Show convex ROC curves", callback=self._replot)
gui.checkBox(hbox, self, "display_convex_hull",
"Show ROC convex hull", callback=self._replot)
box = gui.vBox(self.controlArea, "Analysis")
gui.checkBox(box, self, "display_def_threshold",
"Default threshold (0.5) point",
callback=self._on_display_def_threshold_changed)
gui.checkBox(box, self, "display_perf_line", "Show performance line",
callback=self._on_display_perf_line_changed)
grid = QGridLayout()
ibox = gui.indentedBox(box, orientation=grid)
sp = gui.spin(box, self, "fp_cost", 1, 1000, 10,
callback=self._on_display_perf_line_changed)
grid.addWidget(QLabel("FP Cost:"), 0, 0)
grid.addWidget(sp, 0, 1)
sp = gui.spin(box, self, "fn_cost", 1, 1000, 10,
callback=self._on_display_perf_line_changed)
grid.addWidget(QLabel("FN Cost:"))
grid.addWidget(sp, 1, 1)
sp = gui.spin(box, self, "target_prior", 1, 99,
callback=self._on_display_perf_line_changed)
sp.setSuffix("%")
sp.addAction(QAction("Auto", sp))
grid.addWidget(QLabel("Prior target class probability:"))
grid.addWidget(sp, 2, 1)
self.plotview = pg.GraphicsView(background="w")
self.plotview.setFrameStyle(QFrame.StyledPanel)
self.plot = pg.PlotItem(enableMenu=False)
self.plot.setMouseEnabled(False, False)
self.plot.hideButtons()
pen = QPen(self.palette().color(QPalette.Text))
tickfont = QFont(self.font())
tickfont.setPixelSize(max(int(tickfont.pixelSize() * 2 // 3), 11))
axis = self.plot.getAxis("bottom")
axis.setTickFont(tickfont)
axis.setPen(pen)
axis.setLabel("FP Rate (1-Specificity)")
axis = self.plot.getAxis("left")
axis.setTickFont(tickfont)
axis.setPen(pen)
axis.setLabel("TP Rate (Sensitivity)")
self.plot.showGrid(True, True, alpha=0.1)
self.plot.setRange(xRange=(0.0, 1.0), yRange=(0.0, 1.0), padding=0.05)
self.plotview.setCentralItem(self.plot)
self.mainArea.layout().addWidget(self.plotview)
def __on_enrichment_finished(self, results):
assert QThread.currentThread() is self.thread()
self.__state &= ~OWSetEnrichment.RunningEnrichment
query, reference, results = results
if self.annotationsChartView.model():
self.annotationsChartView.model().clear()
nquery = len(query)
nref = len(reference)
maxcount = max((len(e.query_mapped) for _, e in results),
default=1)
maxrefcount = max((len(e.reference_mapped) for _, e in results),
default=1)
nspaces = int(math.ceil(math.log10(maxcount or 1)))
refspaces = int(math.ceil(math.log(maxrefcount or 1)))
query_fmt = "%" + str(nspaces) + "s (%.2f%%)"
ref_fmt = "%" + str(refspaces) + "s (%.2f%%)"
def fmt_count(fmt, count, total):
return fmt % (count, 100.0 * count / (total or 1))
fmt_query_count = partial(fmt_count, query_fmt)
fmt_ref_count = partial(fmt_count, ref_fmt)
linkFont = QFont(self.annotationsChartView.viewOptions().font)
linkFont.setUnderline(True)
def item(value=None, tooltip=None, user=None):
si = QStandardItem()
if value is not None:
si.setData(value, Qt.DisplayRole)
if tooltip is not None:
si.setData(tooltip, Qt.ToolTipRole)
if user is not None:
si.setData(user, Qt.UserRole)
else:
si.setData(value, Qt.UserRole)
return si
model = QStandardItemModel()
model.setSortRole(Qt.UserRole)
model.setHorizontalHeaderLabels(
["Category", "Term", "Count", "Reference count", "p-value",
"FDR", "Enrichment"])
for i, (gset, enrich) in enumerate(results):
if len(enrich.query_mapped) == 0:
continue
nquery_mapped = len(enrich.query_mapped)
nref_mapped = len(enrich.reference_mapped)
row = [
item(", ".join(gset.hierarchy)),
item(gsname(gset), tooltip=gset.link),
item(fmt_query_count(nquery_mapped, nquery),
tooltip=nquery_mapped, user=nquery_mapped),
item(fmt_ref_count(nref_mapped, nref),
tooltip=nref_mapped, user=nref_mapped),
item(fmtp(enrich.p_value), user=enrich.p_value),
item(), # column 5, FDR, is computed in filterAnnotationsChartView
item(enrich.enrichment_score,
tooltip="%.3f" % enrich.enrichment_score,
user=enrich.enrichment_score)
]
row[0].geneset = gset
row[0].enrichment = enrich
row[1].setData(gset.link, gui.LinkRole)
row[1].setFont(linkFont)
row[1].setForeground(QColor(Qt.blue))
model.appendRow(row)
self.annotationsChartView.setModel(model)
self.annotationsChartView.selectionModel().selectionChanged.connect(
self.commit
)
if not model.rowCount():
self.warning(0, "No enriched sets found.")
else:
self.warning(0)
allnames = set(gsname(geneset)
for geneset, (count, _, _, _) in results if count)
allnames |= reduce(operator.ior,
(set(word_split(name)) for name in allnames),
set())
self.filterCompleter.setModel(None)
self.completerModel = QStringListModel(sorted(allnames))
self.filterCompleter.setModel(self.completerModel)
if results:
max_score = max((e.enrichment_score for _, e in results
if np.isfinite(e.enrichment_score)),
default=1)
self.annotationsChartView.setItemDelegateForColumn(
6, BarItemDelegate(self, scale=(0.0, max_score))
)
self.annotationsChartView.setItemDelegateForColumn(
1, gui.LinkStyledItemDelegate(self.annotationsChartView)
)
header = self.annotationsChartView.header()
for i in range(model.columnCount()):
sh = self.annotationsChartView.sizeHintForColumn(i)
sh = max(sh, header.sectionSizeHint(i))
self.annotationsChartView.setColumnWidth(i, max(min(sh, 300), 30))
# self.annotationsChartView.resizeColumnToContents(i)
self.filterAnnotationsChartView()
self.progressBarFinished()
self.setStatusMessage("")