def __init__(self,
widget,
html='',
label=None,
displayLabel=True,
includeInReports=True,
orientation='vertical',
alignment=None,
editable=True,
printable=False,
clearable=False,
**args):
widgetState.__init__(self, widget, label, includeInReports)
QTextEdit.__init__(self, self.controlArea)
self.label = label
if displayLabel:
self.hb = groupBox(self.controlArea,
label=label,
orientation=orientation)
else:
self.hb = widgetBox(self.controlArea, orientation=orientation)
self.hb.layout().addWidget(self)
if alignment:
self.controlArea.layout().setAlignment(self.hb, alignment)
if printable:
button(self.hb, _("Print"), self.printMe)
if clearable:
button(self.hb, _("Clear"), callback=self.clear)
if not editable:
self.setReadOnly(True)
self.setFontFamily('Courier')
self.insertHtml(html)
def __init__(self, widget, label = _('Formula Entry'), displayLabel=True, includeInReports=True):
# make a widgetBox to hold everything
widgetState.__init__(self,widget,label,includeInReports)
box = groupBox(self.controlArea,label=label)
## add the elements to the box
#place the command keys
self.buttonsBox = groupBox(box, label = _("Formula Commands"))
self.plusButton = button(self.buttonsBox, _("And (+)"), callback = self.plusButtonClicked)
self.plusButton.setEnabled(False)
self.colonButton = button(self.buttonsBox, _("Interacting With (:)"), callback = self.colonButtonClicked)
self.colonButton.setEnabled(False)
self.starButton = button(self.buttonsBox, _("Together and Interacting (*)"), callback = self.starButtonClicked)
self.starButton.setEnabled(False)
button(self.buttonsBox, _('Clear'), self.clearFormula)
self.elementsListBox = listBox(self.buttonsBox, label = _('Elements'), callback = self.FormulaEntryElementSelected)
self.elementsListBox.setEnabled(True)
# place the formula line edit
self.modelBox = groupBox(box, label = _("Model Formula"), orientation = 'horizontal')
self.extrasBox = widgetBox(self.modelBox)
self.outcomeVariable = comboBox(self.modelBox, label = _('Outcome (f(x)):'))
widgetLabel(self.modelBox, ' = ')
self.modelLineEdit = lineEdit(self.modelBox, label = _('model'), displayLabel=False)
self.label = label
def __init__(self, parent = None, layout = 'vertical', title = _('Line Type Dialog')):
dialog.__init__(self, parent = parent, layout = layout, title = title)
## add a set of line types that can be shown in R and allow the user to pick them
self.linesListBox = listBox(self, label = 'Line types:', items = ['________', '- - - -', '........', '_._._._.', '__ __ __', '__.__.__.'], callback = self.setLineTypes)
self.linesListBox.setSelectionMode(QAbstractItemView.MultiSelection)
button(self, _("Done"), callback = self.accept)
def __init__(self, parent = None, layout = 'vertical', title = _('Line Type Dialog')):
dialog.__init__(self, parent = parent, layout = layout, title = title)
## add a set of line types that can be shown in R and allow the user to pick them
self.linesListBox = listBox(self, label = 'Line types:', items = ['________', '- - - -', '........', '_._._._.', '__ __ __', '__.__.__.'], callback = self.setLineTypes)
self.linesListBox.setSelectionMode(QAbstractItemView.MultiSelection)
button(self, _("Done"), callback = self.accept)
def __init__(self, **kwargs):
OWRpy.__init__(self, **kwargs)
self.setRvariableNames(['genesScores', 'conceptScores'])
self.concepts = '' ## the concepts, optional will replace the reading of the file
self.geneIDs = '' ## the geneIDs to be found in the concepts
self.reference = '' ## the set of reference genes,
self.packageDir = '' ## the packageDir where all of the concept files are stored if not otherwise available.
self.map = None
self.go = None
self.inputs.addInput('geneIDs', 'Gene ID List', redRDataFrame, self.processGeneIDs)
self.inputs.addInput('consigData', 'Concepts Data [optional]', redRDataFrame, self.processConcepts)
self.inputs.addInput('referenceList', 'Gene Reference List [optional]', redRRList, self.processReference)
self.outputs.addOutput('scores', 'ConSig Concept Scores', redRDataFrame)
self.outputs.addOutput('genescores', 'ConSig Gene Scores', redRDataFrame)
myTabWidget = redRTabWidget(self.controlArea)
geneIDArea = myTabWidget.createTabPage('Gene ID\'s')
conceptsArea = myTabWidget.createTabPage('Concepts')
fileSetupArea = myTabWidget.createTabPage('File Setup')
## file selection for consig files
self.dirLabel = redRWidgetLabel(fileSetupArea, 'No Directory Currently Selected')
button(fileSetupArea, label = 'Change File Directory', callback = self.changeFileDir)
## concepts area
button(conceptsArea, label = 'Parse Concepts', callback = self.parseConcepts)
##
self.genes_geneIDCol = comboBox(geneIDArea, label = 'Gene ID Column')
self.genes_scoreCol = comboBox(geneIDArea, label = 'Gene Scores (Weights)')
redRCommitButton(self.controlArea, label = 'Commit', callback = self.commit)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.outputs.addOutput('id0', _('R Session'), redRREnvironment)
# print os.path.abspath('/')
self.path = os.path.abspath('/')
self.setRvariableNames(['sessionEnviron'])
gbox = groupBox(self.controlArea,
orientation='vertical',
label=_('Select R session'))
box = widgetBox(gbox, orientation='horizontal')
self.filecombo = fileNamesComboBox(box,
label=_('Session File'),
displayLabel=False,
orientation='vertical')
self.filecombo.setSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.Maximum)
button(box, label=_('Browse'), callback=self.browseFile)
self.commit = commitButton(gbox,
label=_('Load Session'),
callback=self.loadSession,
alignment=Qt.AlignRight)
#gbox.layout().setAlignment(self.commit,Qt.AlignRight)
self.infoa = widgetLabel(self.controlArea, '')
self.varBox = listBox(self.controlArea, label=_('Variables'))
self.varBox.hide()
self.infob = widgetLabel(self.controlArea, '')
def __init__(self, widget, label = _('Formula Entry'), displayLabel=True, **kwargs):
kwargs.setdefault('includeInReports', True)
kwargs.setdefault('sizePolicy', QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred))
# make a widgetBox to hold everything
widgetState.__init__(self,widget,label,**kwargs)
box = groupBox(self.controlArea,label=label)
## add the elements to the box
#place the command keys
self.buttonsBox = groupBox(box, label = _("Formula Commands"), orientation = 'horizontal')
self.plusButton = button(self.buttonsBox, _("And (+)"), callback = self.plusButtonClicked)
self.plusButton.setEnabled(False)
self.colonButton = button(self.buttonsBox, _("Interacting With (:)"), callback = self.colonButtonClicked)
self.colonButton.setEnabled(False)
self.starButton = button(self.buttonsBox, _("Together and Interacting (*)"), callback = self.starButtonClicked)
self.starButton.setEnabled(False)
button(self.buttonsBox, _('Clear'), self.clearFormula)
self.elementsListBox = listBox(box, label = _('Elements'), callback = self.FormulaEntryElementSelected)
self.elementsListBox.setEnabled(True)
# place the formula line edit
self.modelBox = groupBox(box, label = _("Model Formula"), orientation = 'horizontal')
self.extrasBox = widgetBox(self.modelBox)
self.outcomeVariable = comboBox(self.modelBox, label = _('Outcome (f(x)):'))
widgetLabel(self.modelBox, ' = ')
self.modelLineEdit = lineEdit(self.modelBox, label = _('model'), displayLabel=False)
self.label = label
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.setRvariableNames(["eigen"])
self.data = {}
self.RFunctionParam_x = ''
self.inputs.addInput('id0', _('Input Data'), redRRMatrix,
self.processx)
self.outputs.addOutput('id0', _('Eigen Output'), redRRList)
self.RFunctionParamsymmetric_radioButtons = radioButtons(
self.controlArea,
label=_("symmetric:"),
buttons=[_('Yes'), _('No')],
setChecked=_('Yes'))
self.RFunctionParamonly_values_radioButtons = radioButtons(
self.controlArea,
label=_("only_values:"),
buttons=[_('Yes'), _('No')],
setChecked=_('Yes'))
self.RFunctionParamEISPACK_radioButtons = radioButtons(
self.controlArea,
label=_("EISPACK:"),
buttons=[_('Yes'), _('No')],
setChecked=_('Yes'))
button(self.bottomAreaRight, _("Commit"), callback=self.commitFunction)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.setRvariableNames(['genesScores', 'conceptScores'])
self.concepts = '' ## the concepts, optional will replace the reading of the file
self.geneIDs = '' ## the geneIDs to be found in the concepts
self.reference = '' ## the set of reference genes,
self.packageDir = '' ## the packageDir where all of the concept files are stored if not otherwise available.
self.map = None
self.go = None
self.inputs.addInput('geneIDs', 'Gene ID List', redRDataFrame, self.processGeneIDs)
self.inputs.addInput('consigData', 'Concepts Data [optional]', redRDataFrame, self.processConcepts)
self.inputs.addInput('referenceList', 'Gene Reference List [optional]', redRRList, self.processReference)
self.outputs.addOutput('scores', 'ConSig Concept Scores', redRDataFrame)
self.outputs.addOutput('genescores', 'ConSig Gene Scores', redRDataFrame)
myTabWidget = redRTabWidget(self.controlArea)
geneIDArea = myTabWidget.createTabPage('Gene ID\'s')
conceptsArea = myTabWidget.createTabPage('Concepts')
fileSetupArea = myTabWidget.createTabPage('File Setup')
## file selection for consig files
self.dirLabel = redRWidgetLabel(fileSetupArea, 'No Directory Currently Selected')
button(fileSetupArea, label = 'Change File Directory', callback = self.changeFileDir)
## concepts area
button(conceptsArea, label = 'Parse Concepts', callback = self.parseConcepts)
##
self.genes_geneIDCol = comboBox(geneIDArea, label = 'Gene ID Column')
self.genes_scoreCol = comboBox(geneIDArea, label = 'Gene Scores (Weights)')
redRCommitButton(self.controlArea, label = 'Commit', callback = self.commit)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.setRvariableNames(['heatsubset'])
self.plotOnConnect = 0
self.plotdata = ''
self.rowvChoice = None
self.inputs.addInput('id0', 'Expression Matrix', redRRMatrix, self.processMatrix)
#GUI
mainArea = widgetBox(self.controlArea,orientation='horizontal')
#mainArea.setMaximumWidth(300)
options = widgetBox(mainArea,orientation='vertical')
options.setMaximumWidth(175)
options.setMinimumWidth(175)
dendrogramsBox = groupBox(options, label='Calculate dendrogram ', orientation='vertical')
self.notice = widgetLabel(dendrogramsBox,label='The data set has > 1000 rows.\nClustering on rows will likely fail.')
self.notice.setHidden(True)
self.dendrogramOptions = checkBox(dendrogramsBox,
buttons = ['Rows', 'Columns'], setChecked=['Rows', 'Columns'], orientation='horizontal',
callback=self.dendrogramChanged)
functions = widgetBox(dendrogramsBox,orientation='vertical')
self.distOptions = lineEdit(functions,label='Distance Function:', text='dist', orientation='vertical')
self.hclustOptions = lineEdit(functions,label='Clustering Function:',text='hclust',
orientation='vertical')
#self.reorderOptions = lineEdit(functions,label='Reorder Function:', text='reorder.dendrogram')
self.scaleOptions = radioButtons(options,label='Scale', buttons=['row','column','none'],
setChecked='row',orientation='horizontal')
otherOptions = groupBox(options,label='Other Options')
self.narmOptions = checkBox(otherOptions, buttons = ['Remove NAs'], setChecked=['Remove NAs'])
# self.showDendroOptions = checkBox(otherOptions,buttons=['Show dendrogram '], setChecked=['Show dendrogram '])
self.colorTypeCombo = comboBox(otherOptions, label = 'Color Type:',
items = ['rainbow', 'heat.colors', 'terrain.colors', 'topo.colors', 'cm.colors'],callback=self.colorTypeChange)
self.startSaturation = spinBox(otherOptions, label = 'Starting Saturation', min = 0, max = 100)
self.endSaturation = spinBox(otherOptions, label = 'Ending Saturation', min = 0, max = 100)
self.endSaturation.setValue(30)
separator(otherOptions,height=10)
self.imageWidth = spinBox(otherOptions, label = 'Image Width', min = 1, max = 1000)
self.imageWidth.setValue(4)
self.imageHeight = spinBox(otherOptions, label = 'Image Height', min = 1, max = 1000)
self.imageHeight.setValue(4)
self.notice2 = widgetLabel(options,label='The input matrix is not numeric.')
self.notice2.setHidden(True)
self.buttonsBox = widgetBox(options,orientation='horizontal')
self.buttonsBox.layout().setAlignment(Qt.AlignRight)
self.plotOnConnect = checkBox(self.buttonsBox, buttons=['Plot on Connect'])
button(self.buttonsBox, label = "Plot", callback=self.makePlot)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self, wantGUIDialog = 1)
self.rowCount = 10
self.colCount = 10
self.maxRow = 0 # sets the most extreme row and cols
self.maxCol = 0
self.classes = None
self.savedData = None
self.setRvariableNames(['table', 'table_cm'])
self.inputs.addInput('Data Table', 'Data Table', redRRDataFrame, self.processDF)
self.outputs.addOutput('Data Table', 'Data Table', redRRDataFrame) # trace problem with outputs
#GUI.
box = groupBox(self.GUIDialog, label = "Options")
redRCommitButton(self.bottomAreaRight, 'Commit', self.commitTable)
self.rowHeaders = checkBox(box, label= 'Table Annotations', buttons=['Use Row Headers', 'Use Column Headers'])
#self.colHeaders = checkBox(box, label=None, buttons=['Use Column Headers'])
self.rowHeaders.setChecked(['Use Row Headers', 'Use Column Headers'])
#self.colHeaders.setChecked(['Use Column Headers'])
self.customClasses = button(box, 'Use Custom Column Classes', callback = self.setCustomClasses)
button(box, 'Clear Classes', callback = self.clearClasses)
self.columnDialog = QDialog()
self.columnDialog.setLayout(QVBoxLayout())
self.columnDialog.hide()
self.columnNameLineEdit = lineEdit(self.columnDialog, label = 'Column Name:')
button(self.columnDialog, 'Commit', callback = self.commitNewColumn)
#button(self.bottomAreaRight, "Add Column", callback = self.addColumn)
#button(self.bottomAreaRight, "Add Row", callback = self.addRow)
box = groupBox(self.controlArea, label = "Table",
sizePolicy = QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred))
#self.splitCanvas.addWidget(box)
#self.R(self.Rvariables['table'] + '<- matrix("",nrow=10,ncol=10)', wantType = 'NoConversion')
self.dataTable = table(box, label = 'Data Table', rows = 10, columns = 10)
# if self.dataTable.columnCount() < 1:
# self.dataTable.setColumnCount(1)
# self.dataTable.setHorizontalHeaderLabels(['Rownames'])
# if self.dataTable.rowCount() < 1:
# self.dataTable.setRowCount(1)
# self.dataTable.setHorizontalHeaderLabels(['Rownames'])
self.connect(self.dataTable, SIGNAL("cellClicked(int, int)"), self.cellClicked) # works OK
self.connect(self.dataTable, SIGNAL("cellChanged(int, int)"), self.itemChanged)
self.window = QDialog(self)
self.window.setLayout(QVBoxLayout())
self.classTable = table(self.window, label = 'Data Table', rows = self.maxCol, columns = 2)
self.resize(700,500)
self.move(300, 25)
def __init__(self, parent = None, layout = 'vertical', title = 'Color List Dialog', data = ''):
QDialog.__init__(self, parent)
self.setWindowTitle(title)
if layout == 'horizontal':
self.setLayout(QHBoxLayout())
else:
self.setLayout(QVBoxLayout())
self.listOfColors = []
self.controlArea = widgetBox(self)
mainArea = widgetBox(self.controlArea, 'horizontal')
leftBox = widgetBox(mainArea)
rightBox = widgetBox(mainArea)
## GUI
# color list
self.colorList = listBox(leftBox, label = 'Color List')
button(leftBox, label = 'Add Color', callback = self.addColor)
button(leftBox, label = 'Remove Color', callback = self.removeColor)
button(leftBox, label = 'Clear Colors', callback = self.colorList.clear)
button(mainArea, label = 'Finished', callback = self.accept)
# attribute list
self.attsList = listBox(rightBox, label = 'Data Parameters', callback = self.attsListSelected)
if data:
names = self.R('names('+data+')')
print names
self.attsList.update(names)
self.data = data
def __init__(self, parent=None, signalManager=None):
settingsList = ['output_txt', 'parameters']
OWRpy.__init__(self)
self.functionParams = ''
self.widgetInputsName = []
self.widgetInputsClass = []
self.widgetInputsFunction = []
self.numberInputs = 0
self.numberOutputs = 0
self.fieldList = {}
self.functionInputs = {}
self.processOnConnect = 1
# GUI
# several tabs with different parameters such as loading in a function, setting parameters, setting inputs and outputs
tabs = tabWidget.tabWidget(self.controlArea)
functionTab = tabs.createTabPage(_("Function Info"))
codeTab = tabs.createTabPage(_("Code"))
box = widgetBox.widgetBox(functionTab, "")
box.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Maximum)
self.infoa = widgetLabel.widgetLabel(box, '')
self.packageName = lineEdit.lineEdit(box, label = _('Package:'), orientation = 1)
button.button(box, 'Load Package', callback = self.loadRPackage)
self.functionName = lineEdit.lineEdit(box, label = _('Function Name:'), orientation = 1)
button.button(box, 'Parse Function', callback = self.parseFunction)
self.argsLineEdit = lineEdit.lineEdit(box, label = _('GUI Args'))
self.connect(self.argsLineEdit, SIGNAL('textChanged(QString)'), self.setArgsLineEdit)
box = widgetBox.widgetBox(functionTab)
box.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Expanding)
self.inputArea = QTableWidget()
box.layout().addWidget(self.inputArea)
self.inputArea.setColumnCount(7)
box = widgetBox.widgetBox(functionTab, orientation = 'horizontal')
#self.inputArea.hide()
self.connect(self.inputArea, SIGNAL("itemClicked(QTableWidgetItem*)"), self.inputcellClicked)
self.functionAllowOutput = checkBox.checkBox(box, label = _('Allow Output'), displayLable = False, buttons = [_('Allow Output')])
self.captureROutput = checkBox.checkBox(box, buttons = [_('Show Output')])
#self.inputsCombobox = redRGUI.comboBox(box, label = 'Input Class:', items = self.getRvarClass_classes())
self.outputsCombobox = comboBox.comboBox(box, label = _('Output Class:'), items = self.getRvarClass_classes())
button.button(box, label = _('Accept Inputs'), callback = self.acceptInputs)
button.button(box, _('Generate Code'), callback = self.generateCode)
button.button(box, _('Launch Widget'), callback = self.launch)
self.codeArea = QTextEdit()
codeTab.layout().addWidget(self.codeArea)
def __init__(self, **kwargs):
settingsList = ['output_txt', 'parameters']
OWRpy.__init__(self, **kwargs)
self.functionParams = ''
self.widgetInputsName = []
self.widgetInputsClass = []
self.widgetInputsFunction = []
self.numberInputs = 0
self.numberOutputs = 0
self.fieldList = {}
self.functionInputs = {}
self.processOnConnect = 1
# GUI
# several tabs with different parameters such as loading in a function, setting parameters, setting inputs and outputs
tabs = tabWidget.tabWidget(self.controlArea)
functionTab = tabs.createTabPage(_("Function Info"), orientation = 'vertical')
codeTab = tabs.createTabPage(_("Code"))
box = widgetBox.widgetBox(functionTab, orientation = 'horizontal')
box.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Maximum)
self.infoa = widgetLabel.widgetLabel(box, '')
self.packageName = lineEdit.lineEdit(box, label = _('Package:'), orientation = 1)
button.button(box, 'Load Package', callback = self.loadRPackage)
self.functionName = lineEdit.lineEdit(box, label = _('Function Name:'), orientation = 1)
button.button(box, 'Parse Function', callback = self.parseFunction)
self.argsLineEdit = lineEdit.lineEdit(box, label = _('GUI Args'))
self.connect(self.argsLineEdit, SIGNAL('textChanged(QString)'), self.setArgsLineEdit)
box = widgetBox.widgetBox(functionTab)
box.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Expanding)
self.inputArea = QTableWidget()
box.layout().addWidget(self.inputArea)
self.inputArea.setColumnCount(7)
box = widgetBox.widgetBox(functionTab, orientation = 'horizontal')
#self.inputArea.hide()
self.connect(self.inputArea, SIGNAL("itemClicked(QTableWidgetItem*)"), self.inputcellClicked)
self.functionAllowOutput = checkBox.checkBox(box, label = _('Allow Output'), buttons = [_('Allow Output')])
self.captureROutput = checkBox.checkBox(box, label = 'Show Output', buttons = [_('Show Output')])
#self.inputsCombobox = redRGUI.comboBox(box, label = 'Input Class:', items = self.getRvarClass_classes())
self.outputsCombobox = comboBox.comboBox(box, label = _('Output Class:'), items = self.getRvarClass_classes())
button.button(box, label = _('Accept Inputs'), callback = self.acceptInputs)
button.button(box, _('Generate Code'), callback = self.generateCode)
button.button(box, _('Launch Widget'), callback = self.launch)
self.codeArea = QTextEdit()
codeTab.layout().addWidget(self.codeArea)
def __init__(self, parent = None, layout = 'vertical', title = 'Color List Dialog', data = ''):
QDialog.__init__(self, parent)
self.setWindowTitle(title)
if layout == 'horizontal':
self.setLayout(QHBoxLayout())
else:
self.setLayout(QVBoxLayout())
self.listOfColors = []
self.controlArea = widgetBox(self)
mainArea = widgetBox(self.controlArea, 'horizontal')
leftBox = widgetBox(mainArea)
rightBox = widgetBox(mainArea)
## GUI
# color list
self.colorList = listBox(leftBox, label = 'Color List')
button(leftBox, label = 'Add Color', callback = self.addColor)
button(leftBox, label = 'Remove Color', callback = self.removeColor)
button(leftBox, label = 'Clear Colors', callback = self.colorList.clear)
button(mainArea, label = 'Finished', callback = self.accept)
# attribute list
self.attsList = listBox(rightBox, label = 'Data Parameters', callback = self.attsListSelected)
if data:
names = self.R('names('+data+')')
print names
self.attsList.update(names)
self.data = data
def headerClicked(self, index):
globalPos = QCursor.pos() #self.mapToGlobal(pos)
self.menu = QDialog(None,Qt.Popup)
self.menu.setLayout(QVBoxLayout())
box = widgetBox(self.menu, orientation = 'horizontal')
name = lineEdit(box, label = _('New Name (Overrides Current Value)'), callback = self.menu.accept)
equation = lineEdit(box, label = _('Equation (Overrides Current Values)'), callback = self.menu.accept)
remove = button(box, label = _('Remove Column'), callback = lambda: self.removeColumn(index))
done = button(box, label = _('Done'), callback = self.menu.accept)
res = self.menu.exec_()
if res == Qt.Accept:
if unicode(equation.text()) != '':
self.calculateEquation(current = index, equation = unicode(equation.text()))
if unicode(name.text()) != '':
self.resetName(current = index, new = unicode(name.text()))
def headerClicked(self, index):
globalPos = QCursor.pos() #self.mapToGlobal(pos)
self.menu = QDialog(None,Qt.Popup)
self.menu.setLayout(QVBoxLayout())
box = widgetBox(self.menu, orientation = 'horizontal')
name = lineEdit(box, label = _('New Name (Overrides Current Value)'), callback = self.menu.accept)
equation = lineEdit(box, label = _('Equation (Overrides Current Values)'), callback = self.menu.accept)
remove = button(box, label = _('Remove Column'), callback = lambda: self.removeColumn(index))
done = button(box, label = _('Done'), callback = self.menu.accept)
res = self.menu.exec_()
if res == Qt.Accept:
if unicode(equation.text()) != '':
self.calculateEquation(current = , equation = unicode(equation.text()))
if unicode(name.text()) != '':
self.resetName(current = , new = unicode(name.text()))
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self, wantGUIDialog = 1)
self.rowCount = 1
self.colCount = 1
self.maxRow = 0 # sets the most extreme row and cols
self.maxCol = 0
self.classes = None
self.savedData = None
self.setRvariableNames(['table', 'table_cm'])
self.inputs.addInput('Data Table', 'Data Table', redRRDataFrame, self.processDF)
self.outputs.addOutput('Data Table', 'Data Table', redRRDataFrame) # trace problem with outputs
#GUI.
box = groupBox(self.GUIDialog, label = "Options")
redRCommitButton(self.bottomAreaRight, 'Commit', self.commitTable)
self.rowHeaders = checkBox(box, label= 'Table Annotations', buttons=['Use Row Headers', 'Use Column Headers'])
#self.colHeaders = checkBox(box, label=None, buttons=['Use Column Headers'])
self.rowHeaders.setChecked(['Use Row Headers', 'Use Column Headers'])
#self.colHeaders.setChecked(['Use Column Headers'])
self.customClasses = button(box, 'Use Custom Column Classes', callback = self.setCustomClasses)
button(box, 'Clear Classes', callback = self.clearClasses)
self.columnDialog = QDialog()
self.columnDialog.setLayout(QVBoxLayout())
self.columnDialog.hide()
self.columnNameLineEdit = lineEdit(self.columnDialog, label = 'Column Name:')
button(self.columnDialog, 'Commit', callback = self.commitNewColumn)
button(self.bottomAreaRight, "Add Column", callback = self.addColumn)
button(self.bottomAreaRight, "Add Row", callback = self.addRow)
box = groupBox(self.controlArea, label = "Table",
sizePolicy = QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred))
#self.splitCanvas.addWidget(box)
#self.R(self.Rvariables['table'] + '<- matrix("",nrow=10,ncol=10)', wantType = 'NoConversion')
self.dataTable = table(box, label = 'Data Table', rows = 10, columns = 10)
# if self.dataTable.columnCount() < 1:
# self.dataTable.setColumnCount(1)
# self.dataTable.setHorizontalHeaderLabels(['Rownames'])
# if self.dataTable.rowCount() < 1:
# self.dataTable.setRowCount(1)
# self.dataTable.setHorizontalHeaderLabels(['Rownames'])
self.connect(self.dataTable, SIGNAL("cellClicked(int, int)"), self.cellClicked) # works OK
self.connect(self.dataTable, SIGNAL("cellChanged(int, int)"), self.itemChanged)
self.window = QDialog(self)
self.window.setLayout(QVBoxLayout())
self.classTable = table(self.window, label = 'Data Table', rows = self.maxCol, columns = 2)
self.resize(700,500)
self.move(300, 25)
def setCustomClasses(self):
self.classTable = table(self.window, rows = self.maxCol, columns = 2)
for j in range(1, self.colCount+1):
cb = QComboBox()
item = self.dataTable.item(0, j)
if item == None:
newitem = QTableWidgetItem(unicode('NA'))
else:
newitem = QTableWidgetItem(unicode(item.text()))
cb.addItems(['Default', 'Factor', 'Numeric', 'Character'])
self.classTable.setCellWidget(j-1, 1, cb)
newitem.setToolTip(unicode('Set the data type for column '+unicode(newitem.text())))
self.classTable.setItem(j-1, 0, newitem)
button(self.window, 'Set Classes', callback = self.setClasses)
button(self.window, 'Clear Classes', callback = self.clearClasses)
self.window.show()
def setCustomClasses(self):
self.classTable = table(self.window, rows = self.maxCol, columns = 2)
for j in range(1, self.colCount+1):
cb = QComboBox()
item = self.dataTable.item(0, j)
if item == None:
newitem = QTableWidgetItem(unicode('NA'))
else:
newitem = QTableWidgetItem(unicode(item.text()))
cb.addItems(['Default', 'Factor', 'Numeric', 'Character'])
self.classTable.setCellWidget(j-1, 1, cb)
newitem.setToolTip(unicode('Set the data type for column '+unicode(newitem.text())))
self.classTable.setItem(j-1, 0, newitem)
button(self.window, 'Set Classes', callback = self.setClasses)
button(self.window, 'Clear Classes', callback = self.clearClasses)
self.window.show()
def __init__(self, parent=None, signalManager=None):
#must initalize the parent OWRpy class
OWRpy.__init__(self)
### GUI ###
#create input line
self.lineEdit = lineEdit(self.controlArea, label = 'Line Edit')
#create submit button
self.button = button(self.controlArea,label='submit',callback=self.process)
#create output area
self.output = textEdit(self.controlArea,label='Output')
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.rowCount = 1
self.colCount = 1
self.maxRow = 0 # sets the most extreme row and cols
self.maxCol = 0
self.classes = None
self.savedData = None
self.setRvariableNames(['table', 'table_cm'])
self.inputs.addInput('id0', _('Data Table'), redRRDataFrame, self.processDF)
self.outputs.addOutput('id0', _('Data Table'), redRRDataFrame)
#GUI.
redRCommitButton(self.bottomAreaRight, _('Commit'), self.commitTable)
self.columnDialog = QDialog(self)
self.columnDialog.setLayout(QVBoxLayout())
self.columnDialog.hide()
self.columnNameLineEdit = lineEdit(self.columnDialog, label = _('Column Name:'))
button(self.columnDialog, _('Commit'), callback = self.commitNewColumn)
button(self.bottomAreaRight, _("Add Column"), callback = self.columnDialog.show)
box = groupBox(self.controlArea, label = _("Table"),
sizePolicy = QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred))
#self.splitCanvas.addWidget(box)
self.dataTable = pyDataTable(box,label=_('Data Entry'),displayLabel=False,
data = None)
self.connect(self.dataTable, SIGNAL("cellClicked(int, int)"), self.cellClicked) # works OK
self.connect(self.dataTable, SIGNAL("cellChanged(int, int)"), self.itemChanged)
self.connect(self.dataTable, SIGNAL('sectionClicked (int)'), self.headerClicked)
self.resize(700,500)
self.move(300, 25)
def __init__(self, **kwargs):
OWRpy.__init__(self, **kwargs)
self.rowCount = 1
self.colCount = 1
self.maxRow = 0 # sets the most extreme row and cols
self.maxCol = 0
self.classes = None
self.savedData = None
self.setRvariableNames(['table', 'table_cm'])
self.inputs.addInput('id0', _('Data Table'), UnstructuredDict, self.processDF)
self.outputs.addOutput('id0', _('Data Table'), UnstructuredDict)
#GUI.
redRCommitButton(self.bottomAreaRight, _('Commit'), self.commitTable)
self.columnDialog = QDialog(self)
self.columnDialog.setLayout(QVBoxLayout())
self.columnDialog.hide()
self.columnNameLineEdit = lineEdit(self.columnDialog, label = _('Column Name:'))
button(self.columnDialog, _('Commit'), callback = self.commitNewColumn)
button(self.bottomAreaRight, _("Add Column"), callback = self.columnDialog.show)
box = groupBox(self.controlArea, label = _("Table"),
sizePolicy = QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred))
#self.splitCanvas.addWidget(box)
self.dataTable = pyDataTable(box,label=_('Data Entry'),displayLabel=False,
data = None)
self.connect(self.dataTable, SIGNAL("cellClicked(int, int)"), self.cellClicked) # works OK
self.connect(self.dataTable, SIGNAL("cellChanged(int, int)"), self.itemChanged)
self.connect(self.dataTable, SIGNAL('sectionClicked (int)'), self.headerClicked)
self.resize(700,500)
self.move(300, 25)
def __init__(self,widget,html='',label=None, displayLabel=True, orientation='vertical', alignment=None, editable=True, printable=False,clearable=False,**kwargs):
kwargs.setdefault('includeInReports', True)
kwargs.setdefault('sizePolicy', QSizePolicy(QSizePolicy.Expanding, QSizePolicy.Expanding))
widgetState.__init__(self,widget, label,**kwargs)
QTextEdit.__init__(self,self.controlArea)
self.label = label
if displayLabel:
self.hb = groupBox(self.controlArea,label=label,orientation=orientation)
else:
self.hb = widgetBox(self.controlArea,orientation=orientation)
self.hb.layout().addWidget(self)
if alignment:
self.controlArea.layout().setAlignment(self.hb,alignment)
if printable:
button(self.hb, _("Print"), self.printMe)
if clearable:
button(self.hb, _("Clear"), callback = self.clear)
if not editable:
self.setReadOnly(True)
self.setFontFamily('Courier')
self.insertHtml(html)
def __init__(self,
parent=None,
signalManager=None,
forceInSignals=None,
forceOutSignals=None):
OWRpy.__init__(self)
# the variables
self.parentData = {}
self.data = ''
self.setRvariableNames(['nameProtector', 'newDataFromNameProtector'])
self.inputs.addInput('id0', _('Data Frame'), redRRDataFrame,
self.gotDF)
self.inputs.addInput('id1', _('Vector'), redRRVector, self.gotV)
self.outputs.addOutput('id0', _('Data Frame'), redRRDataFrame)
self.outputs.addOutput('id1', _('Vector'), redRRVector)
### The data frame GUI
self.dfbox = widgetBox(self.controlArea)
self.nameProtectDFcheckBox = checkBox(
self.dfbox,
label=_('Protect the names in:'),
buttons=[_('Rows'), _('Columns')],
toolTips=[
_('Use make.names to protect the names in the rows.'),
_('Use make.names to protect the names in the columns.')
])
self.namesProtectDFcomboBox = comboBox(
self.dfbox, label=_('Column names to protect:'))
self.commit = commitButton(self.dfbox,
_("Commit"),
callback=self.dfCommit,
processOnInput=True)
### The Vector GUI
self.vbox = widgetBox(self.controlArea)
self.vbox.hide()
self.commitVbutton = button(self.vbox,
_("Commit"),
callback=self.vCommit,
alignment=Qt.AlignRight)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self) #initialize the widget
self.dataClass = None
self.dataParent = None
self.setRvariableNames(['rowcolSelector', 'rowcolSelectorNot'])
self.SubsetByAttached = 0
self.inputs.addInput('id0', _('Data Table'), redRRDataFrame,
self.setWidget)
self.inputs.addInput('id1', _('Subsetting Vector'), redRRList,
self.setSubsettingVector)
self.outputs.addOutput('id0', _('Selected Items'), redRRDataFrame)
self.outputs.addOutput('id1', _('Non-selected Items'), redRRDataFrame)
#set the gui
area = widgetBox(self.controlArea, orientation='horizontal')
options = widgetBox(area, orientation='vertical')
self.rowcolBox = radioButtons(options,
label=_('Select On'),
buttons=[_('Column'),
_('Row')],
setChecked=_('Column'),
callback=self.rowcolButtonSelected,
orientation='horizontal')
self.sendSection = checkBox(options,
label=_('Create subset from:'),
displayLabel=True,
buttons=[_('Selected'),
_('Not Selected')],
setChecked=[_('Selected')],
orientation='horizontal')
# toolTips = [_("Select True to send data from the Data slot where the selections that you made are True."),
# _("Select False to send data from the Not Data slot that are not the selections you made.")])
self.invertButton = button(options,
_("Invert Selection"),
callback=self.invertSelection)
separator(options, height=15)
self.subsetBox = groupBox(options, label=_('Subset by'))
self.subsetColumn = comboBox(self.subsetBox,
label=_("Column:"),
orientation='vertical',
items=[_('Select')])
self.subOnAttachedButton = button(self.subsetBox,
_("Subset by column"),
callback=self.subOnAttached)
self.subsetBox.setDisabled(True)
separator(options, height=20)
info = widgetBox(options)
options.layout().setAlignment(info, Qt.AlignBottom)
self.infoBox = widgetLabel(info)
separator(info, height=15)
self.selectionInfoBox = widgetLabel(info)
mainArea = widgetBox(area, orientation='vertical')
self.attributes = listBox(mainArea,
label=_('Select'),
callback=self.onSelect)
self.attributes.setSelectionMode(QAbstractItemView.ExtendedSelection)
self.subsetButton = commitButton(mainArea,
_("Subset on Selection"),
callback=self.subset,
processOnChange=True,
processOnInput=True,
alignment=Qt.AlignRight)
def __init__(self, parent,label=None, displayLabel=True,includeInReports=True, name = '', data = None):
## want to init a graphics view with a new graphics scene, the scene will be accessable through the widget.
widgetState.__init__(self,parent,label,includeInReports)
QGraphicsView.__init__(self, self.controlArea)
self.topArea = widgetBox(self.controlArea,
sizePolicy = QSizePolicy(QSizePolicy.Maximum,QSizePolicy.Maximum),includeInReports=False, orientation = 'horizontal')
self.middleArea = widgetBox(self.controlArea)
self.bottomArea = widgetBox(self.controlArea,includeInReports=False) #, sizePolicy = QSizePolicy(QSizePolicy.Expanding,QSizePolicy.Expanding)
self.middleArea.layout().addWidget(self) # place the widget into the parent widget
scene = QGraphicsScene()
self.setScene(scene)
self.parent = parent
self.data = data
self.printQuery = ''
self.widgetSelectionRect = None
self.mainItem = None
self.query = ''
self.function = 'plot'
self.layers = []
self.image = 'plot'+unicode(time.time()) # the base file name without an extension
self.imageFileName = ''
self.currentScale = 1
################################
#### Themes #####
################################
self.options = {
'device': {
'Rcall': 'Cairo',
'parameters': {
'type':{
'default':'svg',
'qtWidget': 'imageType'
}
,'dpi':{
'default':'75',
'qtWidget': 'dpi'
}
,'bg': {
'default':'#FFFFFF',
'color': '#FFFFFF',
'qtWidget':'bgColor'
}
,'height': {
'default':400,
'qtWidget': 'dheight'
}
,'width': {
'default':400,
'qtWidget': 'dwidth'
}
,'units': {
'default':'px',
'qtWidget': 'units'
}
}
}
,'main': {
'Rcall': 'plot',
'parameters': {
'col': {
'default':None,
'qtWidget':'colorSeries',
'series': '',
'seriesLen': 0,
'getFunction': self.getColorSeries,
'setFunction': self.setColorSeries,
}
,'lty': {
'default':None,
'qtWidget':'linesListBox',
'getFunction': self.getLineTypes,
'setFunction': self.setLineTypes,
}
,'lwd': {
'default':None,
'qtWidget':'lineWidth'
}
,'pch': {
'default':None,
'qtWidget':'pointListBox',
'getFunction': self.getLineTypes,
'setFunction': self.setLineTypes,
}
}
},
'title': {
'Rcall': 'title',
'parameters': {
'main': {
'default':"Title",
'qtWidget':'mainTitle'
}
,'xlab': {
'default':"XLab",
'qtWidget':'xLab'
}
,'ylab': {
'default':"YLab",
'qtWidget':'yLab'
}
,'col.main': {
'default':'#000000',
'qtWidget':'titleColor'
}
,'col.sub': {
'default':'#000000',
'qtWidget':'subColor'
}
,'col.lab': {
'default':'#000000',
'qtWidget':'labColor'
}
}
},
'par': {
'Rcall':'par',
'parameters': {
'cex.axis': {
'default':1,
'qtWidget':'axisFont'
}
,'cex.lab': {
'default':1,
'qtWidget':'labFont'
}
,'cex': {
'default':1,
'qtWidget':'plotFont'
}
,'cex.main': {
'default':1,
'qtWidget':'mainFont'
}
,'cex.sub': {
'default':1,
'qtWidget':'subFont'
}
,'col.axis': {
'default':'#000000',
'qtWidget':'axisColor'
}
# ,'family': {
# 'default':'serif',
# 'qtWidget':'fontCombo'
# }
}
}
}
### ggplot options
self.optionsDialog = dialog(self.controlArea)
self.optionsTab = tabWidget(self.optionsDialog)
plotGridTab = self.optionsTab.createTabPage("Plot Grid Area", orientation = 'vertical')
self.panelGridMajorTheme = comboBox(plotGridTab, label = 'Major Grid General Theme', toolTip = 'If Ignore, no options are set for this. If not None overrides all other options set and sets the theme specified.', items = [('ignore', 'Ignore'), ('none', 'None'), ('theme_bw()', 'Black and White'), ('theme_blank()', 'Blank Theme')])
self.panelGridMajorColour = colorButton(plotGridTab, label = "Major Grid Color")
self.panelGridMajorSize = spinBox(plotGridTab, label = "Major Grid Size")
self.panelGridMajorLineType = comboBox(plotGridTab, label = "Major Grid Line Type", items = [('solid', 'Solid'), ('dotted', 'Dotted'), ('dashed', 'Dashed')])
self.panelGridMinorTheme = comboBox(plotGridTab, label = 'Minor Grid General Theme', toolTip = 'If Ignore, no options are set for this. If not None overrides all other options set and sets the theme specified.', items = [('ignore', 'Ignore'), ('none', 'None'), ('theme_bw()', 'Black and White'), ('theme_blank()', 'Blank Theme')])
self.panelGridMinorColour = colorButton(plotGridTab, label = "Minor Grid Color")
self.panelGridMinorSize = spinBox(plotGridTab, label = "Minor Grid Size")
self.panelGridMinorLineType = comboBox(plotGridTab, label = "Minor Grid Line Type", items = [('solid', 'Solid'), ('dotted', 'Dotted'), ('dashed', 'Dashed')])
panelTab = self.optionsTab.createTabPage("panel Background Options", orientation = 'vertical')
self.panelBackgroundTheme = comboBox(panelTab, label = 'panel Background Theme', toolTip = 'If Ignore, no options are set for this. If not None overrides all other options set and sets the theme specified.', items = [('ignore', 'Ignore'), ('none', 'None'), ('theme_bw()', 'Black and White'), ('theme_blank()', 'Blank Theme')])
textTab = self.optionsTab.createTabPage("Text Options", orientation = 'vertical')
self.useTextOptions = comboBox(textTab, label = 'Use Text Options', items = [('ignore', 'No'), ('yes', 'Yes')])
self.plotTitle = lineEdit(textTab, label = 'Plot Title')
self.plotTitleSize = spinBox(textTab, label = 'Title Font Size', min = 1, value = 20)
self.plotTitleAngle = spinBox(textTab, label = 'Title Angle', min = 0, max = 360, value = 0)
self.plotTitleFontFace = comboBox(textTab, label = 'Font Face', items = [('none', 'None'), ('bold', 'Bold')])
self.axisTitleX = lineEdit(textTab, label = 'X Axis Title')
self.axisTitleXColor = colorButton(textTab, label = 'X Axis Color')
self.axisTitleXSize = spinBox(textTab, label = 'X Axis Title Size', min = 1, value = 14)
self.axisTitleXAngle = spinBox(textTab, label = 'X Axis Title Angle', min = 0, max = 360, value = 0)
self.axisTitleXFontFace = comboBox(textTab, label = 'X Axis Title Font Face', items = [('none', 'None'), ('bold', 'Bold')])
self.axisTextXSize = spinBox(textTab, label = 'X Axis Text Size', min = 1, value = 14)
self.axisTextXColor = colorButton(textTab, label = 'X Axis Text Color')
self.axisTextXAngle = spinBox(textTab, label = 'X Axis Text Angle', min = 0, max = 360, value = 0)
self.axisTextXFontFace = comboBox(textTab, label = 'X Axis Text Font Face', items = [('none', 'None'), ('bold', 'Bold')])
self.axisTitleY = lineEdit(textTab, label = 'Y Axis Title')
self.axisTitleYColor = colorButton(textTab, label = 'Y Axis Color')
self.axisTitleYSize = spinBox(textTab, label = 'Y Axis Title Size', min = 1, value = 14)
self.axisTitleYAngle = spinBox(textTab, label = 'Y Axis Title Angle', min = 0, max = 360, value = 0)
self.axisTitleYFontFace = comboBox(textTab, label = 'Y Axis Title Font Face', items = [('none', 'None'), ('bold', 'Bold')])
self.axisTextYSize = spinBox(textTab, label = 'Y Axis Text Size', min = 1, value = 14)
self.axisTextYColor = colorButton(textTab, label = 'Y Axis Text Color')
self.axisTextYAngle = spinBox(textTab, label = 'Y Axis Text Angle', min = 0, max = 360, value = 0)
self.axisTextYFontFace = comboBox(textTab, label = 'Y Axis Text Font Face', items = [('none', 'None'), ('bold', 'Bold')])
self.optionsDialog.hide()
self.optionWidgets = {}
self.colorList = ['#000000', '#ff0000', '#00ff00', '#0000ff']
self.extraOptionsLineEdit = lineEdit(self.topArea, label = 'Extra Options', toolTip = 'These options will be appended to the plotting call, remember that these are ggplot options that will be added to the plot object')
self.extraOptionsLineEdit.controlArea.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Minimum)
self.heightSpinBox = spinBox(self.topArea, label = 'Height', min = 0, value = 7, decimals = 3)
self.widthSpinBox = spinBox(self.topArea, label = 'Width', min = 0, value = 7, decimals = 3)
button(self.topArea, label = 'Show Options', callback = self.optionsDialog.show)
################################
### right click menu #######
################################
self.menu = QMenu(self)
save = self.menu.addMenu('Save As')
save.addAction('Bitmap')
save.addAction('PDF')
save.addAction('Post Script')
save.addAction('JPEG')
save.addAction('SVG')
self.menu.addAction('Copy')
self.menu.addAction('Fit In Window')
self.menu.addAction('Zoom Out')
self.menu.addAction('Zoom In')
self.menu.addAction('R Graphics Device')
#self.menu.addAction('Undock')
#self.menu.addAction('Redock')
self.dialog = QDialog()
self.dialog.setWindowTitle('Red-R Graphics View' + name)
self.dialog.setLayout(QHBoxLayout())
self.standardImageType = 'svg'
self.imageType = 'svg'
QObject.connect(self.dialog, SIGNAL('finished(int)'), self.dialogClosed)
def __init__(self,
widget,
label=None,
displayLabel=True,
includeInReports=True,
Rdata=None,
editable=False,
sortable=True,
filterable=False,
selectionBehavior=QAbstractItemView.SelectRows,
selectionMode=QAbstractItemView.ExtendedSelection,
showResizeButtons=True,
onFilterCallback=None,
callback=None,
selectionCallback=None):
widgetState.__init__(self, widget, label, includeInReports)
if displayLabel:
mainBox = groupBox(self.controlArea,
label=label,
orientation='vertical')
else:
mainBox = widgetBox(self.controlArea, orientation='vertical')
self.label = label
QTableView.__init__(self, self.controlArea)
mainBox.layout().addWidget(self)
box = widgetBox(mainBox, orientation='horizontal')
leftBox = widgetBox(box, orientation='horizontal')
if filterable:
self.clearButton = button(leftBox,
label=_('Clear All Filtering'),
callback=self.clearFiltering)
self.dataInfo = widgetLabel(leftBox, label='', wordWrap=False)
box.layout().setAlignment(leftBox, Qt.AlignLeft)
if showResizeButtons:
resizeColsBox = widgetBox(box, orientation="horizontal")
resizeColsBox.layout().setAlignment(Qt.AlignRight)
box.layout().setAlignment(resizeColsBox, Qt.AlignRight)
widgetLabel(resizeColsBox, label=_("Resize columns: "))
button(resizeColsBox,
label="+",
callback=self.increaseColWidth,
toolTip=_("Increase the width of the columns"),
width=30)
button(resizeColsBox,
label="-",
callback=self.decreaseColWidth,
toolTip=_("Decrease the width of the columns"),
width=30)
button(resizeColsBox,
label=_("Resize To Content"),
callback=self.resizeColumnsToContents,
toolTip=_("Set width based on content size"))
self.R = Rcommand
self.Rdata = None
self.filteredData = None
self.sortIndex = None
self.criteriaList = {}
self.parent = widget
self.tm = None
self.sortable = sortable
self.editable = editable
self.filterable = filterable
self.onFilterCallback = onFilterCallback
self.selectionCallback = selectionCallback
self.selections = QItemSelection()
self.working = False
self.setHorizontalHeader(myHeaderView(self))
self.setSelectionBehavior(selectionBehavior)
self.setAlternatingRowColors(True)
if selectionMode != -1:
self.setSelectionMode(selectionMode)
if Rdata:
self.setRTable(Rdata)
if editable:
self.horizontalHeader().hide()
self.verticalHeader().hide()
# if sortable:
# self.horizontalHeader().setSortIndicatorShown(True)
# self.horizontalHeader().setSortIndicator(-1,0)
if filterable or sortable:
self.horizontalHeader().setClickable(True)
# QObject.connect(self.horizontalHeader(), SIGNAL('sectionClicked (int)'), self.selectColumn)
self.horizontalHeader().setContextMenuPolicy(Qt.CustomContextMenu)
self.horizontalHeader().customContextMenuRequested.connect(
self.headerClicked)
if callback:
QObject.connect(self, SIGNAL('clicked (QModelIndex)'), callback)
def __init__(self, parent,label=None, displayLabel=True,includeInReports=True, name = '', data = None, prePlottingCallback = None):
## want to init a graphics view with a new graphics scene, the scene will be accessable through the widget.
graphicsView.__init__(self, parent, label = label, displayLabel = displayLabel, includeInReports = includeInReports,
name = name, data = data)
## __init__(self, parent,label=_('Graph'), displayLabel=True,includeInReports=True, name = '', data = None)
################################
#### Themes #####
################################
self.prePlottingCallback = prePlottingCallback
self.options = {
'device': {
'imageType':'svg',
'dpi':'75',
'bgColor':'#FFFFFF',
'dheight':400,
'dwidth':400,
'units':'px'},
'main':{
'col':None,
'lty':None,
'lwd':None,
'pch':None,},
'title':{
'main':'',
'xlab':'',
'ylab':'',
'col.main':'#000000',
'col.sub':'#000000',
'col.lab':'#000000'},
'par':{
'cex.axis':1,
'cex.lab':1,
'cex.main':1,
'cex.sub':1,
'cex':1,
'col.axis':'#000000'}
}
self.optionWidgets = {}
self.colorList = ['#000000', '#ff0000', '#00ff00', '#0000ff']
################################
#### Setup Tabs #####
################################
self.graphicOptionsButton = button(self.topArea,label='Graphic Options',
toggleButton = True,callback=self.displayGraphicOptions)
self.graphicOptionsWidget = widgetBox(self.topArea)
self.graphicOptions = tabWidget(self.graphicOptionsWidget)
self.graphicOptions.setFixedHeight(180)
hbox = widgetBox(self.graphicOptionsWidget,orientation='horizontal',alignment= Qt.AlignLeft)
self.resizeCheck = checkBox(hbox,label='resize',displayLabel=False,buttons={'true':'Resize Image'},setChecked='true')
self.monkey = checkBox(hbox, label='useopts', displayLabel = False, buttons={'true':'Use Custom Plot Options'}, callback = self.enablePlotOptions)
button(hbox,label='Update Graphic', alignment=Qt.AlignLeft, callback=self.plotMultiple)
self.labels = self.graphicOptions.createTabPage('Main')
self.points = self.graphicOptions.createTabPage('Points/Lines')
self.advanced = self.graphicOptions.createTabPage('Advanced')
#self.graphicOptions.hide()
firstTab = widgetBox(self.labels,orientation='horizontal',alignment=Qt.AlignLeft | Qt.AlignTop)
secondTab = widgetBox(self.points,orientation='horizontal',alignment=Qt.AlignLeft | Qt.AlignTop)
advancedTab = widgetBox(self.advanced,orientation='vertical',alignment=Qt.AlignLeft | Qt.AlignTop)
################################
#### Advanced Tabs #####
################################
self.optionWidgets['extrasLineEdit'] = lineEdit(advancedTab, label = 'Advanced plotting parameters',
toolTip = 'Add extra parameters to the main plot.\nPlease see documentation for more details about parameters.')
self.optionWidgets['onlyAdvanced'] = checkBox(advancedTab,
buttons=[(1, 'Only use the advanced options here')],
label='advancedOnly',displayLabel=False)
################################
#### First Tabs #####
################################
imageBox = groupBox(firstTab,label='Image Properties', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['imageType'] = comboBox(imageBox,label='Image Type',items=['svg', 'cairo' ,'png'])
self.optionWidgets['imageType'].setSizePolicy(QSizePolicy.MinimumExpanding,QSizePolicy.Minimum)
hbox = widgetBox(imageBox,orientation='horizontal')
self.optionWidgets['dheight'] = spinBox(hbox, label = 'Height', min = 1, max = 5000, value = 400)
self.optionWidgets['dwidth'] = spinBox(hbox, label = 'Width', min = 1, max = 5000, value = 400)
hbox = widgetBox(imageBox,orientation='horizontal')
self.optionWidgets['units'] = comboBox(hbox,label='units',items=[('px','Pixel'),('in','Inches')])
self.optionWidgets['dpi'] = comboBox(hbox,label='DPI',items=['75','100','150','auto'],editable=True)
labelBox = groupBox(firstTab,label='Labels', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['mainTitle'] = lineEdit(labelBox,label='Main Title')
self.optionWidgets['xLab'] = lineEdit(labelBox,label='X Axis Label')
self.optionWidgets['yLab'] = lineEdit(labelBox,label='Y Axis Label')
fontBox = groupBox(firstTab,label='Sizes', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
fontColumnBox = widgetBox(fontBox,orientation='horizontal')
fontColumn1 = widgetBox(fontColumnBox,orientation='vertical')
fontColumn2 = widgetBox(fontColumnBox,orientation='vertical')
#self.optionWidgets['fontCombo'] = comboBox(fontColumn1, items = ['serif', 'sans', 'mono'], label='Font Family')
self.optionWidgets['lineWidth'] = spinBox(fontColumn1,label='Point/Line Size',decimals=2,min=1,max=50)
self.optionWidgets['plotFont'] = spinBox(fontColumn1, label = 'Plot Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['axisFont'] = spinBox(fontColumn1, label = 'Axis Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['mainFont'] = spinBox(fontColumn2, label = 'Title Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['subFont'] = spinBox(fontColumn2, label = 'Subtitle Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['labFont'] = spinBox(fontColumn2, label = ' XY Label Text Size',decimals=2, min = 1, max = 50)
colorBox = groupBox(firstTab,label='Colors', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
hbox = widgetBox(colorBox,orientation='horizontal')
self.optionWidgets['colorSeries'] = comboBox(hbox,label='Generate Colors Series',orientation='vertical',
items = ['select','rainbow','heat.colors','terrain.colors','topo.colors','cm.colors'])
self.optionWidgets['colorSeriesLen'] = spinBox(hbox,label='Length of Series',displayLabel=False, min=0, max=500)
hbox.layout().setAlignment(self.optionWidgets['colorSeriesLen'].controlArea, Qt.AlignBottom)
self.optionWidgets['bgColor'] = ColorIcon(colorBox,label='Background')
#self.optionWidgets['customColors'] = button(colorBox,label='Custom Plot Colors',callback=self.setPlotColors)
################################
#### Second Tabs #####
################################
colorBox2 = groupBox(secondTab,label='Colors', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
# colorColumnBox = widgetBox(colorBox2,orientation='horizontal')
# colorColumn1 = widgetBox(colorColumnBox,orientation='vertical')
# colorColumn2 = widgetBox(colorColumnBox,orientation='vertical')
self.optionWidgets['titleColor'] = ColorIcon(colorBox2,label='Title')
self.optionWidgets['subColor'] = ColorIcon(colorBox2,label='Subtitle')
self.optionWidgets['labColor'] = ColorIcon(colorBox2,label='Subtitle')
self.optionWidgets['axisColor'] = ColorIcon(colorBox2,label='Axis')
lineBox = groupBox(secondTab,label='Lines', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['linesListBox'] = listBox(lineBox, label = 'Line types', displayLabel=False,
selectionMode = QAbstractItemView.ExtendedSelection,
items = [(1,'________'), (2,'- - - -'), (3,'........'), (4,'_._._._.'),
(5,'__ __ __'), (6,'__.__.__.')])
pointBox = groupBox(secondTab,label='Points', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
items = []
for i in range(1,26):
items.append((i-1,QListWidgetItem(QIcon(os.path.join(redREnviron.directoryNames['picsDir'],
'R icon (%d).png' %i)),'')))
for i in range(32,128):
items.append((i-1,'%s' % (chr(i))))
self.optionWidgets['pointListBox'] = listBox(pointBox, label = 'Line types', displayLabel=False,
selectionMode = QAbstractItemView.ExtendedSelection, items = items)
self.setTheme(self.options)
################################
### right click menu #######
################################
self.menu = QMenu(self)
save = self.menu.addMenu('Save As')
save.addAction('Bitmap')
save.addAction('PDF')
save.addAction('PDF (LATEX)')
save.addAction('Post Script')
save.addAction('JPEG')
if sys.platform == 'win32':
save.addAction('WMF')
self.menu.addAction('Copy')
self.menu.addAction('Fit In Window')
self.menu.addAction('Zoom Out')
self.menu.addAction('Zoom In')
#self.menu.addAction('Undock')
#self.menu.addAction('Redock')
self.dialog = QDialog()
self.dialog.setWindowTitle('Red-R Graphics View' + name)
self.dialog.setLayout(QHBoxLayout())
self.standardImageType = 'svg'
QObject.connect(self.dialog, SIGNAL('finished(int)'), self.dialogClosed)
self.graphicOptionsWidget.hide()
def createMenu(self, selectedCol):
#print selectedCol, pos
# print _('in createMenu'), self.criteriaList
globalPos = QCursor.pos() #self.mapToGlobal(pos)
self.menu = QDialog(None, Qt.Popup)
self.menu.setLayout(QVBoxLayout())
if self.sortable:
box = widgetBox(self.menu, orientation='horizontal')
box.layout().setAlignment(Qt.AlignLeft)
button(box,
label='A->Z',
callback=lambda: self.sort(selectedCol, Qt.AscendingOrder))
widgetLabel(box, label=_('Ascending Sort'))
box = widgetBox(self.menu, orientation='horizontal')
box.layout().setAlignment(Qt.AlignLeft)
button(box,
label='Z->A',
callback=lambda: self.sort(selectedCol, Qt.DescendingOrder))
widgetLabel(box, label=_('Descending Sort'))
# qmenu = QMenu(self.menu)
# self.menu.layout().addWidget(qmenu)
# a = QAction('A->Z',self.menu)
# qmenu.addAction(a)
# self.menu.addAction(a)
if not self.filterable:
self.menu.move(globalPos)
self.menu.show()
return
if self.sortable:
hr = QFrame(self.menu)
hr.setFrameStyle(QFrame.Sunken + QFrame.HLine)
hr.setFixedHeight(12)
self.menu.layout().addWidget(hr)
clearButton = button(
self.menu,
label=_('Clear Filter'),
callback=lambda col=selectedCol: self.createCriteriaList(
col, self.menu, action='clear'))
self.menu.layout().setAlignment(clearButton, Qt.AlignHCenter)
clearButton.hide()
self.numericLabel = widgetLabel(
self.menu, label=_('Enter a value for one of these critera:'))
self.numericLabel.hide()
self.stringLabel = widgetLabel(
self.menu,
label=_(
'Enter a value for one of these critera (case sensitive):'))
self.stringLabel.hide()
self.factorLabel = widgetLabel(self.menu, label=_('Select Levels:'))
self.factorLabel.hide()
if selectedCol in self.criteriaList.keys():
clearButton.show()
self.optionsBox = widgetBox(self.menu)
self.optionsBox.layout().setAlignment(Qt.AlignTop)
colClass = self.R('class(%s[,%d])' % (self.Rdata, selectedCol),
silent=True)
if colClass in ['factor', 'logical']:
self.factorLabel.show()
if selectedCol in self.criteriaList.keys():
checked = self.criteriaList[selectedCol]['value']
else:
checked = []
if colClass == 'logical':
levels = ['TRUE', 'FALSE']
else:
levels = self.R('levels(%s[,%d])' % (self.Rdata, selectedCol),
wantType='list',
silent=True)
if len(levels) > 1:
levels.insert(0, _('Check All'))
scroll = scrollArea(self.optionsBox, spacing=1)
c = checkBox(scroll,
label=_('Levels'),
displayLabel=False,
buttons=levels,
setChecked=checked)
scroll.setWidget(c.controlArea)
QObject.connect(
c.buttons, SIGNAL('buttonClicked (int)'),
lambda val: self.factorCheckBox(val, self.optionsBox))
elif colClass in ['integer', 'numeric']:
self.numericLabel.show()
self.options = [
_('Equals'),
_('Does Not Equal'),
_('Greater Than'),
_('Greater Than Or Equal To'),
_('Less Than'),
_('Less Than or Equal To'),
'Between\n(2 numbers comma\nseparated, inclusive)',
'Not Between\n(2 numbers comma\nseparated)'
]
for x in self.options:
if selectedCol in self.criteriaList and self.criteriaList[
selectedCol]['method'] == _('Numeric ') + x:
e = lineEdit(self.optionsBox,
label=x,
text=self.criteriaList[selectedCol]['value'])
else:
e = lineEdit(self.optionsBox, label=x)
self.connect(e,
SIGNAL("textEdited(QString)"),
lambda val, col=selectedCol, field=x: self.
clearOthers(val, self.optionsBox, field))
elif colClass in ['character']:
self.stringLabel.show()
self.options = [
_('Equals'),
_('Does Not Equal'),
_('Begins With'),
_('Ends With'),
_('Contains'),
_('Does Not Contain')
]
for x in self.options:
if selectedCol in self.criteriaList and self.criteriaList[
selectedCol]['method'] == _('String ') + x:
e = lineEdit(self.optionsBox,
label=x,
text=self.criteriaList[selectedCol]['value'])
else:
e = lineEdit(self.optionsBox, label=x)
self.connect(e,
SIGNAL("textEdited(QString)"),
lambda val, col=selectedCol, field=x: self.
clearOthers(val, self.optionsBox, field))
buttonBox = widgetBox(self.optionsBox, orientation='horizontal')
buttonBox.layout().setAlignment(Qt.AlignRight)
okButton = button(
buttonBox,
label=_('OK'),
callback=lambda col=selectedCol: self.createCriteriaList(
col, self.optionsBox, action=_('OK')))
okButton.setDefault(True)
button(buttonBox,
label=_('Cancel'),
callback=lambda col=selectedCol: self.createCriteriaList(
col, self.optionsBox, action='cancel'))
self.menu.move(globalPos)
self.menu.show()
def setSettings(self,settings, globalSettings = False):
redRLog.log(redRLog.REDRCORE, redRLog.DEBUG, 'Loading settings')
#settings = self.sqlite.setObject(settingsID)
# import pprint
# pp = pprint.PrettyPrinter(indent=4)
# pp.pprint(settings)
for k,v in settings.iteritems():
try:
#redRLog.log(redRLog.REDRCORE, redRLog.ERROR, 'Loading %s' % k)
if k in ['inputs', 'outputs']: continue
if v == None:
continue
elif 'pythonObject' in v.keys():
#print '|#| Setting pythonObject %s to %s' % (k,unicode(v['pythonObject']))
self.__setattr__(k, v['pythonObject'])
elif 'signalsObject' in v.keys():
#print '|#| Setting signalsObject'
varClass = self.setSignalClass(v['signalsObject'])
self.__setattr__(k, varClass)
elif 'sentItemsList' in v.keys():
#print '|#| settingItemsList'
# print v['sentItemsList']
#self.setSentItemsList(v['sentItemsList'])
for (sentItemName, sentItemDict) in v['sentItemsList']:
#print '|#| setting sent items %s to %s' % (sentItemName, unicode(sentItemDict))
#for kk,vv in sentItemDict.items():
var = self.setSignalClass(sentItemDict)
## add compatibility layer for the case that the sent item name is not longer in existance or has changed
if sentItemName in self.outputs.outputIDs():
self.send(sentItemName, var)
else:
signalItemNames = [name for (key, name) in self.outputs.outputNames().items()]
if sentItemName in signalItemNames:
signalID = self.outputs.getSignalByName(sentItemName)
self.send(signalID, var)
else:
#print 'Error in matching item name'
from libraries.base.qtWidgets.dialog import dialog
tempDialog = dialog(None)
from libraries.base.qtWidgets.widgetLabel import widgetLabel
from libraries.base.qtWidgets.listBox import listBox
from libraries.base.qtWidgets.button import button
widgetLabel(tempDialog, 'Error occured in matching the loaded signal (Name:%s, Value:%s) to the appropriate signal name.\nPlease select the signal that matches the desired output,\n or press cancel to abandon the signal.' % (sentItemName, unicode(var)))
#print self.outputs.outputSignals
itemListBox = listBox(tempDialog, items = signalItemNames)
button(tempDialog, label = 'Done', callback = tempDialog.accept)
button(tempDialog, label = 'Cancel', callback = tempDialog.reject)
res = tempDialog.exec_()
if res != QDialog.rejected:
signalName = unicode(itemListBox.selectedItems()[0].text())
signalID = self.outputs.getSignalByName(signalName)
self.send(signalID, var)
#############################################
elif not hasattr(self,k):
continue
elif 'redRGUIObject' in v.keys():
#print getattr(self, k)
try:
getattr(self, k).loadSettings(v['redRGUIObject'])
getattr(self, k).setDefaultState(v['redRGUIObject'])
except Exception as inst:
#print 'Exception occured during loading of settings. These settings may not be the same as when the widget was closed.'
redRLog.log(redRLog.REDRCORE, redRLog.ERROR,redRLog.formatException())
elif 'dict' in v.keys():
var = getattr(self, k)
#print 'dict',len(var),len(v['dict'])
if len(var) != len(v['dict']): continue
self.recursiveSetSetting(var,v['dict'])
elif 'list' in v.keys():
var = getattr(self, k)
# print 'list',len(var),len(v['list'])
if len(var) != len(v['list']): continue
self.recursiveSetSetting(var,v['list'])
except:
redRLog.log(redRLog.REDRCORE, redRLog.ERROR, 'Exception occured during loading. The Error will be ignored.')
redRLog.log(redRLog.REDRCORE, redRLog.DEBUG, redRLog.formatException())
def __init__(self, parent=None, signalManager=None):
#OWWidget.__init__(self, parent, signalManager, "Sample Data")
OWRpy.__init__(self, wantGUIDialog=1)
self.command = ''
self.sendthis = ''
self.sendt = {}
self.dfselected = None
self.setRvariableNames(['rExecutor', 'rExecutor_cm'])
self.inputs.addInput('id0', _('R.object'), redRRVariable, self.process)
self.outputs.addOutput('id0', _('R Data Frame'), redRRDataFrame)
self.outputs.addOutput('id1', _('R List'), redRRList)
self.outputs.addOutput('id2', _('R Vector'), redRRVector)
self.outputs.addOutput('id3', _('R.object'), 'All')
self.outputs.addOutput('id4', _('R Matrix'), redRRMatrix)
#self.breakme()
#self.help.setHtml('The R Executor widget provides direct access to the R session that runs under RedR. R Executor can recieve any output from an R compatible widget. The recieved data can be shown using the Recieved button. The R history can be shown by pressing the RHistory button and the complete parsing of any recieved data is shown in the Metadata section. More infromation is available on the <a href="http://www.red-r.org/?cat=10">RedR website</a>.')
#GUI
#GUIDialog
self.box = groupBox(self.GUIDialog, _("R Executor Advanced"))
self.infob = widgetLabel(self.box, "")
self.infoa = widgetLabel(self.box, "")
# grid
area = widgetBox(self.controlArea, orientation='horizontal')
area.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Expanding)
leftArea = widgetBox(self.box)
leftArea.setSizePolicy(QSizePolicy.Maximum, QSizePolicy.Expanding)
rightArea = widgetBox(area)
runbox = groupBox(rightArea,
label=_("Command Edit:"),
orientation='horizontal')
runbox.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Maximum)
#self.command = lineEdit(runbox, "", orientation=QHBoxLayout(), callback = self.runR, width = -1)
self.command = textEdit(runbox, label=_('Command Edit:'))
#self.command.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Expanding)
processbutton = button(runbox,
label=_("&Run"),
callback=self.runR,
width=100)
statusBox = groupBox(rightArea, label=_("Status"))
self.sendStatus = widgetLabel(statusBox, _('Nothing Sent'))
self.dataBox = groupBox(leftArea, label=_("Input Infromation"))
self.mystatus = widgetLabel(self.dataBox, _("No Input"))
# self.metadataBox = widgetBox(leftArea, _("Metadata"))
# self.infoM = widgetLabel(self.metadataBox, _("No Meta Data"))
# self.metadataLB = listBox(self.metadataBox, callback = self.insertMetaDataVar)
varbutton = button(leftArea,
_("Recieved"),
callback=self.putrecieved,
width=150)
history = button(leftArea,
_("RHistory"),
callback=self.putRHistory,
width=150)
button(leftArea, _("Clear Output"), callback=self.clearOutput)
self.lsList = listBox(self.box,
label=_('Available R Items'),
items=self.R('ls()', wantType='list'),
callback=self.addlsList)
button(self.box, 'Refresh List', callback=self.refreshLsList)
self.thistext = textEdit(rightArea,
label=_('Output'),
displayLabel=False)
sendbutton = button(
runbox,
label=_("&Send"),
toolTip=_(
'Send the data in the command line into the Red-R schema.'),
callback=self.sendThis,
width=100)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.setRvariableNames(['heatsubset', 'hclust', 'heatvect'])
self.plotOnConnect = 0
self.plotdata = ''
self.rowvChoice = None
self.colvChoice = None
self.listOfColors = ['"red"', '"white"', '"blue"']
self.inputs.addInput('id0', 'Expression Matrix', redRRDataFrame,
self.processMatrix)
self.inputs.addInput('id1', 'Classes Data', redRRVector,
self.processClasses)
#self.outputs.addOutput('id0', 'Cluster Subset List', redRRVector)
self.outputs.addOutput('id1', 'Cluster Classes', redRRVector)
#GUI
infobox = groupBox(self.controlArea, label="Options")
self.commit = redRCommitButton(self.bottomAreaRight,
label="Replot",
callback=self.makePlot,
width=200,
processOnInput=True)
button(infobox, label='Identify', callback=self.identify, width=200)
self.groupOrHeight = radioButtons(infobox,
label='Identify by:',
buttons=['Groups', 'Height'],
setChecked='Groups',
orientation='horizontal')
self.groupOrHeightSpin = spinBox(infobox,
label='Identify Value:',
min=1,
value=5)
self.startSaturation = spinBox(infobox,
label='Starting Saturation:',
min=0,
max=100)
self.endSaturation = spinBox(infobox,
label='Ending Saturation:',
min=0,
max=100)
self.endSaturation.setValue(30)
redRButton(self.controlArea,
label='Reset Colors',
callback=self.resetColors)
#self.classesDropdown = comboBox(infobox, label = 'Classes:', toolTip = 'If classes data is connected you may select columns in the data to represent classes of your columns in the plotted data')
self.rowDendrogram = checkBox(
infobox,
label='Dendrogram Options',
displayLabel=False,
buttons=['Plot Row Dendrogram', 'Plot Column Dendrogram'],
setChecked=['Plot Row Dendrogram', 'Plot Column Dendrogram'])
self.showClasses = checkBox(infobox,
label='Show Classes',
displayLabel=False,
buttons=['Show Classes'])
self.showClasses.setEnabled(False)
#OWGUI.checkBox(infobox, self, )
self.infoa = widgetLabel(infobox, label="Nothing to report")
self.gview1 = graphicsView(self.controlArea,
label='Heatmap',
displayLabel=False)
self.gview1.image = 'heatmap1_' + self.widgetID
def createMenu(self, selectedCol):
'''
self.tm.createMenu(selectedCol, sortable = self.sortable, filterable = self.filterable
'''
#print selectedCol, pos
# print _('in createMenu'), self.criteriaList
if not self.sortable and not self.filterable: return
globalPos = QCursor.pos() #self.mapToGlobal(pos)
self.menu = QDialog(None,Qt.Popup)
self.menu.setLayout(QVBoxLayout())
if self.sortable:
box = widgetBox(self.menu,orientation='horizontal')
box.layout().setAlignment(Qt.AlignLeft)
button(box,label='A->Z',callback= lambda: self.sort(selectedCol,Qt.AscendingOrder))
widgetLabel(box,label=_('Ascending Sort'))
box = widgetBox(self.menu,orientation='horizontal')
box.layout().setAlignment(Qt.AlignLeft)
button(box,label='Z->A',callback= lambda: self.sort(selectedCol,Qt.DescendingOrder))
widgetLabel(box,label=_('Descending Sort'))
if not self.filterable:
self.menu.move(globalPos)
self.menu.show()
return
if self.sortable:
hr = QFrame(self.menu)
hr.setFrameStyle( QFrame.Sunken + QFrame.HLine );
hr.setFixedHeight( 12 );
self.menu.layout().addWidget(hr)
clearButton = button(self.menu,label=_('Clear Filter'),
callback=lambda col=selectedCol: self.createCriteriaList(col,self.menu,action='clear'))
self.menu.layout().setAlignment(clearButton,Qt.AlignHCenter)
clearButton.hide()
self.numericLabel = widgetLabel(self.menu,label=_('Enter a value for one of these critera:'))
self.numericLabel.hide()
self.stringLabel = widgetLabel(self.menu,label=_('Enter a value for one of these critera (case sensitive):'))
self.stringLabel.hide()
self.factorLabel = widgetLabel(self.menu,label=_('Select Levels:'))
self.factorLabel.hide()
if selectedCol in self.criteriaList.keys():
clearButton.show()
self.optionsBox = widgetBox(self.menu)
self.optionsBox.layout().setAlignment(Qt.AlignTop)
#### Logic if R variable ###
#if self.varType == 0:
colClass = self.R('class(%s[,%d])' % (self.Rdata,selectedCol),silent=True)
if colClass in ['factor','logical']:
self.factorLabel.show()
if selectedCol in self.criteriaList.keys():
checked = self.criteriaList[selectedCol]['value']
else:
checked = []
if colClass =='logical':
levels = ['TRUE','FALSE']
else:
levels = self.R('levels(%s[,%d])' % (self.Rdata,selectedCol),wantType='list', silent=True)
if len(levels) > 1:
levels.insert(0,_('Check All'))
scroll = scrollArea(self.optionsBox,spacing=1)
c = checkBox(scroll,label=_('Levels'),displayLabel=False, buttons=levels,setChecked = checked)
scroll.setWidget(c.controlArea)
QObject.connect(c.buttons, SIGNAL('buttonClicked (int)'), lambda val : self.factorCheckBox(val,self.optionsBox))
elif colClass in ['integer','numeric']:
self.numericLabel.show()
self.options = [_('Equals'), _('Does Not Equal'),_('Greater Than'),_('Greater Than Or Equal To'),
_('Less Than'), _('Less Than or Equal To'), 'Between\n(2 numbers comma\nseparated, inclusive)',
'Not Between\n(2 numbers comma\nseparated)']
for x in self.options:
if selectedCol in self.criteriaList and self.criteriaList[selectedCol]['method'] == _('Numeric ') + x:
e = lineEdit(self.optionsBox,label=x,text=self.criteriaList[selectedCol]['value'])
else:
e = lineEdit(self.optionsBox,label=x)
self.connect(e, SIGNAL("textEdited(QString)"),
lambda val, col=selectedCol,field=x : self.clearOthers(val,self.optionsBox,field))
elif colClass in ['character']:
self.stringLabel.show()
self.options = [_('Equals'), _('Does Not Equal'),_('Begins With'),_('Ends With'),
_('Contains'), _('Does Not Contain')]
for x in self.options:
if selectedCol in self.criteriaList and self.criteriaList[selectedCol]['method'] == _('String ') + x:
e = lineEdit(self.optionsBox,label=x,text=self.criteriaList[selectedCol]['value'])
else:
e = lineEdit(self.optionsBox,label=x)
self.connect(e, SIGNAL("textEdited(QString)"),
lambda val, col=selectedCol,field=x : self.clearOthers(val,self.optionsBox,field))
buttonBox = widgetBox(self.optionsBox,orientation='horizontal')
buttonBox.layout().setAlignment(Qt.AlignRight)
okButton = button(buttonBox,label=_('OK'),
callback=lambda col=selectedCol: self.createCriteriaList(col,self.optionsBox,action=_('OK')))
okButton.setDefault (True)
button(buttonBox,label=_('Cancel'),
callback=lambda col=selectedCol: self.createCriteriaList(col,self.optionsBox,action='cancel'))
self.menu.move(globalPos)
self.menu.show()
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.setRvariableNames(['Plot', 'paint', 'selected'])
self.inputs.addInput('id0', 'x', redRRDataFrame, self.gotX)
self.outputs.addOutput('id0', 'Scatterplot Output', redRRDataFrame)
self.data = None
self.parent = None
self.dataParent = None
# GUI
area = widgetBox(self.controlArea, orientation='horizontal')
options = widgetBox(area, orientation='vertical')
options.setMaximumWidth(250)
# options.setMinimumWidth(250)
options.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
dataSelection = groupBox(options, orientation='vertical')
self.xColumnSelector = comboBox(dataSelection,
label='X data',
items=[],
callback=self.onSourceChange)
self.yColumnSelector = comboBox(dataSelection,
label='Y data',
items=[],
callback=self.onSourceChange)
self.paintCMSelector = comboBox(dataSelection,
label='Color Points By:',
items=[''],
callback=self.onSourceChange)
# plot area
plotarea = groupBox(area, label="Graph")
plotarea.setSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding)
#plotarea.setSizePolicy(QSizePolicy.Expanding, QSizePolicy.Expanding)
self.graph = redRGraph(plotarea,
label='Scatter Plot',
displayLabel=False,
onSelectionCallback=self.onSelectionCallback)
#plotarea.layout().addWidget(self.graph)
#self.zoomSelectToolbarBox = groupBox(self.GUIDialog, label = "Plot Tool Bar")
separator(options, height=8)
buttonBox = groupBox(options, orientation='vertical')
box1 = widgetBox(buttonBox, orientation='horizontal')
box1.layout().setAlignment(Qt.AlignRight)
self.plotOnInput = checkBox(
box1,
label='commit',
displayLabel=False,
buttons=['Plot on Change'],
toolTips=[
'Whenever X, Y or color data source changes plot the results.'
])
button(box1,
label="Plot",
callback=self.plot,
toolTip='Plot the data.')
box2 = widgetBox(buttonBox, orientation='horizontal')
box2.layout().setAlignment(Qt.AlignRight)
self.commitOnInput = checkBox(
box2,
label='commit',
displayLabel=False,
buttons=['Commit on Selection'],
toolTips=['Whenever this selection changes, send data forward.'])
button(box2,
label="Select",
callback=self.sendMe,
toolTip='Subset the data according to your selection.')
separator(options, height=8)
self.zoomSelectToolbar = zoomSelectToolbar(self, options, self.graph)
self.paintLegend = textEdit(options, label='Legend')
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.path = os.path.abspath('/')
self.colClasses = []
self.myColClasses = []
self.colNames = []
self.dataTypes = []
self.useheader = 1
#set R variable names
self.setRvariableNames(
['dataframe_org', 'dataframe_final', 'filename', 'parent'])
#signals
self.outputs.addOutput(
'od1', _('Output Data'),
rdf.RDataFrame) #[("data.frame", rdf.RDataFrame)]
#GUI
area = widgetBox(self.controlArea,
orientation='horizontal',
alignment=Qt.AlignTop)
#area.setSizePolicy(QSizePolicy(QSizePolicy.MinimumExpanding ,QSizePolicy.MinimumExpanding))
#area.layout().setAlignment(Qt.AlignTop)
options = widgetBox(area, orientation='vertical')
options.setMaximumWidth(300)
# options.setMinimumWidth(300)
options.setSizePolicy(QSizePolicy.Fixed, QSizePolicy.Fixed)
#area.layout().setAlignment(options,Qt.AlignTop)
self.browseBox = groupBox(options,
label=_("Load File"),
addSpace=True,
orientation='vertical')
box = widgetBox(self.browseBox, orientation='horizontal')
self.filecombo = fileNamesComboBox(box,
label=_('Files'),
displayLabel=False,
orientation='horizontal',
callback=self.scanNewFile)
self.filecombo.setSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.Minimum)
button(box, label=_('Browse'), callback=self.browseFile)
self.fileType = radioButtons(options,
label=_('File Type'),
buttons=[_('Text'), _('Excel')],
setChecked=_('Text'),
callback=self.scanNewFile,
orientation='horizontal')
self.fileType.setSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.Minimum)
self.fileType.hide()
self.delimiter = radioButtons(
options,
label=_('Column Seperator'),
buttons=[_('Tab'), _('Comma'),
_('Space'), _('Other')],
setChecked=_('Tab'),
callback=self.scanNewFile,
orientation='horizontal')
self.otherSepText = lineEdit(self.delimiter.box,
label=_('Seperator'),
displayLabel=False,
text=';',
width=20,
orientation='horizontal')
QObject.connect(self.otherSepText,
SIGNAL('textChanged(const QString &)'), self.otherSep)
self.headersBox = groupBox(options,
label=_("Row and Column Names"),
addSpace=True,
orientation='horizontal')
self.hasHeader = checkBox(
self.headersBox,
label=_('Column Header'),
displayLabel=False,
buttons=[_('Column Headers')],
setChecked=[_('Column Headers')],
toolTips=[
_('a logical value indicating whether the file contains the names of the variables as its first line. If missing, the value is determined from the file format: header is set to TRUE if and only if the first row contains one fewer field than the number of columns.'
)
],
orientation='vertical',
callback=self.scanNewFile)
self.rowNamesCombo = comboBox(self.headersBox,
label=_('Select Row Names'),
orientation='vertical',
callback=self.scanFile)
#self.rowNamesCombo.setMaximumWidth(250)
self.otherOptionsBox = groupBox(options,
label=_("Other Options"),
addSpace=True,
orientation='vertical')
# box.setSizePolicy(QSizePolicy.Minimum, QSizePolicy.Minimum)
split = widgetBox(self.otherOptionsBox, orientation='horizontal')
# split.setSizePolicy(QSizePolicy.Minimum, QSizePolicy.Minimum)
self.otherOptions = checkBox(
split,
label=_('Options'),
displayLabel=False,
buttons=[
'fill', 'strip.white', 'blank.lines.skip', 'allowEscapes',
'StringsAsFactors'
],
setChecked=['blank.lines.skip'],
toolTips=[
_('logical. If TRUE then in case the rows have unequal length, blank fields are implicitly added.'
),
_('logical. Used only when sep has been specified, and allows the unicodeipping of leading and trailing white space from character fields (numeric fields are always unicodeipped). '
),
_('logical: if TRUE blank lines in the input are ignored.'),
_('logical. Should C-style escapes such as \n be processed or read verbatim (the default)? '
),
_('logical: should character vectors be converted to factors?')
],
orientation='vertical',
callback=self.scanFile)
# box.layout().addWidget(self.otherOptions,1,1)
box2 = widgetBox(split, orientation='vertical')
#box2.setSizePolicy(QSizePolicy.Fixed,QSizePolicy.Fixed)
split.layout().setAlignment(box2, Qt.AlignTop)
self.quote = lineEdit(box2,
text='"',
label=_('Quote:'),
width=50,
orientation='horizontal')
self.decimal = lineEdit(
box2,
text='.',
label=_('Decimal:'),
width=50,
orientation='horizontal',
toolTip=_(
'Decimal sign, some countries may want to use the \'.\''))
self.numLinesScan = lineEdit(
box2,
text='10',
label=_('# Lines to Preview:'),
toolTip=
_('The maximum number of rows to read in while previewing the file. Negative values are ignored.'
),
width=50,
orientation='horizontal')
self.numLinesReads = lineEdit(
box2,
text='-1',
label=_('# Lines to Read:'),
toolTip=
_('Number of lines to read from file. Read whole file if 0 or negative values.'
),
width=50,
orientation='horizontal')
self.numLinesSkip = lineEdit(
box2,
text='0',
label=_('# Lines to Skip:'),
toolTip=
_("The number of lines of the data file to skip before beginning to read data."
),
width=50,
orientation='horizontal')
holder = widgetBox(options, orientation='horizontal')
clipboard = button(
holder,
label=_('Load Clipboard'),
toolTip=
_('Load the file from the clipboard, you can do this if\ndata has been put in the clipboard using the copy command.'
),
callback=self.loadClipboard)
rescan = button(holder,
label=_('Rescan File'),
toolTip=_("Preview a small portion of the file"),
callback=self.scanNewFile)
load = button(holder,
label=_('Load File'),
toolTip=_("Load the file into Red-R"),
callback=self.loadFile)
holder.layout().setAlignment(Qt.AlignRight)
self.FileInfoBox = groupBox(options,
label=_("File Info"),
addSpace=True)
self.infob = widgetLabel(self.FileInfoBox, label='')
self.infob.setWordWrap(True)
self.infoc = widgetLabel(self.FileInfoBox, label='')
self.FileInfoBox.setHidden(True)
self.tableArea = widgetBox(area)
self.tableArea.setMinimumWidth(500)
#self.tableArea.setHidden(True)
self.tableArea.setSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding)
self.scanarea = textEdit(self.tableArea,
label=_('File Preview'),
includeInReports=False)
self.scanarea.setLineWrapMode(QTextEdit.NoWrap)
self.scanarea.setReadOnly(True)
self.scroll = scrollArea(self.tableArea)
self.columnTypes = widgetBox(self,
orientation=QGridLayout(),
margin=10)
self.scroll.setWidget(self.columnTypes)
#self.columnTypes.layout().setSizeConstraint(QLayout.SetMinAndMaxSize)
self.columnTypes.setMinimumWidth(460)
self.columnTypes.layout().setSizeConstraint(QLayout.SetMinimumSize)
self.columnTypes.setSizePolicy(
QSizePolicy(QSizePolicy.MinimumExpanding,
QSizePolicy.MinimumExpanding))
self.columnTypes.layout().setAlignment(Qt.AlignTop | Qt.AlignLeft)
#self.setFileList()
import sys
if sys.platform == "win32":
self.require_librarys(['RODBC'])
self.setForExcel()
def __init__(self, parent,label=None, displayLabel=True,includeInReports=True, name = '', data = None):
## want to init a graphics view with a new graphics scene, the scene will be accessable through the widget.
widgetState.__init__(self,parent,label,includeInReports)
QGraphicsView.__init__(self, self.controlArea)
# if displayLabel:
# self.controlArea = groupBox(parent,label=label, orientation='vertical')
# else:
# self.controlArea = widgetBox(parent,orientation='vertical')
#self.controlArea = widgetBox(parent)
self.topArea = widgetBox(self.controlArea,
sizePolicy = QSizePolicy(QSizePolicy.Minimum,QSizePolicy.Maximum),includeInReports=False)
self.middleArea = widgetBox(self.controlArea)
self.bottomArea = widgetBox(self.controlArea,includeInReports=False)
self.middleArea.layout().addWidget(self) # place the widget into the parent widget
scene = QGraphicsScene()
self.setScene(scene)
self.parent = parent
self.data = data
self.widgetSelectionRect = None
self.mainItem = None
self.query = ''
self.function = 'plot'
self.layers = []
self.image = 'plot'+unicode(time.time()) # the base file name without an extension
self.imageFileName = ''
self.currentScale = 1
################################
#### Themes #####
################################
self.options = {
'device': {
'Rcall': 'Cairo',
'parameters': {
'type':{
'default':'svg',
'qtWidget': 'imageType'
}
,'dpi':{
'default':'75',
'qtWidget': 'dpi'
}
,'bg': {
'default':'#FFFFFF',
'color': '#FFFFFF',
'qtWidget':'bgColor'
}
,'height': {
'default':400,
'qtWidget': 'dheight'
}
,'width': {
'default':400,
'qtWidget': 'dwidth'
}
,'units': {
'default':'px',
'qtWidget': 'units'
}
}
}
,'main': {
'Rcall': 'plot',
'parameters': {
'col': {
'default':None,
'qtWidget':'colorSeries',
'series': '',
'seriesLen': 0,
'getFunction': self.getColorSeries,
'setFunction': self.setColorSeries,
}
,'lty': {
'default':None,
'qtWidget':'linesListBox',
'getFunction': self.getLineTypes,
'setFunction': self.setLineTypes,
}
,'lwd': {
'default':None,
'qtWidget':'lineWidth'
}
,'pch': {
'default':None,
'qtWidget':'pointListBox',
'getFunction': self.getLineTypes,
'setFunction': self.setLineTypes,
}
}
},
'title': {
'Rcall': 'title',
'parameters': {
'main': {
'default':"Title",
'qtWidget':'mainTitle'
}
,'xlab': {
'default':"XLab",
'qtWidget':'xLab'
}
,'ylab': {
'default':"YLab",
'qtWidget':'yLab'
}
,'col.main': {
'default':'#000000',
'qtWidget':'titleColor'
}
,'col.sub': {
'default':'#000000',
'qtWidget':'subColor'
}
,'col.lab': {
'default':'#000000',
'qtWidget':'labColor'
}
}
},
'par': {
'Rcall':'par',
'parameters': {
'cex.axis': {
'default':1,
'qtWidget':'axisFont'
}
,'cex.lab': {
'default':1,
'qtWidget':'labFont'
}
,'cex': {
'default':1,
'qtWidget':'plotFont'
}
,'cex.main': {
'default':1,
'qtWidget':'mainFont'
}
,'cex.sub': {
'default':1,
'qtWidget':'subFont'
}
,'col.axis': {
'default':'#000000',
'qtWidget':'axisColor'
}
# ,'family': {
# 'default':'serif',
# 'qtWidget':'fontCombo'
# }
}
}
}
# ,'fg' : None
# ,'legendNames' : None
# ,'legendLocation' : "'bottomleft'"
# }
self.optionWidgets = {}
self.colorList = ['#000000', '#ff0000', '#00ff00', '#0000ff']
################################
#### Setup Tabs #####
################################
self.graphicOptionsButton = button(self.topArea,label='Graphic Options',
toggleButton = True,callback=self.displayGraphicOptions)
self.graphicOptionsWidget = widgetBox(self.topArea)
self.graphicOptions = tabWidget(self.graphicOptionsWidget)
self.graphicOptions.setFixedHeight(180)
hbox = widgetBox(self.graphicOptionsWidget,orientation='horizontal',alignment= Qt.AlignLeft)
self.resizeCheck = checkBox(hbox,label='resize',displayLabel=False,buttons={'true':'Resize Image'},setChecked='true')
button(hbox,label='Update Graphic', alignment=Qt.AlignLeft, callback=self.plotMultiple)
self.labels = self.graphicOptions.createTabPage('Main')
self.points = self.graphicOptions.createTabPage('Points/Lines')
self.advanced = self.graphicOptions.createTabPage('Advanced')
#self.graphicOptions.hide()
firstTab = widgetBox(self.labels,orientation='horizontal',alignment=Qt.AlignLeft | Qt.AlignTop)
secondTab = widgetBox(self.points,orientation='horizontal',alignment=Qt.AlignLeft | Qt.AlignTop)
advancedTab = widgetBox(self.advanced,orientation='vertical',alignment=Qt.AlignLeft | Qt.AlignTop)
################################
#### Advanced Tabs #####
################################
self.optionWidgets['extrasLineEdit'] = lineEdit(advancedTab, label = 'Advanced plotting parameters',
toolTip = 'Add extra parameters to the main plot.\nPlease see documentation for more details about parameters.')
self.optionWidgets['onlyAdvanced'] = checkBox(advancedTab,
buttons=['Only use the advanced options here'],
label='advancedOnly',displayLabel=False)
################################
#### First Tabs #####
################################
imageBox = groupBox(firstTab,label='Image Properties', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['imageType'] = comboBox(imageBox,label='Image Type',items=['svg','png'])
self.optionWidgets['imageType'].setSizePolicy(QSizePolicy.MinimumExpanding,QSizePolicy.Minimum)
hbox = widgetBox(imageBox,orientation='horizontal')
self.optionWidgets['dheight'] = spinBox(hbox, label = 'Height', min = 1, max = 5000, value = 400)
self.optionWidgets['dwidth'] = spinBox(hbox, label = 'Width', min = 1, max = 5000, value = 400)
hbox = widgetBox(imageBox,orientation='horizontal')
self.optionWidgets['units'] = comboBox(hbox,label='units',items=[('px','Pixel'),('in','Inches')])
self.optionWidgets['dpi'] = comboBox(hbox,label='DPI',items=['75','100','150','auto'],editable=True)
labelBox = groupBox(firstTab,label='Labels', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['mainTitle'] = lineEdit(labelBox,label='Main Title')
self.optionWidgets['xLab'] = lineEdit(labelBox,label='X Axis Label')
self.optionWidgets['yLab'] = lineEdit(labelBox,label='Y Axis Label')
fontBox = groupBox(firstTab,label='Sizes', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
fontColumnBox = widgetBox(fontBox,orientation='horizontal')
fontColumn1 = widgetBox(fontColumnBox,orientation='vertical')
fontColumn2 = widgetBox(fontColumnBox,orientation='vertical')
#self.optionWidgets['fontCombo'] = comboBox(fontColumn1, items = ['serif', 'sans', 'mono'], label='Font Family')
self.optionWidgets['lineWidth'] = spinBox(fontColumn1,label='Point/Line Size',decimals=2,min=1,max=50)
self.optionWidgets['plotFont'] = spinBox(fontColumn1, label = 'Plot Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['axisFont'] = spinBox(fontColumn1, label = 'Axis Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['mainFont'] = spinBox(fontColumn2, label = 'Title Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['subFont'] = spinBox(fontColumn2, label = 'Subtitle Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['labFont'] = spinBox(fontColumn2, label = ' XY Label Text Size',decimals=2, min = 1, max = 50)
colorBox = groupBox(firstTab,label='Colors', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
hbox = widgetBox(colorBox,orientation='horizontal')
self.optionWidgets['colorSeries'] = comboBox(hbox,label='Generate Colors Series',orientation='vertical',
items = ['select','rainbow','heat.colors','terrain.colors','topo.colors','cm.colors'])
self.optionWidgets['colorSeriesLen'] = spinBox(hbox,label='Length of Series',displayLabel=False, min=0, max=500)
hbox.layout().setAlignment(self.optionWidgets['colorSeriesLen'].controlArea, Qt.AlignBottom)
self.optionWidgets['bgColor'] = ColorIcon(colorBox,label='Background')
#self.optionWidgets['customColors'] = button(colorBox,label='Custom Plot Colors',callback=self.setPlotColors)
################################
#### Second Tabs #####
################################
colorBox2 = groupBox(secondTab,label='Colors', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
# colorColumnBox = widgetBox(colorBox2,orientation='horizontal')
# colorColumn1 = widgetBox(colorColumnBox,orientation='vertical')
# colorColumn2 = widgetBox(colorColumnBox,orientation='vertical')
self.optionWidgets['titleColor'] = ColorIcon(colorBox2,label='Title')
self.optionWidgets['subColor'] = ColorIcon(colorBox2,label='Subtitle')
self.optionWidgets['labColor'] = ColorIcon(colorBox2,label='Subtitle')
self.optionWidgets['axisColor'] = ColorIcon(colorBox2,label='Axis')
lineBox = groupBox(secondTab,label='Lines', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['linesListBox'] = listBox(lineBox, label = 'Line types', displayLabel=False,
selectionMode = QAbstractItemView.ExtendedSelection,
items = [(1,'________'), (2,'- - - -'), (3,'........'), (4,'_._._._.'),
(5,'__ __ __'), (6,'__.__.__.')])
pointBox = groupBox(secondTab,label='Points', orientation='vertical',
sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
items = []
for i in range(1,26):
items.append((i-1,QListWidgetItem(QIcon(os.path.join(redREnviron.directoryNames['picsDir'],
'R icon (%d).png' %i)),'')))
for i in range(32,128):
items.append((i-1,'%s' % (chr(i))))
self.optionWidgets['pointListBox'] = listBox(pointBox, label = 'Line types', displayLabel=False,
selectionMode = QAbstractItemView.ExtendedSelection, items = items)
self.setTheme(self.options)
################################
### right click menu #######
################################
self.menu = QMenu(self)
save = self.menu.addMenu('Save As')
save.addAction('Bitmap')
save.addAction('PDF')
save.addAction('Post Script')
save.addAction('JPEG')
self.menu.addAction('Copy')
self.menu.addAction('Fit In Window')
self.menu.addAction('Zoom Out')
self.menu.addAction('Zoom In')
self.menu.addAction('Undock')
self.menu.addAction('Redock')
self.dialog = QDialog()
self.dialog.setWindowTitle('Red-R Graphics View' + name)
self.dialog.setLayout(QHBoxLayout())
self.standardImageType = 'svg'
QObject.connect(self.dialog, SIGNAL('finished(int)'), self.dialogClosed)
def __init__(self, parent=None, signalManager=None):
OWRpy.__init__(self)
self.setRvariableNames(['heatsubset'])
self.plotOnConnect = 0
self.plotdata = ''
self.rowvChoice = None
self.inputs.addInput('id0', 'Expression Matrix', redRRMatrix,
self.processMatrix)
#GUI
mainArea = widgetBox(self.controlArea, orientation='horizontal')
#mainArea.setMaximumWidth(300)
options = widgetBox(mainArea, orientation='vertical')
options.setMaximumWidth(175)
options.setMinimumWidth(175)
dendrogramsBox = groupBox(options,
label='Calculate dendrogram ',
orientation='vertical')
self.notice = widgetLabel(
dendrogramsBox,
label=
'The data set has > 1000 rows.\nClustering on rows will likely fail.'
)
self.notice.setHidden(True)
self.dendrogramOptions = checkBox(dendrogramsBox,
buttons=['Rows', 'Columns'],
setChecked=['Rows', 'Columns'],
orientation='horizontal',
callback=self.dendrogramChanged)
functions = widgetBox(dendrogramsBox, orientation='vertical')
self.distOptions = lineEdit(functions,
label='Distance Function:',
text='dist',
orientation='vertical')
self.hclustOptions = lineEdit(functions,
label='Clustering Function:',
text='hclust',
orientation='vertical')
#self.reorderOptions = lineEdit(functions,label='Reorder Function:', text='reorder.dendrogram')
self.scaleOptions = radioButtons(options,
label='Scale',
buttons=['row', 'column', 'none'],
setChecked='row',
orientation='horizontal')
otherOptions = groupBox(options, label='Other Options')
self.narmOptions = checkBox(otherOptions,
buttons=['Remove NAs'],
setChecked=['Remove NAs'])
# self.showDendroOptions = checkBox(otherOptions,buttons=['Show dendrogram '], setChecked=['Show dendrogram '])
self.colorTypeCombo = comboBox(otherOptions,
label='Color Type:',
items=[
'rainbow', 'heat.colors',
'terrain.colors', 'topo.colors',
'cm.colors'
],
callback=self.colorTypeChange)
self.startSaturation = spinBox(otherOptions,
label='Starting Saturation',
min=0,
max=100)
self.endSaturation = spinBox(otherOptions,
label='Ending Saturation',
min=0,
max=100)
self.endSaturation.setValue(30)
separator(otherOptions, height=10)
self.imageWidth = spinBox(otherOptions,
label='Image Width',
min=1,
max=1000)
self.imageWidth.setValue(4)
self.imageHeight = spinBox(otherOptions,
label='Image Height',
min=1,
max=1000)
self.imageHeight.setValue(4)
self.notice2 = widgetLabel(options,
label='The input matrix is not numeric.')
self.notice2.setHidden(True)
self.buttonsBox = widgetBox(options, orientation='horizontal')
self.buttonsBox.layout().setAlignment(Qt.AlignRight)
self.plotOnConnect = checkBox(self.buttonsBox,
buttons=['Plot on Connect'])
button(self.buttonsBox, label="Plot", callback=self.makePlot)
def __init__(self,widget,label=None, displayLabel=True, Rdata=None,
editable=False, sortable=True, filterable=False,
selectionBehavior=QAbstractItemView.SelectRows,
selectionMode = QAbstractItemView.ExtendedSelection,
showResizeButtons = True,
onFilterCallback = None,
callback=None,
selectionCallback=None,**kwargs):
kwargs.setdefault('includeInReports', True)
kwargs.setdefault('sizePolicy', QSizePolicy(QSizePolicy.Preferred, QSizePolicy.Preferred))
widgetState.__init__(self,widget,label,**kwargs)
if displayLabel:
mainBox = groupBox(self.controlArea,label=label, orientation='vertical')
else:
mainBox = widgetBox(self.controlArea,orientation='vertical')
self.label = label
QTableView.__init__(self,self.controlArea)
mainBox.layout().addWidget(self)
box = widgetBox(mainBox,orientation='horizontal')
leftBox = widgetBox(box,orientation='horizontal')
if filterable:
self.clearButton = button(leftBox,label=_('Clear All Filtering'), callback=self.clearFiltering)
self.dataInfo = widgetLabel(leftBox,label='',wordWrap=False)
box.layout().setAlignment(leftBox, Qt.AlignLeft)
if showResizeButtons:
resizeColsBox = widgetBox(box, orientation="horizontal")
resizeColsBox.layout().setAlignment(Qt.AlignRight)
box.layout().setAlignment(resizeColsBox, Qt.AlignRight)
widgetLabel(resizeColsBox, label = _("Resize columns: "))
button(resizeColsBox, label = "+", callback=self.increaseColWidth,
toolTip = _("Increase the width of the columns"), width=30)
button(resizeColsBox, label = "-", callback=self.decreaseColWidth,
toolTip = _("Decrease the width of the columns"), width=30)
button(resizeColsBox, label = _("Resize To Content"), callback=self.resizeColumnsToContents,
toolTip = _("Set width based on content size"))
self.R = Rcommand
self.Rdata = None
self.filteredData = None
self.sortIndex = None
self.criteriaList = {}
self.parent = widget
self.tm=None
self.sortable=sortable
self.editable=editable
self.filterable=filterable
self.onFilterCallback = onFilterCallback
self.selectionCallback = selectionCallback
# self.selections = QItemSelection()
self.working = False
self.setHorizontalHeader(myHeaderView(self))
self.setSelectionBehavior(selectionBehavior)
self.setAlternatingRowColors(True)
# self.horizontalHeader().setMovable(True)
if selectionMode != -1:
self.setSelectionMode(selectionMode)
if Rdata:
self.setRTable(Rdata)
if editable:
self.horizontalHeader().hide()
self.verticalHeader().hide()
if sortable:
self.horizontalHeader().setSortIndicatorShown(True)
self.horizontalHeader().setSortIndicator(-1,0)
if filterable or sortable:
self.horizontalHeader().setClickable(True)
self.horizontalHeader().setContextMenuPolicy(Qt.CustomContextMenu)
self.horizontalHeader().customContextMenuRequested.connect(self.headerClicked)
if callback:
QObject.connect(self, SIGNAL('clicked (QModelIndex)'), callback)
def __init__(self, parent,label=None, displayLabel=True,includeInReports=True, name = '', data = None):
## want to init a graphics view with a new graphics scene, the scene will be accessable through the widget.
widgetState.__init__(self,parent,label,includeInReports)
QGraphicsView.__init__(self, self.controlArea)
# if displayLabel:
# self.controlArea = groupBox(parent,label=label, orientation='vertical')
# else:
# self.controlArea = widgetBox(parent,orientation='vertical')
#self.controlArea = widgetBox(parent)
self.topArea = widgetBox(self.controlArea,
sizePolicy = QSizePolicy(QSizePolicy.Minimum,QSizePolicy.Maximum),includeInReports=False)
self.middleArea = widgetBox(self.controlArea)
self.bottomArea = widgetBox(self.controlArea,includeInReports=False)
self.middleArea.layout().addWidget(self) # place the widget into the parent widget
scene = QGraphicsScene()
self.setScene(scene)
self.parent = parent
self.data = data
self.widgetSelectionRect = None
self.mainItem = None
self.query = ''
self.function = 'plot'
self.layers = []
self.image = 'plot'+unicode(time.time()) # the base file name without an extension
self.imageFileName = ''
self.currentScale = 1
self.customPlotFunction = None
self.controlGroups = {}
self.tabs = {}
################################
#### Themes #####
################################
self.options = {
'device': {
'Rcall': 'Cairo',
'parameters': {
'type':{
'default':'svg',
'qtWidget': 'imageType'
}
,'dpi':{
'default':'75',
'qtWidget': 'dpi'
}
,'bg': {
'default':'#FFFFFF',
'color': '#FFFFFF',
'qtWidget':'bgColor'
}
,'height': {
'default':400,
'qtWidget': 'dheight'
}
,'width': {
'default':400,
'qtWidget': 'dwidth'
}
,'units': {
'default':'px',
'qtWidget': 'units'
}
}
}
,'main': {
'Rcall': 'plot',
'parameters': {
'col': {
'default':None,
'qtWidget':'colorSeries',
'series': '',
'seriesLen': 0,
'getFunction': self.getColorSeries,
'setFunction': self.setColorSeries,
}
,'lty': {
'default':None,
'qtWidget':'linesListBox',
'getFunction': self.getLineTypes,
'setFunction': self.setLineTypes,
}
,'lwd': {
'default':None,
'qtWidget':'lineWidth'
}
,'pch': {
'default':None,
'qtWidget':'pointListBox',
'getFunction': self.getLineTypes,
'setFunction': self.setLineTypes,
}
,'xlim': {
'default':None,
'qtWidget':['xstart','xend'],
'getFunction': self.getLimits,
'setFunction': self.setLimits,
}
,'ylim': {
'default':None,
'qtWidget':['ystart','yend'],
'getFunction': self.getLimits,
'setFunction': self.setLimits,
}
}
},
'title': {
'Rcall': 'title',
'parameters': {
'main': {
'default':"Title",
'qtWidget':'mainTitle'
}
,'xlab': {
'default':"XLab",
'qtWidget':'xLab'
}
,'ylab': {
'default':"YLab",
'qtWidget':'yLab'
}
,'col.main': {
'default':'#000000',
'qtWidget':'titleColor'
}
,'col.sub': {
'default':'#000000',
'qtWidget':'subColor'
}
,'col.lab': {
'default':'#000000',
'qtWidget':'labColor'
}
}
},
'par': {
'Rcall':'par',
'parameters': {
'cex.axis': {
'default':1,
'qtWidget':'axisFont'
}
,'cex.lab': {
'default':1,
'qtWidget':'labFont'
}
,'cex': {
'default':1,
'qtWidget':'plotFont'
}
,'cex.main': {
'default':1,
'qtWidget':'mainFont'
}
,'cex.sub': {
'default':1,
'qtWidget':'subFont'
}
,'col.axis': {
'default':'#000000',
'qtWidget':'axisColor'
}
# ,'family': {
# 'default':'serif',
# 'qtWidget':'fontCombo'
# }
}
}
}
# ,'fg' : None
# ,'legendNames' : None
# ,'legendLocation' : "'bottomleft'"
# }
self.optionWidgets = {}
self.colorList = ['#000000', '#ff0000', '#00ff00', '#0000ff']
################################
#### Setup Tabs #####
################################
self.graphicOptionsButton = button(self.topArea,label='Graphic Options',
toggleButton = True,callback=self.displayGraphicOptions)
self.graphicOptionsWidget = widgetBox(self.topArea)
self.tabWidget = tabWidget(self.graphicOptionsWidget)
self.tabWidget.setFixedHeight(180)
hbox = widgetBox(self.graphicOptionsWidget,orientation='horizontal',alignment= Qt.AlignLeft)
self.resizeCheck = checkBox(hbox,label='resize',displayLabel=False,buttons={'true':'Resize Image'},setChecked='true')
button(hbox,label='Update Graphic', alignment=Qt.AlignLeft, callback=self.updatePlot)
self.createTab('General')
self.createTab('Points/Lines')
self.createTab('Advanced')
################################
#### Advanced Tabs #####
################################
imageBox = self.createControlGroup('Advanced',label='Image Properties')
self.optionWidgets['extrasLineEdit'] = lineEdit(imageBox, label = 'Advanced plotting parameters',
orientation='horizontal',
toolTip = 'Add extra parameters to the main plot.\nPlease see documentation for more details about parameters.')
self.optionWidgets['onlyAdvanced'] = checkBox(imageBox,
buttons=['Only use the advanced options here'],
label='advancedOnly',displayLabel=False)
################################
#### First Tabs #####
################################
imageBox = self.createControlGroup('General',label='Image Properties')
# imageBox = groupBox(firstTab,label='Image Properties', orientation='vertical',
# sizePolicy = QSizePolicy(QSizePolicy.Maximum ,QSizePolicy.Minimum))
self.optionWidgets['imageType'] = comboBox(imageBox,label='Image Type',items=['svg','png'])
self.optionWidgets['imageType'].setSizePolicy(QSizePolicy.MinimumExpanding,QSizePolicy.Minimum)
hbox = widgetBox(imageBox,orientation='horizontal')
self.optionWidgets['dheight'] = spinBox(hbox, label = 'Height', min = 1, max = 5000, value = 400)
self.optionWidgets['dwidth'] = spinBox(hbox, label = 'Width', min = 1, max = 5000, value = 400)
hbox = widgetBox(imageBox,orientation='horizontal')
self.optionWidgets['units'] = comboBox(hbox,label='units',items=[('px','Pixel'),('in','Inches')])
self.optionWidgets['dpi'] = comboBox(hbox,label='DPI',items=['75','100','150','auto'],editable=True)
labelBox = self.createControlGroup('General',label='Labels')
self.optionWidgets['mainTitle'] = lineEdit(labelBox,label='Main Title')
self.optionWidgets['xLab'] = lineEdit(labelBox,label='X Axis Label')
self.optionWidgets['yLab'] = lineEdit(labelBox,label='Y Axis Label')
fontBox = self.createControlGroup('General',label='Sizes')
fontColumnBox = widgetBox(fontBox,orientation='horizontal')
fontColumn1 = widgetBox(fontColumnBox,orientation='vertical')
fontColumn2 = widgetBox(fontColumnBox,orientation='vertical')
#self.optionWidgets['fontCombo'] = comboBox(fontColumn1, items = ['serif', 'sans', 'mono'], label='Font Family')
self.optionWidgets['lineWidth'] = spinBox(fontColumn1,label='Point/Line Size',decimals=2,min=1,max=50)
self.optionWidgets['plotFont'] = spinBox(fontColumn1, label = 'Plot Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['axisFont'] = spinBox(fontColumn1, label = 'Axis Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['mainFont'] = spinBox(fontColumn2, label = 'Title Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['subFont'] = spinBox(fontColumn2, label = 'Subtitle Text Size',decimals=2, min = 1, max = 50)
self.optionWidgets['labFont'] = spinBox(fontColumn2, label = ' XY Label Text Size',decimals=2, min = 1, max = 50)
limitBox = self.createControlGroup('General',label='Limits')
col2Box = widgetBox(limitBox,orientation='horizontal')
column1 = widgetBox(col2Box,orientation='vertical')
column2 = widgetBox(col2Box,orientation='vertical')
self.optionWidgets['xstart'] = lineEdit(column1,label='X Start', width=40)
self.optionWidgets['xend'] = lineEdit(column2,label='X End', width=40)
self.optionWidgets['ystart'] = lineEdit(column1,label='Y Start', width=40)
self.optionWidgets['yend'] = lineEdit(column2,label='Y End', width=40)
################################
#### Second Tabs #####
################################
colorBox = self.createControlGroup('Points/Lines',label='Colors')
hbox = widgetBox(colorBox,orientation='horizontal')
self.optionWidgets['colorSeries'] = comboBox(hbox,label='Generate Colors Series',orientation='vertical',
items = ['select','rainbow','heat.colors','terrain.colors','topo.colors','cm.colors'])
self.optionWidgets['colorSeriesLen'] = spinBox(hbox,label='Length of Series',displayLabel=False, min=0, max=500)
hbox.layout().setAlignment(self.optionWidgets['colorSeriesLen'].controlArea, Qt.AlignBottom)
self.optionWidgets['bgColor'] = ColorIcon(colorBox,label='Background')
#self.optionWidgets['customColors'] = button(colorBox,label='Custom Plot Colors',callback=self.setPlotColors)
colorBox2 = self.createControlGroup('Points/Lines',label='More Colors')
# colorColumnBox = widgetBox(colorBox2,orientation='horizontal')
# colorColumn1 = widgetBox(colorColumnBox,orientation='vertical')
# colorColumn2 = widgetBox(colorColumnBox,orientation='vertical')
self.optionWidgets['titleColor'] = ColorIcon(colorBox2,label='Title')
self.optionWidgets['subColor'] = ColorIcon(colorBox2,label='Subtitle')
self.optionWidgets['labColor'] = ColorIcon(colorBox2,label='Subtitle')
self.optionWidgets['axisColor'] = ColorIcon(colorBox2,label='Axis')
lineBox = self.createControlGroup('Points/Lines',label='Lines')
self.optionWidgets['linesListBox'] = listBox(lineBox, label = 'Line types', displayLabel=False,
selectionMode = QAbstractItemView.ExtendedSelection,
items = [(1,'________'), (2,'- - - -'), (3,'........'), (4,'_._._._.'),
(5,'__ __ __'), (6,'__.__.__.')])
pointBox = self.createControlGroup('Points/Lines',label='Points')
items = []
for i in range(1,26):
items.append((i-1,QListWidgetItem(QIcon(os.path.join(redREnviron.directoryNames['picsDir'],
'R icon (%d).png' %i)),'')))
for i in range(32,128):
items.append((i-1,'%s' % (chr(i))))
self.optionWidgets['pointListBox'] = listBox(pointBox, label = 'Line types', displayLabel=False,
selectionMode = QAbstractItemView.ExtendedSelection, items = items)
self.setTheme(self.options)
################################
### right click menu #######
################################
self.menu = QMenu(self)
save = self.menu.addMenu('Save As')
save.addAction('Bitmap')
save.addAction('PDF')
save.addAction('Post Script')
save.addAction('JPEG')
self.menu.addAction('Copy')
self.menu.addAction('Fit In Window')
self.menu.addAction('Zoom Out')
self.menu.addAction('Zoom In')
self.menu.addAction('Undock')
self.menu.addAction('Redock')
self.dialog = QDialog()
self.dialog.setWindowTitle('Red-R Graphics View' + name)
self.dialog.setLayout(QHBoxLayout())
self.standardImageType = 'svg'
QObject.connect(self.dialog, SIGNAL('finished(int)'), self.dialogClosed)
