Python OWGUI.spin方法代码示例

# 需要导入模块: from Orange.OrangeWidgets import OWGUI [as 别名]
# 或者: from Orange.OrangeWidgets.OWGUI import spin [as 别名]

#.........这里部分代码省略.........
        self.listView.setColumnCount(9)
        self.listView.setHeaderLabels(["Collection", "Geneset", "NES", "ES", "P-value", "FDR", "Size", "Matched Size", "Genes"])
        
        self.listView.header().setStretchLastSection(True)
        self.listView.header().setClickable(True)
        self.listView.header().setSortIndicatorShown(True)
        self.listView.setSortingEnabled(True)
        #self.listView.header().setResizeMode(0, QHeaderView.Stretch)
        
        self.listView.setSelectionMode(QAbstractItemView.NoSelection)
        self.connect(self.listView, SIGNAL("itemSelectionChanged()"), self.newPathwaySelected)

        OWGUI.separator(ca)

        OWGUI.widgetLabel(ca, "Phenotype selection:")
        self.psel = PhenotypesSelection(ca)
        
        self.resize(600,50)
 
        OWGUI.separator(ca)

        OWGUI.checkBox(ca, self, "buildDistances", "Compute geneset distances")

        self.btnApply = OWGUI.button(ca, self, "&Compute", callback = self.compute, disabled=0)
        
        fileBox = OWGUI.widgetBox(ca, orientation='horizontal')
        OWGUI.button(fileBox, self, "Load", callback = self.loadData, disabled=0, debuggingEnabled=0)
        OWGUI.button(fileBox, self, "Save", callback = self.saveData, disabled=0, debuggingEnabled=0)
 
        #ca.layout().addStretch(1)

        ca = OWGUI.createTabPage(self.tabs, "Gene sets")
        
        box = OWGUI.widgetBox(ca)

        self.gridSel = []
        self.geneSel = []  #FIXME temporary disabled - use the same as in new "David" widget
        self.lbgs = OWGUI.listBox(box, self, "gridSel", "geneSel", selectionMode = QListWidget.MultiSelection)
        OWGUI.button(box, self, "From &File", callback = self.addCollection, disabled=0, debuggingEnabled=0)

        box = OWGUI.widgetBox(box, "Additional sources:")
        OWGUI.checkBox(box, self, "gskegg", "KEGG pathways")
        OWGUI.checkBox(box, self, "gsgo", "GO terms")
 
        #ca.layout().addStretch(1)

        ca = OWGUI.createTabPage(self.tabs, "Settings")
        box = OWGUI.widgetBox(ca, 'Properties')

        self.permTypeF = OWGUI.comboBoxWithCaption(box, self, "ptype", items=nth(self.permutationTypes, 0), \
            tooltip="Permutation type.", label="Permute")
        _ = OWGUI.spin(box, self, "perms", 50, 1000, orientation="horizontal", label="Times")
        self.corTypeF = OWGUI.comboBoxWithCaption(box, self, "ctype", items=nth(self.correlationTypes, 0), \
            tooltip="Correlation type.", label="Correlation")


        box = OWGUI.widgetBox(ca, 'Subset Filtering')

        _,_ = OWGUI.checkWithSpin(box, self, "Min. Subset Size", 1, 10000, "minSubsetSizeC", "minSubsetSize", "") #TODO check sizes
        _,_ = OWGUI.checkWithSpin(box, self, "Max. Subset Size", 1, 10000, "maxSubsetSizeC", "maxSubsetSize", "")
        _,_ = OWGUI.checkWithSpin(box, self, "Min. Subset Part (%)", 1, 100, "minSubsetPartC", "minSubsetPart", "")

        box = OWGUI.widgetBox(ca, 'Gene Filtering')

        _ = OWGUI.spin(box, self, "atLeast", 2, 10, label="Min. Values in Group")

        ca.layout().addStretch(1)

        self.addComment("Computation was not started.")

        if sys.platform == "darwin":
            self.loadFileName = os.path.expanduser("~/")
        else:
            self.loadFileName = "."

        self.gridSels = []
        self.loadSettings()

        self.setBlocking(True)
        QTimer.singleShot(0, self.UpdateOrganismComboBox)

        def cleanInvalid(maxn):
            """
            Removes invalid gene set selection
            """
            notAllOk = True

            while notAllOk:
                self.gridSels = getattr(self, "gridSels")
                notAllOk = False
                for i,a in enumerate(self.gridSels):
                    if a >= maxn:
                        self.gridSels.pop(i)
                        notAllOk = True
                        break
        
        cleanInvalid(len(self.geneSel))

        self.gridSel = self.gridSels
        self.gridSels = self.gridSel

# 需要导入模块: from Orange.OrangeWidgets import OWGUI [as 别名]
# 或者: from Orange.OrangeWidgets.OWGUI import spin [as 别名]
    def __init__(self,parent=None, signalManager = None):
        OWWidget.__init__(self, parent, signalManager, "Nomogram", 1)

        #self.setWFlags(Qt.WResizeNoErase | Qt.WRepaintNoErase) #this works like magic.. no flicker during repaint!
        self.parent = parent
#        self.setWFlags(self.getWFlags()+Qt.WStyle_Maximize)

        self.callbackDeposit = [] # deposit for OWGUI callback functions
        self.alignType = 0
        self.contType = 0
        self.yAxis = 0
        self.probability = 0
        self.verticalSpacing = 60
        self.verticalSpacingContinuous = 100
        self.diff_between_ordinal = 30
        self.fontSize = 9
        self.lineWidth = 1
        self.histogram = 0
        self.histogram_size = 10
        self.data = None
        self.cl = None
        self.confidence_check = 0
        self.confidence_percent = 95
        self.sort_type = 0

        self.loadSettings()

        self.pointsName = ["Total", "Total"]
        self.totalPointsName = ["Probability", "Probability"]
        self.bnomogram = None


        self.inputs=[("Classifier", orange.Classifier, self.classifier), ("Data", Orange.data.Table, self.data)]


        self.TargetClassIndex = 0
        self.targetCombo = OWGUI.comboBox(self.controlArea, self, "TargetClassIndex", " Target Class ", addSpace=True, tooltip='Select target (prediction) class in the model.', callback = self.setTarget)

        self.alignRadio = OWGUI.radioButtonsInBox(self.controlArea, self,  'alignType', ['Align left', 'Align by zero influence'], box='Attribute placement',
                                                  tooltips=['Attributes in nomogram are left aligned', 'Attributes are not aligned, top scale represents true (normalized) regression coefficient value'],
                                                  addSpace=True,
                                                  callback=self.showNomogram)
        self.verticalSpacingLabel = OWGUI.spin(self.alignRadio, self, 'verticalSpacing', 15, 200, label = 'Vertical spacing:',  orientation = 0, tooltip='Define space (pixels) between adjacent attributes.', callback = self.showNomogram)

        self.ContRadio = OWGUI.radioButtonsInBox(self.controlArea, self, 'contType',   ['1D projection', '2D curve'], 'Continuous attributes',
                                tooltips=['Continuous attribute are presented on a single scale', 'Two dimensional space is used to present continuous attributes in nomogram.'],
                                addSpace=True,
                                callback=[lambda:self.verticalSpacingContLabel.setDisabled(not self.contType), self.showNomogram])

        self.verticalSpacingContLabel = OWGUI.spin(OWGUI.indentedBox(self.ContRadio, sep=OWGUI.checkButtonOffsetHint(self.ContRadio.buttons[-1])), self, 'verticalSpacingContinuous', 15, 200, label = "Height", orientation=0, tooltip='Define space (pixels) between adjacent 2d presentation of attributes.', callback = self.showNomogram)
        self.verticalSpacingContLabel.setDisabled(not self.contType)

        self.yAxisRadio = OWGUI.radioButtonsInBox(self.controlArea, self, 'yAxis', ['Point scale', 'Log odds ratios'], 'Scale',
                                tooltips=['values are normalized on a 0-100 point scale','values on top axis show log-linear contribution of attribute to full model'],
                                addSpace=True,
                                callback=self.showNomogram)

        layoutBox = OWGUI.widgetBox(self.controlArea, "Display", orientation=1, addSpace=True)

        self.probabilityCheck = OWGUI.checkBox(layoutBox, self, 'probability', 'Show prediction',  tooltip='', callback = self.setProbability)

        self.CICheck, self.CILabel = OWGUI.checkWithSpin(layoutBox, self, 'Confidence intervals (%):', min=1, max=99, step = 1, checked='confidence_check', value='confidence_percent', checkCallback=self.showNomogram, spinCallback = self.showNomogram)

        self.histogramCheck, self.histogramLabel = OWGUI.checkWithSpin(layoutBox, self, 'Show histogram, size', min=1, max=30, checked='histogram', value='histogram_size', step = 1, tooltip='-(TODO)-', checkCallback=self.showNomogram, spinCallback = self.showNomogram)

        OWGUI.separator(layoutBox)
        self.sortOptions = ["No sorting", "Absolute importance", "Positive influence", "Negative influence"]
        self.sortBox = OWGUI.comboBox(layoutBox, self, "sort_type", label="Sort by ", items=self.sortOptions, callback = self.sortNomogram, orientation="horizontal")


        OWGUI.rubber(self.controlArea)

        self.connect(self.graphButton, SIGNAL("clicked()"), self.menuItemPrinter)



        #add a graph widget
        self.header = OWNomogramHeader(None, self.mainArea)
        self.header.setFixedHeight(60)
        self.header.setVerticalScrollBarPolicy(Qt.ScrollBarAlwaysOff)
        self.header.setHorizontalScrollBarPolicy(Qt.ScrollBarAlwaysOff)
        self.graph = OWNomogramGraph(self.bnomogram, self.mainArea)
        self.graph.setMinimumWidth(200)
        self.graph.setHorizontalScrollBarPolicy(Qt.ScrollBarAlwaysOff)
        self.footer = OWNomogramHeader(None, self.mainArea)
        self.footer.setFixedHeight(60*2+10)
        self.footer.setVerticalScrollBarPolicy(Qt.ScrollBarAlwaysOff)
        self.footer.setHorizontalScrollBarPolicy(Qt.ScrollBarAlwaysOff)

        self.mainArea.layout().addWidget(self.header)
        self.mainArea.layout().addWidget(self.graph)
        self.mainArea.layout().addWidget(self.footer)
        self.resize(700,500)
        #self.repaint()
        #self.update()

        # mouse pressed flag
        self.mousepr = False

# 需要导入模块: from Orange.OrangeWidgets import OWGUI [as 别名]
# 或者: from Orange.OrangeWidgets.OWGUI import spin [as 别名]
    def __init__(self, parent=None, signalManager=None, name="Gene selection"):
        OWWidget.__init__(self, parent, signalManager, name, wantGraph=True, showSaveGraph=True)
        self.inputs = [("Examples", ExampleTable, self.set_data)]
        self.outputs = [("Example table with selected genes", ExampleTable), ("Example table with remaining genes", ExampleTable), ("Selected genes", ExampleTable)]

        self.method_index = 0
        self.genes_in_columns = False
        self.compute_null = False
        self.permutations_count = 10
        self.auto_commit = False
        self.selectNBest = 20
        self.selectPValue = 0.01
        self.data_changed_flag = False
        self.add_scores_to_output = True
        self.thresholds = {
            "fold change": (0.5, 2.),
            "log2 fold change": (-1, 1),
            "t-test": (-2, 2),
            "t-test p-value": (0.01, 0.01),
        }

        self.oneTailTestHi = oneTailTestHi = lambda array, low, hi: array >= hi
        self.oneTailTestLow = oneTailTestLow = lambda array, low, hi: array <= low
        self.twoTailTest = twoTailTest = lambda array, low, hi: (array >= hi) | (array <= low)
        self.middleTest = middleTest = lambda array, low, hi: (array <= hi) | (array >= low)
        
        self.histType = {oneTailTestHi:"hiTail", oneTailTestLow:"lowTail", twoTailTest:"twoTail", middleTest:"middle"}

        # [(name, func, tail test, two sample test), ...]
        self.score_methods = [("fold change", ExpressionSignificance_FoldChange, twoTailTest, True),
                             ("log2 fold change", ExpressionSignificance_Log2FoldChange, twoTailTest, True),
                             ("t-test", ExpressionSignificance_TTest_T, twoTailTest, True),
                             ("t-test p-value", ExpressionSignificance_TTest_PValue, oneTailTestLow, True),
                             ("anova", ExpressionSignificance_ANOVA_F, oneTailTestHi, False),
                             ("anova p-value", ExpressionSignificance_ANOVA_PValue, oneTailTestLow, False),
                             ("signal to noise ratio", ExpressionSignificance_SignalToNoise, twoTailTest, True),
                             ("info gain", ExpressionSignificance_Info, oneTailTestHi, True),
                             ("chi-square", ExpressionSignificance_ChiSquare, oneTailTestHi, True),
                             ("mann-whitney", ExpressionSignigicance_MannWhitneyu_U, oneTailTestLow, True)]

        boxHistogram = OWGUI.widgetBox(self.mainArea)
        self.histogram = ScoreHist(self, boxHistogram)
        boxHistogram.layout().addWidget(self.histogram)
        self.histogram.show()
        
        box = OWGUI.widgetBox(self.controlArea, "Info")
        self.dataInfoLabel = OWGUI.widgetLabel(box, "\n\n")
        self.dataInfoLabel.setWordWrap(True)
        self.selectedInfoLabel = OWGUI.widgetLabel(box, "")

        box1 = OWGUI.widgetBox(self.controlArea, "Scoring Method")
        self.testRadioBox = OWGUI.comboBox(box1, self, "method_index",
                                    items=[sm[0] for sm in self.score_methods],
                                    callback=[self.on_scoring_method_changed, self.update_scores])
        
        box = OWGUI.widgetBox(self.controlArea, "Target Labels")
        self.label_selection_widget = LabelSelectionWidget(self)
        self.label_selection_widget.setMaximumHeight(150)
        box.layout().addWidget(self.label_selection_widget)
        self.connect(self.label_selection_widget,
                     SIGNAL("selection_changed()"),
                     self.on_target_changed)
        
        self.connect(self.label_selection_widget,
                     SIGNAL("label_activated(int)"),
                     self.on_label_activated)
        
        self.genes_in_columns_check = OWGUI.checkBox(box, self, "genes_in_columns",
                                                  "Genes in columns",
                                                  callback=self.on_genes_in_columns_change)

        box = OWGUI.widgetBox(self.controlArea, "Selection")
        box.layout().setSpacing(0)

        self.upperBoundarySpin = OWGUI.doubleSpin(box, self, "histogram.upperBoundary",
                                                  min=-1e6, max=1e6, step= 1e-6,
                                                  label="Upper threshold:", 
                                                  callback=self.update_boundary, 
                                                  callbackOnReturn=True)
        
        self.lowerBoundarySpin = OWGUI.doubleSpin(box, self, "histogram.lowerBoundary", 
                                                  min=-1e6, max=1e6, step= 1e-6, 
                                                  label="Lower threshold:", 
                                                  callback=self.update_boundary, 
                                                  callbackOnReturn=True)
        
        check = OWGUI.checkBox(box, self, "compute_null", "Compute null distribution",
                               callback=self.update_scores)

        check.disables.append(OWGUI.spin(box, self, "permutations_count", min=1, max=10, 
                                         label="Permutations:", callback=self.update_scores, 
                                         callbackOnReturn=True))

        box1 = OWGUI.widgetBox(box, orientation='horizontal')
        check.disables.append(OWGUI.doubleSpin(box1, self, "selectPValue", 
                                               min=2e-7, max=1.0, step=1e-7, 
                                               label="P-value:"))
        check.disables.append(OWGUI.button(box1, self, "Select", callback=self.select_p_best))
        check.makeConsistent()

#.........这里部分代码省略.........

# 需要导入模块: from Orange.OrangeWidgets import OWGUI [as 别名]
# 或者: from Orange.OrangeWidgets.OWGUI import spin [as 别名]
    def __init__(self, parent=None, signalManager=None,
                 title="Molecule visualizer"):
        super(OWMoleculeVisualizer, self).__init__(parent, signalManager, title)

        self.colorFragments = 1
        self.showFragments = 0
        self.selectedFragment = ""
        self.moleculeSmiles = []
        self.fragmentSmiles = []
        self.defFragmentSmiles = []
        self.smiles_var = 0
        self.moleculeTitleAttr = 0
        self.moleculeTitleAttributeList = []
        self.selectedMoleculeTitleAttrs = []
        self.fragmentSmilesAttr = 0
        self.imageSize = 200
        self.numColumns = 4
        self.commitOnChange = 0

        ## GUI
        box = OWGUI.widgetBox(self.controlArea, "Info", addSpace=True)
        self.infoLabel = OWGUI.label(box, self, "Chemicals:")
        box = OWGUI.radioButtonsInBox(
            self.controlArea, self, "showFragments",
            ["Show molecules", "Show fragments"], "Show",
            callback=self.updateitems
        )

        self.showFragmentsRadioButton = box.buttons[-1]
        self.markFragmentsCheckBox = OWGUI.checkBox(
            box, self, "colorFragments", "Mark fragments",
            callback=self._update
        )
        box.setSizePolicy(
            QSizePolicy(QSizePolicy.Minimum, QSizePolicy.Maximum))
        OWGUI.separator(self.controlArea)

        self.moleculeSmilesCombo = OWGUI.comboBox(
            self.controlArea, self, "smiles_var",
            "Molecule SMILES Attribute",
            callback=self.updateitems
        )
        self.moleculeSmilesCombo.box.setSizePolicy(
            QSizePolicy(QSizePolicy.Minimum, QSizePolicy.Maximum)
        )
        self.smiles_var_model = VariableListModel(parent=self)
        self.moleculeSmilesCombo.setModel(self.smiles_var_model)

        OWGUI.separator(self.controlArea)
        box = OWGUI.widgetBox(self.controlArea, "Molecule Title Attributes",
                              addSpace=True)

        self.title_var_view = QListView(
            selectionMode=QListView.ExtendedSelection
        )
        self.title_var_model = VariableListModel(parent=self)
        self.title_var_view.setModel(self.title_var_model)
        self.title_var_view.selectionModel().selectionChanged.connect(
            self._title_selection_changed
        )
        box.layout().addWidget(self.title_var_view)

        OWGUI.separator(self.controlArea)
        self.fragmentSmilesCombo = OWGUI.comboBox(
            self.controlArea, self, "fragmentSmilesAttr",
            "Fragment SMILES Attribute",
            callback=self.updateFragmentsListBox
        )

        self.fragmentSmilesCombo.setModel(VariableListModel(parent=self))
        self.fragmentSmilesCombo.box.setSizePolicy(
            QSizePolicy(QSizePolicy.Minimum, QSizePolicy.Maximum)
        )
        OWGUI.separator(self.controlArea)
        box = OWGUI.spin(self.controlArea, self, "imageSize", 50, 500, 10,
                         box="Image Size", callback=self._image_size_changed)

        box.setSizePolicy(
            QSizePolicy(QSizePolicy.Minimum, QSizePolicy.Maximum))

        OWGUI.separator(self.controlArea)
        box = OWGUI.widgetBox(self.controlArea, "Selection", addSpace=True)
        OWGUI.checkBox(box, self, "commitOnChange", "Commit on change")

        self.selectMarkedMoleculesButton = OWGUI.button(
            box, self, "Select &matched molecules", self.select_marked
        )
        OWGUI.button(box, self, "&Commit", callback=self.commit, default=True)
        OWGUI.separator(self.controlArea)
        OWGUI.rubber(self.controlArea)

        spliter = QSplitter(Qt.Vertical)
        self.scrollArea = ScrollArea(spliter)

        self.grid = GridWidget()
        self.grid.selectionChanged.connect(self._on_selection_changed)

        self.scrollArea.setWidget(self.grid)
        self.scrollArea.setWidgetResizable(True)
        self.mainArea.layout().addWidget(spliter)
#.........这里部分代码省略.........