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github.com/rambaut/figtree
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Functions
2,432 in github.com/rambaut/figtree
⨍
Functions
2,432
◇
Types & classes
285
↓ 10 callers
Method
getAttributeNames
()
src/figtree/treeviewer/ReRootedTree.java:592
↓ 10 callers
Method
getBorderPaint
()
src/figtree/treeviewer/painters/NodePainter.java:57
↓ 10 callers
Method
getBorderStroke
()
src/figtree/treeviewer/painters/NodePainter.java:61
↓ 10 callers
Method
getHeight
@param node the node whose height is being requested. @return the height of the given node. The height will be less than the parent's height a
src/figtree/treeviewer/ReRootedTree.java:226
↓ 10 callers
Method
getInstance
()
packaging_tools/windows/launch4j/src/net/sf/launch4j/formimpl/MainFrame.java:108
↓ 10 callers
Method
getString
(String key)
packaging_tools/windows/launch4j/src/net/sf/launch4j/Messages.java:50
↓ 10 callers
Method
setOrderBranchesOn
(boolean orderBranchesOn)
src/figtree/treeviewer/TreePane.java:471
↓ 10 callers
Method
setupColours
()
src/figtree/treeviewer/decorators/HSBDiscreteColourDecorator.java:109
↓ 10 callers
Method
setupTree
()
src/figtree/treeviewer/TreePane.java:97
↓ 9 callers
Method
addPainterListener
(PainterListener listener)
src/figtree/treeviewer/painters/Painter.java:94
↓ 9 callers
Method
addTreeViewerListener
(TreeViewerListener listener)
src/figtree/treeviewer/TreeViewer.java:169
↓ 9 callers
Method
calibrate
()
src/figtree/treeviewer/ScaleAxis.java:281
↓ 9 callers
Method
checkTrue
(boolean condition, String property, String msg)
packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Validator.java:204
↓ 9 callers
Method
clearSelection
()
src/figtree/treeviewer/TreePane.java:709
↓ 9 callers
Method
getAngle
The angle in degrees given by a 0, 1 proportion of the circle @param y @return
src/figtree/treeviewer/treelayouts/PolarTreeLayout.java:761
↓ 9 callers
Method
getBranchPath
(Node node)
src/figtree/treeviewer/treelayouts/TreeLayoutCache.java:50
↓ 9 callers
Method
getSelectedColor
()
src/figtree/ui/components/ColorWellButton.java:60
↓ 9 callers
Function
loadBool
packaging_tools/windows/launch4j/head_src/head.c:240
↓ 9 callers
Method
loadImage
Helper method to load an image file from the CLASSPATH @param imageName the package and name of the file to load relative to the CLASSPATH @return an
packaging_tools/windows/launch4j/src/net/sf/launch4j/form/VersionInfoForm.java:97
↓ 9 callers
Method
setTreePane
Called when the painter is installed in a TreePane. Gives the painter a handle on the TreePane so that it get additional information. @param treePane
src/figtree/treeviewer/painters/Painter.java:64
↓ 8 callers
Method
addSelectedTip
(Node selectedTip)
src/figtree/treeviewer/TreePane.java:556
↓ 8 callers
Method
addTrue
(int id, boolean value)
packaging_tools/windows/launch4j/src/net/sf/launch4j/RcBuilder.java:316
↓ 8 callers
Method
addVerBlockValue
(String key, String value)
packaging_tools/windows/launch4j/src/net/sf/launch4j/RcBuilder.java:391
↓ 8 callers
Method
calculateTransform
(AffineTransform globalTransform, Line2D line, double width, do
src/figtree/treeviewer/TreePane.java:2273
↓ 8 callers
Method
getAttributeName
()
src/figtree/treeviewer/decorators/ColourDecorator.java:95
↓ 8 callers
Method
getEdgeLength
@param node1 @param node2 @return the length of the edge connecting node1 and node2. @throws jebl.evolution.graphs.Graph.NoEdgeException if t
src/figtree/treeviewer/ReRootedTree.java:401
↓ 8 callers
Method
getIntent
()
src/figtree/treeviewer/painters/LabelPainter.java:127
↓ 8 callers
Method
getJre
JRE configuration
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java:283
↓ 8 callers
Method
getUpperValue
Returns the upper value in the range.
src/figtree/ui/components/RangeSlider.java:115
↓ 8 callers
Method
getValues
()
src/figtree/treeviewer/decorators/DiscreteColourDecorator.java:136
↓ 8 callers
Method
loadImage
Helper method to load an image file from the CLASSPATH @param imageName the package and name of the file to load relative to the CLASSPATH @return an
packaging_tools/windows/launch4j/src/net/sf/launch4j/form/ClassPathForm.java:90
↓ 8 callers
Method
removePainterListener
(PainterListener listener)
src/figtree/treeviewer/painters/Painter.java:95
↓ 8 callers
Method
setMaximumFractionDigits
Sets the maximum number of digits allowed in the fraction portion of a number. maximumFractionDigits must be >= minimumFractionDigits. If the new val
src/figtree/ui/PercentFormat.java:104
↓ 8 callers
Method
setUpperValue
Sets the upper value in the range.
src/figtree/ui/components/RangeSlider.java:122
↓ 8 callers
Method
setupBranchDecorators
()
src/figtree/treeviewer/TreeAppearanceController.java:227
↓ 8 callers
Method
toString
()
src/figtree/application/GraphicFormat.java:47
↓ 8 callers
Method
warn
(String text)
packaging_tools/windows/launch4j/src/net/sf/launch4j/formimpl/MainFrame.java:172
↓ 7 callers
Method
addField
(WBoxLayout controlsLayout, String label, WFormWidget widget, AlignmentFlag alignment)
src/figtree/webui/FigTreeWebApplication.java:255
↓ 7 callers
Function
appendPath
packaging_tools/windows/launch4j/head_src/head.c:547
↓ 7 callers
Method
checkInvariants
()
packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/IValidatable.java:43
↓ 7 callers
Method
getCurrentTreeIndex
()
src/figtree/treeviewer/TreeViewer.java:55
↓ 7 callers
Method
getPath
(File f)
packaging_tools/windows/launch4j/src/net/sf/launch4j/RcBuilder.java:379
↓ 7 callers
Method
getTree
()
src/figtree/treeviewer/painters/BasicLabelPainter.java:81
↓ 7 callers
Method
isCommandKeyDown
On Mac, check for the 'Command' key, otherwise use the 'Control' key @param event @return is it pressed
src/figtree/treeviewer/TreePaneSelector.java:251
↓ 7 callers
Method
loadImage
Helper method to load an image file from the CLASSPATH @param imageName the package and name of the file to load relative to the CLASSPATH @return an
packaging_tools/windows/launch4j/src/net/sf/launch4j/form/BasicForm.java:108
↓ 7 callers
Method
loadImage
Helper method to load an image file from the CLASSPATH @param imageName the package and name of the file to load relative to the CLASSPATH @return an
packaging_tools/windows/launch4j/src/net/sf/launch4j/form/JreForm.java:103
↓ 7 callers
Method
matchesItem
(TextSearchType searchType, Object object, String query, boolean caseSensitive)
src/figtree/treeviewer/DefaultTreeViewer.java:379
↓ 7 callers
Method
setBranchOrdering
(SortedRootedTree.BranchOrdering branchOrdering)
src/figtree/treeviewer/TreePane.java:480
↓ 7 callers
Method
setColours
(Color color1, Color color2)
src/figtree/treeviewer/decorators/InterpolatingColourDecorator.java:70
↓ 7 callers
Method
setRootingOn
(boolean rootingOn)
src/figtree/treeviewer/TreePane.java:493
↓ 7 callers
Method
setRootingType
(RootingType rootingType)
src/figtree/treeviewer/TreePane.java:498
↓ 7 callers
Method
showDialog
()
src/figtree/application/ExportTreeDialog.java:102
↓ 7 callers
Method
showTree
(int index)
src/figtree/treeviewer/MultiPaneTreeViewer.java:151
↓ 7 callers
Function
signalError
packaging_tools/windows/launch4j/head_src/head.c:168
↓ 7 callers
Method
toString
()
src/figtree/treeviewer/decorators/ContinuousScale.java:240
↓ 6 callers
Method
addButton
(String iconPath, String tooltip, ActionListener l)
packaging_tools/windows/launch4j/src/net/sf/launch4j/formimpl/MainFrame.java:155
↓ 6 callers
Method
addSelectedNode
(Node selectedNode)
src/figtree/treeviewer/TreePane.java:545
↓ 6 callers
Method
adjustComponent
(JComponent comp)
src/figtree/treeviewer/FindPanel.java:191
↓ 6 callers
Method
checkFalse
(boolean condition, String property, String msg)
packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Validator.java:210
↓ 6 callers
Method
checkNull
(Object o, String name)
packaging_tools/windows/launch4j/src/net/sf/launch4j/ant/AntConfig.java:123
↓ 6 callers
Function
closeLogFile
packaging_tools/windows/launch4j/head_src/head.c:98
↓ 6 callers
Method
findOption
(String label)
src/figtree/application/Arguments.java:525
↓ 6 callers
Method
getAbsoluteFile
(File basepath, File f)
packaging_tools/windows/launch4j/src/net/sf/launch4j/Util.java:106
↓ 6 callers
Method
getAdjacencies
@param node @return the set of nodes that are attached by edges to the given node.
src/figtree/treeviewer/ReRootedTree.java:371
↓ 6 callers
Method
getBinding
(String property)
packaging_tools/windows/launch4j/src/net/sf/launch4j/formimpl/ConfigFormImpl.java:97
↓ 6 callers
Method
getClassPath
()
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java:274
↓ 6 callers
Method
getColourDecorator
(JComboBox colourAttributeCombo, Decorator defaultDecorator)
src/figtree/treeviewer/AttributeColourController.java:137
↓ 6 callers
Method
getDecorator
()
src/figtree/treeviewer/ContinuousColourScaleDialog.java:229
↓ 6 callers
Method
getEdge
Returns the Edge that connects these two nodes @param node1 @param node2 @return the edge object. @throws jebl.evolution.graphs.Graph.NoEdgeException
src/figtree/treeviewer/ReRootedTree.java:384
↓ 6 callers
Method
getGraphics
()
src/figtree/webui/TreeWidget.java:34
↓ 6 callers
Method
getHeaderType
launch4j header file.
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java:194
↓ 6 callers
Method
getMinorTickCount
Returns the number of minor tick marks within each major one By default all major ticks have the same number of minor ticks except the last which has
src/figtree/treeviewer/ScaleAxis.java:665
↓ 6 callers
Method
getOutfile
Output EXE file.
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java:292
↓ 6 callers
Method
getSettings
(Map<String, Object> settings)
src/figtree/panel/TreesController.java:192
↓ 6 callers
Method
getSplash
Splash screen configuration.
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java:301
↓ 6 callers
Method
getType
()
src/figtree/treeviewer/annotations/AnnotationDefinition.java:88
↓ 6 callers
Method
getValue
(RealNumberField field, double defaultValue)
src/figtree/treeviewer/TimeScaleController.java:145
↓ 6 callers
Method
getVersionInfo
()
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/Config.java:327
↓ 6 callers
Function
regSearch
packaging_tools/windows/launch4j/head_src/head.c:312
↓ 6 callers
Method
setBranchColouringAttributeName
(String colouringAttributeName)
src/figtree/treeviewer/treelayouts/TreeLayout.java:126
↓ 6 callers
Method
setForeground
(Paint foreground)
src/figtree/treeviewer/painters/NodePainter.java:87
↓ 6 callers
Method
setRunEnabled
(boolean enabled)
packaging_tools/windows/launch4j/src/net/sf/launch4j/formimpl/MainFrame.java:233
↓ 6 callers
Method
setScaleBarStroke
(BasicStroke scaleBarStroke)
src/figtree/treeviewer/painters/ScaleBarPainter.java:168
↓ 6 callers
Method
setSelectedColor
(Color color)
src/figtree/ui/components/ColorWellButton.java:64
↓ 6 callers
Method
setSelectedFont
Initializes the contents of the dialog from the given font object. @param font the font from which to read the properties.
src/figtree/ui/FontChooserPanel.java:172
↓ 6 callers
Method
setSize
(Dimension dimension)
src/figtree/treeviewer/TreePane.java:2338
↓ 6 callers
Method
setTransformBranchesOn
(boolean transformBranchesOn)
src/figtree/treeviewer/TreePane.java:453
↓ 6 callers
Method
write
(int b)
packaging_tools/windows/launch4j/src/net/sf/launch4j/KanjiEscapeOutputStream.java:55
↓ 5 callers
Method
addInteger
(int id, Integer value)
packaging_tools/windows/launch4j/src/net/sf/launch4j/RcBuilder.java:322
↓ 5 callers
Method
addOptComponent
Add an optional (nullable) Java Bean component of type clazz.
packaging_tools/windows/launch4j/src/net/sf/launch4j/binding/Bindings.java:217
↓ 5 callers
Method
addSelectedClade
(Node selectedNode)
src/figtree/treeviewer/TreePane.java:569
↓ 5 callers
Method
adjustComponent
(JComponent comp)
src/figtree/ui/FontChooserPanel.java:198
↓ 5 callers
Method
allowsGradient
()
src/figtree/treeviewer/decorators/Decorator.java:41
↓ 5 callers
Method
copyOf
(boolean[] s, boolean[] d)
src/figtree/treeviewer/Parsimony.java:232
↓ 5 callers
Method
exportTrees
(Collection<? extends Tree> trees)
src/figtree/application/JSONTreeExporter.java:180
↓ 5 callers
Method
firePainterSettingsChanged
()
src/figtree/treeviewer/painters/AbstractPainter.java:51
↓ 5 callers
Method
fireStatusChanged
(int status, String statusText)
src/figtree/treeviewer/ExtendedTreeViewer.java:238
↓ 5 callers
Method
getColourForValue
(Object value)
src/figtree/treeviewer/decorators/ColourDecorator.java:234
↓ 5 callers
Method
getConfigPath
()
packaging_tools/windows/launch4j/src/net/sf/launch4j/config/ConfigPersister.java:96
↓ 5 callers
Method
getScaleFactor
(RootedTree tree)
src/figtree/treeviewer/TimeScale.java:51
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