Module: Contained Gene (or Other) Trees

Full package name: mesquite.assoc.ContainedAssociates.ContainedAssociates
Duty: Analytical Draw Tree (mesquite.lib.duties.AnalyticalDrawTree)

Module Explanation

Draws wide trees containing trees of associates (e.g., species tree containing gene tree)

Author(s): Wayne P. Maddison and David R. Maddison
Version 3.70

Commands of Contained Gene (or Other) Trees

setEdgeWidth
- Explanation: Sets the thickness of the drawn branches
- Parameters: [width in pixels]
setContainedBranchColor
- Explanation: Sets default color of contained branches of tree in tree display
- Parameters: [name of color]
setContainingBranchColor
- Explanation: Sets default color of containing branches of tree in tree display
- Parameters: [name of color]
toggleScale
- Explanation: Sets whether contained trees are drawn to scale of their branch lengths
- Parameters: [on or off to indicate whether scaled]
toggleContainedNames
- Explanation: Sets whether contained trees show taxon names
- Parameters: [on or off to indicate whether name shown]
getAssociationSource
- Explanation: Returns the module supplying taxa associations
getReconstructor
- Explanation: Returns the module reconstructing history of contained tree within containing tree
suppress
- Explanation: Suppresses tree drawing
desuppress
- Explanation: Desuppresses tree drawing
setTreeSource
- Explanation: Sets the source of contained trees
- Parameters: [name of module]
showContainedTree
- Explanation: Shows the contained tree in a separate window
nextContained
- Explanation: Goes to the next contained tree
previousContained
- Explanation: Goes to the previous contained tree
setContained
- Explanation: Sets which contained tree is shown
- Parameters: [number of contained tree]
setInitialOffsetX
- Explanation: Sets the initial x offset from base position for the legend
- Parameters: [offset]
setInitialOffsetY
- Explanation: Sets the initial y offset from base position for the legend
- Parameters: [offset]
getNodeLocsEmployee
- Explanation: Returns the module calculating node locations
logLastResultString
- Explanation: Logs last result string
getLastResultString
- Explanation: Returns last result string
getLastResult
- Explanation: Returns last MesquiteNumber result