Class dg.graphedges

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Description

The representation of a graph for dynamicGraph. Vertices, blocks, viewType, edges, etc. are here the dynamicGraph objects.

Objects from the Class

Objects can be created by calls of the form new("dg.graphedges", ...).

Slots

viewType:

Object of class "character" with the type of view.

visibleVertices:

Object of class "numeric": Numeric vector of the indices of the vertices of vertexList to plot.

visibleBlocks:

Object of class "numeric": Numeric vector of the indices of the blocks of blockList to plot.

oriented:

Object of class "logical": If TRUE (or FALSE) then edges are oriented (or not), also when blocks are missing. If NA then the edges are directed according to the blocks of the edge.

edgeList:

Object of class "dg.VertexEdgeList": List of edges (of class containing dg.Edge) created by returnEdgeList or exported from dynamicGraphMain.

blockEdgeList:

Object of class "dg.BlockEdgeList": List of blockedges (of class containing the class dg.BlockEdge) created by returnBlockEdgeList or exported from dynamicGraphMain.

factorVertexList:

Object of class "dg.FactorVertexList": List of secondary vertices, called factor vertices, for, e.g., the generators of the model, (each of class containing dg.FactorVertex) created by returnFactorVerticesAndEdges or exported from dynamicGraphMain.

factorEdgeList:

Object of class "dg.FactorEdgeList": List of bipartite graph edges, called factor edges, (each of class containing dg.FactorEdge) created by the function returnFactorEdgeList or exported from dynamicGraphMain. Factor edges are edges between vertices and factor vertices.

extraList:

Object of class "dg.VertexList": List of vertices (of class containing the class dg.Vertex) created by the function returnVertexList or exported from the function dynamicGraphMain, for, e.g., additional titles in the plot.

extraEdgeList:

Object of class "dg.ExtraEdgeList": List of edges between extra vertices and vertices.

Methods

addModel

signature(object = "dg.graphedges"): ...

addView

signature(object = "dg.graphedges"): ...

replaceModel

signature(object = "dg.graphedges"): ...

replaceView

signature(object = "dg.graphedges"): ...

show

signature(object = "dg.graphedges"): ...

Str

signature(object = "dg.graphedges"): ...

blockEdgeList<-

signature(x = "dg.graphedges"): ...

blockEdgeList

signature(object = "dg.graphedges"): ...

blockList<-

signature(x = "dg.graphedges"): ...

blockList

signature(object = "dg.graphedges"): ...

edgeList<-

signature(x = "dg.graphedges"): ...

edgeList

signature(object = "dg.graphedges"): ...

extraEdgeList<-

signature(x = "dg.graphedges"): ...

extraEdgeList

signature(object = "dg.graphedges"): ...

extraList<-

signature(x = "dg.graphedges"): ...

extraList

signature(object = "dg.graphedges"): ...

factorEdgeList<-

signature(x = "dg.graphedges"): ...

factorEdgeList

signature(object = "dg.graphedges"): ...

factorVertexList<-

signature(x = "dg.graphedges"): ...

factorVertexList

signature(object = "dg.graphedges"): ...

oriented

signature(object = "dg.graphedges"): ...

viewType<-

signature(x = "dg.graphedges"): ...

viewType

signature(object = "dg.graphedges"): ...

visibleBlocks<-

signature(x = "dg.graphedges"): ...

visibleBlocks

signature(object = "dg.graphedges"): ...

visibleVertices<-

signature(x = "dg.graphedges"): ...

visibleVertices

signature(object = "dg.graphedges"): ...

Author(s)

Jens Henrik Badsberg

See Also

dg.simple.graph-class, dg.graph-class, and dynamicGraphMain.

Examples

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# The use of "addModel"  and "addModel"
# in the example "usermenus" of demo:

your.DrawModel <- function(object, slave = FALSE, viewType = "Simple", ...) {

    dots <- list(...)
    localArguments    <- dots$Arguments

    # Here you should make your new model.
    # A copy is made by the following:

    ModelObject <- object

    title <- ModelObject@name

    # and compute graph edges:

    dgEdges <- graphEdges(ModelObject, viewType, Arguments = localArguments)

    show(dgEdges)

    if (slave) {
      # Drawing ''an other model'' in a new window:
      addModel(dgEdges, 
               frameModels =        localArguments$frameModels, 
               modelObject =        ModelObject, 
               modelObjectName =    ModelObject@name)
    }
    else {
      # Overwriting with ''an other model'' in same view:
      replaceModel(dgEdges,
                   frameModels     = localArguments$frameModels, 
                   modelIndex      = localArguments$modelIndex, 
                   viewIndex       = localArguments$viewIndex, 
                   modelObject     = ModelObject, 
                   modelObjectName = ModelObject@name) 
    }
}

your.LabelAllEdges <- function(object, slave = FALSE, ...) 
 {

  dots           <- list(...)
  localArguments <-      dots$Arguments
  dg             <-      localArguments$dg

  # browser()

  getNodeName <- function(index, type)
    if (type == "Vertex")
      name(localArguments$frameModel@vertices[[index]])
    else if (type == "Factor")
      name(localArguments$dg@factorVertexList[[abs(index)]])
    else if (type == "Extra")
      name(localArguments$dg@extraList[[abs(index)]])
    else if (type == "Block")
      label(localArguments$dg@blockList[[abs(index)]])
    else
      NULL

  visitEdges <- function(edges) {
    for (i in seq(along = edges)) {
      vertices <- nodeIndicesOfEdge(edges[[i]])
      types    <- nodeTypesOfEdge(edges[[i]])

      name.f <- getNodeName(vertices[1], types[1])
      name.t <- getNodeName(vertices[2], types[2])

      R <- testEdge(object, action = "remove",
                    name.1 = name.f, name.2 = name.t,
                    from = vertices[1], to = vertices[2],
                    from.type = types[1], to.type = types[2],
                    edge.index = i, force = force, Arguments = localArguments)

      if (!is.null(R)) {
        if (TRUE || (hasMethod("label", class(R))))
          label(edges[[i]]) <- label(R)
        if (TRUE || (hasMethod("width", class(R))))
          width(edges[[i]]) <- width(R)
      }
    }
    return(edges)
  }

  dg@edgeList       <- visitEdges(dg@edgeList)
  dg@factorEdgeList <- visitEdges(dg@factorEdgeList)
  dg@blockEdgeList  <- visitEdges(dg@blockEdgeList)

  if (slave) {
    # Drawing ''an other model'' in a new window:
    addModel(dg, 
             frameModels     = localArguments$frameModels, 
             modelObject     = localArguments$object, 
             modelObjectName = localArguments$object@name)
  }
  else {
    # Overwriting with ''an other model'' in same view:
    replaceModel(dg,
                 frameModels     = localArguments$frameModels, 
                 frameViews      = localArguments$frameViews, 
                 graphWindow     = localArguments$graphWindow, 
                 modelObject     = localArguments$object, 
                 modelObjectName = localArguments$object@name)
  }

}

 test.function <- function(...) print("Test.Function")
 test.function <- function(...) print(list(...)$Arguments$object@name)

 Menus <- 
 list(MainUser = 
      list(label = 
      "Transformation by 'prcomp' on position of \"vertices\", and redraw",
           command = function(object, ...) {
             localArguments <- list(...)$Arguments
             transformation <- 
                  t(prcomp(Positions(localArguments$vertexList))$rotation)
             control <- localArguments$control
             control$transformation <- transformation
             replaceControls(control, 
                             frameModels = localArguments$frameModels, 
                             modelIndex  = localArguments$modelIndex,
                             viewIndex   = localArguments$viewIndex,
                             Arguments   = localArguments)
             }),
      MainUser = 
      list(label = "Position of \"vertices\" by 'cmdscale', and redraw",
           command = function(object, ...) {
             localArguments <- list(...)$Arguments
             Vertices <- localArguments$dg@vertexList
             Edges <- localArguments$dg@edgeList
             positions <- Positions(localArguments$dg@vertexList)
             N <- dim(positions)[2]
             e <- NodeIndices(Edges)
             n <- Names(Vertices)
             X <- matrix(rep(-1, length(n)^2), ncol = length(n))
             for (i in 1:length(e)) {
               suppressWarnings(w <- as.numeric(names(e)[i]))
               if (is.na(w)) w <- .5
               X[e[[i]][1], e[[i]][2]] <- w
               X[e[[i]][2], e[[i]][1]] <- w
             }
             dimnames(X) <- list(n, n)
             d <- 1.25
             X[X==-1] <- d
             X <- X - d * diag(length(n))
             mdsX <- cmdscale(X, k = N, add = TRUE, eig = TRUE, x.ret = TRUE)
             # mdsX <- isoMDS(X, k = N)
             M <- max(abs(mdsX$points))
             Positions(localArguments$dg@vertexList) <<- mdsX$points / M * 45

             # replaceVertexList(localArguments$vertexList, 
             #                   frameModels = localArguments$frameModels, 
             #                   modelIndex  = localArguments$modelIndex,
             #                   viewIndex   = localArguments$viewIndex,
             #                   Arguments   = localArguments)

             vertices(localArguments$frameModels) <- 
                                                localArguments$dg@vertexList
             }),
      MainUser = 
      list(label = "Position of \"vertices\"",
           command = function(object, ...) 
             print(Positions(list(...)$Arguments$vertexList))),
      MainUser = 
      list(label = "Label all edges, in this window",
           command = function(object, ...) 
                       your.LabelAllEdges(object, slave = FALSE, ...)),
      MainUser = 
      list(label = "Label all edges, in slave window",
           command = function(object, ...) 
                       your.LabelAllEdges(object, slave = TRUE, ...)),
      MainUser = 
      list(label = "Draw model, in this window",
           command = function(object, ...) 
                       your.DrawModel(object, slave = FALSE, ...)),
      MainUser = 
      list(label = "Draw model, in slave window",
           command = function(object, ...) 
                       your.DrawModel(object, slave = TRUE, ...)),
      MainUser = 
      list(label = "Call of function 'modalDialog', result on 'title' at top",
           command = function(object, ...) 
           {
             localArguments <- list(...)$Arguments
             ReturnVal <- modalDialog("Test modalDialog Entry",
                                      "Enter name", 
                                      localArguments$control$title, 
                                      top = localArguments$top)
             print(ReturnVal)
             if (ReturnVal == "ID_CANCEL")
               return()
             tktitle(localArguments$top) <- ReturnVal
           }
          ),
      MainUser = 
      list(label = 
           "Call of function 'test.function', result on 'viewLabel' at bottom",
           command = function(object, ...)
           {
             localArguments <- list(...)$Arguments
             tkconfigure(localArguments$viewLabel, 
                         text = paste(localArguments$dg@viewType, " | ", 
                                      test.function(...))) } ),
      MainUser = 
      list(label = 
           "Test of 'Arguments'",
           command = function(object, ...)
           {

             dots              <- list(...)
             localArguments    <- list(...)$Arguments

             print(names(dots))
             print(names(localArguments))

             # Only the nine values
             # "frameModels", "modelIndex", "viewIndex",
             # "object", "objectName",
             # "selectedNodes", "selectedEdges",
             # "closedBlock", and "hiddenBlock "
             # should be extracted from "list(...)$Arguments":

             frameModels       <- localArguments$frameModels

             modelIndex        <- localArguments$modelIndex
             viewIndex         <- localArguments$viewIndex

             object            <- localArguments$object
             objectName        <- localArguments$objectName

             selectedNodes     <- localArguments$selectedNodes
             selectedEdges     <- localArguments$selectedEdges
             closedBlock       <- localArguments$closedBlock
             hiddenBlock       <- localArguments$hiddenBlock

             #  "control" can alse be extracted from "framModels"

             Control           <- localArguments$control

             control           <- frameModels@control

             # These 3 are 'deprecated':

             drawModel         <- localArguments$drawModel   #
             redrawView        <- localArguments$redrawView  #

             envir             <- localArguments$envir       #

             # The following are currently retained in "list(...)$Arguments", 
             # but can be extracted from the above teen values:

             frameViews        <- frameModels@models[[modelIndex]]
             graphWindow       <- frameViews@graphs[[viewIndex]]

             vertexList        <- frameModels@vertices
             blockList         <- frameModels@blocks

             dg                <- graphWindow@dg

             visibleVertices   <- visibleVertices(dg)
             visibleBlocks     <- visibleBlocks(dg)
             edgeList          <- edgeList(dg)
             oriented          <- oriented(dg)
             blockEdgeList     <- blockEdgeList(dg)
             factorVertexList  <- factorVertexList(dg)
             factorEdgeList    <- factorEdgeList(dg)
             extraList         <- extraList(dg)
             extraEdgeList     <- extraEdgeList(dg)

             viewType          <- viewType(dg)

             top               <- top(graphWindow)
             box               <- vbox(graphWindow)
             canvas            <- canvas(graphWindow)
             viewLabel         <- viewLabel(graphWindow)
             tags              <- tags(graphWindow)

             # The values now in 'control' are no longer 
             # avaliable in "list(...)$Arguments":

             title             <- control$label # bad example since the  
                                                # name "title" has been  
                                                # change to "label".

             vertexColor       <- control$vertexColor

             print(names(control))

             browser()

             } ),

      Vertex = 
      list(label = "Test of user popup menu for vertices: Label",
           command = function(object, name, ...) 
           {
             # print(name)
             dots <- list(...)
             # print(names(dots))
             # print(c(dots$type))
             # print(c(dots$index))
             localArguments <- dots$Arguments
             # print(names(localArguments))
             # str(localArguments$selectedNodes)
             # str(localArguments$selectedEdges)
             print(localArguments$dg@vertexList[[dots$index]]@label)
           }
          ),
      Edge = 
      list(label = "Test of user popup menu for edges: Class",
           command = function(object, name1, name2, ...) 
           {
             dots           <- list(...)
             localArguments <-      dots$Arguments

             # print(c(name1, name2))
             # print(c(dots$edge.index, dots$which.edge, dots$from, dots$to))
             # print(c(dots$from.type, dots$to.type, dots$edge.type))
             # print(names(localArguments))
             # str(localArguments$selectedNodes)
             # str(localArguments$selectedEdges)

             ReturnVal <- selectDialog("Test selectDialog Entry", 
                                       "Select name", 
                                       localArguments$control$edgeClasses[,1], 
                                       top = localArguments$top)
             print(ReturnVal)
             if (ReturnVal == "ID_CANCEL")
               return()
             if ((dots$from > 0) && (dots$to > 0)) {
               dg <- localArguments$dg
               class(dg@edgeList[[dots$edge.index]]) <- 
                           localArguments$control$edgeClasses[ReturnVal, 2]
               # replaceView ?
               replaceModel(dg,
                   frameModels     = localArguments$frameModels, 
                   modelIndex      = localArguments$modelIndex, 
                   viewIndex       = localArguments$viewIndex, 
                   modelObject     = localArguments$object, 
                   modelObjectName = localArguments$objectName) 
             }
           }
          ),
      ClosedBlock = 
      list(label = "Test of user popup menu for blocks",
           command = function(object, name, ...) 
           {
             print(name)
             print(c(list(...)$index))
           }
          )
     )

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