Nothing
`variocloudmap` <- function(sp.obj, name.var, bin=NULL, quantiles=TRUE,
names.attr=names(sp.obj), criteria=NULL, carte=NULL, identify=FALSE, cex.lab=0.8,
pch=16, col="lightblue3", xlab="", ylab="", axes=FALSE, lablong="", lablat="",
xlim=NULL, ylim=NULL)
{
envir = as.environment(1)
# Verification of the Spatial Object sp.obj
class.obj<-class(sp.obj)[1]
if(substr(class.obj,1,7)!="Spatial") stop("sp.obj may be a Spatial object")
if(substr(class.obj,nchar(class.obj)-8,nchar(class.obj))!="DataFrame") stop("sp.obj should contain a data.frame")
if(!is.numeric(name.var) & is.na(match(as.character(name.var),names(sp.obj)))) stop("name.var is not included in the data.frame of sp.obj")
if(length(names.attr)!=length(names(sp.obj))) stop("names.attr should be a vector of character with a length equal to the number of variable")
# we propose to refind the same arguments used in first version of GeoXp
long<-coordinates(sp.obj)[,1]
lat<-coordinates(sp.obj)[,2]
var<-sp.obj@data[,name.var]
# verify the type of the main variable
if(!(is.integer(var) || is.double(var))) stop("the variable name.var should be a numeric variable")
listvar<-sp.obj@data
listnomvar<-names.attr
# Code which was necessary in the previous version
if(is.null(carte) & class.obj=="SpatialPolygonsDataFrame") carte<-spdf2list(sp.obj)$poly
# for identifyng the selected sites
ifelse(identify, label<-row.names(listvar),label<-"")
# initialisation
nointer<-FALSE
nocart<-FALSE
buble<-FALSE
legends<-list(FALSE,FALSE,"","")
z<-NULL
legmap<-NULL
inout<-NULL
labvar<-c(xlab,ylab)
opt1<-1
opt2<-1
angle<-0
names.slide="Alpha Quantile Value"
obs <- matrix(FALSE, nrow = length(long), ncol = length(long))
directionnel<-FALSE
# Windows device
if(!(2%in%dev.list())) dev.new()
if(!(3%in%dev.list())) dev.new()
# Transformation data.frame en matrix
if((length(listvar)>0)&&(dim(as.matrix(listvar))[2]==1)) listvar<-as.matrix(listvar)
####################################################
# calcul des matrices diff et dist
####################################################
long1 <- matrix(rep(t(long), length(long)), ncol = dim(t(long))[2],byrow = FALSE)
long2 <- matrix(rep(t(long), length(long)), ncol = dim(t(long))[2],byrow = TRUE)
lat1 <- matrix(rep(t(lat), length(lat)), ncol = dim(t(lat))[2],byrow = FALSE)
lat2 <- matrix(rep(t(lat), length(lat)), ncol = dim(t(lat))[2],byrow = TRUE)
v1 <- matrix(rep(t(var), length(var)), ncol = dim(t(var))[2],byrow = FALSE)
v2 <- matrix(rep(t(var), length(var)), ncol = dim(t(var))[2],byrow = TRUE)
theta <- matrix(0, nrow = length(long), ncol = length(long))
numer <- lat2 - lat1
denom <- long2 - long1
theta[which(denom == 0,arr.ind=TRUE)] <- pi/2
theta[which(denom != 0,arr.ind=TRUE)] <- atan(numer[which(denom != 0,arr.ind=TRUE)]/denom[which(denom != 0,arr.ind=TRUE)])
theta[which(theta < 0)] <- theta[which(theta < 0)] + pi
dist <- sqrt((long1 - long2)^2 + (lat1 - lat2)^2)
dif <- (v1 - v2)^2/2
dif2 <- (abs(v1 - v2))^(1/2)
####################################################
# choix des bornes des réglettes (inspiré de la documentation de Matlab)
####################################################
# v4 <- sort(dist)
# v4 <- as.vector(v4)
# z <- seq(1, max(v4), by = (max(v4)/3500))
# z <- round(z)
# z1 <- z[2:length(z)] - z[1:(length(z) - 1)]
# h <- mean(z1)
# p <- 1/(1 + (h^3/6))
# p1 <- 1/(1 + (h^3/60))
# p2 <- 1/(1 + (h^3/0.6))
# alpha <- (1 - p)/p
# borne1 <- (1 - p1)/p1
# borne2 <- (1 - p2)/p2
borne1=0.01
borne2=0.99
alpha=0.5
####################################################
# sélection d'un point sur le variocloud
####################################################
pointfunc <- function()
{
quit <- FALSE
dev.set(3)
title("ACTIVE DEVICE", cex.main = 0.8, font.main = 3, col.main='red')
title(sub = "To stop selection, click on the right button of the mouse and stop (for MAC, ESC)", cex.sub = 0.8, font.sub = 3,col.sub='red')
while (!quit)
{
dev.set(3)
loc <- locator(1)
if (is.null(loc))
{
quit <- TRUE
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
next
}
obs <<- selectstat(var1 = dist, var2 = dif, obs = obs,Xpoly = loc[1], Ypoly = loc[2],
method = "Variopoint",long = long, lat = lat)
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
title("ACTIVE DEVICE", cex.main = 0.8, font.main = 3, col.main='red')
title(sub = "To stop selection, click on the right button of the mouse and stop (for MAC, ESC)", cex.sub = 0.8, font.sub = 3,col.sub='red')
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
}
}
####################################################
# sélection d'un polygone sur l'angleplot
####################################################
polyfunc <- function() {
quit <- FALSE
polyX <- NULL
polyY <- NULL
dev.set(3)
title("ACTIVE DEVICE", cex.main = 0.8, font.main = 3, col.main='red')
title(sub = "To stop selection, click on the right button of the mouse and stop (for MAC, ESC)", cex.sub = 0.8, font.sub = 3,col.sub='red')
while (!quit) {
dev.set(3)
loc <- locator(1)
if (is.null(loc)) {
quit <- TRUE
next
}
polyX <- c(polyX, loc[1])
polyY <- c(polyY, loc[2])
if (length(polyX)>0)
{
lines(polyX, polyY)
}
}
polyX <- c(polyX, polyX[1])
polyY <- c(polyY, polyY[1])
if (length(polyX)>0)
{
lines(polyX, polyY)
for (i in 1:length(long))
{
obs[, i] <<- inout(cbind(dist[, i], dif[, i]), cbind(polyX, polyY), bound = TRUE)
}
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
}
}
####################################################
# contour des unités spatiales
####################################################
cartfunc <- function()
{
if (length(carte) != 0)
{
ifelse(!nocart,nocart<<-TRUE,nocart<<-FALSE)
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
}
else
{
tkmessageBox(message="Spatial contours have not been given",icon="warning",type="ok")
}
}
####################################################
# Pour le alpha
####################################################
refresh.code <- function(...)
{
alpha <<- slider1(names.slide=names.slide, no = 1)
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
}
####################################################
# rafraichissement des graphiques
####################################################
SGfunc <- function()
{
obs <<- matrix(FALSE, nrow = length(long), ncol = length(long))
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
}
####################################################
# quitter l'application
####################################################
quitfunc<-function()
{
#tclvalue(fin)<<-TRUE
tkdestroy(tt)
assign("GeoXp.open", FALSE, envir = baseenv())
# assign("obs", row.names(sp.obj)[obs], envir = .GlobalEnv)
}
quitfunc2<-function()
{
#tclvalue(fin)<<-TRUE
tkdestroy(tt)
assign("GeoXp.open", FALSE, envir = baseenv())
print("Results have been saved in last.select object")
obs[lower.tri(obs)]<-FALSE
assign("last.select", which(obs,arr.ind=TRUE), envir = envir)
}
####################################################
# Open a no interactive selection
####################################################
fnointer<-function()
{
if (length(criteria) != 0)
{
ifelse(!nointer,nointer<<-TRUE,nointer<<-FALSE)
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
}
else
{
tkmessageBox(message="Criteria has not been given",icon="warning",type="ok")
}
}
####################################################
# Bubble
####################################################
fbubble<-function()
{
res2<-choix.bubble(buble,listvar,listnomvar,legends)
buble <<- res2$buble
legends <<- res2$legends
z <<- res2$z
legmap <<- res2$legmap
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
}
####################################################
# Dessin du variogramme
####################################################
vari<-function()
{
ifelse(opt1==1,opt1<<-2,opt1<<-1)
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
}
vari2<-function()
{
ifelse(opt2==1,opt2<<-2,opt2<<-1)
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
}
####################################################
# Choisir angle
####################################################
choixangle <- function()
{
directionnel<-!directionnel
if(directionnel)
{SGfunc()
tt1<-tktoplevel()
Name <- tclVar("0.5")
entry.Name <-tkentry(tt1,width="3",textvariable=Name)
tkgrid(tklabel(tt1,text="Please enter a decimal x between 0 and 1 (angle=x.Pi)"),entry.Name)
OnOK <- function()
{
angle <<- tclvalue(Name)
tkdestroy(tt1)
if (is.na(as.numeric(angle))||(as.numeric(angle)>1)||(as.numeric(angle)<0))
{
tkmessageBox(message="Sorry, but you have to choose a decimal number between 0 and 1 (exemple : 0.5)",icon="warning",type="ok");
}
else
{msg <- paste("You choose",angle,"pi")
tkmessageBox(message=msg)
dist <<- sqrt((long1 - long2)^2 + (lat1 - lat2)^2)
dif <<- (v1 - v2)^2
dif2 <<- (abs(v1 - v2))^(1/2)
if(as.numeric(angle)<1/10)
{ dist[which((theta>as.numeric(angle)*pi+pi/10)&(theta<9*pi/10+as.numeric(angle)*pi))] <<- -10
dif[which((theta>as.numeric(angle)*pi+pi/10)&(theta<9*pi/10+as.numeric(angle)*pi))] <<- -10
dif2[which((theta>as.numeric(angle)*pi+pi/10)&(theta<9*pi/10+as.numeric(angle)*pi))] <<- -10
}
else if (as.numeric(angle)>9/10)
{ dist[which((theta>-2*pi+(as.numeric(angle)*pi+11*pi/10))&(theta<as.numeric(angle)*pi-pi/10))] <<- -10
dif[which((theta>-2*pi+(as.numeric(angle)*pi+11*pi/10))&(theta<as.numeric(angle)*pi-pi/10))] <<- -10
dif2[which((theta>-2*pi+(as.numeric(angle)*pi+11*pi/10))&(theta<as.numeric(angle)*pi-pi/10))] <<- -10
}
else
{
dist[which((theta>as.numeric(angle)*pi+pi/10))] <<- -10
dist[which((theta<as.numeric(angle)*pi-pi/10))] <<- -10
dif[which((theta>as.numeric(angle)*pi+pi/10))] <<- -10
dif[which((theta<as.numeric(angle)*pi-pi/10))] <<- -10
dif2[which((theta>as.numeric(angle)*pi+pi/10))] <<- -10
dif2[which((theta<as.numeric(angle)*pi-pi/10))] <<- -10
}
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
}
}
OK.but <-tkbutton(tt1,text=" OK ",command=OnOK)
#tkbind(entry.Name, "<Return>",OnOK)
tkgrid(OK.but)
tkfocus(tt1)
}
else
{
SGfunc()
dist <<- sqrt((long1 - long2)^2 + (lat1 - lat2)^2)
dif <<- (v1 - v2)^2/2
dif2 <<- (abs(v1 - v2))^(1/2)
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
}
}
####################################################
# Représentation Graphique
####################################################
# Is there a Tk window already open ?
if(interactive())
{
if(!exists("GeoXp.open",envir = baseenv())||length(ls(envir=.TkRoot$env, all.names=TRUE))==2) # new environment
{
graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
assign("GeoXp.open", TRUE, envir = baseenv())
}
else
{if(get("GeoXp.open",envir= baseenv()))
{stop("Warning : a GeoXp function is already open. Please, close Tk window before calling a new GeoXp function to avoid conflict between graphics")}
else
{ graphique(var1 = dist, var2 = dif, var3=dif2, obs = obs,opt1=opt1,opt2=opt2, num = 3,
graph = "Variocloud", labvar = labvar, symbol = pch, couleurs=col, quantiles = quantiles,
alpha1 = alpha, bin=bin, xlim=xlim, ylim=ylim)
carte(long = long, lat = lat, obs = obs, lablong = lablong,lablat = lablat,
label = label,buble=buble,criteria=criteria,nointer=nointer,cbuble=z,carte=carte,nocart=nocart,
cex.lab=cex.lab, method = "Variocloud",axis=axes,legmap=legmap,legends=legends)
assign("GeoXp.open", TRUE, envir = baseenv())}
}
}
####################################################
# création de la boite de dialogue
####################################################
if(interactive())
{
fontheading<-tkfont.create(family="times",size=14,weight="bold")
tt <- tktoplevel()
tkwm.title(tt, "variocloudmap")
frame1a <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
tkpack(tklabel(frame1a, text = "Interactive selection", font = "Times 14",
foreground = "blue", background = "white"))
tkpack(tklabel(frame1a, text = "Work on the graph", font = "Times 12",
foreground = "darkred", background = "white"))
point.but <- tkbutton(frame1a, text="Selection by point", command=pointfunc);
poly.but <- tkbutton(frame1a, text="Selection by polygon ", command=polyfunc);
tkpack(point.but, poly.but, side = "left", expand = "TRUE",fill = "x")
tkpack(frame1a, expand = "TRUE", fill = "x")
frame1b <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
nettoy.but <- tkbutton(frame1b, text=" Reset selection " , command=SGfunc);
tkpack(nettoy.but, side = "left", expand = "TRUE", fill = "x")
tkpack(frame1b, expand = "TRUE", fill = "x")
frame2 <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
tkpack(tklabel(frame2, text = "Options", font = "Times 14",
foreground = "blue", background = "white"))
tkpack(tklabel(frame2, text = "Spatial contours ", font = "Times 11",
foreground = "darkred", background = "white"),tklabel(frame2, text = "Preselected sites ", font = "Times 11",
foreground = "darkred", background = "white"),tklabel(frame2, text = " Bubbles ", font = "Times 11",
foreground = "darkred", background = "white"),side = "left", fill="x",expand = "TRUE")
tkpack(frame2, expand = "TRUE", fill = "x")
frame2b <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
nocou1.but <- tkbutton(frame2b, text="On/Off", command=cartfunc)
noint1.but <- tkbutton(frame2b, text="On/Off", command=fnointer)
bubble.but <- tkbutton(frame2b, text="On/Off", command=fbubble)
tkpack(nocou1.but,noint1.but,bubble.but, side = "left", expand = "TRUE", fill = "x")
tkpack(frame2b, expand = "TRUE", fill = "x")
frame2c <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
tkpack(tklabel(frame2c, text = "Classic empirical semi-variogram ", font = "Times 11",
foreground = "darkred", background = "white"),tklabel(frame2c, text = "Robust empirical semi-variogram ", font = "Times 11",
foreground = "darkred", background = "white"),side = "left", fill="x",expand = "TRUE")
tkpack(frame2c, expand = "TRUE", fill = "x")
frame2d <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
vari.but <- tkbutton(frame2d, text="On/Off", command=vari)
vari2.but <- tkbutton(frame2d, text="On/Off", command=vari2)
tkpack(vari.but, vari2.but, side = "left", expand = "TRUE", fill = "x")
tkpack(frame2d, expand = "TRUE", fill = "x")
frame2e <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
tkpack(tklabel(frame2e, text = "Directional Semi-Variogram Cloud", font = "Times 11",
foreground = "darkred", background = "white"),side = "left", fill="x",expand = "TRUE")
tkpack(frame2e, expand = "TRUE", fill = "x")
frame2f <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
angle.but <- tkbutton(frame2f, text="On/Off", command=choixangle)
tkpack(angle.but, side = "left", expand = "TRUE", fill = "x")
tkpack(frame2f, expand = "TRUE", fill = "x")
if(quantiles)
{
frame1c <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
slider1(frame1c, refresh.code, names.slide=names.slide,
borne1, borne2, (borne2 - borne1)/100, alpha)
tkpack(frame1c, expand = "TRUE", fill = "x")
}
frame3 <- tkframe(tt, relief = "groove", borderwidth = 2, background = "white")
tkpack(tklabel(frame3, text = "Exit", font = "Times 14",
foreground = "blue", background = "white"))
quit.but <- tkbutton(frame3, text="Save results", command=quitfunc2);
quit.but2 <- tkbutton(frame3, text="Exit without saving", command=quitfunc);
tkpack(quit.but, quit.but2, side = "left", expand = "TRUE",
fill = "x")
tkpack(frame3, expand = "TRUE", fill = "x")
}
####################################################
return(invisible())
}
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