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semPlotModel_Amos <- function(object)
{
## Warnings:
warning("(Residual) variances of Amos model is not yet supported")
# Read characters:
str <- readChar(object,nchars=file.info(object)$size)
# Extract Estimates section:
estLocs <- gregexpr('<div ntype="estimates" nodecaption="Estimates" caption="Estimates">',str)[[1]]
nModel <- length(estLocs)
Parss <- list()
# Open and close div:
open <- gregexpr("<div",str)[[1]]
close <- gregexpr("</div>",str)[[1]]
for (mod in 1:nModel)
{
startSect <- which(open==estLocs[mod])
# Find title:
titleString <- substring(str,open[startSect+1],close[which(close>open[startSect+1])[1]])
modName <- regmatches(titleString,regexpr("(?<=<h5>).*?(?=</h5>)",titleString,perl=TRUE))
# Find close:
nest <- 1
curOpen <- startSect + 1
curClose <- which(close>open[curOpen])[1]
repeat{
# If next is opened:
if (open[curOpen] < close[curClose])
{
nest <- nest + 1
curOpen <- curOpen + 1
} else {
# If next is closed:
nest <- nest - 1
if (nest==0) break
curClose <- curClose + 1
}
}
EstTabs <- substring(str,open[startSect],close[curClose] + 5)
# Extract tables:
Tabs <- readHTMLTable(EstTabs)
# Find names of tables;
Tabspl <- strsplit(EstTabs,split="<table>")[[1]]
Names <- regmatches(Tabspl,gregexpr('(?<=nodecaption=").*(?=">)',Tabspl,perl=TRUE))[-length(Tabspl)]
Names <- sapply(Names,function(x)x[length(x)])
names(Tabs) <- Names
# Regression weights:
Reg <- Tabs[[which(grepl("regression",names(Tabs),ignore.case=TRUE))[1]]]
Reg <- as.data.frame(lapply(Reg,as.character),stringsAsFactors=FALSE)
if (is.null(Reg$Estimate)) Reg$Estimate <- 1
if (is.null(Reg$Label)) Reg$Label <- ""
# Make Pars:
# Define Pars:
Pars <- data.frame(
label = Reg$Label,
lhs = Reg[,3],
edge = "->",
rhs = Reg[,1],
est = as.numeric(gsub(",",".",Reg$Estimate)),
std = NA,
group = modName,
fixed = FALSE,
par = 0,
stringsAsFactors=FALSE)
# Pars$par <- 1:nrow(Pars)
Pars$label[is.na(Pars$label)] <- ""
# # Fix edges:
# Pars$edge[Reg[,2]=="<---"] <- "->"
# Pars$edge[Reg[,2]=="<-->"] <- "<->"
# Test for fixed:
if (!is.null(Reg$P)) Pars$fixed <- is.na(Reg$P)
# Standardized values:
if (any(grepl("standardized",names(Tabs),ignore.case=TRUE)))
{
Std <- Tabs[[which(grepl("standardized",names(Tabs),ignore.case=TRUE))[1]]]
Std <- as.data.frame(lapply(Std,as.character),stringsAsFactors=FALSE)
if (is.null(Std$Estimate)) Std$Estimate <- 1
Pars$std <- as.numeric(gsub(",",".",Std$Estimate))
}
# Add covariances:
if (any(grepl("covariance",names(Tabs),ignore.case=TRUE)))
{
Cov <- Tabs[[which(grepl("covariance",names(Tabs),ignore.case=TRUE))[1]]]
Cov <- as.data.frame(lapply(Cov,as.character),stringsAsFactors=FALSE)
if (is.null(Cov$Estimate)) Cov$Estimate <- 1
if (is.null(Cov$Label)) Cov$Label <- ""
covPars <- data.frame(
label = Cov$Label,
lhs = Cov[,3],
edge = "<->",
rhs = Cov[,1],
est = as.numeric(gsub(",",".",Cov$Estimate)),
std = NA,
group = modName,
fixed = FALSE,
par = 0,
stringsAsFactors=FALSE)
if (!is.null(Cov$P)) covPars$fixed <- is.na(Cov$P)
# Check cors:
if (any(grepl("correlation",names(Tabs),ignore.case=TRUE)))
{
Cor <- Tabs[[which(grepl("correlation",names(Tabs),ignore.case=TRUE))[1]]]
Cor <- as.data.frame(lapply(Cor,as.character),stringsAsFactors=FALSE)
if (is.null(Cor$Estimate)) Cor$Estimate <- 1
covPars$std <- Cor$Estimate
}
Pars <- rbind(Pars,covPars)
}
Parss[[mod]] <- Pars
}
Pars <- do.call(rbind,Parss)
Pars$par <- 1:nrow(Pars)
## Extract variable info:
startSect <- which(open==gregexpr('<div nodecaption="Variable list"',str)[[1]])
nest <- 1
curOpen <- startSect + 1
curClose <- which(close>open[curOpen])[1]
repeat{
# If next is opened:
if (open[curOpen] < close[curClose])
{
nest <- nest + 1
curOpen <- curOpen + 1
} else {
nest <- nest - 1
if (nest==0) break
curClose <- curClose + 1
}
}
VarList <- substring(str,open[startSect],close[curClose] + 5)
# Reove html tags:
VarList <- gsub("<(.|\n)*?>","",VarList)
# Per line:
VarList <- scan(text=VarList,what="character",sep="\n")
# Remove leading and trailing whitespace:
VarList <- gsub("^\\s*","",VarList)
VarList <- gsub("\\s*$","",VarList)
AllVars <- unique(c(Pars$lhs,Pars$rhs))
AllVars <- AllVars[AllVars!=""]
# Location of indicators:
# manEndo - latEndo - manExo - latExo
grepRep <- function(...)
{
res <- grep(...)
if (length(res)==0) res <- -1
return(res[1])
}
ind <- c(
grepRep("Observed, endogenous variables",VarList),
grepRep("Unobserved, endogenous variables",VarList),
grepRep("Observed, exogenous variables",VarList),
grepRep("Unobserved, exogenous variables",VarList))
if (ind[1] > 0)
{
manEndo <- VarList[(ind[1]+1):(which((1:length(VarList) == length(VarList)) | (1:length(VarList) > ind[1]+1 & 1:length(VarList) %in% ind))[1] - 1)]
} else manEndo <- character(0)
if (ind[2] > 0)
{
latEndo <- VarList[(ind[2]+1):(which((1:length(VarList) == length(VarList)) | (1:length(VarList) > ind[2]+1 & 1:length(VarList) %in% ind))[1] - 1)]
} else latEndo <- character(0)
if (ind[3] > 0)
{
manExo <- VarList[(ind[3]+1):(which((1:length(VarList) == length(VarList)) | (1:length(VarList) > ind[3]+1 & 1:length(VarList) %in% ind))[1] - 1)]
} else manExo <- character(0)
if (ind[4] > 0)
{
latExo <- VarList[(ind[4]+1):(which((1:length(VarList) == length(VarList)) | (1:length(VarList) > ind[4]+1 & 1:length(VarList) %in% ind))[1] - 1)]
} else latExo <- character(0)
Vars <- data.frame(
name = c(manEndo,manExo,latEndo,latExo),
manifest = c(rep(TRUE,length(c(manEndo,manExo))),rep(FALSE,length(c(latEndo,latExo)))),
exogenous = c(rep(FALSE,length(manEndo)),rep(TRUE,length(manExo)),rep(FALSE,length(latEndo)),rep(TRUE,length(latExo))),
stringsAsFactors=FALSE)
# Return:
semModel <- new("semPlotModel")
semModel@Pars <- Pars
semModel@Vars <- Vars
semModel@Computed <- FALSE
semModel@Original <- list(str)
semModel@ObsCovs <- list()
semModel@ImpCovs <- list()
# semModel@Thresholds <- Thresh
return(semModel)
}
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