I am getting an error, Error in lines[[i]] : subscript out of bounds when trying to knit a chunk that reads in a model from an external file and then fits the model in lavaan.
I create the model in a .R file:
model <- readLines(con = textConnection('
depression =~ thoughts + pain + brain + use + suic + talk + sitalone +
headaches + app + heart + cheek + cry + sleep + disob + cold +
liedown + worries + alone + annoyed + holdhead + drinkal +
insult + greet + think + mutter + trust + donoth + sad + bad +
weak + notalk + forget + crycont + livedie
'))
cat(model, file = 'scripts/mod.lav.f1.0', sep = '\n')
When running the .R file, it puts the following in the scripts/mod.lav.f1.0 file:
depression =~ thoughts + pain + brain + use + suic + talk + sitalone +
headaches + app + heart + cheek + cry + sleep + disob + cold +
liedown + worries + alone + annoyed + holdhead + drinkal +
insult + greet + think + mutter + trust + donoth + sad + bad +
weak + notalk + forget + crycont + livedie
My .rnw file then reads in the scripts/mod.lav.f1.0 that specifies my model.
\documentclass{article}
\begin{document}
<<cfa, include=FALSE, tidy=FALSE>>=
# read in model from file
mod.1f.0 <- readLines("scripts/mod.lav.f1.0")
# fit the model
fit.1f.0 <- cfa(mod.1f.0, data = mydata, ordered=items)
@
\end{document}
The problematic statement in the chunk seems to be fit.1f.0 <- cfa(mod.1f.0, data = mydata, ordered=items). When knitting the document, I get an error: Error in lines[[i]] : subscript out of bounds.
I am able to run the chunk in R without any problems. The model is stored in mod.1f.0 and the fit is stored in fit.1f.0.
Any thoughts about what is causing this error?
Someone sent me another example that I was able to run, so I decided to delete my cache and all of the hidden project files that RStudio creates. It worked. Prior to doing this I had only tried restarting RStudio.