Error in setnames(scoreTable, c("Var1", "Var2", "value"), c("userSet", : Items of 'old' not found in column names: Var1,Var2

[dingailuma]

Hi,
Does anyone know why this error appears when I run the example code in LOLA website:

library("LOLA")
dbPath = system.file("extdata", "hg19", package="LOLA")
regionDB = loadRegionDB(dbPath)
data("sample_input", package="LOLA") # load userSets
data("sample_universe", package="LOLA") # load userUniverse
locResults = runLOLA(userSets, userUniverse, regionDB, cores=1)

Error in setnames(scoreTable, c("Var1", "Var2", "value"), c("userSet", :
Items of 'old' not found in column names: Var1,Var2

Thanks !

[nsheff]

This has to do with a version conflict in data.table and reshape -- can you try:

detach("package:reshape”)

Or try loading the latest version of LOLA from GitHub?

[dingailuma]

Thank you ! I tried detach data.table and reshape both, and it works !

[nsheff]

I think it has to do with the order in which you load them... it should be fixed already in the latest version of LOLA, but I have yet to push this into the bioconductor channels. It will get there soon...