findEncodingDims Out-of-Memory Issues

[lemdcock]

Dear Gagneur Lab,

I'm currently trying to determine the optimal q-value for my OutRider analysis. For which I'm using the following code:

# calculate optimal q
encDimParams <- c(2,5,8,12,14,16,18,20)
q <- findEncodingDim(ods_Filtered, params = encDimParams, BPPARAM=MulticoreParam(1))

pdf(Q_Plot_File)
plotEncDimSearch(q)
dev.off()

However, each time I submit this code on our HPC cluster, the node appears to go out-of-memory right at the end of the optimisation. I've tried with 50, 150 and even 715 GB of Ram. Do you by any chance have an idea what could be going wrong? I've also looked into the solutions mentioned under #11.

Kind regards, Laurenz De Cock