Using VISION on Windows

[acherman]

Firstly, thanks for this tool! It's received glowing reviews from the researchers I've helped use it!

I'm passing along an error that occurred when using VISION with Windows 10 Pro and R 3.6.3 from CRAN. I assume this error will happen anywhere that getOptions("mc.cores", 2L) returns a value > 1, but it happened to this user when performing DE testing. Specifically, when calling the matrix_wilcox_cpp function

The error was:

<simpleError in mclapply(seq_len(nrow(data)), function(i) { uz <- wilcox_subset(as.numeric(data[i, ]), cluster_num, cluster_denom) return(unlist(uz))}, mc.cores = jobs): 'mc.cores' > 1 is not supported on Windows>

If others encounter this issue, the simple solution is to set the MC_CORES environment variable prior to loading any libraries, which is done like so:

Sys.setenv("MC_CORES" = 1L)

library(VISION)

getOption("mc.cores", 2L)
[1] 1

Then everything works as expected!

[deto]

Thanks for reporting this issue!

I've made a change that should prevent the error in the future (it'll just fall back to 1 core by default). Also, I've updated the documentation where it mentions setting the options('mc.cores'=N) option to specify that this should be either omitted or set to 1 on Windows.