search

quadbio / Pando

Multiome GRN inference.
https://quadbio.github.io/Pando/
MIT License
106 stars 21 forks source link

infer_grn() parallelization cores not delivering results #37

Closed stran94 closed 1 year ago

stran94 commented 1 year ago

Whenever I run infer_grn() with parallel=TRUE, I get warning messages that some cores didn't return values. I also ran it without the parallelization and the grn results had a lot more connections. Anyone know how to prevent this issue with parallelization?

Warning message: In mclapply(argsList, FUN, mc.preschedule = preschedule, mc.set.seed = set.seed, : scheduled cores 3, 4, 5, 6, 7, 13, 14, 15, 18, 19, 20, 22, 23, 24, 25, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 42, 43, 44, 45, 46, 49, 51, 52, 53, 54, 55, 56, 59, 60, 61, 62, 63, 64 did not deliver results, all values of the jobs will be affected

joschif commented 1 year ago

Hi @stran94, this seems to be an error caused by the [parallel](https://www.rdocumentation.org/packages/parallel/versions/3.4.1) package used for parallelization. Unfortunately I don't really know what the reason for this is or how to fix it, maybe you could approach the authors of that package.