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gosianow / DRIMSeq_before_BioC3.6

Package for differential analyses using the Dirichlet Multinomial distribution
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error message from dmPrecision and parallel #6

Open XiangZhangSC opened 6 years ago

XiangZhangSC commented 6 years ago

Hello, When I was running dmPrecision, I got error message below.

d <- dmPrecision(d, design = X, BPPARAM = BiocParallel::SnowParam()) ! Using a subset of 0.1 genes to estimate common precision !

! Using common_precision = 995.2027 as prec_init !

Error in validObject(.Object) : invalid class “dmDSprecision” object: invalid object for slot "genewise_precision" in class "dmDSprecision": got class "logical", should be or extend class "numeric"

Although I work on a windows machine with 8 cores and specified SnowParam(), my CPU usage is below 20%. I wonder if you could give me some suggestions.

stegiopast commented 9 months ago

Hey there,

I am facing the same problem right now. Did you get to a solution back then ?

markrobinsonuzh commented 9 months ago

Hi,

Two things:

  1. Can you send a cut-paste of what traceback() says after the error? And also cut-paste your sessionInfo().
  2. Have you tried without using parallel? What size is your dataset?

Cheers, Mark