0
0
Entering edit mode
@aleksandarbaburskig-23324
Last seen 22 months ago

Hi, I have problem creating DEXSeq HTML Report (DEXSeq 1.34.0). Before this step everything works fine. But when I run:

   DEXSeqHTML(object = dxr1,
FDR=0.05,
fitExpToVar = "condition",
path = "./",
file = "report.html",
BPPARAM = MulticoreParam(workers = 8))


analysis fails with following error:

Error: BiocParallel errors
element index: 44, 45, 46, 47, 48, 49, ...
first error: 'relevel' only for (unordered) factors
In addition: Warning message:
stop worker failed:
attempt to select less than one element in OneIndex
Execution haltedanalysis


or when I remove parallelisation, I get this error message:

Error in relevel.default(mf\$exon, "others") :
'relevel' only for (unordered) factors
Calls: DEXSeqHTML ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>


Sometimes it works for low number of files, but with more than 8 analysis always fails. Can someone help please :)

Aleksandar

DEXSeq • 473 views
0
Entering edit mode

Thanks for reporting this. It is a bug resulting from the change on the R base defaults in stringsAsFactors=. I will fix this as soon as I find some time and let you know.

0
Entering edit mode

Thanks a lot :) Aleksandar