DEXSeq HTML report Error
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
ADD COMMENT
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.

ADD REPLY
0
Entering edit mode

Thanks a lot :) Aleksandar

ADD REPLY

Login before adding your answer.

Traffic: 447 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6