Question: RNA Seq // QuasR : Error while extracting unmapped reads
gravatar for guillaume.dachy
3.8 years ago by
guillaume.dachy10 wrote:

Hi everyone,

I'm trying to use the QuasR package for paired-end RNA Seq for his precious function allowing to align an auxiliary genome, but I get some trouble which are maybe very naive ... but hard to resolve for me !

Does this following error message give an idea to someone ?

> file.copy(system.file(package="QuasR", "extdata"), ".", recursive=TRUE)
[1] TRUE
> sampleFile <- "extdata/samples_rna_paired_copie.txt"
> genomeFile <- "BSgenome.Mmusculus.UCSC.mm10"
> auxFile <- system.file(package="QuasR", "extdata", "auxiliaries_copie.txt")
> proj <- qAlign(sampleFile, genome=genomeFile, auxiliaryFile=auxFile, splicedAlignment=TRUE)
alignment files missing - need to:
    create 2 auxiliary alignment(s)
will start in ..9s..8s..7s..6s..5s..4s..3s..2s..1s
Testing the compute nodes...OK
Loading QuasR on the compute nodes...OK
Available cores:
Performing auxiliary alignments for 2 samples. See progress in the log file:
***Error in checkForRemoteErrors(val) : 
  one node produced an error: Error on PC-113-219 processing sample F:/RNAseq/RC_FA225_TTAGGC_R1.fastq.gz : Error while extracting unmapped reads (return value: -45599932)***

I didn't find anything similar on the forum...

Thank you very much for your help !!


rna-seq R • 963 views
ADD COMMENTlink modified 11 months ago by Biostar ♦♦ 20 • written 3.8 years ago by guillaume.dachy10
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