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)  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: nodeNames PC-113-219 1 Performing auxiliary alignments for 2 samples. See progress in the log file: C:/Users/gdachy/Documents\QuasR_log_15ec5fec2268.txt ***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 !!