Error preprocessReads : Error in writeFastq
0
0
Entering edit mode
@guillaumedachy-11994
Last seen 4.5 years ago
Brussels

Hello everyone !

I'm trying to preprocess paired-end reads in the QuasR Package, but I unfortunately get this error, which is surprising for me because that code worked on windows but not on linux (fedora). 

This could be a very naive question, and I apologize if it is... But thank you so much for helping me ! 

> infiles1 <- file.path("/run/media/ahmed/LACIE/RNAseq_Florence_JBD", c("RC_FA225_TTAGGC_R1.fastq.gz"))
> infiles2 <- file.path("/run/media/ahmed/LACIE/RNAseq_Florence_JBD", c("RC_FA225_TTAGGC_R2.fastq.gz"))
> outfiles1 <- paste(tempfile(pattern=c("output_1_")),".fastq",sep="")
> outfiles2 <- paste(tempfile(pattern=c("output_2_")),".fastq",sep="")
> resFA225 <- preprocessReads(filename=infiles1,
+                        filenameMate=infiles2,
+                        outputFilename=outfiles1,
+                        outputFilenameMate=outfiles2,
+                        nBases=0)
  filtering /run/media/ahmed/LACIE/RNAseq_Florence_JBD/RC_FA225_TTAGGC_R1.fastq.gz and
    /run/media/ahmed/LACIE/RNAseq_Florence_JBD/RC_FA225_TTAGGC_R2.fastq.gz
Error in writeFastq(chunks[filter], tmpOutputFilename, mode = mode, qualityType = "Auto",  :
  failed to write record 14

 

Does this give an idea to someone ?

Thank you very much !!

Guillaume

quasr rnaseq paired-end reads • 1.1k views
ADD COMMENT

Login before adding your answer.

Traffic: 451 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