Dear List,

I am having trouble running feature counts as implemented in Rsubread on my mac

My script is:

library(Rsubread)

b1.res<-featureCounts(files="b1.res.bam",annot.inbuilt="hg38",isPairedEnd=TRUE,requireBothEndsMapped=FALSE)

I get an output file with numbers instead of gene names and no counts.

I have 2 warning messages.

WARNING: reads from the same pair were found not adjacent to each       ||
||             other in the input (due to read sorting by location or         ||
||             reporting of multi-mapping read pairs).                        ||
||                                                                            ||
||    Read re-ordering is performed.           

and

warning message:
package ‘Rsubread’ was built under R version 3.3.3

(I am using 3.3.2)

I am not reproducing the whole output file because I get a

"language "af" is not one of the supported languages ['en']!"

from the site.

Thanks and best wishes,

Rich

Richard Friedman