So I am having a weird issue with rMATS,

RNASPLICE:RMATS:RMATS_POST

and the error (v1.04): > Phy.Ins.03_sorted.bam found 4 times in .rmats files I did some digging and looking into the

bamlist.txt

of the only successful run of this step vs a failed one, and there is a key difference, the links to the files being

fusion

or not: bamlist completed successfully links to another bamlist (?) in fusion: > /fusion/s3/dewpoint-sqplatform-twkit/prod/scratch/36/aa1e5c339cfb8773a23c248040b08c/Phy-Met-Ins_bamlist.txt bamlist of failed comparison will have a link to the bam: > Path.Met.Ins.02_sorted.bam,Path.Met.Ins.01_sorted.bam,Path.Met.Ins.03_sorted.bam The bam files themselves are not actual bam files (!) but rather contain a link to the bam file in fusion (I think): > /fusion/s3/dewpoint-sqplatform-twkit/prod/scratch/86/87390ee76e8e906310a6a848c046ee/Phy.Ins.01_sorted.bam All of this feels turtles all the down, so can someone explain what is going on, specially why the two bamlist files have different contents? Run in the seqera platform if it matters