I’m trying to use an RNAseq analysis workflow on a collection constructed by NCBI fastq dump of paired-end reads.
My workflow involves Trim Galore!, FastQC, HISAT2 and featurecounts; all I believe set to the needed settings to deal with paired-end collections. However despite the workflow claiming to be invoked nothing happens. Similar workflows just for paired-end files will work however the workflow is not operating for collections. I can use the programs individually on the collection and they work but never together as a workflow.
I have attached links to the workflow and an example collection for which it isn’t working for:
history with dataset example: https://usegalaxy.org:/u/t_little/h/test