Description of the bug
Hello,
I am trying to run the nf-core/smrnaseq pipeline on small RNA-seq data from sheep. I am aware that miRBase does not provide a GFF3 annotation for Ovis aries, which is causing the pipeline to fail with an error related to downloading off.gff3. Is it possible to skip the miRBase QC step (MIRTRACE) in the pipeline and proceed with just alignment and quantification ? Trie --mirtrace_species 'none' or excluding the parameter but the pipeline still looks for gff3 file.
Best,
Monika
Command used and terminal output
Relevant files
No response
System information
No response
Description of the bug
Hello,
I am trying to run the nf-core/smrnaseq pipeline on small RNA-seq data from sheep. I am aware that miRBase does not provide a GFF3 annotation for Ovis aries, which is causing the pipeline to fail with an error related to downloading off.gff3. Is it possible to skip the miRBase QC step (MIRTRACE) in the pipeline and proceed with just alignment and quantification ? Trie --mirtrace_species 'none' or excluding the parameter but the pipeline still looks for gff3 file.
Best,
Monika
Command used and terminal output
Relevant files
No response
System information
No response