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hi there. some one know how to fix this issue whe ...
# rnasplice
a
hi there. some one know how to fix this issue whe do you try to run rnasplice with diferent species, why still this: Miso sashimi_plot : true miso_genes : ENSG00000004961, ENSG00000005302, ENSG00000147403 miso_genes_file : null
t
Yes, I'm not sure why some random genes are set by default. The work-around is to set the genes that want to see from your organism (with 
--miso_genes
), or just turn the plot off with 
--sashimi_plot false
.
a
yes, and have similaar error that i get with mouse:
-[nf-core/rnasplice] Pipeline completed with errors- ERROR ~ Error executing process > 'NFCORE_RNASPLICERNASPLICEVISUALISE_MISO:GTF_2_GFF3' Caused by: Process 
NFCORE_RNASPLICE:RNASPLICE:VISUALISE_MISO:GTF_2_GFF3
terminated with an error exit status (1) Command executed: gffread genomic.gtf -L --keep-genes | awk -F'\t' -vOFS='\t' '{ gsub("transcript", "mRNA", $3); print}' > genomic_genes.gff3 cat <<-END_VERSIONS > versions.yml "NFCORE_RNASPLICERNASPLICEVISUALISE_MISO:GTF_2_GFF3": gffread: $(gffread --version 2>&1) END_VERSIONS Command exit status: 1 Command output: (empty)
so MISO configuration is a issues here?
t
Hmm, could be, but I'm not sure what the actual error is here. Can you see any error message, probably from 
gffread
, e.g. in the 
.command.err
file in the work directory of the process?
Just try with a mouse gene (probably something with 
ENSMUSG0...
and see if that fixes it. If not, you can look for the error message.
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