I encountered the error message when running LOFTEE: WARNING: Failed to instantiate plugin LoF: Cannot read /vep/loftee/GERP_scores.final.sorted.txt.gz using tabix at /mnt/d/software_lin/loftee/LoF.pm line 139
I found that quite many users encountered this error, after I did a quick google search. But nobody provided a solution that works for me.
I used the command: vep ... --plugin LoF,loftee_path:/mnt/d/software/loftee,human_ancestor_fa:Homo_sapiens_assembly38.fasta.gz,gerp_bigwig:/mnt/d/data/gerp.GRCh38.bw
I don't know why LOFTEE still asks for the GERP_scores.final.sorted.txt.gz file, even though I already specified the gerp_bigwig option.
Hi, guys:
I encountered the error message when running LOFTEE: WARNING: Failed to instantiate plugin LoF: Cannot read /vep/loftee/GERP_scores.final.sorted.txt.gz using tabix at /mnt/d/software_lin/loftee/LoF.pm line 139
I found that quite many users encountered this error, after I did a quick google search. But nobody provided a solution that works for me.
I used the command: vep ... --plugin LoF,loftee_path:/mnt/d/software/loftee,human_ancestor_fa:Homo_sapiens_assembly38.fasta.gz,gerp_bigwig:/mnt/d/data/gerp.GRCh38.bw
I don't know why LOFTEE still asks for the GERP_scores.final.sorted.txt.gz file, even though I already specified the gerp_bigwig option.
Please help.
Thank you!
Jie