STACK: Error::throw

[BioHlT]

Hi,

I fairly new to the bioinformatics world. I was running the following command below to get the basic intron/exon stat, I run in the the following error. I am not sure what the error means or how to resolve it, I would appreciate any help you can offer Thank you! Command : agat_sq_stat_basic.pl -i VV_annotation.gtf -o VV_Intron_Exon_sum.txt

Error Message: ------------- EXCEPTION: Bio::Root::Exception ------------- MSG: '' is not a valid frame STACK: Error::throw STACK: Bio::Root::Root::throw /opt/anaconda3/envs/AGAT/lib/site_perl/5.26.2/Bio/Root/Root.pm:447 STACK: Bio::SeqFeature::Generic::frame /opt/anaconda3/envs/AGAT/lib/site_perl/5.26.2/Bio/SeqFeature/Generic.pm:503 STACK: Bio::Tools::GFF::_from_gff3_string /opt/anaconda3/envs/AGAT/lib/site_perl/5.26.2/Bio/Tools/GFF.pm:624 STACK: Bio::Tools::GFF::from_gff_string /opt/anaconda3/envs/AGAT/lib/site_perl/5.26.2/Bio/Tools/GFF.pm:437 STACK: Bio::Tools::GFF::next_feature /opt/anaconda3/envs/AGAT/lib/site_perl/5.26.2/Bio/Tools/GFF.pm:395 STACK: /opt/anaconda3/envs/agat/bin/agat_sq_stat_basic.pl:94

[Juke34]

It sounds that one of the mandatory field in your file is missing. You should check the frame column (8th field) that must contain 0, 1, 2 or ..