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Gaius-Augustus / BRAKER

BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes
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Error with ProtHint #663

Open cliftonlewis opened 1 year ago

cliftonlewis commented 1 year ago

Hi,

I am getting an error with the ProtHint step and I'm not sure what the cause of it is. Could it be because it couldn't find enough memory or something?

error: ProtHint exited due to an error in command: /opt/ETP/bin/gmes/ProtHint/bin/run_spliced_alignment.pl --cores 20 --nuc ../nuc.fasta --list /data/evassvis/cl486/diamond/diamond.out --prot /data/evassvis/cl486/protyz6r7p9p --v --aligner spaln --min_exon_score 25 --longGene 30000 --longProtein 15000 ERROR in file /opt/BRAKER/scripts/braker.pl at line 4116 Failed to execute /opt/ETP/bin/gmes/ProtHint/bin/prothint.py --threads=20 --geneMarkGtf /data/evassvis/cl486/GeneMark-ES/genemark.gtf /data/evassvis/cl486/genome.fa /data/evassvis/cl486/proteins.fa!

carla-hazelf commented 3 months ago

Hi, I'm also getting this same error- did you manage to resolve this?

hayleygoss commented 1 month ago

Hi, I am also getting the same error. How did you end up resolving it?

wenkaiyan-kevin commented 1 month ago

Hi, I am also getting the same error. How did you end up resolving it?