Dear Developers,
I've researched all available forums and tried to resolve this recurring error in maker:
processing all repeats
in cluster::shadow_cluster...
Died at /home/user/bin/maker/bin/../lib/Bio/Search/Hit/PhatHit/Base.pm line 188.
--> rank=19, hostname=m30g4
ERROR: Failed while processing all repeats
ERROR: Chunk failed at level:3, tier_type:1
So far, I have tried: reformatting my gff file including purify script from Carson, Daren Card's script, and agat; uninstalled and reinstalled ncbi-blast+ and updated path; reinstated RMBlast path in repeatmasker; changed max_dna_length to 300000; set clean_try=1; replaced RepeatMasker.pm.
However, none of the above helped get rid of the issue. I cannot see what is wrong with my gff. Can you please help?
thank you.