I'm very new in genome annotation and am following the tutorial for maker with my own plant genome and transcriptome assemblies. I filled my maker_opts file like this:
genome=my_genassembly.fasta est=my_RNAassembly.fasta protein= # kept this one empty est2genome=1
I get immediate problems with the repeat masking. This is the error message:
At this time the hmmer search engine can only be used with the Dfam database. Please rerun your search without the -lib option or switch to a different search engine. ERROR: RepeatMasker failed --> rank=NA, hostname=hilbert115 ERROR: Failed while doing repeat masking ERROR: Chunk failed at level:0, tier_type:1 FAILED CONTIG:104
How do I change the default search engine? I don't see that in the config files. I also don't understand how to rerun the search without the -lib option.
Its' just overwhelming.. No forum or FAQs to look into. Can someone help me please?