Hello everyone,

I just finished my structural annotation on my genome using Maker and I wanted to start the functionnal annotation (= adding the biological function to the annotation). I took all the protein predicted by Maker and blasted them against a database of Angiosperms protein. Among the 25 000 protein sequences in my input file ( Maker_prot.fasta ), 19 000 of them get a match with a protein in my database (Angio_prot.fasta). The output I get is output.blastp and I am trying to update my initial protein file with those Blast results by using : (this function is part of the Maker package)

maker_functional_fasta Angio_prot.fasta output.blastp Maker_prot.fasta > Maker_prot_func.fasta

Unfortunately, the new fasta file created only got this kind of feature for the 25 000 proteins

> Name = "Unknown Protein"

So it seems that the command maker_functional_fasta is not capable of seing a link between my 3 files and to its job properly. Has anyone ever used this command and had this kind of problem ?