When I try to run rosetta antibody with,
"antibody.linuxgccrelease -fasta mAb2.fasta | tee grafting.log"
I encounter error message " ERROR: basic.execute encounter error while runnning blastp [-db, /home/user/rosetta/rosetta3.13/main/database/additional_protocol_data/antibody//blast_database/database.FRH, -query, grafting/frh.fasta, -out, grafting/frh.align, -word_size, 2, -outfmt, 7, -max_target_seqs, 1024, -evalue, 0.00001, -matrix, BLOSUM62]
How can I solve it?
I see that your title contained relevant information that I missed the first time. My previous response is no good.
It looks like the "frh.fasta" is not being crated. Would you be willing to share your fasta file? are the labels in it correct? Heavy chain's description should be "heavy". Do the framework regions match what you would expect? What organism did it come from? Is it a complete variable region or does the sequence start after framework1?
Guessing you don't have blastp installed. This link says you need at least version 2.2: https://new.rosettacommons.org/docs/latest/application_documentation/antibody/antibody-protocol
Here is the link to the directory on the nih ftp server where you can find the download the latest version: https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/
If that does not work downgrade to version 2.2
I would just use the tar. You will likely need to add the line:
to your .bashrc / .zshrc / whatever
Please let me know if additional clarification would be helpful.