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Antibody Modelling

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Antibody Modelling


I'm trying to run antibody.linuxgccrelease -fasta antibody.fasta|tee grafting.log but got this error

terminate called after throwing an instance of 'std::out_of_range'

  what():  basic_string::substr: __pos (which is 3) > this->size() (which is 0)

protocols.antibody.grafting: Setting antibody grafting database path from command line-options to: /import/kamen/3/z5038596/ToR/rosetta/tools/antibody

protocols.antibody.grafting: Setting output prefix from command line-options to: grafting/

protocols.antibody.grafting: Setting path to NCBI-Blast+ executable from command line-options to: blastp

basic.execute: Running blast+ for frh... blastp -db /ToR/rosetta/tools/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

The blastp is up to date and its path is correct.

Post Situation: 
Mon, 2017-01-23 21:30

I hadn't run into tee before, cool utility!

Best guess off the top of my head is that RosettaAntibody doesn't like your input sequence - it thinks one of the CDR loops is too long or short or something.

We may get more information if you try with "-out:level 500", or try compiling and running in debug mode.

Tue, 2017-01-24 07:16