Guy Bottu wrote: > For the moment our emboss.default contains : > > DB pdbprot [ type: P format: fasta comment: 'protein sequences from PDB' > methodquery: app app: "/nfsben/srs/bin/linux73/getz -e '[pdbprot-id:%s]'" > methodall: direct dir: /nfsben/srs/data/blast/dbfb/pdb file: pdb > ]
That raises a new problem .... the "app" method will work, but "srs" and "srswww" will not. They search for a pdbprot-acc match and there is no acc field. I will add a new database attribute hasaccession (default "Y") so searches know whether the acc field can be used. Unfortunately the fields attribute is defined as "everything except id and acc" so I cannot use it. So, there will be 2 new (and for the first time boolean) attributes for databases. To use them, you will need: caseidmatch: "Y" hasaccession: "N" These will also be the first to use the default values for database attributes! All other default values are empty strings :-) regards, Peter _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
