tdeboer at hgmp.mrc.ac.uk writes:
> How do I get around changing and recompiling the .i files when I want=20
> to both index the new database offline and still be able to retrieve=20
> entries from the former release, without having to revert to using two=20
> completely seperate macines ?
In general it is a problem, but for EMBL there is a solution.
The SRS index files are on the FTP server at the EBI. You can simply
FTP them over and make them live with the new embl.i. The instructions
are a little out of date (these are the index files for the flat file
version, but it still has a reference to 'GCG formatted files').
The README says they cannot be reallocated for GCG formatted databases.
Not sure why - the EBI files used to be for GCG databases and I could
reallocate them for flat files with "srsbuild -r embl" given a little
care in updating the file names in embl.i.
The accession number index has a long-standing bug that misses
secondary accession numbers. I have a fixed embl.is file at Sanger but
you would need to be careful about rebuilding the links if you reindex
the accession numbers. srscheck misses the change and I had to relink
by hand.
--
----------------------------------------------------------------------
Peter Rice | Informatics Division, The Sanger Centre,
E-mail: pmr at sanger.ac.uk | Wellcome Trust Genome Campus,
Tel: (44) 1223 494967 | Hinxton, Cambridge, CB10 1SA, England
Fax: (44) 1223 494919 | URL: http://www.sanger.ac.uk/Users/pmr/
