EMBOSS - Indexing breaks on large databases

Peter Rice Peter.Rice at uk.lionbioscience.com
Thu Feb 8 15:07:27 UTC 2001

ableasby at hgmp.mrc.ac.uk wrote:
> There is a sort option for those programs but I would NOT
> recommend using it. I don't think the person who wrote that bit
> of code/modified it  was ever entirely happy with it and I am
> going to clean it up as part of the 64 bit process.

That was originally added because of very strange problems with GNU sort in
Norway, which appeared to have a mind of its own (GNU sort, not Norway) when
deciding how to sort entry names.

"dbiflat -nocleanup" will leave the temporary files around, so you can try
sorting them by hand to see what resources it needs. The "-debug" command line
option will write a dbiflat.dbg file that includes the sort commands used. The
last one will be the one that fell over.

Peter Rice, LION Bioscience Ltd, Cambridge, UK
peter.rice at uk.lionbioscience.com +44 1223 224723

More information about the emboss-dev mailing list