Dear Mohd Afiq, I'm not an expert also on EMBOSS installation but I can give you some clues on your problems:
First, showdb does not give you any db list as you need to index all the databases that you requires to show. You can get further info here http://emboss.sourceforge.net/docs/adminguide/node56.html on how to index databases. as for seqret you should tell the seqret you input format as *embl::xlrhodop * not embl*:*xlrhodop. Regards Mohd Noor Malaysia Genome Institute On Tue, Feb 24, 2009 at 9:28 AM, Mohd Afiq Hazlami <[email protected]>wrote: > Hello, > I'm new to EMBOSS and I have a problem that I can't figure out. I have > configured and installed EMBOSS-6.0.1 on my Ubuntu machine and I tried > doing > the exercises according to the tutorial. There's nothing wrong when I typed > 'wossname' and the program works fine, just like in the tutorial. But when > it comes to 'showdb' tutorial, the program returns this: > > > a...@peregrin:~/EMBOSS-6.0.1$ showdb > Displays information on configured databases > # Name Type ID Qry All Comment > # ============ ==== == === === ======= > a...@peregrin:~/EMBOSS-6.0.1$ > > which is totally different from the tutorial where it shows some database > names. Is this normal? > > Then, when I tried to use seqret as in the tutorial given (using xlrhodop), > the program returns this: > > a...@peregrin:~/EMBOSS-6.0.1$ seqret > Reads and writes (returns) sequences > Input (gapped) sequence(s): embl:xlrhodop > Error: Failed to open filename 'embl' > Error: Unable to read sequence 'embl:xlrhodop' > Input (gapped) sequence(s): > > which is really confusing. Can anybody tell me what's wrong? > _______________________________________________ > EMBOSS mailing list > [email protected] > http://lists.open-bio.org/mailman/listinfo/emboss > _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
