In article <2o12d2$59h at mserv1.dl.ac.uk>, <LIUNI at PLAUTO.CSATA.IT> writes:
> FASTA with what query sequence ? p.seq
>> Begin (* 1 *) ?
> End (* 145 *) ?
>> Search for query in what sequence(s) (* GenEMBL:* *) ? em_fun:*
>> What word size (* 6 *) ?
>> List how many best scores and alignments (* 40 *) ?
>> What should I call the output file (* P.Fasta *) ?
>> 1 Sequences 378 bp searched FUN:A00040
> 101 Sequences 143,453 bp searched FUN:ANACUD
This is a bit odd - the usual GCG configuration uses the logical name Em_Fun to
access these files. However, you are able to read the sequence data, so I
suspect it's a configuration quirk at your site. Checking logical names may
elucidate this, FWIW.
> The best scores are: init1 initn opt
>>> *** Error: Cannot open file FUN:SCCHROMI
We've established previously that you can read the sequence data, but you're
now having problems reading the locus definition line. I'd guess that you have
a file protections problem in EMBLDir: (e.g. the .Ref file is not readable from
the account which is running FASTA), or that some of your libary files are
corrupted. If you try
$ Fetch Fun:SCCHROMI
what results do you get?
Regards,
Charles Bailey
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