[Biocorba-l] BioCorba-0.2 IDL sequence<> retrieval question

[Alan Robinson]

So does the following work, which doesn't use IDL sequences?


# ... Get IOR and resolve it ...

# Get a reference to a SeqDB fom $bioenv. The "EMBL nucletide sequence
# database is called "EMBL".
$seqDB = $bioenv->get_SeqDB_by_name("EMBL", 0);

# Get information about the database.
$name = $seqDB->name;

# Get a reference to an EMBL Seq entry.
$seq = $seqDB->get_Seq("HSERPG", 0);

# Get a sub-string of the sequence.
$subseq = $seq->subseq(1,5);

print $name." ".$subseq."\n";


--
============================================================
Alan J. Robinson, D.Phil.             Tel:+44-(0)1223 494444
European Bioinformatics Institute     Fax:+44-(0)1223 494468
EMBL Outstation - Hinxton             Email:  alan@ebi.ac.uk
Wellcome Trust Genome Campus
Hinxton, Cambridge
CB10 1SD, UK                http://industry.ebi.ac.uk/~alan/
============================================================                   
On Fri, 1 Jun 2001, Mark Hoebeke wrote:

> 
> 
> Hello Alan,
> 
> 
> Le 01/06/01, Alan Robinson a écrit :
> 
> AR > Hello Mark,
> AR >
> AR > The following should work with the EMBL BioCORBA server (N.B. there's
> AR > only one database in the 'bioenv', and that's EMBL).
> 
> <sample code removed>
> 
> Amazing how your example looks like what I have been cooking up :)
> 
> Unfortunately, both have the exact same result: the exception I first
> mentioned. And it definitely seems to be tied to methods returning
> sequences<>. I checked the SeqFeature::locations() method, and it exposed
> the same behaviour.
> 
> 
> Hmmm... maybe something's wrong with my local installation. I'll try to
> work this out thanks to your example script.
> 
> Mark
> 
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