Hi,
Experimenting with the DAS client to retrieve proteins from uniprot I
have a few questions:
dbURL = new URL("http://www.ebi.ac.uk/das-srv/uniprot/das/aristotle/";);
String seqName="Q12345";
DASSequenceDB dasDB = new DASSequenceDB(dbURL);
DASSequence dasSeq = (DASSequence) dasDB.getSequence(seqName);
gives the error:
org.biojava.bio.seq.db.IllegalIDException: Database does not contain
Q12345 as a top-level sequence
but with a browser issuing
http://www.ebi.ac.uk/das-srv/uniprot/das/aristotle/sequence?segment=Q12345
yields the result I am looking for.
I assume I am not using DASSequenceDB and DASSequence correctly. I have
not found any JUnit tests so I have no reference code. Could someone
please assist?
On a general basis: Is the DAS client in BioJava mature? Can it handle
all the major DAS-servers for proteins/genes?
Thanks,
.../Ola
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