[Biopython] How to run esearch in BioPython without specifying any filtering terms
bar tomas
bartomas at gmail.com
Wed Jul 15 09:12:10 EDT 2009
Hi,
The BioPython tutorial (p.86) shows how once the available fields of an
Entrez database have been found with Einfo , queries can be run that use
those fields in the term argument of Esearch (for instance Jones[AUTH]).
However, I’d like to retrieve all IDs from a database without specifying any
filtering term.
If I leave the term argument out in the Entrez.efetch method, BioPython
returns an error.
It tried the following, that came up in a previous email on this mailing
list regarding pcassay database:
handle = Entrez.esearch(db='pcsubstance', term="ALL[filt]")
But this returns a list of 20 ids that obviously cannot comprise the whole
pcsubstance database
How can you run esearch in BioPython with no filtering terms?
Thanks very much.
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