[Biopython-dev] [Bug 2468] Tutorial needs a fix: Bio.WWW.NCBI

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2468


mdehoon at ims.u-tokyo.ac.jp changed:

           What    |Removed                     |Added
----------------------------------------------------------------------------
             Status|NEW                         |RESOLVED
         Resolution|                            |FIXED




------- Comment #6 from mdehoon at ims.u-tokyo.ac.jp  2008-06-15 03:03 EST -------
I created a subsection Examples to the tutorial chapter on Bio.Entrez, and
added 
the example from section 2.5 and Martin's taxonomy example to it. With the
Bio.Entrez currently in CVS, finding the lineage works as follows:

>>> handle = Entrez.esearch(db="Taxonomy", term="Cypripedioideae")
>>> record = Entrez.read(handle)
>>> record["IdList"]
['158330']
>>> handle = Entrez.efetch(db="Taxonomy", id="158330", retmode='xml')
>>> records = Entrez.read(handle)
>>> records[0]['Lineage']
'cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina;
 Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta;
 Liliopsida; Asparagales; Orchidaceae'


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