Parsing XML node values with ElementTree in Python

Question

I have the following XML:

<part>
 <part_id>151</part_id>
 <part_name>BBa_B0034</part_name>
 <part_short_name>B0034</part_short_name>
 <part_short_desc>RBS (Elowitz 1999) -- defines RBS efficiency</part_short_desc>
 <part_type>RBS</part_type>
 <release_status>Released HQ 2013</release_status>
 <sample_status>In stock</sample_status>
 <part_results>Works</part_results>
 <part_nickname/>
 <part_rating>1</part_rating>
 <part_url>http://parts.igem.org/Part:BBa_B0034</part_url>
 <part_entered>2003-01-31</part_entered>

And I want to extract some of the values.

For example I want to ouput the the BBa_B0034 from <part_name>.

How would I do this using ElementTree?

What have you tried? Have you looked at the documentation for ElementTree? Try to work with examples and write code and then post what you got here when things don't work the way you expect. — metatoaster
– metatoaster, Commented Mar 13, 2014 at 11:12

Jones · Accepted Answer · 2014-03-13 11:09:06Z

0

You need correct xml for parser correct. For reference using Xml.etree Python.

See example:

>>> import xml.etree.ElementTree as ET
>>> tree = ET.fromstring('<part> <part_id>151</part_id> <part_name>BBa_B0034</part_name>     <part_short_name>B0034</part_short_name> <part_short_desc>RBS (Elowitz 1999) -- defines RBSefficiency</part_short_desc> <part_type>RBS</part_type> <release_status>Released HQ 2013</release_status> <sample_status>In stock</sample_status> <part_results>Works</part_results> <part_nickname/> <part_rating>1</part_rating> <part_url>http://parts.igem.org/Part:BBa_B0034</part_url> <part_entered>2003-01-31</part_entered></part>')
>>> tree.findall('./part_name')[0].text
'BBa_B0034'

answered Mar 13, 2014 at 11:09

Jones

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2 Comments

Charon Over a year ago

Thanks for this but when I try and use that I get 'list index out of range' - I am parsing an xml from the web, as opposed to using 'fromstring'.

Jones Over a year ago

Check your xml text. From not same diferent from file. Both is stream.

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