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minbase
2012 Aug 10
3
Parsing large XML documents in R - how to optimize the speed?
Hello everyone,
I would like to parse very large xml files from MS/MS experiments and
create R objects from their content. (By very large, I mean going up to
5-10Gb, although I am using a 'small' 40M file to test my code.)
My first attempt at parsing the 40M file, using the XML package, took more
than 2200 seconds and left me quite disappointed.
I managed to cut that down to around 40