Ok.

Pardon me. Its is not a bug. My XML is malformed. The program that generates
writes things like:
<agecat>>5yr</agecat>

Which make the XML unsable.

Sorry everyone

Caveman


On Wed, Aug 25, 2010 at 5:31 AM, Duncan Temple Lang <duncan@wald.ucdavis.edu
> wrote:

>
> xmlDoc() is not the function to use to parse a file.
>
> Use
>
>   doc = xmlParse("Malaria_Grave.xml")
>
>
> xmlDoc() is for programmatically creating a new XML within R.
> It could be more robust to being called with a string, but
> the key thing here is that it is not the appropriate function for what
> you want.
>
>
> Also, if there had been a problem with the parsing, you'd need to give
> me/us the offending XML  file so that we could have a chance of reproducing
> the problem.
>
>   D.
>
>
> On 8/24/10 2:35 PM, Orvalho Augusto wrote:
> > I have one XML file with 30MB that I need to read the data.
> >
> > I try this;
> > library(XML)
> > doc <- xmlDoc("Malaria_Grave.xml")
> >
> > And R answers like this
> >  *** caught segfault ***
> > address 0x5, cause 'memory not mapped'
> >
> > Traceback:
> >  1: .Call("RS_XML_createDocFromNode", node, PACKAGE = "XML")
> >  2: xmlDoc("Malaria_Grave.xml")
> >
> > Possible actions:
> > 1: abort (with core dump, if enabled)
> > 2: normal R exit
> > 3: exit R without saving workspace
> > 4: exit R saving workspace
> >
> >
> > Or I try this:
> > doc <- xmlTreeParse("Malaria_Grave.xml")
> >
> > I get this
> > xmlParseEntityRef: no name
> > xmlParseEntityRef: no name
> > Error: 1: xmlParseEntityRef: no name
> > 2: xmlParseEntityRef: no name
> >
> > Please guys help this simple mortal!
> > Caveman
> >
> >       [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-help@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
>
> ______________________________________________
> R-help@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>

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