Duncan, Thanks, that that make sense, I have never encountered namespaces so I did not recognized them. So in my example xmlns="a" xmlns:xsi="b" are namespace variables, and xsi:schemaLocation="c" is a "Schema-Related Markup" attribute. This last one seemed to be handled strangely, since it is listed as attribute but its name got truncated from "xsi:schemaLocation" to "schemaLocation".
Jarek -----Original Message----- From: Duncan Temple Lang [mailto:[EMAIL PROTECTED] Sent: Tuesday, May 31, 2005 11:38 AM To: Tuszynski, Jaroslaw W. Cc: ([EMAIL PROTECTED]); '[EMAIL PROTECTED]' Subject: Re: [R] xmlAttrs and problems with reading node attributes of XML file (b ug?) Hi Jarek. Is the problem you are referring to simply that the xmlns="a" and xmlns:xsi="b" are not appearing when your handler prints the attributes? If it is this the case, the explanation is quite simple - they are namespace definitions, not attributes. They are in the node object x$namespaceDefinitions names(unclass(x)) will help to see what is in the node. HTH, D. Tuszynski, Jaroslaw W. wrote: > Hi, > > Consider the following code: > > require(XML) > xmlFile = paste( "<?xml version=\"1.0\" > encoding=\"ISO-8859-1\"?>\n", > "<mzXML xmlns=\"a\" xmlns:xsi=\"b\" > xsi:schemaLocation=\"c\">\n", > "<parentFile a=\"a\" b=\"b\" />\n", > "</mzXML>\n") > cat(xmlFile) > > a = function(x,...){ > cat("Attributes of ", xmlName(x), ": "); > print(xmlAttrs(x)); > cat("\n"); > NULL > } > > xmlTreeParse(file=xmlFile, asText=TRUE, > handlers=list("startElement"=a) ) > > And its output: > > <?xml version="1.0" encoding="ISO-8859-1"?> > <mzXML xmlns="a" xmlns:xsi="b" xsi:schemaLocation="c"> > <parentFile a="a" b="b" /> > </mzXML> > > Attributes of parentFile : a b > "a" "b" > > Attributes of mzXML : schemaLocation > "c" > It seems to me that XML parser was able to correctly list all the > attributes of the "parentFile" node but it failed on "mzXML" node. > Am I missusing the functions somehow or is it a bug? > Attribute names in "mzXML" node are part of mzXML file format and can > not be changed (removing all ':' would fix the problem) and I would > like to store than so whan I write mzXML file I have the same header. > > Jarek > ====================================================\======= > > Jarek Tuszynski, PhD. o / \ > Science Applications International Corporation <\__,| > (703) 676-4192 "> \ > [EMAIL PROTECTED] ` \ > > > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@stat.math.ethz.ch mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide! > http://www.R-project.org/posting-guide.html ______________________________________________ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
