Dear R helpers
I have a problem of releasing memory after having read .xml-files using the xml
package (version 3.98-1.1, R 3.0.2, Windows 7, 64bit). The problem has appeared
previously and several solutions/bug fixes have been proposed. I went through
many of these and have also read (and understood?) Duncan Lang`s Memory
Management page, outlining the counter-based memory release for nodes and
documents. However, the problem persists, i.e.,
filed<- ... # some PubChem .xml file path
doc<-xmlTreeParse(file=filed,useInternalNodes=TRUE)
get_data<-getNodeSet(doc,path="//r:PC-InfoData",
c(r = "http://www.ncbi.nlm.nih.gov")
)
will not allow me to release "doc" from memory using
combinations/orders of rm(), free(), gc() for doc and get_data. I ended up using
.Call("RS_XML_forceFreeDoc", doc) and monitoring the counter settings
with .Call("R_getXMLRefCount", ...) - but that cannot really be the
solution, not?
What am I doing wrong? Thank you very much for your help, Martin
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