similar to: XML segfault on some architectures

Is there any function to write a XML structure, after it was read using xmlTreeParse? Ex: library(XML) x <- xmlTreeParse("Irpf2008/aplicacao/dados/12345678901/12345678901.xml") # write it... Alberto Monteiro PS: please, brazilians, don't be offended by my foul language!

I am using htmlParse from XML library on a paricular website. Sometimes code fails, sometimes it works, most of the time id doesn't and i cannot see why. The file i am trying to parse is  http://www.londonstockexchange.com/exchange/prices-and-markets/international-markets/indices/home/sp-500.html?page=0 Sometimes the following code works n<-readHTMLTable(htmlParse(url)) But most of the

Hello, I'm trying to install KEGGSOAP with bioconductor but i'm facing this problem: /> biocLite("KEGGSOAP") BioC_mirror: http://bioconductor.org Using R version 2.15, BiocInstaller version 1.4.4. Installing package(s) 'KEGGSOAP' trying URL 'http://www.bioconductor.org/packages/2.10/bioc/src/contrib/KEGGSOAP_1.30.0.tar.gz' Content type

Hello! I am crossposting this to R-help and BioC, since it is relevant to both groups. I wrote a wrapper for Entrez search utility (link for this is provided bellow), which can add some new search functionality to existing code in Bioconductor's package 'annotate'*. http://eutils.ncbi.nlm.nih.gov/entrez/query/static/esearch_help.html Entrez search utuility returns a XML document

Hi everybody I am a recent convert from SAS so please excuse me if this is all very obvious: I want to use the runs test {runs.test() in package tseries} to test the randomness of a certain variable in a survey for each interviewer. I tried to us the by() statement but it doesn't seem to work with runs.test() as the function. Here is what I have: Consider a data frame with two variables and

Hello there, I’m computing the total value of an order from the price of the order items using a “for” loop and the “ifelse” function. I do this on a large dataframe (close to 1m lines). The computation of this function is painfully slow: in 1min only about 90 rows are calculated. The computation time taken for a given number of rows increases with the size of the dataset, see the example with

Hi, I have a problem with spacing in XML files when reading them with xmlTreeParse. I don't know the exact specification of xml but according what I have red before it should work. consider a tiny test.xml file: <?xml version="1.0"?> <fields> <v1>1 </v1> <v2> 2 </v2> <v3> 3</v3> </fields> i.e. I have three fields v1, v2 and

How can I use the try catch block such that if this statement fails xml <- xmlTreeParse(xmlTxt, useInternal=TRUE) then this statement is executed xml <- xmlMalFormed() ? This code does not work but assuming its somewhere along these lines: tryCatch(xml <- xmlTreeParse(xmlTxt, useInternal=TRUE), xml <- xmlMalFormed(f1)) -- View this message in context:

I have a dataframe with several different treatment variables, and would like to calculate the mean and standard deviation of the replicates for each day and treatment variable. It seems like it should be easy, but I've only managed to do it for one treatment at a time using subset and tapply. Here is an example dataset: > `exampledata` <- structure(list(day = c(1L, 1L, 1L, 1L, 1L,

R Users - I asked about this a few months ago and never did quite figure it out, so with more information, allow me to try again. If I use the following code: library(xml) xmlTreeParse("http://home.comcast.net/~larsenmtl/xmlTestDoc.xml", isURL = TRUE) I receive this error: Error in xmlTreeParse("http://home.comcast.net/~larsenmtl/xmlTestDoc.xml"", : error in

Hi all, I improved a function drawing horizontal histograms (code below) which uses barplot and works fine. It does,however, need to assign a function to the global environment to later find the actual location on the vertical axis, and not the number of bars used by barplot. Hopefully, running the examples below will illustrate that. As said, it works perfectly fine and does exactly what I

I am trying to read a number of XML files using xmlTreeParse(). Unfortunately, some of them are malformed in a way that makes R crash. The problem is that closing tags are sometimes repeated like this: <tag>value1</tag><tag>value2</tag>some garbage</tag></tag><tag>value3</tag> I want to preprocess the contents of the XML file using gsub() before

Can't seem to get the code below working. It gets stuck on line 24 inside the function hm; comments show the line in question. The function hm is called by sapply and is at the bottom of the code. Other stuff above line 24 works correctly including the first couple of lines of the function hm. Should I be using a different apply function or am I doing something wrong with xmlTreeParse ?

> exampledata <- rnorm(10000) > summary(exampledata) Min. 1st Qu. Median Mean 3rd Qu. Max. -4.030000 -0.666200 -0.023390 -0.009384 0.664700 4.092000 > desc <- function(mydata) { + require(e1071) + quantls <- quantile(x=mydata, probs=seq(from=0, to=1, by=0.25)) + themean <- mean(mydata) + thesd <- sd(mydata) + kurt <-

Dear all, Being a newbie to R, I've trawled through many old posts on this list looking for a solution to my problem, but unfortunately couldn't quite figure it out myself. I'd be very grateful if someone here on this list could perhaps help me out. I have a lattice plot with several panels and would like to add some text next to the y-axis on the right hand side of each row of

Dear all, for my diploma thesis I have to import huge XML-Files into R for statistical processing - huge means a size about 33 MB. I'm using the XML-Package version 1.9 As far as reading the complete file into R via xmlTreeParse doesn't work or is too slow, I'm trying to use xmlEventParse but I got completely stuck. I have many different type of nodes + <configuration>

Dear All, I have these data: exampledata <- c("This is one item", "This is Another One", "And so is This") I would like to find each occurence of a blank space followed by a Capital Letter and replace it by a blank space, a left curly brace, the respective Capital Letter, and then a right curly brace. I thought the following will do: gsub(pattern = "

Hi, Why is the following retuning a nodset of length 0: > library(XML) > test <- xmlTreeParse( > "http://www.unimod.org/xml/unimod_tables.xml",useInternalNodes=TRUE) > getNodeSet(test,"//modifications_row") Thanks for any hint. Joh

Dear All I am doing one distributed data mining program. So I selected GridR package for the distributed programming. *grid.init(service="local",debug=FALSE, localTmpDir="GridRTmp/") grid.apply("x",UCS, wait=TRUE )* UCS is a function. When I execute this statement, I have some errors like : *cannot load local function/variable: xmlRoot extracted from line: : no

Hello all, I have a problem with the way attributes are dealt with in the function xmlToList(), and I haven't been able to figure it out for days now. Say I have a document (produced by nmap) like this: > mydoc <- '<host starttime="1365204834" endtime="1365205860"><status state="up" reason="echo-reply"