search for: xmlparsed

Hi Can some one please point out where i am wrong. I am trying to position set of nodes column-wise in cytoscape using RCytoscape A----D B----E C----F ------------------- g <- new ('graphNEL', edgemode='undirected') cw <- CytoscapeWindow ('smallExample', graph=RCytoscape::makeSimpleGraph()) layout (cw, 'jgraph-spring') redraw(cw) nodesFr = c('A',

...haracter(0) Qword <- URLencode('#IBM') QUERY <- paste('SELECT review_id, message, rating from review where message LIKE %',Qword,'%',sep='') Facebook_url = paste('https://api.facebook.com/method/fql.query?query= ',QUERY,sep='') mydata.xml <- xmlParseDoc(Facebook_url, asText=F) mydata.vector <- xpathSApply(mydata.xml, '//s:entry/s:title', xmlValue, namespaces =c('s'='http://www.w3.org/2005/Atom')) The mydata.xml is NULL therefore no further step can be execute. I am not so familiar with XML or FQL. Any suggestion will...

...fari, Firefox and Opera. /* --------------------------------------- */ XMLParser = Class.create(); Object.extend(XMLParser.prototype, { initialize: function (XMLFile, options) { this.xmlFile = XMLFile; this.options = options; this.element = false; this.XMLParsed = false; this.getXml(); }, XMLHash: function () { return this.XMLParsed; }, asHash: function () { if (! this._xmlHash) { this._xmlHash = this._nodeToHash(this.element); } return this._xmlHash; }, getXml: fu...

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

I am a relatively new user to R, and I am trying to learn more about converting data in an XML document into "2-dimensional format" such as a table or array. I might eventually wish to export this data into a relational database such as SQL, and/or to work with this data within the R package. My sample XML document is located at "

Hello again, Another stumble here that is defeating me. I try: a<-readLines(url("http://feeds.feedburner.com/grokin")) t<-XML::xmlTreeParse(a, ignoreBlanks=TRUE, replaceEntities=FALSE, asText=TRUE) elem<- XML::getNodeSet(XML::xmlRoot(t),"/rss/channel/item")[[1]] And I get: Start tag expected, '<' not found Error: 1: Start tag expected, '<' not

Hi all. I have an issue that I cannot resolve. I am trying to read in lots of data that are stored in xml files. But after I read them in and copy the relevant data, then remove the document etc, it doesn't free up the memory. When I monitor it in windows task manager the memory usage just climbs with each iteration until R crashes. I can replicate the problem with the small example:

Thanks a lot for answering. Before I get into it, please note that everything below bears the big capture "Thanks for trying to help me at all". 1) Yeah, those examples - quite hard to satisfy everyone's needs ;-) While the one side complained that my past examples regarding this issue were not informative enough, others didn't like the more elaborated version (as seems to be

Hi, I am trying to parse XML files and read them into R as a data frame, but have been unable to find examples which I could apply successfully. I'm afraid I don't know much about XML, which makes this all the more difficult. If someone could point me in the right direction to a resource (preferably with an example or two), it would be greatly appreciated. Here is a snippet from one of

Hi, I have some XML files that have a processing instruction directly after the XML declaration when I do kgroup.reading <- character(0) for (file in file_list){kgroup.reading <- xmlParseDoc(file.path("c:","projects","respositories","dk","004",file))} I get the error file name :1: parser error : Start tag expected, '<' not found When I remove the processing instruction and try to load it again I do not get the parser erro...

I've been happily building a file with odfWeave, and just as the hour draws nigh for it to be sent off, odfWeave or XML throws the following catastrophic error: ...this is the tail of entirely uneventful processing of input file..... 31 : term xml(label=LR_Fall_Model_Results) 32 : term verbatim(label=LR_Model_Fall_graph) 33 : term xml(label=LR_OMC_tab) 'content_1.xml' has

I changed the code to be more prototype-esque, and created a class called XMLDoc. I may add more functionality to it later, hence the more generic name, but you do something like this to convert XML to a hash: XMLDoc = Class.create(); Object.extend(XMLDoc.prototype, { initialize: function (xmlDoc) { this.element = xmlDoc; }, asHash: function () { if (! this._xmlHash) {

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

I am looking for the syntax to capture XML tags marked with /DescriptorName MajorTopicYN="Y"/ , but the combination of the internal space (between "Name" and "Major" and the embedded quote marks are defeating me. I can get all the "DescriptorName" tags, but these include both MajroTopicYN = "Y" and "N" variants. Any suggestions?

Is there some way to remove superscripts from objects returned by html/xmlParse (XML package)? h <- "<html><p>Cat^a</p><p>Dog</p></html>" doc <- htmlParse(h) xpathSApply(doc, "//p", xmlValue) [1] "Cata" "Dog" I could probably remove the <sup> tags from the "h" object above,

Hi, I'm trying to use the XML package to read an RSS feed. To get started, I was trying to use this post as an example: http://www.r-bloggers.com/how-to-build-a-dataset-in-r-using-an-rss-feed-or-web-page/ I can replicate the beginning section of the post, but when I try to use another RSS feed I have an issue. The RSS feed I would like to use is: > URL <-

I need to construct a custom XML reader, the files I'm working with are in funky XML format: <str name="author">Paul H</str> <str name="country">USA</str> <date name="created_date">2010-02-16</date> I want to read the file so it looks like: author = Paul H country = USA created_date=2010-02-16 Does any one know how to

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

Sorry guys, didn't see your responses before sending mine. Thanks jeroen!! I'll test your version today and get back to you. Gesendet von meinem Smartphone Am 15.12.2014 12:12 schrieb "Janko Thyson" <janko.thyson at gmail.com>: > Thanks a lot for answering. Before I get into it, please note that > everything below bears the big capture "Thanks for trying to

Dear R-Help, I am using the RDF package/ R 2.14 with the RDF package to download data from a website, and then use R to manipulate it. Text on the website is UTF-8. The RDF package's rdf_load command is converting it into a different encoding, which converts non-ASCII characters to unicode codes. On the webpage/sparql RDF: "4.5µg of cDNA was used" In R, the RDF triple gives: