Hi I'm running windows XP and R 2.0.1. I successfully installed KEGGSOAP from bioconductor, but when I tried to load it using library() it says I don't have the XML library. So I tried installing XML_0.97-0 from http://cran.r-project.org/src/contrib/Descriptions/XML.html only to find that I get the old R version error: > library(XML) Error in library(XML) : 'XML' is not a valid package -- installed < 2.0.0? Is there a combination of KEGGSOAP and XML that works with R 2.0.1? Thanks in advance Mick

Probably the XML you installed was not built under R 2.0.1. Use the one maintianed by Bioconductor may solve the problem: >library("reposTools") >install.packages2("XML") >content-class: urn:content-classes:message >MIME-Version: 1.0 >X-MimeOLE: Produced By Microsoft Exchange V6.0.6603.0 >Date: Mon, 10 Jan 2005 14:21:33 -0000 >X-MS-Has-Attach: >X-MS-TNEF-Correlator: >Thread-Topic: Problems installing KEGGSOAP >Thread-Index: AcT3H6953sPs45iwSdum0+9mhSE/Jw== >From: "michael watson \(IAH-C\)" <michael.watson@bbsrc.ac.uk> >To: <bioconductor@stat.math.ethz.ch> >X-OriginalArrivalTime: 10 Jan 2005 14:21:33.0795 (UTC) FILETIME=[AFC16330:01C4F71F] >X-ECS-MailScanner-BBSRC: Found to be clean >Received-SPF: none (hypatia: domain of bioconductor- bounces@stat.math.ethz.ch does not designate permitted sender hosts) >Received-SPF: none (hypatia: domain of michael.watson@bbsrc.ac.uk does not designate permitted sender hosts) >X-Virus-Scanned: by amavisd-new at stat.math.ethz.ch >Content-Transfer-Encoding: 8bit >X-MIME-Autoconverted: from quoted-printable to 8bit by hypatia.math.ethz.ch id j0AENTqL032118 >Subject: [BioC] Problems installing KEGGSOAP >X-BeenThere: bioconductor@stat.math.ethz.ch >X-Mailman-Version: 2.1.5 >List-Id: The Bioconductor Project Mailing List <bioconductor.stat.math.ethz.ch> >List-Unsubscribe: <https: stat.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=unsubscribe> >List-Archive: <https: stat.ethz.ch="" pipermail="" bioconductor=""> >List-Post: <mailto:bioconductor@stat.math.ethz.ch> >List-Help: <mailto:bioconductor- request@stat.math.ethz.ch?subject="help"> >List-Subscribe: <https: stat.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=subscribe> >X-Spam-Checker-Version: SpamAssassin 2.60-rc1 (1.197-2003-08-21-exp) on blaise.dfci.harvard.edu >X-Spam-Status: No, hits=0.0 required=5.0 tests=none autolearn=ham version=2.60-rc1 >X-Spam-Level: > >Hi > >I'm running windows XP and R 2.0.1. I successfully installed KEGGSOAP >from bioconductor, but when I tried to load it using library() it says I >don't have the XML library. So I tried installing XML_0.97-0 from >http://cran.r-project.org/src/contrib/Descriptions/XML.html only to find >that I get the old R version error: > >> library(XML) >Error in library(XML) : 'XML' is not a valid package -- installed < >2.0.0? > >Is there a combination of KEGGSOAP and XML that works with R 2.0.1? > >Thanks in advance > >Mick > >_______________________________________________ >Bioconductor mailing list >Bioconductor@stat.math.ethz.ch >https://stat.ethz.ch/mailman/listinfo/bioconductor Jianhua Zhang Department of Medical Oncology Dana-Farber Cancer Institute 44 Binney Street Boston, MA 02115-6084

Fantastic! Now all I need is to make it work. I'm getting lots of: Error in curlPerform(url = url, httpheader = header, postfields = txt, : Connect failed; Timed out Which I'm thinking is because I haven't got SSOAP or Rcurl set up properly to work from behind my firewall and through my proxy. R can connect to the internet no problem, but not using getURL() Any help would be appreciated :-) Mick -----Original Message----- From: John Zhang [mailto:jzhang@jimmy.harvard.edu] Sent: 10 January 2005 14:47 To: michael watson (IAH-C) Cc: bioconductor@stat.math.ethz.ch Subject: Re: [BioC] Problems installing KEGGSOAP Probably the XML you installed was not built under R 2.0.1. Use the one maintianed by Bioconductor may solve the problem: >library("reposTools") >install.packages2("XML") >content-class: urn:content-classes:message >MIME-Version: 1.0 >X-MimeOLE: Produced By Microsoft Exchange V6.0.6603.0 >Date: Mon, 10 Jan 2005 14:21:33 -0000 >X-MS-Has-Attach: >X-MS-TNEF-Correlator: >Thread-Topic: Problems installing KEGGSOAP >Thread-Index: AcT3H6953sPs45iwSdum0+9mhSE/Jw== >From: "michael watson \(IAH-C\)" <michael.watson@bbsrc.ac.uk> >To: <bioconductor@stat.math.ethz.ch> >X-OriginalArrivalTime: 10 Jan 2005 14:21:33.0795 (UTC) FILETIME=[AFC16330:01C4F71F] >X-ECS-MailScanner-BBSRC: Found to be clean >Received-SPF: none (hypatia: domain of >bioconductor-bounces@stat.math.ethz.ch does not designate permitted sender hosts) >Received-SPF: none (hypatia: domain of michael.watson@bbsrc.ac.uk does >not designate permitted sender hosts) >X-Virus-Scanned: by amavisd-new at stat.math.ethz.ch >Content-Transfer-Encoding: 8bit >X-MIME-Autoconverted: from quoted-printable to 8bit by >hypatia.math.ethz.ch id j0AENTqL032118 >Subject: [BioC] Problems installing KEGGSOAP >X-BeenThere: bioconductor@stat.math.ethz.ch >X-Mailman-Version: 2.1.5 >List-Id: The Bioconductor Project Mailing List ><bioconductor.stat.math.ethz.ch> >List-Unsubscribe: <https: stat.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=unsubscribe> >List-Archive: <https: stat.ethz.ch="" pipermail="" bioconductor=""> >List-Post: <mailto:bioconductor@stat.math.ethz.ch> >List-Help: <mailto:bioconductor- request@stat.math.ethz.ch?subject="help"> >List-Subscribe: <https: stat.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=subscribe> >X-Spam-Checker-Version: SpamAssassin 2.60-rc1 (1.197-2003-08-21-exp) on blaise.dfci.harvard.edu >X-Spam-Status: No, hits=0.0 required=5.0 tests=none autolearn=ham version=2.60-rc1 >X-Spam-Level: > >Hi > >I'm running windows XP and R 2.0.1. I successfully installed KEGGSOAP >from bioconductor, but when I tried to load it using library() it says >I don't have the XML library. So I tried installing XML_0.97-0 from >http://cran.r-project.org/src/contrib/Descriptions/XML.html only to >find that I get the old R version error: > >> library(XML) >Error in library(XML) : 'XML' is not a valid package -- installed < >2.0.0? > >Is there a combination of KEGGSOAP and XML that works with R 2.0.1? > >Thanks in advance > >Mick > >_______________________________________________ >Bioconductor mailing list >Bioconductor@stat.math.ethz.ch >https://stat.ethz.ch/mailman/listinfo/bioconductor Jianhua Zhang Department of Medical Oncology Dana-Farber Cancer Institute 44 Binney Street Boston, MA 02115-6084