Hello open-source spirits, Im trying to build an annotation data library for the Sus scrofa (common pig) affymetrix chip: GeneChip? Porcine Genome Array http://www.affymetrix.com/products/arrays/specific/porcine.affx but Im not very sucessful in doing so.. my error is Error in "baseFile<-"(`*tmp*`, value = "C:\\DOCUME~1\\mortema\\LOCALS~1\\Temp\\Rtmp2376\\tempFile26288") : no direct or inherited method for function 'baseFile<-' for this call and I dont know what this is trying so tell me. My imput is probe ID in coloum 1 and genbank acc.nr in coloum 2. "Ssc.11.1.S1_at" "NM_213802.1" and I have succesfully build packages before with human and mouse. But this is my first go at pig. Does anyone have this library already build or can someone help me build it ? (im deeply sorry if this is already listed in the metadata dir at bioconductor. But cant find anything related to pig) best morten

I do not think AnnBuilder has been configured/tested for handling pig chip annotation yet. The functions should work for human, mouse, and rat but may not work for other organisms. >X-Original-To: jzhang at jimmy.harvard.edu >Delivered-To: jzhang at jimmy.harvard.edu >Date: Mon, 14 Nov 2005 18:28:32 +0100 >From: Morten Mattingsdal <morten.mattingsdal at="" student.uib.no=""> >User-Agent: Mozilla Thunderbird 1.0 (Windows/20041206) >X-Accept-Language: en-us, en >MIME-Version: 1.0 >To: "bioconductor at stat.math.ethz.ch" <bioconductor at="" stat.math.ethz.ch=""> >X-UiO-Spam-info: not spam, SpamAssassin (score=-2.279, required 12, autolearn=disabled, AWL -2.28, MISSING_SUBJECT 0.00) >Received-SPF: pass hypatia.math.ethz.ch: 129.132.145.15 is authenticated by a trusted mechanism) >Received-SPF: none (hypatia: domain of morten.mattingsdal at student.uib.no does not designate permitted sender hosts) >X-Virus-Scanned: by amavisd-new at stat.math.ethz.ch >Subject: [BioC] affymetrix pig annotation data >X-BeenThere: bioconductor at stat.math.ethz.ch >X-Mailman-Version: 2.1.6 >List-Id: The Bioconductor Project Mailing List <bioconductor.stat.math.ethz.ch> >List-Unsubscribe: <https: stat.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request at="" stat.math.ethz.ch?subject="unsubscribe"> >List-Archive: <https: stat.ethz.ch="" pipermail="" bioconductor=""> >List-Post: <mailto:bioconductor at="" stat.math.ethz.ch=""> >List-Help: <mailto:bioconductor-request at="" stat.math.ethz.ch?subject="help"> >List-Subscribe: <https: stat.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request at="" stat.math.ethz.ch?subject="subscribe"> >Content-Transfer-Encoding: quoted-printable >X-PMX-Version: 4.7.1.128075, Antispam-Engine: 2.1.0.0, Antispam-Data: 2005.11.14.17 >X-PMX-Spam: Probability=7%, Report='__CT 0, __CTE 0, __CTYPE_CHARSET_QUOTED 0, __CT_TEXT_PLAIN 0, __HAS_MSGID 0, __MIME_TEXT_ONLY 0, __MIME_VERSION 0, __SANE_MSGID 0, __STOCK_CRUFT 0, __USER_AGENT 0' >X-Spam-Checker-Version: SpamAssassin 3.0.1 (2004-10-22) on pascal.dfci.harvard.edu >X-Spam-Level: >X-Spam-Status: No, score=-2.5 required=3.0 tests=AWL,BAYES_00, TO_ADDRESS_EQ_REAL autolearn=no version=3.0.1 > >Hello open-source spirits, > >Im trying to build an annotation data library for the Sus scrofa (common >pig) affymetrix chip: GeneChip? Porcine Genome Array >http://www.affymetrix.com/products/arrays/specific/porcine.affx > >but Im not very sucessful in doing so.. my error is > >Error in "baseFile<-"(`*tmp*`, value = >"C:\\DOCUME~1\\mortema\\LOCALS~1\\Temp\\Rtmp2376\\tempFile26288") : > no direct or inherited method for function 'baseFile<-' for this >call > >and I dont know what this is trying so tell me. My imput is probe ID in >coloum 1 and genbank acc.nr in coloum 2. >"Ssc.11.1.S1_at" "NM_213802.1" >and I have succesfully build packages before with human and mouse. But >this is my first go at pig. > >Does anyone have this library already build or can someone help me build >it ? > >(im deeply sorry if this is already listed in the metadata dir at >bioconductor. But cant find anything related to pig) > >best >morten > >_______________________________________________ >Bioconductor mailing list >Bioconductor at 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