Hi, I try to annotate a microarray using the function ABPkgBuilder in AnnBuilder 1.10.0 and R 2.3.1 and get the following error message: Error in validObject(.Object) : invalid class "GO" object: invalid object for slot "srcUrl" in class "GO": got class "list", should be or extend class "character" Your help is appreciated. Best regards, Reinhard Simon ********************************************************************** ******* Reinhard Simon Head of Research Informatics Unit International Potato Center (CIP) Centro Internacional de la Papa Address: Apartado 1558, Lima 12, PERU Phone: (51-1) 3496017 ext 3025 e-mail: r.simon at cgiar.org; web: http://www.cipotato.org CIP is supported by the Consultative Group on International Agricultural Research

Dear Nianhua, indeed: I get a message while loading library(AnnBuilder) Attaching package: 'AnnBuilder' The following object(s) are masked from package:GO : GO My GO version is 1.12.0. I updated to AnnBuilder 1.10.5. Seems something missing with the GO package? Regards, Reinhard -----Original Message----- From: bioconductor-bounces@stat.math.ethz.ch [mailto:bioconductor-bounces at stat.math.ethz.ch]On Behalf Of Nianhua Li Sent: Tuesday, August 01, 2006 1:32 PM To: bioconductor at stat.math.ethz.ch Subject: Re: [BioC] Error using ABPkgBuilder? Simon, Reinhard (CIP <r.simon at="" ...=""> writes: > > Hi, > > I try to annotate a microarray using the function ABPkgBuilder in AnnBuilder 1.10.0 and R 2.3.1 and get the > following error message: > > Error in validObject(.Object) : invalid class "GO" object: invalid object for slot "srcUrl" in class > "GO": got class "list", should be or extend class "character" > Hi, Reinhard, Could you please provide the context of this error message, i.e. the outputs of ABPkgBuilder before the error? What parameters did you give when you call ABPkgBuilder? What is the version of your GO package? Also, you may want to download the up-to-date version of AnnBuilder from www.bioconductor.org. According to users' feedback, AnnBuilder 1.11.x is also compatiable with R 2.3.1. The upgrade won't solve your problem but it can help you avoid future problems you may encounter. thanks nianhua _______________________________________________ Bioconductor mailing list Bioconductor at stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/bioconductor Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

Simon, Reinhard (CIP <r.simon at="" ...=""> writes: > > Hi, > > I try to annotate a microarray using the function ABPkgBuilder in AnnBuilder 1.10.0 and R 2.3.1 and get the > following error message: > > Error in validObject(.Object) : invalid class "GO" object: invalid object for slot "srcUrl" in class > "GO": got class "list", should be or extend class "character" > Hi, Reinhard, Could you please provide the context of this error message, i.e. the outputs of ABPkgBuilder before the error? What parameters did you give when you call ABPkgBuilder? What is the version of your GO package? Also, you may want to download the up-to-date version of AnnBuilder from www.bioconductor.org. According to users' feedback, AnnBuilder 1.11.x is also compatiable with R 2.3.1. The upgrade won't solve your problem but it can help you avoid future problems you may encounter. thanks nianhua