[BioC] AnnBuilder error: couldn't find function "UG"

John Zhang jzhang at jimmy.harvard.edu
Wed Jul 20 20:24:30 CEST 2005

This bug was introduced by adding a NAMESPACE to AnnBuilder. I have checked in a 
few fixes but it may take some time for the new version of Annbuilder to be 
available. If you let me know what platform you have I will email you the 
package I built.
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>Subject: [BioC] AnnBuilder error:  couldn't find function "UG"
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>I was trying the script from "Basic Functions of 
>AnnBuilder" manual and encountered problem on the line 
>ug <- UG(srcUrl=ugUrl,...
>  Error: couldn't find function "UG".
>Later on I've got same error message for parseData 
>HTML help file contains descriptions for both functions.
>Please help me to solve this problem. 
>Script and session info:
>pkgpath <- .find.package("AnnBuilder")
>docFiles <- 
>headers <- c("","Description:\n\n",,"Index:\n\n")
>footers <- c("\n","\n","")
>for (i in which(file.exists(docFiles))) {
>writeLines(readLines(docFiles[i]) )
>geneNMap <- 
>srcObjs <- list()
>egUrl <- 
>ugUrl <- 
>eg <- 
>ug <- 
>organism="Homo sapiens",built="N/A",fromWeb=T)
>srcObjs[["eg"]] <- eg
>llMapping <- parseData(eg,eg at accession)
>R version 2.1.0, 2005-04-18, i386-pc-mingw32 
>attached base packages:
>[1] "tools"     "methods"   "stats"     "graphics" 
> "grDevices" "utils"    
>[7] "datasets"  "base"     
>other attached packages:
>AnnBuilder   annotate        XML    Biobase 
>   "1.5.31"   "1.5.16"   "0.97-7"   "1.5.12" 
>Lyudmila Mikhaylova, Ph.D
>Research Associate
>Tufts University School of Medicine
>Bioconductor mailing list
>Bioconductor at stat.math.ethz.ch

Jianhua Zhang
Department of Medical Oncology
Dana-Farber Cancer Institute
44 Binney Street
Boston, MA 02115-6084

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