[BioC] makeOrgPackageFromNCBI another error - reversed commands

[Jiri Voller [guest]]

Hello,
one more error. It seems there are the commands reversed:

1. seed <- new("AnnDbPkgSeed", Package = paste(dbName, ".db",...
2. dbName <- .generateOrgDbName(genus, species)

As for question why not to use a standard org.Hs.eg.db - I want current GO. By the way is there some package, that allows to build/update GO.db? There are "Dropping GO IDs that are too new for the current GO.db" messages...

sorry for not following thread - I am using the form for nonmembers... 
thank you + regards
jiri

The Error:

Error in paste(dbName, ".db", sep = "") : object 'dbName' not found
> traceback()
5: paste(dbName, ".db", sep = "")
4: initialize(value, ...)
3: initialize(value, ...)
2: new("AnnDbPkgSeed", Package = paste(dbName, ".db", sep = ""),
       Version = version, Author = author, Maintainer = maintainer,
       PkgTemplate = "ORGANISM.DB", AnnObjPrefix = dbName, organism = paste(genus,
           species), species = paste(genus, species), biocViews = "annotation",
       manufacturerUrl = "no manufacturer", manufacturer = "no manufacturer",
       chipName = "no manufacturer")
1: makeOrgPackageFromNCBI(version = "0.1", author = "JV <jv at gmail.com>",
       maintainer = "JV <jv at gmail.com>", outputDir = getwd(), tax_id = "9606",
       genus = "Homo", species = "sapiens")


 -- output of sessionInfo(): 

> sessionInfo()
R version 2.14.1 (2011-12-22)
Platform: x86_64-pc-mingw32/x64 (64-bit)

locale:
[1] LC_COLLATE=Czech_Czech Republic.1250  LC_CTYPE=Czech_Czech Republic.1250    LC_MONETARY=Czech_Czech Republic.1250 LC_NUMERIC=C                          LC_TIME=Czech_Czech Republic.1250

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
 [1] RCurl_1.91-1.1        bitops_1.0-4.1        GO.db_2.6.1           GSEABase_1.16.1       graph_1.32.0          annotate_1.32.1       org.Hs.eg.db_2.6.4    RSQLite_0.11.1        DBI_0.2-5
[10] AnnotationDbi_1.16.18 Biobase_2.14.0        BiocInstaller_1.2.1

loaded via a namespace (and not attached):
[1] IRanges_1.12.6 tools_2.14.1   XML_3.9-4.1    xtable_1.7-0


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