Hello, Being keen on the RmiR package I tried to install the corresponding data set (hgug4112a.db_2.2.5), but failed with the following error code. I did a complete update of my R/Bioconductor environment as recommended in other postings, but this step didn't solve my problems. I have a fresh 2.11.0. All necessary packages were installed in advance: DBI_0.2-5.tar.gz RSQLite_0.9-0.tar.gz AnnotationDbi_1.10.1.tar.gz hgug4112a.db_2.2.5.tar.gz RSVGTipsDevice_1.0-1.tar.gz RmiR.Hs.miRNA_1.0.6.tar.gz RmiR_1.4.0.tar.gz hgug4112a.db_2.2.5.tar.gz Here is the R complaint ####################### * installing *source* package 'hgug4112a.db' ... ** R ** inst ** preparing package for lazy loading Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. ** help *** installing help indices ** building package indices ... ** testing if installed package can be loaded Error : .onLoad failed in loadNamespace() for 'hgug4112a.db', details: call: fun(...) error: could not find function "createAnnObjs.HUMANCHIP_DB" ERROR: loading failed * removing '/usr/bin/R-2.11.0/library/hgug4112a.db' ##################################### What's the problem and how can I solve it? Thank you for any suggestions W NEU: WEB.DE DSL f?r 19,99 EUR/mtl. und ohne Mindest-Laufzeit! http://produkte.web.de/go/02/

Hi Wendelin -- On 05/25/2010 04:45 AM, Wendelin Waunzel wrote: > > Hello, > Being keen on the RmiR package I tried to install the corresponding data set > (hgug4112a.db_2.2.5), but failed with the following error code. I did a > complete update of my R/Bioconductor environment as recommended in other > postings, but this step didn't solve my problems. I have a fresh 2.11.0. > All necessary packages were installed in advance: > DBI_0.2-5.tar.gz > RSQLite_0.9-0.tar.gz > AnnotationDbi_1.10.1.tar.gz > hgug4112a.db_2.2.5.tar.gz > RSVGTipsDevice_1.0-1.tar.gz > RmiR.Hs.miRNA_1.0.6.tar.gz > RmiR_1.4.0.tar.gz > hgug4112a.db_2.2.5.tar.gz > Here is the R complaint > ####################### > * installing *source* package 'hgug4112a.db' ... > ** R > ** inst > ** preparing package for lazy loading > Loading required package: Biobase > Welcome to Bioconductor > Vignettes contain introductory material. To view, type > 'openVignette()'. To cite Bioconductor, see > 'citation("Biobase")' and for packages 'citation(pkgname)'. > ** help > *** installing help indices > ** building package indices ... > ** testing if installed package can be loaded > Error : .onLoad failed in loadNamespace() for 'hgug4112a.db', details: > call: fun(...) > error: could not find function "createAnnObjs.HUMANCHIP_DB" > ERROR: loading failed > * removing '/usr/bin/R-2.11.0/library/hgug4112a.db' > ##################################### > What's the problem and how can I solve it? Are you installing this with source('http://bioconductor.org/biocLite.R') biocLite('hgug4112a.db') ? The version of hgug4112a.db relevant for R-2.11.0 is 2.4.1, as you can see here http://bioconductor.org/packages/2.6/data/annotation/html/hgug4112a.db .html Also, have you followed the 'Update Installed Bioconductor packages' directions at http://bioconductor.org/docs/install ? If the problems still persist, can you provide library('org.Hs.eg.db') sessionInfo() and the complete transcript of biocLite('hgug4112a.db') Martin > Thank you for any suggestions > W > > > NEU: WEB.DE DSL f?r 19,99 EUR/mtl. und ohne Mindest-Laufzeit! > http://produkte.web.de/go/02/ > _______________________________________________ > 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 -- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793