I'm trying to use the new GO package in the windows version of R 1.9.0, but have problems using any of the environments All environments show a similar error msg > ls(env= GOMFPARENTS) Error in ls(env = GOMFPARENTS) : Object "GOMFPARENTS" not found I've also tried KEGG, hgu133a and hgu95av2 packages. KEGG works ok, but the other 2 metadata packages also give a similar error when trying to access the data Jan Oosting

I just installed GO 1.6.0 on R-1.9.0 and I don't have the problems you indicate. Perhaps something got corrupted on your end? You might try re-installing GO and see if it helps. Best, Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> "Oosting, J. (PATH)" <j.oosting@lumc.nl> 06/05/04 7:24 AM >>> I'm trying to use the new GO package in the windows version of R 1.9.0, but have problems using any of the environments All environments show a similar error msg > ls(env= GOMFPARENTS) Error in ls(env = GOMFPARENTS) : Object "GOMFPARENTS" not found I've also tried KEGG, hgu133a and hgu95av2 packages. KEGG works ok, but the other 2 metadata packages also give a similar error when trying to access the data Jan Oosting _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

I first encountered the problem in R 1.9 beta, and now installed the final 1.9.0 and a fresh install of all of Bioconductor with develOK=TRUE (to install the 1.6.0 metadata packages) No errors occured during the installation The function GO() does return the info on the datafiles, but ls(env= GOCCPARENTS) gives an error after loading the environment manually with load(file.path(.path.package("GO"), "data", "GOCCPARENTS.rda")) the ls command works OK. Jan -----Original Message----- From: James MacDonald To: Oosting, J. (PATH); bioconductor@stat.math.ethz.ch Sent: 6/5/2004 2:10 PM Subject: Re: [BioC] Problems using GO 1.6.0 in Windows I just installed GO 1.6.0 on R-1.9.0 and I don't have the problems you indicate. Perhaps something got corrupted on your end? You might try re-installing GO and see if it helps. Best, Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> "Oosting, J. (PATH)" <j.oosting@lumc.nl> 06/05/04 7:24 AM >>> I'm trying to use the new GO package in the windows version of R 1.9.0, but have problems using any of the environments All environments show a similar error msg > ls(env= GOMFPARENTS) Error in ls(env = GOMFPARENTS) : Object "GOMFPARENTS" not found I've also tried KEGG, hgu133a and hgu95av2 packages. KEGG works ok, but the other 2 metadata packages also give a similar error when trying to access the data Jan Oosting _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

>I'm trying to use the new GO package in the windows version of R 1.9.0, but >have problems using any of the environments > >All environments show a similar error msg >> ls(env= GOMFPARENTS) >Error in ls(env = GOMFPARENTS) : Object "GOMFPARENTS" not found > >I've also tried KEGG, hgu133a and hgu95av2 packages. KEGG works ok, but the >other 2 metadata packages also give a similar error when trying to access >the data It appears that the windows build of some of the data packages are corrupted. I am going to build the 1.6.1 version this week and make them available (hopefully) by the end of the week. Thanks. > >Jan Oosting > >_______________________________________________ >Bioconductor mailing list >Bioconductor@stat.math.ethz.ch >https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor Jianhua Zhang Department of Biostatistics Dana-Farber Cancer Institute 44 Binney Street Boston, MA 02115-6084