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Hi Wenjian, Wenjian Yang wrote: > Hi, I'm using R 2.3.1 and GOstats_1.6.0 > > When I tried GOALLLOCUSID$"GO:0000158", I got the error message > "Error: recursive default argument reference" > > GOLOCUSID worked fine. > > In addition, during the installation of GOstats via biocLite, the "RBGL" > packages failed to compile, but I don't think that should affect the problem > with GOALLLOCUSID. > > Did anybody encouter the problem as well? > Sometimes I see this same error, and I don't have a good fix because I don't know why I see it. However, it appears to me that a simple restart of R fixes things. BTW, this works for me with the version of GO I have. > library(GO) > GOALLLOCUSID$"GO:0000158" TAS IDA TAS TAS IDA TAS RCA TAS "851217" "851339" "851339" "851421" "851647" "852685" "853065" "854179" ISS ISS IMP ISS NAS ISS TAS NR "855766" "39337" "45959" "45959" "45959" "47877" "5516" "5519" IDA ISS RCA TAS IEA RCA RCA RCA "5520" "28227" "19052" "19052" "19053" "19053" "19055" "63953" RCA RCA IEA TAS IDA IEA IEA IEA "67857" "71978" "24672" "24672" "24673" "24673" "24674" "63995" IEA ISS IEA IEA "117104" "117281" "171121" "315648" > sessionInfo() Version 2.3.1 (2006-06-01) i386-pc-mingw32 attached base packages: [1] "methods" "stats" "graphics" "grDevices" "utils" "datasets" [7] "base" other attached packages: GO "1.12.0" Best, Jim > Thanks. > > Wenjain Yang > > [[alternative HTML version deleted]] > > _______________________________________________ > 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 > -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.

Wenjian Regarding the problem compiling RBGL, it was discussed in May on the listserv. I had a similar problem and the solution was to compile the development version (1.9.2) of RBGL. You may be able to reach the original messages using the link below: http://article.gmane.org/gmane.science.biology.informatics.conductor/8 837/match=rbgl If that doesn't work try http://dir.gmane.org/gmane.science.biology.informatics.conductor and search under RBGL. Sorry I don't have experience regarding the GOLOCUSID question. Regards Carl Garrett Wenjian Yang wrote: >Hi, I'm using R 2.3.1 and GOstats_1.6.0 > >When I tried GOALLLOCUSID$"GO:0000158", I got the error message >"Error: recursive default argument reference" > >GOLOCUSID worked fine. > >In addition, during the installation of GOstats via biocLite, the "RBGL" >packages failed to compile, but I don't think that should affect the problem >with GOALLLOCUSID. > >Did anybody encouter the problem as well? > >Thanks. > >Wenjain Yang > > [[alternative HTML version deleted]] > >_______________________________________________ >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 > > >