Question: Failed loading Biobase
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gravatar for joseph
6.6 years ago by
joseph330
joseph330 wrote:
Hi I installed R-devel-leopard.pkg (56Mb, installer incl. GUI) from http://r.research.att.com/ on my Mac. I installed core Bioconductor packages with: source("http://bioconductor.org/biocLite.R") biocLite() I got the following error when I tried to load Biobase: Please help me to solve this issue. Loading required package: BiocGenerics Attaching package: ‘BiocGenerics’ The following object(s) are masked from ‘package:stats’:     xtabs The following object(s) are masked from ‘package:base’:     anyDuplicated, cbind, colnames, duplicated, eval, Filter, Find, get, intersect, lapply, Map, mapply, mget, order, paste, pmax, pmax.int, pmin, pmin.int, Position, rbind, Reduce,     rep.int, rownames, sapply, setdiff, table, tapply, union, unique Error in dyn.load(file, DLLpath = DLLpath, ...) :   unable to load shared object '/Library/Frameworks/R.framework/Versi ons/2.16/Resources/library/Biobase/libs/x86_64/Biobase.so':  dlopen(/Library/Frameworks/R.framework/Versions/2.16/Resources/library /Biobase/libs/x86_64/Biobase.so, 6): Library not loaded: /Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libR.dylib   Referenced from: /Library/Frameworks/R.framework/Versions/2.16/Reso urces/library/Biobase/libs/x86_64/Biobase.so   Reason: image not found Error: package/namespace load failed for ‘Biobase’ starting httpd help server ... done > sessionInfo() R Under development (unstable) (2012-08-11 r60235) Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats     graphics  grDevices utils     datasets methods   base    other attached packages: [1] BiocGenerics_0.3.1 loaded via a namespace (and not attached): [1] tools_2.16.0 > [[alternative HTML version deleted]]
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ADD COMMENTlink written 6.6 years ago by joseph330
Answer: Failed loading Biobase
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gravatar for joseph
6.6 years ago by
joseph330
joseph330 wrote:
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ADD COMMENTlink written 6.6 years ago by joseph330
On Mon, Aug 13, 2012 at 6:09 PM, joseph <jdsandjd@yahoo.com> wrote: > Hi > I installed R-devel-leopard.pkg (56Mb, installer incl. GUI) from > http://r.research.att.com/ on my Mac. > I installed core Bioconductor packages with: > > source("http://bioconductor.org/biocLite.R") > > biocLite() > I got the following error when I tried to load Biobase: > Please help me to solve this issue. > > > Loading required package: BiocGenerics > Attaching package: ‘BiocGenerics’ > The following object(s) are masked from ‘package:stats’: > xtabs > The following object(s) are masked from ‘package:base’: > anyDuplicated, cbind, colnames, duplicated, eval, Filter, Find, get, > intersect, > lapply, Map, mapply, mget, order, paste, pmax, pmax.int, pmin, pmin.int, > Position, rbind, Reduce, > rep.int, rownames, sapply, setdiff, table, tapply, union, unique > Error in dyn.load(file, DLLpath = DLLpath, ...) : > unable to load shared object > '/Library/Frameworks/R.framework/Versions/2.16/Resources/library/Bio base/libs/x86_64/Biobase.so': > > > > dlopen(/Library/Frameworks/R.framework/Versions/2.16/Resources/libra ry/Biobase/libs/x86_64/Biobase.so, > 6): Library not loaded: > /Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libR.dylib > Referenced from: > /Library/Frameworks/R.framework/Versions/2.16/Resources/library/Biob ase/libs/x86_64/Biobase.so > Reason: image not found > Error: package/namespace load failed for ‘Biobase’ > starting httpd help server ... done > > > > > sessionInfo() > R Under development (unstable) (2012-08-11 > r60235) > Hi, Joseph. Bioconductor currently works with R-2.15 and not R-devel for both the development and release versions of bioconductor. Give the latest R-2.15 a try and let us know if you still have problems. Sean > Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] BiocGenerics_0.3.1 > > loaded via a namespace (and not attached): > [1] tools_2.16.0 > > > [[alternative HTML version deleted]] > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]
ADD REPLYlink written 6.6 years ago by Sean Davis21k
On Mon, Aug 13, 2012 at 3:12 PM, Sean Davis <sdavis2 at="" mail.nih.gov=""> wrote: > On Mon, Aug 13, 2012 at 6:09 PM, joseph <jdsandjd at="" yahoo.com=""> wrote: > >> Hi >> I installed R-devel-leopard.pkg (56Mb, installer incl. GUI) from >> http://r.research.att.com/ on my Mac. >> I installed core Bioconductor packages with: >> >> source("http://bioconductor.org/biocLite.R") >> >> biocLite() >> I got the following error when I tried to load Biobase: >> Please help me to solve this issue. >> >> >> Loading required package: BiocGenerics >> Attaching package: ?BiocGenerics? >> The following object(s) are masked from ?package:stats?: >> xtabs >> The following object(s) are masked from ?package:base?: >> anyDuplicated, cbind, colnames, duplicated, eval, Filter, Find, get, >> intersect, >> lapply, Map, mapply, mget, order, paste, pmax, pmax.int, pmin, pmin.int, >> Position, rbind, Reduce, >> rep.int, rownames, sapply, setdiff, table, tapply, union, unique >> Error in dyn.load(file, DLLpath = DLLpath, ...) : >> unable to load shared object >> '/Library/Frameworks/R.framework/Versions/2.16/Resources/library/Bi obase/libs/x86_64/Biobase.so': >> >> >> >> dlopen(/Library/Frameworks/R.framework/Versions/2.16/Resources/libr ary/Biobase/libs/x86_64/Biobase.so, >> 6): Library not loaded: >> /Library/Frameworks/R.framework/Versions/2.15/Resources/lib/libR.dylib >> Referenced from: >> /Library/Frameworks/R.framework/Versions/2.16/Resources/library/Bio base/libs/x86_64/Biobase.so >> Reason: image not found >> Error: package/namespace load failed for ?Biobase? >> starting httpd help server ... done >> > > >> >> >> > sessionInfo() >> R Under development (unstable) (2012-08-11 >> r60235) >> > > Hi, Joseph. > > Bioconductor currently works with R-2.15 and not R-devel for both the > development and release versions of bioconductor. Give the latest R-2.15 a > try and let us know if you still have problems. > If you want to use the devel version of Bioconductor (2.11), do the following after installing R-2.15: source("http://bioconductor.org/biocLite.R") useDevel() Otherwise biocLite() will install packages for the release version of Bioconductor (2.10). Dan > Sean > > > >> Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit) >> locale: >> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 >> >> attached base packages: >> [1] stats graphics grDevices utils datasets methods base >> >> other attached packages: >> [1] BiocGenerics_0.3.1 >> >> loaded via a namespace (and not attached): >> [1] tools_2.16.0 >> > >> [[alternative HTML version deleted]] >> >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > [[alternative HTML version deleted]] > > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
ADD REPLYlink written 6.6 years ago by Dan Tenenbaum8.2k
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