Problems loading SparseM
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@heike-pospisil-1097
Last seen 10.2 years ago
Hello, I am trying to load topGO. SparseM is required by this package. I have successfully installed SparseM (version 0.78), but I did not succeed in loading the SparseM package into R 2.7. Does anybody know a trick for loading SparseM? Thanks in advance, Heike > library(SparseM,lib.loc=my.lib.loc) Error in packageDescription(pkg)$Version : $ operator is invalid for atomic vectors In addition: Warning message: In packageDescription(pkg) : no package 'SparseM' was found Error : .onLoad failed in 'loadNamespace' for 'SparseM' Error: package/namespace load failed for 'SparseM' > sessionInfo() R version 2.7.0 (2008-04-22) x86_64-unknown-linux-gnu locale: LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US .UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_N AME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTI FICATION=C attached base packages: [1] tools stats graphics grDevices utils datasets methods [8] base other attached packages: [1] AnnotationDbi_1.2.2 RSQLite_0.7-0 DBI_0.2-4 [4] GO_2.0.1 Biobase_2.0.1 graph_1.18.1 loaded via a namespace (and not attached): [1] cluster_1.11.10 tcltk_2.7.0 -- Dr. Heike Pospisil | pospisil at zbh.uni-hamburg.de University of Hamburg | Center for Bioinformatics Bundesstrasse 43 | 20146 Hamburg, Germany phone:+49-40-42838-7303 | fax: +49-40-42838-7312
topGO topGO • 1.6k views
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@sean-davis-490
Last seen 3 months ago
United States
On Mon, Aug 25, 2008 at 11:53 AM, Heike Pospisil <pospisil at="" zbh.uni-hamburg.de=""> wrote: > Hello, > > I am trying to load topGO. SparseM is required by this package. I have > successfully installed SparseM (version 0.78), but I did not succeed in > loading the SparseM package into R 2.7. Does anybody know a trick for loading > SparseM? Try removing and re-installing SparseM. Of course, be sure to use biocLite() to do the installations. Sean
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On Mon, Aug 25, 2008 at 9:04 AM, Sean Davis <sdavis2 at="" mail.nih.gov=""> wrote: > On Mon, Aug 25, 2008 at 11:53 AM, Heike Pospisil > <pospisil at="" zbh.uni-hamburg.de=""> wrote: >> Hello, >> >> I am trying to load topGO. SparseM is required by this package. I have >> successfully installed SparseM (version 0.78), but I did not succeed in >> loading the SparseM package into R 2.7. Does anybody know a trick for loading >> SparseM? > > Try removing and re-installing SparseM. Of course, be sure to use > biocLite() to do the installations. It looks like 'SparseM' did not get installed [correctly]. SparseM contains native code (Fortran and C), so that could be the cause of your of installation problems. Also, SparseM is on CRAN, that is, it should be possible to install with install.packages() (==without biocLite()). Since this is a CRAN package giving you problems, please post further questions on SparseM to the r-help list (larger/right audience, greater chances for prompt help etc.). FYI, the prebuild binary SparseM v0.78 installs and works perfectly well on WinXP. My $.02 /Henrik > > Sean > > _______________________________________________ > 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 >
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