Problem with Ringo
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Hari Easwaran ▴ 240
@hari-easwaran-3510
Last seen 7.3 years ago
United States
Dear all, I get the following error when running extractProbeAnno: Error: could not find function "extractProbeAnno" Following is the version of R and other info: > sessionInfo() R version 2.6.2 (2008-02-08) ia64-unknown-linux-gnu attached base packages: [1] tools stats graphics grDevices utils datasets methods [8] base other attached packages: [1] Ringo_1.2.0 RColorBrewer_1.0-2 vsn_3.2.1 [4] affy_1.16.0 preprocessCore_1.0.0 affyio_1.6.1 [7] limma_2.12.0 geneplotter_1.16.0 lattice_0.17-7 [10] annotate_1.16.1 xtable_1.5-5 AnnotationDbi_1.0.6 [13] RSQLite_0.6-8 DBI_0.2-4 Biobase_1.16.3 loaded via a namespace (and not attached): [1] grid_2.6.2 KernSmooth_2.22-22 rcompgen_0.1-17 So far I can use most functions in Ringo. This is the first time I am having an issue. Could it be the version of R I have (R version 2.6.2 (2008-02-08))? I really appreciate any help. Best, Hari [[alternative HTML version deleted]]
Ringo Ringo • 783 views
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Heidi Dvinge ★ 2.0k
@heidi-dvinge-2195
Last seen 8.1 years ago
Hi Hari, yep, it's definitely your old version of R+packages that's the problem. I don't think extractProbeAnno was introduced in Ringo until version 1.6 or something like that. So it literally doesn't exist in your package, which is why you get the error message when you try to run it. You'll need to update to the latest version, and then things should work fine. Cheers \Heidi > Dear all, > I get the following error when running extractProbeAnno: > Error: could not find function "extractProbeAnno" > > Following is the version of R and other info: >> sessionInfo() > R version 2.6.2 (2008-02-08) > ia64-unknown-linux-gnu > > attached base packages: > [1] tools stats graphics grDevices utils datasets methods > [8] base > > other attached packages: > [1] Ringo_1.2.0 RColorBrewer_1.0-2 vsn_3.2.1 > [4] affy_1.16.0 preprocessCore_1.0.0 affyio_1.6.1 > [7] limma_2.12.0 geneplotter_1.16.0 lattice_0.17-7 > [10] annotate_1.16.1 xtable_1.5-5 AnnotationDbi_1.0.6 > [13] RSQLite_0.6-8 DBI_0.2-4 Biobase_1.16.3 > > loaded via a namespace (and not attached): > [1] grid_2.6.2 KernSmooth_2.22-22 rcompgen_0.1-17 > > So far I can use most functions in Ringo. This is the first time I am > having > an issue. Could it be the version of R I have (R version 2.6.2 > (2008-02-08))? > > I really appreciate any help. > > Best, > Hari > > [[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 >
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@wolfgang-huber-3550
Last seen 9 days ago
EMBL European Molecular Biology Laborat…
Dear Hari can you please try this with the current version of R/Bioconductor? Both R and Bioconductor are fast-moving projects.. Best wishes Wolfgang Hari Easwaran wrote: > Dear all, > I get the following error when running extractProbeAnno: > Error: could not find function "extractProbeAnno" > > Following is the version of R and other info: >> sessionInfo() > R version 2.6.2 (2008-02-08) > ia64-unknown-linux-gnu > > attached base packages: > [1] tools stats graphics grDevices utils datasets methods > [8] base > > other attached packages: > [1] Ringo_1.2.0 RColorBrewer_1.0-2 vsn_3.2.1 > [4] affy_1.16.0 preprocessCore_1.0.0 affyio_1.6.1 > [7] limma_2.12.0 geneplotter_1.16.0 lattice_0.17-7 > [10] annotate_1.16.1 xtable_1.5-5 AnnotationDbi_1.0.6 > [13] RSQLite_0.6-8 DBI_0.2-4 Biobase_1.16.3 > > loaded via a namespace (and not attached): > [1] grid_2.6.2 KernSmooth_2.22-22 rcompgen_0.1-17 > > So far I can use most functions in Ringo. This is the first time I am having > an issue. Could it be the version of R I have (R version 2.6.2 > (2008-02-08))? > > I really appreciate any help. > > Best, > Hari > > [[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 -- Best wishes Wolfgang ------------------------------------------------------- Wolfgang Huber EMBL http://www.embl.de/research/units/genome_biology/huber
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