[Bioc-devel] Error on genes-method,OrganismDbi

[Vincent Carey]

Try 1.13.9 of OrganismDbi -- I ran into this and Val answered yesterday.
You need to get 1.13.9 from svn source.

On Tue, May 3, 2016 at 5:57 AM, Hector Corrada Bravo <hcorrada at gmail.com>
wrote:

> Hello all,
>
> I just ran into this error. Any help appreciated:
>
> >library(Mus.musculus)
> > gr <- genes(Mus.musculus, columns=c("GENEID","SYMBOL"))
> Error in get(name, envir = asNamespace(pkg), inherits = FALSE) :
>   object '.testSelectArgs' not found
> > sessionInfo()
> R version 3.3.0 RC (2016-05-01 r70572)
> Platform: x86_64-apple-darwin13.4.0 (64-bit)
> Running under: OS X 10.11.4 (El Capitan)
>
> 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] parallel  stats4    stats     graphics  grDevices utils     datasets
> [8] methods   base
>
> other attached packages:
>  [1] Mus.musculus_1.3.1
>  [2] TxDb.Mmusculus.UCSC.mm10.knownGene_3.2.2
>  [3] org.Mm.eg.db_3.3.0
>  [4] GO.db_3.3.0
>  [5] OrganismDbi_1.13.8
>  [6] GenomicFeatures_1.23.31
>  [7] GenomicRanges_1.23.27
>  [8] GenomeInfoDb_1.7.6
>  [9] AnnotationDbi_1.33.15
> [10] IRanges_2.5.47
> [11] S4Vectors_0.9.52
> [12] Biobase_2.31.3
> [13] BiocGenerics_0.17.5
> [14] hcbpack_0.1.0
> [15] RColorBrewer_1.1-2
> [16] devtools_1.11.1
> [17] BiocInstaller_1.21.6
>
> loaded via a namespace (and not attached):
>  [1] graph_1.49.1                XVector_0.11.8
>  [3] GenomicAlignments_1.7.21    zlibbioc_1.17.1
>  [5] BiocParallel_1.5.22         tools_3.3.0
>  [7] SummarizedExperiment_1.1.27 DBI_0.4
>  [9] withr_1.0.1                 RBGL_1.47.0
> [11] digest_0.6.9                rtracklayer_1.31.13
> [13] bitops_1.0-6                RCurl_1.95-4.8
> [15] biomaRt_2.27.2              memoise_1.0.0
> [17] RSQLite_1.0.0               Biostrings_2.39.14
> [19] Rsamtools_1.23.11           XML_3.98-1.4
> >
>
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>
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