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

[Hector Corrada Bravo]

Yep, that was it. Thanks!
Hector

On Tue, May 3, 2016 at 6:14 AM, Vincent Carey <stvjc at channing.harvard.edu>
wrote:

> 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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>>
>
>

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