[BioC] RMySQL loading problem

[Seth Falcon]

Hi René,

This is not a Bioconductor related problem.  Perhaps you should ask on 
r-sig-db or r-sig-mac?

How have you installed MySQL on your system?

Also, you are using an out of date version of R and Bioconductor 
packages.  You might also consider upgrading.

+ seth

On 1/7/10 10:06 AM, René Dreos wrote:
> Dear Bioconductor mailing list,
>
> I am runing R 2.9 and I am having some problems loading RMySQL library:
>
>> library(RMySQL)
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>    unable to load shared library
> '/Library/Frameworks/R.framework/Resources/library/RMySQL/libs/x86_64/RMySQL.so':
>
> dlopen(/Library/Frameworks/R.framework/Resources/library/RMySQL/libs/x86_64/RMySQL.so,
> 6): Symbol not found: _mysql_affected_rows
>    Referenced from:
> /Library/Frameworks/R.framework/Resources/library/RMySQL/libs/x86_64/RMySQL.so
>    Expected in: dynamic lookup
>
> Error : .onLoad failed in 'loadNamespace' for 'RMySQL'
> Error: package/namespace load failed for 'RMySQL'
>> sessionInfo()
> R version 2.9.2 (2009-08-24)
> x86_64-apple-darwin9.8.0
>
> locale:
> C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
>   [1] DBI_0.2-4                 RColorBrewer_1.0-2
>   [3] arrayQualityMetrics_2.2.3 affyPLM_1.20.0
>   [5] annotate_1.22.0           simpleaffy_2.20.0
>   [7] gcrma_2.16.0              genefilter_1.24.2
>   [9] bradiar1b520742cdf_1.22.0 preprocessCore_1.6.0
> [11] affxparser_1.16.0         makecdfenv_1.22.0
> [13] affyio_1.12.0             limma_2.18.3
> [15] affy_1.22.1               matchprobes_1.16.0
> [17] Biostrings_2.12.9         IRanges_1.2.3
> [19] AnnotationDbi_1.6.1       Biobase_2.4.1
>
> loaded via a namespace (and not attached):
>   [1] RSQLite_0.7-2      beadarray_1.12.1   grid_2.9.2
> hwriter_1.1
>   [5] lattice_0.17-25    latticeExtra_0.6-4 marray_1.22.0
> splines_2.9.2
>   [9] stats4_2.9.2       survival_2.35-4    tools_2.9.2
> vsn_3.12.0
> [13] xtable_1.5-5
>
> Has someone else got the same problem? How can I solve it?
>
> Thank you very much indeed,
> best
> r
>
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>
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-- 
Seth Falcon
Bioconductor Core Team | FHCRC