[BioC] exonmap mysql fehler

[Paul Hammer]

Paul Hammer schrieb:
> dear all,
>
> the function xmapBridge() (package exonmap) worked fine until i did a 
> reboot. now always comes this mysql error message:
>
> > 
> xmapBridge("ENSG00000115252",eset=rma.affy,gps=list(A=1:3,B=4:8),type="fc") 
>
> Fehler in mysqlExecStatement(conn, statement, ...) :  RS-DBI driver: 
> (could not run statement: Unknown database 'homo_sapiens_core_47_36i')
>
> when i login to mysql the database with all tables is there.
>
> here my session info:
> > sessionInfo()
> R version 2.6.0 (2007-10-03)
> x86_64-unknown-linux-gnu
>
> locale:
> LC_CTYPE=de_DE.UTF-8;LC_NUMERIC=C;LC_TIME=de_DE.UTF-8;LC_COLLATE=de_DE.UTF-8;LC_MONETARY=de_DE.UTF-8;LC_MESSAGES=de_DE.UTF-8;LC_PAPER=de_DE.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=de_DE.UTF-8;LC_IDENTIFICATION=C 
>
>
> attached base packages:
> [1] splines   tools     stats     graphics  grDevices utils     datasets
> [8] methods   base
>
> other attached packages:
> [1] exon.pmcdf_1.1       exonmap_1.4.1        plier_1.8.0
> [4] RMySQL_0.6-0         DBI_0.2-4            RColorBrewer_1.0-2
> [7] simpleaffy_2.14.05   gcrma_2.10.0         matchprobes_1.10.0
> [10] genefilter_1.16.0    survival_2.32        affy_1.16.0
> [13] preprocessCore_1.0.0 affyio_1.6.1         Biobase_1.16.2
>
> loaded via a namespace (and not attached):
> [1] annotate_1.16.1     AnnotationDbi_1.0.6 rcompgen_0.1-15
> [4] RSQLite_0.6-4
>
> have someone an idea???
>
> thanks
> paul
>
ok i found it by myself. i just restarted the mysql server in the right 
folder (/etc/init.d/mysqld start)...

goodnight from berlin
paul