Question: Error loading rat2302.db
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6.7 years ago by
Guest User12k
Guest User12k wrote:
Every time I try to load rat2302.db I get the same error: > library("rat2302.db") Error : .onLoad failed in loadNamespace() for 'rat2302.db', details: call: sqliteExecStatement(con, statement, bind.data) error: RS-DBI driver: (error in statement: no such table: chrlengths) Error: package/namespace load failed for ???rat2302.db??? I have looked everywhere on the message boards and internet with no luck finding a solution. Any help is greatly appreciated! Best, Mike -- output of sessionInfo(): > sessionInfo() R version 2.15.1 (2012-06-22) Platform: i386-pc-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] org.Hs.eg.db_2.8.0 RSQLite_0.11.2 DBI_0.2-5 AnnotationDbi_1.20.2 Biobase_2.18.0 BiocGenerics_0.4.0 loaded via a namespace (and not attached): [1] IRanges_1.16.4 parallel_2.15.1 stats4_2.15.1 -- Sent via the guest posting facility at bioconductor.org.
rat2302 • 637 views
ADD COMMENTlink modified 6.7 years ago by James W. MacDonald50k • written 6.7 years ago by Guest User12k
Answer: Error loading rat2302.db
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gravatar for James W. MacDonald
6.7 years ago by
United States
James W. MacDonald50k wrote:
Hi Mike, On 11/15/2012 2:07 PM, Mike [guest] wrote: > Every time I try to load rat2302.db I get the same error: > >> library("rat2302.db") > Error : .onLoad failed in loadNamespace() for 'rat2302.db', details: > call: sqliteExecStatement(con, statement, bind.data) > error: RS-DBI driver: (error in statement: no such table: chrlengths) > Error: package/namespace load failed for ???rat2302.db??? Looks like you might have a borked package. Did you try re-installing? I get: > library(rat2302.db) Loading required package: org.Rn.eg.db > sessionInfo() R version 2.15.1 (2012-06-22) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] rat2302.db_2.8.1 org.Rn.eg.db_2.8.0 [3] BiocInstaller_1.8.3 affycoretools_1.31.2 [5] KEGG.db_2.8.0 GO.db_2.8.0 [7] AnnotationDbi_1.20.2 affy_1.36.0 [9] pd.hugene.1.0.st.v1_3.8.0 RSQLite_0.11.2 [11] DBI_0.2-5 limma_3.14.1 [13] oligo_1.22.0 Biobase_2.18.0 [15] oligoClasses_1.20.0 BiocGenerics_0.4.0 Best, Jim > > > I have looked everywhere on the message boards and internet with no luck finding a solution. Any help is greatly appreciated! > > Best, > Mike > > -- output of sessionInfo(): > >> sessionInfo() > R version 2.15.1 (2012-06-22) > Platform: i386-pc-mingw32/i386 (32-bit) > > locale: > [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 LC_NUMERIC=C LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] org.Hs.eg.db_2.8.0 RSQLite_0.11.2 DBI_0.2-5 AnnotationDbi_1.20.2 Biobase_2.18.0 BiocGenerics_0.4.0 > > loaded via a namespace (and not attached): > [1] IRanges_1.16.4 parallel_2.15.1 stats4_2.15.1 > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician University of Washington Environmental and Occupational Health Sciences 4225 Roosevelt Way NE, # 100 Seattle WA 98105-6099
ADD COMMENTlink written 6.7 years ago by James W. MacDonald50k
Hi Mike, Your sessionInfo() hints that you might have a missing dependency (IOW you may not have org.Rn.eg.db installed). You can install it this way: biocLite("org.Rn.eg.db") Marc On 11/15/2012 11:18 AM, James W. MacDonald wrote: > Hi Mike, > > On 11/15/2012 2:07 PM, Mike [guest] wrote: >> Every time I try to load rat2302.db I get the same error: >> >>> library("rat2302.db") >> Error : .onLoad failed in loadNamespace() for 'rat2302.db', details: >> call: sqliteExecStatement(con, statement, bind.data) >> error: RS-DBI driver: (error in statement: no such table: chrlengths) >> Error: package/namespace load failed for ???rat2302.db??? > > Looks like you might have a borked package. Did you try re- installing? > > I get: > > > library(rat2302.db) > Loading required package: org.Rn.eg.db > > > > sessionInfo() > R version 2.15.1 (2012-06-22) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 > [7] LC_PAPER=C LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] rat2302.db_2.8.1 org.Rn.eg.db_2.8.0 > [3] BiocInstaller_1.8.3 affycoretools_1.31.2 > [5] KEGG.db_2.8.0 GO.db_2.8.0 > [7] AnnotationDbi_1.20.2 affy_1.36.0 > [9] pd.hugene.1.0.st.v1_3.8.0 RSQLite_0.11.2 > [11] DBI_0.2-5 limma_3.14.1 > [13] oligo_1.22.0 Biobase_2.18.0 > [15] oligoClasses_1.20.0 BiocGenerics_0.4.0 > > Best, > > Jim > > >> >> >> I have looked everywhere on the message boards and internet with no >> luck finding a solution. Any help is greatly appreciated! >> >> Best, >> Mike >> >> -- output of sessionInfo(): >> >>> sessionInfo() >> R version 2.15.1 (2012-06-22) >> Platform: i386-pc-mingw32/i386 (32-bit) >> >> locale: >> [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United >> States.1252 LC_MONETARY=English_United States.1252 >> LC_NUMERIC=C LC_TIME=English_United >> States.1252 >> >> attached base packages: >> [1] stats graphics grDevices utils datasets methods base >> >> other attached packages: >> [1] org.Hs.eg.db_2.8.0 RSQLite_0.11.2 DBI_0.2-5 >> AnnotationDbi_1.20.2 Biobase_2.18.0 BiocGenerics_0.4.0 >> >> loaded via a namespace (and not attached): >> [1] IRanges_1.16.4 parallel_2.15.1 stats4_2.15.1 >> >> -- >> Sent via the guest posting facility at bioconductor.org. >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >
ADD REPLYlink written 6.7 years ago by Marc Carlson7.2k
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