[BioC] Trouble Loading Rgraphviz in BioC 2.2 and 2.3

McGee, Monnie mmcgee at mail.smu.edu
Thu Nov 13 03:05:05 CET 2008


Dear BioC Group,

I am trying to load Rgraphviz but I keep receiving an error.  I have installed graphviz 2.2.  I searched the mailing list archives, and, as far as I can tell, no error like this has appeared.  I tried loading Rgraphviz on two different computers running two different versions of R and BioC and received the same error.  Relevant information follows. 

> sessionInfo()
R version 2.8.0 (2008-10-20) 
powerpc-apple-darwin8.11.1 

locale:
C

attached base packages:
[1] grid      tools     stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] graph_1.20.0  affy_1.20.0   Biobase_2.2.1

loaded via a namespace (and not attached):
[1] affyio_1.10.1        cluster_1.11.11      preprocessCore_1.4.0
> library(Rgraphviz)
Error in dyn.load(file, DLLpath = DLLpath, ...) : 
  unable to load shared library '/Library/Frameworks/R.framework/Resources/library/Rgraphviz/libs/ppc/Rgraphviz.so':
  dlopen(/Library/Frameworks/R.framework/Resources/library/Rgraphviz/libs/ppc/Rgraphviz.so, 6): Library not loaded: /usr/local/lib/libgvc.3.dylib
  Referenced from: /Library/Frameworks/R.framework/Resources/library/Rgraphviz/libs/ppc/Rgraphviz.so
  Reason: image not found
Error : .onLoad failed in 'loadNamespace' for 'Rgraphviz'
Error: package/namespace load failed for 'Rgraphviz'

 I also tried loading Rgraphviz on an Intel-based Power PC running R 2.7.2 and received the same error:
> library(Rgraphviz)
Loading required package: grid
Error in dyn.load(file, DLLpath = DLLpath, ...) : 
  unable to load shared library '/Library/Frameworks/R.framework/Resources/library/Rgraphviz/libs/i386/Rgraphviz.so':
  dlopen(/Library/Frameworks/R.framework/Resources/library/Rgraphviz/libs/i386/Rgraphviz.so, 6): Library not loaded: /usr/local/lib/libgvc.3.dylib
  Referenced from: /Library/Frameworks/R.framework/Resources/library/Rgraphviz/libs/i386/Rgraphviz.so
  Reason: image not found
Error : .onLoad failed in 'loadNamespace' for 'Rgraphviz'
Error: package/namespace load failed for 'Rgraphviz'

> sessionInfo()
R version 2.7.2 (2008-08-25) 
i386-apple-darwin8.11.1 

locale:
C

attached base packages:
 [1] grid      splines   tools     stats     graphics  grDevices utils     datasets 
 [9] methods   base     

other attached packages:
 [1] humanCHRLOC_2.1.4   Category_2.6.0      graph_1.18.1        KEGG.db_2.2.0      
 [5] hgu95av2.db_2.2.0   genefilter_1.20.0   survival_2.34-1     ALL_1.4.4          
 [9] GSEABase_1.2.2      annotate_1.18.0     xtable_1.5-3        AnnotationDbi_1.2.2
[13] RSQLite_0.7-0       DBI_0.2-4           Biobase_2.0.1      

loaded via a namespace (and not attached):
[1] RBGL_1.16.0     XML_1.96-0      cluster_1.11.11

Thanks for your help,
Monnie


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