- using R version 2.13.2 Patched (2011-09-30 r58141)
- using platform: i386-apple-darwin9.8.0 (32-bit)
- using session charset: ASCII
- checking for file 'gRbase/DESCRIPTION' ... OK
- this is package 'gRbase' version '1.4.4'
- package encoding: latin1
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking for executable files ... OK
- checking whether package 'gRbase' can be installed ... OK
- checking installed package size ... OK
- checking package directory ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking R files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
- loading checks for arch 'x86_64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
- checking for unstated dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... NOTE
Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details:
call: value[[3L]](cond)
error: unable to load shared object '/Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/extralib/2.13/Rgraphviz/libs/i386/Rgraphviz.so':
dlopen(/Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/extralib/2.13/Rgraphviz/libs/i386/Rgraphviz.so, 6): Library not loaded: /usr/local/lib/libgvc.5.dylib
Referenced from: /Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/extralib/2.13/Rgraphviz/libs/i386/Rgraphviz.so
Reason: image not found
Check that (1) graphviz is installed on your system; (2) the
installed version of graphviz matches '2.24.0'; this is the version
used to build this Rgraphviz package; (3) graphviz is accessible to
R, e.g., the path to the graphviz 'bin' directory is in the system
'PATH' variable. See additional instructions in the 'README' file of
the Rgraphviz 'source' distribution, available at
http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html
Ask further questions on the Bioconductor mailing list
http://bioconductor.org/docs/mailList.html
stepwise.hllm: no visible binding for global variable 'rawdata'
stepwise.hllm: no visible binding for global variable 'loglm.formula'
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of 'data' directory ... OK
- checking data for non-ASCII characters ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking line endings in C/C++/Fortran sources/headers ... OK
- checking line endings in Makefiles ... OK
- checking for portable compilation flags in Makevars ... OK
- checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
- checking sizes of PDF files under inst/doc ... OK
- checking examples ... WARNING
checking a package with encoding 'latin1' in an ASCII locale
** running examples for arch 'i386' ... OK
** running examples for arch 'x86_64' ... OK
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in 'inst/doc' ... OK
- checking running R code from vignettes ... WARNING
Errors in running code in vignettes:
when running code in 'Graphs.Rnw'
...
Ask further questions on the Bioconductor mailing list
http://bioconductor.org/docs/mailList.html
When sourcing 'Graphs.R':
Error: package/namespace load failed for 'Rgraphviz'
Execution halted
- checking re-building of vignettes ... NOTE
Error in re-building vignettes:
...
Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details:
call: value[[3L]](cond)
error: unable to load shared object '/Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/extralib/2.13/Rgraphviz/libs/i386/Rgraphviz.so':
dlopen(/Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/extralib/2.13/Rgraphviz/libs/i386/Rgraphviz.so, 6): Library not loaded: /usr/local/lib/libgvc.5.dylib
Referenced from: /Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/extralib/2.13/Rgraphviz/libs/i386/Rgraphviz.so
Reason: image not found
Check that (1) graphviz is installed on your system; (2) the installed version of
graphviz matches '2.24.0'; this is the version used to build this Rgraphviz package;
(3) graphviz is accessible to R, e.g., the path to the graphviz 'bin' directory is in
the system 'PATH' variable. See additional instructions in the 'README' file of the
Rgraphviz 'source' distribution, available at
http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html
Ask further questions on the Bioconductor mailing list
http://bioconductor.org/docs/mailList.html
Error: processing vignette 'Graphs.Rnw' failed with diagnostics:
chunk 1
Error : package/namespace load failed for 'Rgraphviz'
Execution halted
- checking PDF version of manual ... OK
WARNING: There were 2 warnings, see
'/Volumes/Tiger/Builds/Rdev-web/QA/Simon/packages/leopard-universal/results/2.13/gRbase.Rcheck/00check.log'
for details
- elapsed time (check, wall clock): 1:12