Gabor: if that helps, colamd_printf comes from GLPK, so it could be the case that igraph is configured to use an external GLPK library (under the assumption that R will provide it) and in the end it turns out that the custom R version that igraph is loaded into was somehow compiled without GLPK support. Or something like that. I know this is totally vague, but that’s my best guess so far.
-- T. On Wednesday, 6 November 2013 at 18:54, Gábor Csárdi wrote: > The full output would be helpful, I have no idea where the package is > downloading form, what are the results of the configure checks, etc. > > G. > > On Wed, Nov 6, 2013 at 12:40 PM, George Dietz <[email protected] > (mailto:[email protected])> wrote: > > I am having a similiar problem but on Mavericks. Igraph fails in the same > > place but no mention of libxml. I am using the macports version of R. Here > > is the output: > > > > spectral_properties.o spmatrix.o st-cuts.o statusbar.o > > structural_properties.o structure_generators.o sugiyama.o topology.o > > type_indexededgelist.o types.o unit_limiter.o vector.o vector_ptr.o > > version.o visitors.o walktrap.o walktrap_communities.o walktrap_graph.o > > walktrap_heap.o zeroin.o zeta.o -L/opt/local/lib -lxml2 -lz -lpthread > > -liconv -lm -L/opt/local/lib/gcc48/gcc/x86_64-apple-darwin13/4.8.2 > > -L/opt/local/lib/gcc48 -lgfortran -lquadmath -lm > > -L/opt/local/Library/Frameworks/R.framework/Resources/lib -lRlapack > > -L/opt/local/Library/Frameworks/R.framework/Resources/lib -lRblas > > -L/opt/local/lib/gcc48/gcc/x86_64-apple-darwin13/4.8.2 > > -L/opt/local/lib/gcc48 -lgfortran -lquadmath -lm > > -F/opt/local/Library/Frameworks/R.framework/.. -framework R -Wl,-framework > > -Wl,CoreFoundation > > installing to > > /opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs > > > > > > ** R > > ** demo > > ** inst > > ** preparing package for lazy loading > > ** help > > *** installing help indices > > ** building package indices > > ** testing if installed package can be loaded > > Error : .onLoad failed in loadNamespace() for 'igraph', details: > > > > call: dyn.load(file, DLLpath = DLLpath, ...) > > > > error: unable to load shared object > > '/opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so': > > > > > > dlopen(/opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so, > > 10): Symbol not found: _colamd_printf > > > > Referenced from: > > /opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so > > > > Expected in: flat namespace > > > > in > > /opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so > > > > Error: loading failed > > > > Execution halted > > > > ERROR: loading failed > > > > * removing > > ‘/opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph’ > > > > * restoring previous > > ‘/opt/local/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph’ > > > > > > The downloaded source packages are in > > > > ‘/private/tmp/RtmpVsVUxE/downloaded_packages’ > > > > Warning message: > > > > In install.packages("igraph") : > > > > installation of package ‘igraph’ had non-zero exit status > > > > > > > Sys.info (http://Sys.info)() > > > > > > sysname > > > > > > "Darwin" > > > > > > release > > > > > > "13.0.0" > > > > > > version > > > > "Darwin Kernel Version 13.0.0: Thu Sep 19 22:22:27 PDT 2013; > > root:xnu-2422.1.72~6/RELEASE_X86_64" > > > > > > nodename > > > > > > "le-iMac-de-travail.local" > > > > > > machine > > > > > > "x86_64" > > > > > > On Saturday, April 6, 2013 8:32:36 AM UTC-4, Bob Pap wrote: > > > > > > Dear Tamás, > > > > > > Build fails in the new R (3.0.0). Any suggestions? > > > > > > command: > > > > > > R CMD INSTALL --no-multiarch > > > ~/Downloads/igraph_nightly_0.7-3137-20130302.tar.gz > > > > > > compilation works, but test fails > > > > > > installing to > > > /Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs > > > ** R > > > ** demo > > > ** inst > > > ** preparing package for lazy loading > > > ** help > > > *** installing help indices > > > ** building package indices > > > ** testing if installed package can be loaded > > > Error : .onLoad failed in loadNamespace() for 'igraph', details: > > > call: dyn.load(file, DLLpath = DLLpath, ...) > > > error: unable to load shared object > > > '/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so': > > > > > > dlopen(/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so, > > > 10): Library not loaded: @rpath/libxml2.2.dylib > > > Referenced from: > > > /Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph/libs/igraph.so > > > Reason: image not found > > > Error: loading failed > > > Execution halted > > > ERROR: loading failed > > > * removing > > > ‘/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph’ > > > * restoring previous > > > ‘/Library/Frameworks/R.framework/Versions/3.0/Resources/library/igraph’ > > > > > > > > > -- > > > Kindly, > > > Bob Pap > > > > > > > > > > > _______________________________________________ > > igraph-help mailing list > > [email protected] (mailto:[email protected]) > > https://lists.nongnu.org/mailman/listinfo/igraph-help > > > > > _______________________________________________ > igraph-help mailing list > [email protected] (mailto:[email protected]) > https://lists.nongnu.org/mailman/listinfo/igraph-help > >
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