kevinblighe
commented
4 years ago Hi, this package is only at the submission / development stage. Can you confirm how you are trying to install it? What is your version of R?
Closed joe-jhou2 closed 4 years ago
kevinblighe
commented
4 years ago Hi, this package is only at the submission / development stage. Can you confirm how you are trying to install it? What is your version of R?
joe-jhou2
commented
4 years ago It's installed by BioMag, seems some problems when installing robustbase, rJava, igrpah, I paste big chuck of error info here: clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c scg_exact_scg.c -o scg_exact_scg.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c scg_kmeans.c -o scg_kmeans.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c scg_optimal_method.c -o scg_optimal_method.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c scg_utils.c -o scg_utils.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c separators.c -o separators.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c sir.c -o sir.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c spanning_trees.c -o spanning_trees.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c sparsemat.c -o sparsemat.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c spectral_properties.c -o spectral_properties.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c spmatrix.c -o spmatrix.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c st-cuts.c -o st-cuts.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c statusbar.c -o statusbar.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c structural_properties.c -o structural_properties.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c structure_generators.c -o structure_generators.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c sugiyama.c -o sugiyama.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c topology.c -o topology.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c triangles.c -o triangles.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c type_indexededgelist.c -o type_indexededgelist.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c types.c -o types.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c vector.c -o vector.o In file included from vector.c:39: ./vector.pmt:246:16: warning: passing an object that undergoes default argument promotion to 'va_start' has undefined behavior [-Wvarargs] va_start(ap, endmark); ^ ./vector.pmt:242:13: note: parameter of type 'float' is declared here BASE endmark, ...) { ^ ./vector.pmt:259:16: warning: passing an object that undergoes default argument promotion to 'va_start' has undefined behavior [-Wvarargs] va_start(ap, endmark); ^ ./vector.pmt:242:13: note: parameter of type 'float' is declared here BASE endmark, ...) { ^ In file included from vector.c:51: ./vector.pmt:246:16: warning: passing an object that undergoes default argument promotion to 'va_start' has undefined behavior [-Wvarargs] va_start(ap, endmark); ^ ./vector.pmt:242:13: note: parameter of type 'char' is declared here BASE endmark, ...) { ^ ./vector.pmt:259:16: warning: passing an object that undergoes default argument promotion to 'va_start' has undefined behavior [-Wvarargs] va_start(ap, endmark); ^ ./vector.pmt:242:13: note: parameter of type 'char' is declared here BASE endmark, ...) { ^ 4 warnings generated. clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c vector_ptr.c -o vector_ptr.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c version.c -o version.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c visitors.c -o visitors.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c walktrap.cpp -o walktrap.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c walktrap_communities.cpp -o walktrap_communities.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c walktrap_graph.cpp -o walktrap_graph.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c walktrap_heap.cpp -o walktrap_heap.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c zeroin.c -o zeroin.o gfortran -fPIC -Wall -g -O2 -c dgetv0.f -o dgetv0.o dgetv0.f:120:26:
120 | & ( ido, bmat, itry, initv, n, j, v, ldv, resid, rnorm, | 1 Warning: Unused dummy argument 'itry' at (1) [-Wunused-dummy-argument] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] dgetv0.f:269:0:
| 269 | tmvopx = tmvopx + (t3 - t2) |
|---|
Warning: 't2' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c dlaqrb.f -o dlaqrb.o dlaqrb.f:497:0:
| 497 | & cs, sn ) |
|---|
Warning: 'i2' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c dmout.f -o dmout.o dmout.f:21:43:
21 | SUBROUTINE IGRAPHDMOUT( LOUT, M, N, A, LDA, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'a' at (1) [-Wunused-dummy-argument] dmout.f:35:26:
35 | INTEGER I, J, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'i' declared at (1) [-Wunused-variable] dmout.f:21:56:
21 | SUBROUTINE IGRAPHDMOUT( LOUT, M, N, A, LDA, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'idigit' at (1) [-Wunused-dummy-argument] dmout.f:21:62:
21 | SUBROUTINE IGRAPHDMOUT( LOUT, M, N, A, LDA, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'ifmt' at (1) [-Wunused-dummy-argument] dmout.f:35:29:
35 | INTEGER I, J, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'j' declared at (1) [-Wunused-variable] dmout.f:35:33:
35 | INTEGER I, J, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'k1' declared at (1) [-Wunused-variable] dmout.f:35:37:
35 | INTEGER I, J, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'k2' declared at (1) [-Wunused-variable] dmout.f:34:29:
34 | CHARACTER*80 LINE | 1 Warning: Unused variable 'line' declared at (1) [-Wunused-variable] dmout.f:35:42:
35 | INTEGER I, J, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'lll' declared at (1) [-Wunused-variable] dmout.f:21:34:
21 | SUBROUTINE IGRAPHDMOUT( LOUT, M, N, A, LDA, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'lout' at (1) [-Wunused-dummy-argument] dmout.f:21:37:
21 | SUBROUTINE IGRAPHDMOUT( LOUT, M, N, A, LDA, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'm' at (1) [-Wunused-dummy-argument] dmout.f:21:40:
21 | SUBROUTINE IGRAPHDMOUT( LOUT, M, N, A, LDA, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'n' at (1) [-Wunused-dummy-argument] dmout.f:35:50:
35 | INTEGER I, J, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'ndigit' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dnaitr.f -o dnaitr.o dnaitr.f:210:33:
210 | & (ido, bmat, n, k, np, nb, resid, rnorm, v, ldv, h, ldh, | 1 Warning: Unused dummy argument 'nb' at (1) [-Wunused-dummy-argument] dnaitr.f:494:0:
| 494 | tmvopx = tmvopx + (t3 - t2) |
|---|
Warning: 't2' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c dnapps.f -o dnapps.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dnaup2.f -o dnaup2.o dnaup2.f:315:5:
315 | 10 continue | 1 Warning: Label 10 at (1) defined but not used [-Wunused-label] dnaup2.f:175:63:
175 | & ( ido, bmat, n, which, nev, np, tol, resid, mode, iupd, | 1 Warning: Unused dummy argument 'iupd' at (1) [-Wunused-dummy-argument] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dnaupd.f -o dnaupd.o dnaupd.f:541:24:
541 | if (nb .le. 0) nb = 1 | 1 Warning: Nonconforming tab character at (1) [-Wtabs] dnaupd.f:542:28:
542 | if (tol .le. zero) tol = dlamch('EpsMach') | 1 Warning: Nonconforming tab character at (1) [-Wtabs] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dnconv.f -o dnconv.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dneigh.f -o dneigh.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dneupd.f -o dneupd.o stat.h:8:19:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't0' declared at (1) [-Wunused-variable] stat.h:8:23:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't1' declared at (1) [-Wunused-variable] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] dneupd.f:537:0:
| 537 | & '_neupd: Threshold eigenvalue used for re-ordering') |
|---|
Warning: 'thres' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c dngets.f -o dngets.o dngets.f:96:33:
96 | & bounds, shiftr, shifti ) | 1 Warning: Unused dummy argument 'shifti' at (1) [-Wunused-dummy-argument] dngets.f:96:25:
96 | & bounds, shiftr, shifti ) | 1 Warning: Unused dummy argument 'shiftr' at (1) [-Wunused-dummy-argument] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dsaitr.f -o dsaitr.o dsaitr.f:484:0:
| 484 | tmvopx = tmvopx + (t3 - t2) |
|---|
Warning: 't2' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c dsapps.f -o dsapps.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dsaup2.f -o dsaup2.o dsaup2.f:812:5:
812 | 130 continue | 1 Warning: Label 130 at (1) defined but not used [-Wunused-label] dsaup2.f:326:5:
326 | 10 continue | 1 Warning: Label 10 at (1) defined but not used [-Wunused-label] dsaup2.f:180:63:
180 | & ( ido, bmat, n, which, nev, np, tol, resid, mode, iupd, | 1 Warning: Unused dummy argument 'iupd' at (1) [-Wunused-dummy-argument] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dsaupd.f -o dsaupd.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dsconv.f -o dsconv.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dseigt.f -o dseigt.o dseigt.f:124:18:
124 | integer i, k, msglvl | 1 Warning: Unused variable 'i' declared at (1) [-Wunused-variable] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dsesrt.f -o dsesrt.o gfortran -fPIC -Wall -g -O2 -c dseupd.f -o dseupd.o stat.h:8:19:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't0' declared at (1) [-Wunused-variable] stat.h:8:23:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't1' declared at (1) [-Wunused-variable] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] dseupd.f:557:0:
| 557 | if ( workl(irz+j) .le. thres1 .or. |
|---|
Warning: 'thres2' may be used uninitialized in this function [-Wmaybe-uninitialized] dseupd.f:529:0:
| 529 | if (abs(workl(irz+j)) .ge. abs(thres1)) then |
|---|
Warning: 'thres1' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c dsgets.f -o dsgets.o stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dsortc.f -o dsortc.o gfortran -fPIC -Wall -g -O2 -c dsortr.f -o dsortr.o gfortran -fPIC -Wall -g -O2 -c dstatn.f -o dstatn.o stat.h:8:19:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't0' declared at (1) [-Wunused-variable] stat.h:8:23:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't1' declared at (1) [-Wunused-variable] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dstats.f -o dstats.o stat.h:8:19:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't0' declared at (1) [-Wunused-variable] stat.h:8:23:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't1' declared at (1) [-Wunused-variable] stat.h:8:27:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't2' declared at (1) [-Wunused-variable] stat.h:8:31:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't3' declared at (1) [-Wunused-variable] stat.h:8:35:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't4' declared at (1) [-Wunused-variable] stat.h:8:39:
8 | real t0, t1, t2, t3, t4, t5
| 1Warning: Unused variable 't5' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c dstqrb.f -o dstqrb.o gfortran -fPIC -Wall -g -O2 -c dvout.f -o dvout.o dvout.f:32:26:
32 | INTEGER I, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'i' declared at (1) [-Wunused-variable] dvout.f:18:49:
18 | SUBROUTINE IGRAPHDVOUT( LOUT, N, SX, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'idigit' at (1) [-Wunused-dummy-argument] dvout.f:18:55:
18 | SUBROUTINE IGRAPHDVOUT( LOUT, N, SX, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'ifmt' at (1) [-Wunused-dummy-argument] dvout.f:32:30:
32 | INTEGER I, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'k1' declared at (1) [-Wunused-variable] dvout.f:32:34:
32 | INTEGER I, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'k2' declared at (1) [-Wunused-variable] dvout.f:31:29:
31 | CHARACTER*80 LINE | 1 Warning: Unused variable 'line' declared at (1) [-Wunused-variable] dvout.f:32:39:
32 | INTEGER I, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'lll' declared at (1) [-Wunused-variable] dvout.f:18:34:
18 | SUBROUTINE IGRAPHDVOUT( LOUT, N, SX, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'lout' at (1) [-Wunused-dummy-argument] dvout.f:18:37:
18 | SUBROUTINE IGRAPHDVOUT( LOUT, N, SX, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'n' at (1) [-Wunused-dummy-argument] dvout.f:32:47:
32 | INTEGER I, K1, K2, LLL, NDIGIT | 1 Warning: Unused variable 'ndigit' declared at (1) [-Wunused-variable] dvout.f:18:41:
18 | SUBROUTINE IGRAPHDVOUT( LOUT, N, SX, IDIGIT, IFMT ) | 1 Warning: Unused dummy argument 'sx' at (1) [-Wunused-dummy-argument] gfortran -fPIC -Wall -g -O2 -c ivout.f -o ivout.o ivout.f:25:18:
25 | INTEGER I, NDIGIT, K1, K2, LLL | 1 Warning: Unused variable 'i' declared at (1) [-Wunused-variable] ivout.f:18:49:
18 | SUBROUTINE IGRAPHIVOUT (LOUT, N, IX, IDIGIT, IFMT) | 1 Warning: Unused dummy argument 'idigit' at (1) [-Wunused-dummy-argument] ivout.f:18:55:
18 | SUBROUTINE IGRAPHIVOUT (LOUT, N, IX, IDIGIT, IFMT) | 1 Warning: Unused dummy argument 'ifmt' at (1) [-Wunused-dummy-argument] ivout.f:18:41:
18 | SUBROUTINE IGRAPHIVOUT (LOUT, N, IX, IDIGIT, IFMT) | 1 Warning: Unused dummy argument 'ix' at (1) [-Wunused-dummy-argument] ivout.f:25:30:
25 | INTEGER I, NDIGIT, K1, K2, LLL | 1 Warning: Unused variable 'k1' declared at (1) [-Wunused-variable] ivout.f:25:34:
25 | INTEGER I, NDIGIT, K1, K2, LLL | 1 Warning: Unused variable 'k2' declared at (1) [-Wunused-variable] ivout.f:26:23:
26 | CHARACTER*80 LINE | 1 Warning: Unused variable 'line' declared at (1) [-Wunused-variable] ivout.f:25:39:
25 | INTEGER I, NDIGIT, K1, K2, LLL | 1 Warning: Unused variable 'lll' declared at (1) [-Wunused-variable] ivout.f:18:34:
18 | SUBROUTINE IGRAPHIVOUT (LOUT, N, IX, IDIGIT, IFMT) | 1 Warning: Unused dummy argument 'lout' at (1) [-Wunused-dummy-argument] ivout.f:18:37:
18 | SUBROUTINE IGRAPHIVOUT (LOUT, N, IX, IDIGIT, IFMT) | 1 Warning: Unused dummy argument 'n' at (1) [-Wunused-dummy-argument] ivout.f:25:26:
25 | INTEGER I, NDIGIT, K1, K2, LLL | 1 Warning: Unused variable 'ndigit' declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c second.f -o second.o gfortran -fPIC -Wall -g -O2 -c wrap.f -o wrap.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Color.cpp -o simpleraytracer/Color.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Light.cpp -o simpleraytracer/Light.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Point.cpp -o simpleraytracer/Point.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/RIgraphRay.cpp -o simpleraytracer/RIgraphRay.o simpleraytracer/RIgraphRay.cpp:49:11: warning: unused variable 'svgcolor' [-Wunused-variable] double *svgcolor=REAL(bgcolor); ^ 1 warning generated. clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Ray.cpp -o simpleraytracer/Ray.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/RayTracer.cpp -o simpleraytracer/RayTracer.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/RayVector.cpp -o simpleraytracer/RayVector.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Shape.cpp -o simpleraytracer/Shape.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Sphere.cpp -o simpleraytracer/Sphere.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/Triangle.cpp -o simpleraytracer/Triangle.o clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -DIGRAPH_THREAD_LOCAL=// -DNDEBUG -Iprpack -I. -Iinclude -DPRPACK_IGRAPH_SUPPORT -fPIC -Wall -g -O2 -c simpleraytracer/unit_limiter.cpp -o simpleraytracer/unit_limiter.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/R.c -o uuid/R.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/clear.c -o uuid/clear.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/compare.c -o uuid/compare.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/copy.c -o uuid/copy.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/gen_uuid.c -o uuid/gen_uuid.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/isnull.c -o uuid/isnull.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/pack.c -o uuid/pack.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/parse.c -o uuid/parse.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/unpack.c -o uuid/unpack.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c uuid/unparse.c -o uuid/unparse.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c rinterface.c -o rinterface.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c rinterface_extra.c -o rinterface_extra.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -DUSING_R -I. -Iinclude -Ics -Iplfit -ICHOLMOD/Include -IAMD/Include -ICOLAMD/Include -ISuiteSparse_config -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -Wall -g -O2 -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/libxml2 -DNDEBUG -DNPARTITION -DNTIMER -DNCAMD -DNPRINT -DPACKAGE_VERSION=\"1.2.5\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=// -fPIC -Wall -g -O2 -c lazyeval.c -o lazyeval.o clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o igraph.so AMD/Source/amd.o AMD/Source/amd_1.o AMD/Source/amd_2.o AMD/Source/amd_aat.o AMD/Source/amd_control.o AMD/Source/amd_defaults.o AMD/Source/amd_dump.o AMD/Source/amd_global.o AMD/Source/amd_info.o AMD/Source/amd_order.o AMD/Source/amd_post_tree.o AMD/Source/amd_postorder.o AMD/Source/amd_preprocess.o AMD/Source/amd_valid.o AMD/Source/amdbar.o CHOLMOD/Check/cholmod_check.o CHOLMOD/Check/cholmod_read.o CHOLMOD/Check/cholmod_write.o CHOLMOD/Cholesky/cholmod_amd.o CHOLMOD/Cholesky/cholmod_analyze.o CHOLMOD/Cholesky/cholmod_colamd.o CHOLMOD/Cholesky/cholmod_etree.o CHOLMOD/Cholesky/cholmod_factorize.o CHOLMOD/Cholesky/cholmod_postorder.o CHOLMOD/Cholesky/cholmod_rcond.o CHOLMOD/Cholesky/cholmod_resymbol.o CHOLMOD/Cholesky/cholmod_rowcolcounts.o CHOLMOD/Cholesky/cholmod_rowfac.o CHOLMOD/Cholesky/cholmod_solve.o CHOLMOD/Cholesky/cholmod_spsolve.o CHOLMOD/Core/cholmod_aat.o CHOLMOD/Core/cholmod_add.o CHOLMOD/Core/cholmod_band.o CHOLMOD/Core/cholmod_change_factor.o CHOLMOD/Core/cholmod_common.o CHOLMOD/Core/cholmod_complex.o CHOLMOD/Core/cholmod_copy.o CHOLMOD/Core/cholmod_dense.o CHOLMOD/Core/cholmod_error.o CHOLMOD/Core/cholmod_factor.o CHOLMOD/Core/cholmod_memory.o CHOLMOD/Core/cholmod_sparse.o CHOLMOD/Core/cholmod_transpose.o CHOLMOD/Core/cholmod_triplet.o CHOLMOD/Core/cholmod_version.o CHOLMOD/MatrixOps/cholmod_drop.o CHOLMOD/MatrixOps/cholmod_horzcat.o CHOLMOD/MatrixOps/cholmod_norm.o CHOLMOD/MatrixOps/cholmod_scale.o CHOLMOD/MatrixOps/cholmod_sdmult.o CHOLMOD/MatrixOps/cholmod_ssmult.o CHOLMOD/MatrixOps/cholmod_submatrix.o CHOLMOD/MatrixOps/cholmod_symmetry.o CHOLMOD/MatrixOps/cholmod_vertcat.o CHOLMOD/Modify/cholmod_rowadd.o CHOLMOD/Modify/cholmod_rowdel.o CHOLMOD/Modify/cholmod_updown.o CHOLMOD/Partition/cholmod_camd.o CHOLMOD/Partition/cholmod_ccolamd.o CHOLMOD/Partition/cholmod_csymamd.o CHOLMOD/Partition/cholmod_metis.o CHOLMOD/Partition/cholmod_nesdis.o CHOLMOD/Supernodal/cholmod_super_numeric.o CHOLMOD/Supernodal/cholmod_super_solve.o CHOLMOD/Supernodal/cholmod_super_symbolic.o COLAMD/Source/colamd.o COLAMD/Source/colamd_global.o DensityGrid.o DensityGrid_3d.o NetDataTypes.o NetRoutines.o SuiteSparse_config/SuiteSparse_config.o adjlist.o arpack.o array.o atlas.o attributes.o basic_query.o bfgs.o bigint.o bignum.o bipartite.o blas.o bliss.o bliss/bliss_heap.o bliss/defs.o bliss/graph.o bliss/orbit.o bliss/partition.o bliss/uintseqhash.o bliss/utils.o cattributes.o centrality.o cliquer/cliquer.o cliquer/cliquer_graph.o cliquer/reorder.o cliques.o clustertool.o cocitation.o cohesive_blocks.o coloring.o community.o complex.o components.o conversion.o cores.o cs/cs_add.o cs/cs_amd.o cs/cs_chol.o cs/cs_cholsol.o cs/cs_compress.o cs/cs_counts.o cs/cs_cumsum.o cs/cs_dfs.o cs/cs_dmperm.o cs/cs_droptol.o cs/cs_dropzeros.o cs/cs_dupl.o cs/cs_entry.o cs/cs_ereach.o cs/cs_etree.o cs/cs_fkeep.o cs/cs_gaxpy.o cs/cs_happly.o cs/cs_house.o cs/cs_ipvec.o cs/cs_leaf.o cs/cs_load.o cs/cs_lsolve.o cs/cs_ltsolve.o cs/cs_lu.o cs/cs_lusol.o cs/cs_malloc.o cs/cs_maxtrans.o cs/cs_multiply.o cs/cs_norm.o cs/cs_permute.o cs/cs_pinv.o cs/cs_post.o cs/cs_print.o cs/cs_pvec.o cs/cs_qr.o cs/cs_qrsol.o cs/cs_randperm.o cs/cs_reach.o cs/cs_scatter.o cs/cs_scc.o cs/cs_schol.o cs/cs_spsolve.o cs/cs_sqr.o cs/cs_symperm.o cs/cs_tdfs.o cs/cs_transpose.o cs/cs_updown.o cs/cs_usolve.o cs/cs_util.o cs/cs_utsolve.o decomposition.o distances.o dotproduct.o dqueue.o drl_graph.o drl_graph_3d.o drl_layout.o drl_layout_3d.o drl_parse.o eigen.o embedding.o fast_community.o feedback_arc_set.o flow.o foreign-dl-lexer.o foreign-dl-parser.o foreign-gml-lexer.o foreign-gml-parser.o foreign-graphml.o foreign-lgl-lexer.o foreign-lgl-parser.o foreign-ncol-lexer.o foreign-ncol-parser.o foreign-pajek-lexer.o foreign-pajek-parser.o foreign.o forestfire.o fortran_intrinsics.o games.o gengraph_box_list.o gengraph_degree_sequence.o gengraph_graph_molloy_hash.o gengraph_graph_molloy_optimized.o gengraph_mr-connected.o gengraph_powerlaw.o gengraph_random.o glet.o glpk_support.o gml_tree.o hacks.o heap.o igraph_buckets.o igraph_cliquer.o igraph_error.o igraph_estack.o igraph_fixed_vectorlist.o igraph_grid.o igraph_hashtable.o igraph_heap.o igraph_hrg.o igraph_hrg_types.o igraph_marked_queue.o igraph_psumtree.o igraph_set.o igraph_stack.o igraph_strvector.o igraph_trie.o infomap.o infomap_FlowGraph.o infomap_Greedy.o infomap_Node.o interrupt.o iterators.o lad.o lapack.o layout.o layout_dh.o layout_fr.o layout_gem.o layout_kk.o lsap.o matching.o math.o matrix.o maximal_cliques.o memory.o microscopic_update.o mixing.o motifs.o operators.o optimal_modularity.o other.o paths.o plfit/error.o plfit/gss.o plfit/kolmogorov.o plfit/lbfgs.o plfit/options.o plfit/plfit.o plfit/zeta.o pottsmodel_2.o progress.o prpack.o prpack/prpack_base_graph.o prpack/prpack_igraph_graph.o prpack/prpack_preprocessed_ge_graph.o prpack/prpack_preprocessed_gs_graph.o prpack/prpack_preprocessed_scc_graph.o prpack/prpack_preprocessed_schur_graph.o prpack/prpack_result.o prpack/prpack_solver.o prpack/prpack_utils.o qsort.o qsort_r.o random.o random_walk.o sbm.o scan.o scg.o scg_approximate_methods.o scg_exact_scg.o scg_kmeans.o scg_optimal_method.o scg_utils.o separators.o sir.o spanning_trees.o sparsemat.o spectral_properties.o spmatrix.o st-cuts.o statusbar.o structural_properties.o structure_generators.o sugiyama.o topology.o triangles.o type_indexededgelist.o types.o vector.o vector_ptr.o version.o visitors.o walktrap.o walktrap_communities.o walktrap_graph.o walktrap_heap.o zeroin.o dgetv0.o dlaqrb.o dmout.o dnaitr.o dnapps.o dnaup2.o dnaupd.o dnconv.o dneigh.o dneupd.o dngets.o dsaitr.o dsapps.o dsaup2.o dsaupd.o dsconv.o dseigt.o dsesrt.o dseupd.o dsgets.o dsortc.o dsortr.o dstatn.o dstats.o dstqrb.o dvout.o ivout.o second.o wrap.o simpleraytracer/Color.o simpleraytracer/Light.o simpleraytracer/Point.o simpleraytracer/RIgraphRay.o simpleraytracer/Ray.o simpleraytracer/RayTracer.o simpleraytracer/RayVector.o simpleraytracer/Shape.o simpleraytracer/Sphere.o simpleraytracer/Triangle.o simpleraytracer/unit_limiter.o uuid/R.o uuid/clear.o uuid/compare.o uuid/copy.o uuid/gen_uuid.o uuid/isnull.o uuid/pack.o uuid/parse.o uuid/unpack.o uuid/unparse.o rinterface.o rinterface_extra.o lazyeval.o -L/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/lib -lxml2 -lz -lpthread -licucore -lm -lgmp -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0' ld: warning: directory not found for option '-L/usr/local/gfortran/lib' ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0' ld: warning: directory not found for option '-L/usr/local/gfortran/lib' ld: library not found for -lgfortran clang: error: linker command failed with exit code 1 (use -v to see invocation) make: *** [igraph.so] Error 1 ERROR: compilation failed for package ‘igraph’
installing source package ‘robustbase’ ...
package ‘robustbase’ successfully unpacked and MD5 sums checked
using staged installation
* libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c R-rng4ftn.c -o R-rng4ftn.o
gfortran -fPIC -Wall -g -O2 -c eigen.f -o eigen.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c init.c -o init.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c lmrob.c -o lmrob.o
lmrob.c:530:5: warning: variable 'equed' is uninitialized when used here [-Wuninitialized]
SETUP_EQUILIBRATION(n, *m, x, 0);
^~~~~~~~~
lmrob.c:307:18: note: expanded from macro 'SETUP_EQUILIBRATION'
rowequ = equed == 'B' || equed == 'R'; \
^~~~~
lmrob.c:530:5: note: variable 'equed' is declared here
lmrob.c:304:9: note: expanded from macro 'SETUP_EQUILIBRATION'
char equed; \
^
lmrob.c:1855:5: warning: variable 'equed' is uninitialized when used here [-Wuninitialized]
SETUP_SUBSAMPLE(n, p, X, 1);
^~~~~~~
lmrob.c:321:5: note: expanded from macro 'SETUP_SUBSAMPLE'
SETUP_EQUILIBRATION(n, p, X, _largen);
^~~~~~~~~~~~~
lmrob.c:307:18: note: expanded from macro 'SETUP_EQUILIBRATION'
rowequ = equed == 'B' || equed == 'R'; \
^~~~~
lmrob.c:1855:5: note: variable 'equed' is declared here
lmrob.c:321:5: note: expanded from macro 'SETUP_SUBSAMPLE'
SETUP_EQUILIBRATION(n, p, X, _largen);
^
lmrob.c:304:9: note: expanded from macro 'SETUP_EQUILIBRATION'
char equed; \
^
lmrob.c:1954:5: warning: variable 'equed' is uninitialized when used here [-Wuninitialized]
SETUP_SUBSAMPLE(n, p, X, 0);
^~~~~~~
lmrob.c:321:5: note: expanded from macro 'SETUP_SUBSAMPLE'
SETUP_EQUILIBRATION(n, p, X, _largen);
^~~~~~~~~~~~~
lmrob.c:307:18: note: expanded from macro 'SETUP_EQUILIBRATION'
rowequ = equed == 'B' || equed == 'R'; \
^~~~~
lmrob.c:1954:5: note: variable 'equed' is declared here
lmrob.c:321:5: note: expanded from macro 'SETUP_SUBSAMPLE'
SETUP_EQUILIBRATION(n, p, X, _largen);
^
lmrob.c:304:9: note: expanded from macro 'SETUP_EQUILIBRATION'
char equed; \
^
lmrob.c:2203:5: warning: variable 'equed' is uninitialized when used here [-Wuninitialized]
SETUP_SUBSAMPLE(n, p2, x2, 0);
^~~~~~~~~
lmrob.c:321:5: note: expanded from macro 'SETUP_SUBSAMPLE'
SETUP_EQUILIBRATION(n, p, X, _largen);
^~~~~~~~~~~~~
lmrob.c:307:18: note: expanded from macro 'SETUP_EQUILIBRATION'
rowequ = equed == 'B' || equed == 'R'; \
^~~~~
lmrob.c:2203:5: note: variable 'equed' is declared here
lmrob.c:321:5: note: expanded from macro 'SETUP_SUBSAMPLE'
SETUP_EQUILIBRATION(n, p, X, _largen);
^
lmrob.c:304:9: note: expanded from macro 'SETUP_EQUILIBRATION'
char equed; \
^
4 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c mc.c -o mc.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c monitor.c -o monitor.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c qn_sn.c -o qn_sn.o
gfortran -fPIC -Wall -g -O2 -c rf-common.f -o rf-common.o
gfortran -fPIC -Wall -g -O2 -c rffastmcd.f -o rffastmcd.o
rffastmcd.f:1036:0:
| 1036 | if(final .or. .not.part .or. |
|---|
Warning: 'nmaxi' may be used uninitialized in this function [-Wmaybe-uninitialized] gfortran -fPIC -Wall -g -O2 -c rfltsreg.f -o rfltsreg.o gfortran -fPIC -Wall -g -O2 -c rllarsbi.f -o rllarsbi.o rllarsbi.f:72:0:
| 72 | INTEGER OUT |
|---|
Warning: 'out' may be used uninitialized in this function [-Wmaybe-uninitialized] clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c rob-utils.c -o rob-utils.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c rowMedians.c -o rowMedians.o clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c wgt_himed.c -o wgt_himed.o clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o robustbase.so R-rng4ftn.o eigen.o init.o lmrob.o mc.o monitor.o qn_sn.o rf-common.o rffastmcd.o rfltsreg.o rllarsbi.o rob-utils.o rowMedians.o wgt_himed.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0' ld: warning: directory not found for option '-L/usr/local/gfortran/lib' ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0' ld: warning: directory not found for option '-L/usr/local/gfortran/lib' ld: library not found for -lgfortran clang: error: linker command failed with exit code 1 (use -v to see invocation) make: *** [robustbase.so] Error 1 ERROR: compilation failed for package ‘robustbase’
The downloaded source packages are in ‘/private/var/folders/3f/01z0l6s95r9dbjxdbh39c9m00000gn/T/RtmpR6Lq8L/downloaded_packages’ Warning messages: 1: package ‘scDataviz’ is not available (for R version 3.6.2) 2: In install.packages(update[instlib == l, "Package"], l, repos = repos, : installation of package ‘igraph’ had non-zero exit status 3: In install.packages(update[instlib == l, "Package"], l, repos = repos, : installation of package ‘rJava’ had non-zero exit status 4: In install.packages(update[instlib == l, "Package"], l, repos = repos, : installation of package ‘robustbase’ had non-zero exit status
kevinblighe
commented
4 years ago hmm... ouch! - that is a lot of error! Can you try to install those packages first? - i.e., ‘igraph’, ‘rJava’, ‘robustbase'
Note that these types of issues would usually be resolved once the package is accepted and in Bioconductor.
kevinblighe
commented
4 years ago Hello again. Could you possibly now try the development version? - it should function this time.
devtools::install_github('kevinblighe/scDataviz')
When I load scDataviz package (Seurat as well), Rstudio will be crash down with fatal error msg, same situations happen in R console. Due to the automatic crash down and quit out, I cannot have any error info to provide here. Please help! Thanks.