> On 22 Aug 2018, at 10:04, Patrick Sanan <patrick.sa...@gmail.com> wrote: > > This happens fairly frequently when I try to switch/update branches of PETSc > (here invoked by building my own code, but the error message looks the same > with "make check"): > > $ make > /Users/patrick/petsc-stagbl/arch-darwin-stagbl-double-extra-debug/bin/mpicc > -o runme.o -c -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas > -fstack-protector -fvisibility=hidden -g3 > -I/Users/patrick/petsc-stagbl/include > -I/Users/patrick/petsc-stagbl/arch-darwin-stagbl-double-extra-debug/include > -I/opt/X11/include `pwd`/runme.c > /Users/patrick/petsc-stagbl/arch-darwin-stagbl-double-extra-debug/bin/mpicc > -Wl,-multiply_defined,suppress -Wl,-multiply_defined -Wl,suppress > -Wl,-commons,use_dylibs -Wl,-search_paths_first -Wl,-no_compact_unwind > -Wl,-multiply_defined,suppress -Wl,-multiply_defined -Wl,suppress > -Wl,-commons,use_dylibs -Wl,-search_paths_first -Wl,-no_compact_unwind > -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas > -fstack-protector -fvisibility=hidden -g3 -o runme runme.o > -Wl,-rpath,/Users/patrick/petsc-stagbl/arch-darwin-stagbl-double-extra-debug/lib > -L/Users/patrick/petsc-stagbl/arch-darwin-stagbl-double-extra-debug/lib > -Wl,-rpath,/Users/patrick/petsc-stagbl/arch-darwin-stagbl-double-extra-debug/lib > -Wl,-rpath,/opt/X11/lib -L/opt/X11/lib > -Wl,-rpath,/opt/local/lib/gcc7/gcc/x86_64-apple-darwin17/7.3.0 > -L/opt/local/lib/gcc7/gcc/x86_64-apple-darwin17/7.3.0 > -Wl,-rpath,/opt/local/lib/gcc7 -L/opt/local/lib/gcc7 -lpetsc -lcmumps > -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lscalapack -lumfpack -lklu > -lcholmod -lbtf -lccolamd -lcolamd -lcamd -lamd -lsuitesparseconfig > -lsuperlu_dist -lHYPRE -lsundials_cvode -lsundials_nvecserial > -lsundials_nvecparallel -llapack -lblas -lparmetis -lmetis -lX11 -lyaml > -lstdc++ -ldl -lmpifort -lmpi -lpmpi -lgfortran -lquadmath -lm -lstdc++ -ldl > Undefined symbols for architecture x86_64: > "_kspfgmresmodifypcksp_", referenced from: > import-atom in libpetsc.dylib > "_kspfgmresmodifypcnochange_", referenced from: > import-atom in libpetsc.dylib > ld: symbol(s) not found for architecture x86_64 > collect2: error: ld returned 1 exit status > > I don't know why this is, exactly. Maybe it's more obvious from the > perspective of someone more expert on the Fortran interface, and we could > save some time reconfiguring (if these two symbols are really the only issue). > > For these two symbols, the corresponding functions are declared but not > defined in > > src/ksp/ksp/impls/gmres/fgmres/ftn-custom/zmodpcff.c > > "make deletefortranstubs" by itself doesn't seem to solve the problem. My > sledgehammer workaround is to do everything short of blowing away my entire > $PETSC_ARCH directory: > > make deletefortranstubs && make allclean && make reconfigure && make && > make check
Does it work to do: make allfortranstubs && make In these cases? I used to have to do this, until eventually I gave up and built without the fortran interfaces (may not be an option). I tried to unpick the make rules so that if you built with fortran interfaces, the generation of individual interface would depend on the relevant C files, but gave up, because I couldn't see what was going on. Cheers, Lawrence
