[petsc-dev] problems with shared libraries and pragmatic.py

Thu Oct 15 16:04:13 CDT 2015

Barry Smith <bsmith at mcs.anl.gov> writes:

>> On Oct 15, 2015, at 3:11 PM, Jed Brown <jed at jedbrown.org> wrote:
>> 
>> Barry Smith <bsmith at mcs.anl.gov> writes:
>> 
>>>  Matt and Jed,
>>> 
>>>   For some reason the make gnumake doesn't handle libpragmatic problem with shared libraries on my mac I get 
>>> 
>>> $ otool -L arch-pkgs/lib/libpetsc.dylib 
>>> arch-pkgs/lib/libpetsc.dylib:
>>> 	/Users/barrysmith/Src/PETSc/arch-pkgs/lib/libpetsc.3.06.dylib (compatibility version 3.6.0, current version 3.6.2)
>>> 	/Users/barrysmith/Src/PETSc/arch-pkgs/lib/libmpicxx.12.dylib (compatibility version 13.0.0, current version 13.4.0)
>>> 	/usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 120.0.0)
>>> 	/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib (compatibility version 1.0.0, current version 1.0.0)
>>> 	/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib (compatibility version 1.0.0, current version 1.0.0)
>>> 	/Users/barrysmith/Src/PETSc/arch-pkgs/lib/libparmetis.dylib (compatibility version 0.0.0, current version 0.0.0)
>>> 	libpragmatic.dylib (compatibility version 0.0.0, current version 0.0.0)
>>> 	/Users/barrysmith/Src/PETSc/arch-pkgs/lib/libmetis.dylib (compatibility version 0.0.0, current version 0.0.0)
>>> 	/opt/X11/lib/libX11.6.dylib (compatibility version 10.0.0, current version 10.0.0)
>>> 	/Users/barrysmith/Src/PETSc/arch-pkgs/lib/libnetcdf_c++4.1.dylib (compatibility version 2.0.0, current version 2.2.0)
>>> 
>>> note it doesn't put in the full path for libpragmatic.dylib   I cannot see what is different with any other package whose shared library is handled correctly.
>> 
>> What is lib pragmatic?
>
>    I have no idea, but it is in PETSc so needs to be tested or deleted.
>
>>  Can you include the verbose link line for
>> libpetsc.dylib?  (Delete it and "make V=1".)
>
> $ make V=1 gnumake
> Building PETSc using GNU Make with 7 build threads
> ==========================================
> make[1]: Entering directory `/Users/barrysmith/Src/PETSc'
> /Users/barrysmith/Src/PETSc/arch-pkgs/bin/mpicc -Wl,-multiply_defined,suppress -Wl,-multiply_defined -Wl,suppress -Wl,-commons,use_dylibs -Wl,-search_paths_first -Wl,-multiply_defined,suppress -Wl,-multiply_defined -Wl,suppress -Wl,-commons,use_dylibs -Wl,-search_paths_first    -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -Qunused-arguments -g3  -dynamiclib -install_name /Users/barrysmith/Src/PETSc/arch-pkgs/lib/libpetsc.3.06.dylib -compatibility_version 3.06 -current_version 3.06.2 -single_module -multiply_defined suppress -undefined dynamic_lookup -o /Users/barrysmith/Src/PETSc/arch-pkgs/lib/libpetsc.3.06.2.dylib arch-pkgs/obj/src/sys/info/verboseinfo.o arch-pkgs/obj/src/sys/info/ftn-auto/verboseinfof.o arch-pkgs/obj/src/sys/info/ftn-custom/zverboseinfof.o arch-pkgs/obj/src/sys/ftn-custom/zsys.o arch-pkgs/obj/src/sys/ftn-custom/zutils.o arch-pkgs/obj/src/sys/logging/plog.o arch-pkgs/obj/src/sys/logging/xmllogevent.o arch-pkgs/obj/src/sys/logging/xmlviewer.o 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arch-pkgs/obj/src/vec/is/is/interface/index.o arch-pkgs/obj/src/vec/is/is/interface/isregall.o arch-pkgs/obj/src/vec/is/is/interface/isreg.o arch-pkgs/obj/src/vec/is/is/interface/ftn-auto/indexf.o arch-pkgs/obj/src/vec/is/is/interface/ftn-auto/isregf.o arch-pkgs/obj/src/vec/is/is/interface/f90-custom/zindexf90.o arch-pkgs/obj/src/vec/is/is/interface/ftn-custom/zindexf.o arch-pkgs/obj/src/vec/is/is/utils/iscomp.o arch-pkgs/obj/src/vec/is/is/utils/iscoloring.o arch-pkgs/obj/src/vec/is/is/utils/isdiff.o arch-pkgs/obj/src/vec/is/is/utils/isblock.o arch-pkgs/obj/src/vec/is/is/utils/ftn-auto/isblockf.o arch-pkgs/obj/src/vec/is/is/utils/ftn-auto/iscoloringf.o arch-pkgs/obj/src/vec/is/is/utils/ftn-auto/iscompf.o arch-pkgs/obj/src/vec/is/is/utils/ftn-auto/isdifff.o arch-pkgs/obj/src/vec/is/is/utils/f90-custom/ziscoloringf90.o arch-pkgs/obj/src/vec/is/is/utils/ftn-custom/ziscoloringf.o arch-pkgs/obj/src/vec/is/ao/impls/memscalable/aomemscalable.o arch-pkgs/obj/src/vec/is/ao/impls/mapping/aomapping.o arch-pkgs/obj/src/vec/is/ao/impls/mapping/ftn-auto/aomappingf.o arch-pkgs/obj/src/vec/is/ao/impls/mapping/ftn-custom/zaomappingf.o arch-pkgs/obj/src/vec/is/ao/impls/basic/aobasic.o arch-pkgs/obj/src/vec/is/ao/impls/basic/ftn-custom/zaobasicf.o arch-pkgs/obj/src/vec/is/ao/interface/ao.o arch-pkgs/obj/src/vec/is/ao/interface/dlregisdm.o arch-pkgs/obj/src/vec/is/ao/interface/aoreg.o arch-pkgs/obj/src/vec/is/ao/interface/aoregall.o arch-pkgs/obj/src/vec/is/ao/interface/ftn-auto/aof.o arch-pkgs/obj/src/vec/is/ao/interface/ftn-custom/zaof.o arch-pkgs/obj/src/vec/is/sf/impls/window/sfwindow.o arch-pkgs/obj/src/vec/is/sf/impls/basic/sfbasic.o arch-pkgs/obj/src/vec/is/sf/interface/dlregissf.o arch-pkgs/obj/src/vec/is/sf/interface/sfregi.o arch-pkgs/obj/src/vec/is/sf/interface/sf.o arch-pkgs/obj/src/vec/is/sf/interface/sftype.o arch-pkgs/obj/src/vec/is/sf/interface/ftn-auto/sff.o arch-pkgs/obj/src/vec/is/sf/interface/ftn-custom/zsf.o arch-pkgs/obj/src/vec/pf/impls/constant/const.o arch-pkgs/obj/src/vec/pf/impls/string/cstring.o arch-pkgs/obj/src/vec/pf/interface/pf.o arch-pkgs/obj/src/vec/pf/interface/pfall.o arch-pkgs/obj/src/vec/pf/interface/ftn-auto/pff.o arch-pkgs/obj/src/vec/vec/impls/shared/shvec.o arch-pkgs/obj/src/vec/vec/impls/shared/ftn-auto/shvecf.o arch-pkgs/obj/src/vec/vec/impls/nest/vecnest.o arch-pkgs/obj/src/vec/vec/impls/nest/ftn-auto/vecnestf.o arch-pkgs/obj/src/vec/vec/impls/nest/ftn-custom/zvecnestf.o arch-pkgs/obj/src/vec/vec/impls/seq/bvec2.o arch-pkgs/obj/src/vec/vec/impls/seq/bvec1.o arch-pkgs/obj/src/vec/vec/impls/seq/dvec2.o arch-pkgs/obj/src/vec/vec/impls/seq/vseqcr.o arch-pkgs/obj/src/vec/vec/impls/seq/bvec3.o arch-pkgs/obj/src/vec/vec/impls/seq/ftn-auto/vseqcrf.o arch-pkgs/obj/src/vec/vec/impls/seq/ftn-custom/zbvec2f.o arch-pkgs/obj/src/vec/vec/impls/seq/ftn-custom/zvsectionf.o arch-pkgs/obj/src/vec/vec/impls/mpi/pbvec.o arch-pkgs/obj/src/vec/vec/impls/mpi/pdvec.o arch-pkgs/obj/src/vec/vec/impls/mpi/pvec2.o arch-pkgs/obj/src/vec/vec/impls/mpi/vmpicr.o arch-pkgs/obj/src/vec/vec/impls/mpi/commonmpvec.o arch-pkgs/obj/src/vec/vec/impls/mpi/ftn-auto/commonmpvecf.o arch-pkgs/obj/src/vec/vec/impls/mpi/ftn-auto/pbvecf.o arch-pkgs/obj/src/vec/vec/impls/mpi/ftn-auto/vmpicrf.o arch-pkgs/obj/src/vec/vec/impls/mpi/ftn-custom/zpbvecf.o arch-pkgs/obj/src/vec/vec/interface/vector.o arch-pkgs/obj/src/vec/vec/interface/veccreate.o arch-pkgs/obj/src/vec/vec/interface/vecreg.o arch-pkgs/obj/src/vec/vec/interface/vecregall.o arch-pkgs/obj/src/vec/vec/interface/dlregisvec.o arch-pkgs/obj/src/vec/vec/interface/rvector.o arch-pkgs/obj/src/vec/vec/interface/ftn-auto/rvectorf.o arch-pkgs/obj/src/vec/vec/interface/ftn-auto/veccreatef.o arch-pkgs/obj/src/vec/vec/interface/ftn-auto/vectorf.o arch-pkgs/obj/src/vec/vec/interface/f90-custom/zvectorf90.o arch-pkgs/obj/src/vec/vec/interface/ftn-custom/zvecregf.o arch-pkgs/obj/src/vec/vec/interface/ftn-custom/zvectorf.o arch-pkgs/obj/src/vec/vec/utils/vinv.o arch-pkgs/obj/src/vec/vec/utils/vscat.o arch-pkgs/obj/src/vec/vec/utils/vpscat.o arch-pkgs/obj/src/vec/vec/utils/cmesh.o arch-pkgs/obj/src/vec/vec/utils/vecio.o arch-pkgs/obj/src/vec/vec/utils/comb.o arch-pkgs/obj/src/vec/vec/utils/vecstash.o arch-pkgs/obj/src/vec/vec/utils/vecmpitoseq.o arch-pkgs/obj/src/vec/vec/utils/vecs.o arch-pkgs/obj/src/vec/vec/utils/vsection.o arch-pkgs/obj/src/vec/vec/utils/projection.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/cmeshf.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/combf.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/projectionf.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/veciof.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/vecmpitoseqf.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/vinvf.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/vpscatf.o arch-pkgs/obj/src/vec/vec/utils/ftn-auto/vscatf.o arch-pkgs/obj/src/vec/vec/utils/f90-custom/zvsectionf90.o arch-pkgs/obj/src/vec/vec/utils/ftn-custom/zvscatf.o arch-pkgs/obj/src/vec/f90-mod/petscvecmod.o arch-pkgs/obj/src/mat/ftn-custom/zmat.o arch-pkgs/obj/src/mat/color/impls/minpack/color.o arch-pkgs/obj/src/mat/color/impls/minpack/degr.o arch-pkgs/obj/src/mat/color/impls/minpack/dsm.o arch-pkgs/obj/src/mat/color/impls/minpack/ido.o arch-pkgs/obj/src/mat/color/impls/minpack/numsrt.o arch-pkgs/obj/src/mat/color/impls/minpack/seq.o arch-pkgs/obj/src/mat/color/impls/minpack/setr.o arch-pkgs/obj/src/mat/color/impls/minpack/slo.o arch-pkgs/obj/src/mat/color/impls/natural/natural.o arch-pkgs/obj/src/mat/color/impls/jp/jp.o arch-pkgs/obj/src/mat/color/impls/power/power.o arch-pkgs/obj/src/mat/color/impls/greedy/greedy.o arch-pkgs/obj/src/mat/color/interface/matcoloring.o arch-pkgs/obj/src/mat/color/interface/matcoloringregi.o arch-pkgs/obj/src/mat/color/interface/ftn-auto/matcoloringf.o arch-pkgs/obj/src/mat/color/interface/ftn-custom/zmatcoloringf.o arch-pkgs/obj/src/mat/color/utils/bipartite.o arch-pkgs/obj/src/mat/color/utils/valid.o arch-pkgs/obj/src/mat/color/utils/weights.o arch-pkgs/obj/src/mat/partition/partition.o arch-pkgs/obj/src/mat/partition/spartition.o arch-pkgs/obj/src/mat/partition/ftn-auto/partitionf.o arch-pkgs/obj/src/mat/partition/impls/pmetis/pmetis.o arch-pkgs/obj/src/mat/partition/impls/pmetis/ftn-auto/pmetisf.o arch-pkgs/obj/src/mat/partition/impls/hierarchical/hierarchical.o arch-pkgs/obj/src/mat/partition/ftn-custom/zpartitionf.o arch-pkgs/obj/src/mat/matfd/fdmatrix.o arch-pkgs/obj/src/mat/matfd/ftn-auto/fdmatrixf.o arch-pkgs/obj/src/mat/matfd/ftn-custom/zfdmatrixf.o arch-pkgs/obj/src/mat/coarsen/coarsen.o arch-pkgs/obj/src/mat/coarsen/scoarsen.o arch-pkgs/obj/src/mat/coarsen/ftn-auto/coarsenf.o arch-pkgs/obj/src/mat/coarsen/impls/hem/hem.o arch-pkgs/obj/src/mat/coarsen/impls/mis/mis.o arch-pkgs/obj/src/mat/interface/matrix.o arch-pkgs/obj/src/mat/interface/mhas.o arch-pkgs/obj/src/mat/interface/matreg.o arch-pkgs/obj/src/mat/interface/matregis.o arch-pkgs/obj/src/mat/interface/matnull.o arch-pkgs/obj/src/mat/interface/dlregismat.o arch-pkgs/obj/src/mat/interface/ftn-auto/matnullf.o arch-pkgs/obj/src/mat/interface/ftn-auto/matrixf.o arch-pkgs/obj/src/mat/interface/ftn-auto/mhasf.o arch-pkgs/obj/src/mat/interface/f90-custom/zmatrixf90.o arch-pkgs/obj/src/mat/interface/ftn-custom/zmatregf.o arch-pkgs/obj/src/mat/interface/ftn-custom/zmatrixf.o arch-pkgs/obj/src/mat/interface/ftn-custom/zmatnullf.o arch-pkgs/obj/src/mat/impls/submat/submat.o arch-pkgs/obj/src/mat/impls/submat/ftn-auto/submatf.o arch-pkgs/obj/src/mat/impls/is/matis.o arch-pkgs/obj/src/mat/impls/is/ftn-auto/matisf.o arch-pkgs/obj/src/mat/impls/fft/fft.o arch-pkgs/obj/src/mat/impls/fft/ftn-custom/zfftf.o arch-pkgs/obj/src/mat/impls/baij/seq/baij.o arch-pkgs/obj/src/mat/impls/baij/seq/baij2.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact2.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa.o arch-pkgs/obj/src/mat/impls/baij/seq/dgedi.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa3.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa4.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa5.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa2.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa6.o arch-pkgs/obj/src/mat/impls/baij/seq/dgefa7.o arch-pkgs/obj/src/mat/impls/baij/seq/aijbaij.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact3.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact4.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact5.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact7.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact9.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact11.o arch-pkgs/obj/src/mat/impls/baij/seq/baijfact13.o arch-pkgs/obj/src/mat/impls/baij/seq/baijsolvtrannat.o arch-pkgs/obj/src/mat/impls/baij/seq/baijsolvtran.o arch-pkgs/obj/src/mat/impls/baij/seq/baijsolv.o arch-pkgs/obj/src/mat/impls/baij/seq/baijsolvnat.o arch-pkgs/obj/src/mat/impls/baij/seq/ftn-auto/baijf.o arch-pkgs/obj/src/mat/impls/baij/seq/ftn-custom/zbaijf.o arch-pkgs/obj/src/mat/impls/baij/seq/bstream/bstream.o arch-pkgs/obj/src/mat/impls/baij/seq/bstream/bstrmfact.o arch-pkgs/obj/src/mat/impls/baij/mpi/mpibaij.o arch-pkgs/obj/src/mat/impls/baij/mpi/mmbaij.o arch-pkgs/obj/src/mat/impls/baij/mpi/baijov.o arch-pkgs/obj/src/mat/impls/baij/mpi/mpb_baij.o arch-pkgs/obj/src/mat/impls/baij/mpi/ftn-auto/mpibaijf.o arch-pkgs/obj/src/mat/impls/baij/mpi/ftn-custom/zmpibaijf.o arch-pkgs/obj/src/mat/impls/baij/mpi/bstream/mpibstream.o arch-pkgs/obj/src/mat/impls/dense/seq/dense.o arch-pkgs/obj/src/mat/impls/dense/seq/ftn-custom/zdensef.o arch-pkgs/obj/src/mat/impls/dense/mpi/mpidense.o arch-pkgs/obj/src/mat/impls/dense/mpi/mmdense.o arch-pkgs/obj/src/mat/impls/dense/mpi/ftn-auto/mpidensef.o arch-pkgs/obj/src/mat/impls/dense/mpi/ftn-custom/zmpidensef.o arch-pkgs/obj/src/mat/impls/mffd/mffd.o arch-pkgs/obj/src/mat/impls/mffd/mffddef.o arch-pkgs/obj/src/mat/impls/mffd/mfregis.o arch-pkgs/obj/src/mat/impls/mffd/wp.o arch-pkgs/obj/src/mat/impls/mffd/ftn-auto/mffddeff.o arch-pkgs/obj/src/mat/impls/mffd/ftn-auto/mffdf.o arch-pkgs/obj/src/mat/impls/mffd/ftn-auto/wpf.o arch-pkgs/obj/src/mat/impls/mffd/ftn-custom/zmffdf.o arch-pkgs/obj/src/mat/impls/python/pythonmat.o arch-pkgs/obj/src/mat/impls/python/ftn-custom/zpythonmf.o arch-pkgs/obj/src/mat/impls/adj/mpi/mpiadj.o arch-pkgs/obj/src/mat/impls/adj/mpi/ftn-auto/mpiadjf.o arch-pkgs/obj/src/mat/impls/adj/mpi/ftn-custom/zmpiadjf.o arch-pkgs/obj/src/mat/impls/maij/maij.o arch-pkgs/obj/src/mat/impls/maij/ftn-auto/maijf.o arch-pkgs/obj/src/mat/impls/lrc/lrc.o arch-pkgs/obj/src/mat/impls/lrc/ftn-auto/lrcf.o arch-pkgs/obj/src/mat/impls/shell/shell.o arch-pkgs/obj/src/mat/impls/shell/shellcnv.o arch-pkgs/obj/src/mat/impls/shell/ftn-auto/shellf.o arch-pkgs/obj/src/mat/impls/shell/ftn-custom/zshellf.o arch-pkgs/obj/src/mat/impls/normal/normm.o arch-pkgs/obj/src/mat/impls/normal/normmh.o arch-pkgs/obj/src/mat/impls/normal/ftn-auto/normmf.o arch-pkgs/obj/src/mat/impls/normal/ftn-auto/normmhf.o arch-pkgs/obj/src/mat/impls/composite/mcomposite.o arch-pkgs/obj/src/mat/impls/composite/ftn-auto/mcompositef.o arch-pkgs/obj/src/mat/impls/nest/matnest.o arch-pkgs/obj/src/mat/impls/nest/ftn-auto/matnestf.o arch-pkgs/obj/src/mat/impls/nest/ftn-custom/zmatnestf.o arch-pkgs/obj/src/mat/impls/transpose/transm.o arch-pkgs/obj/src/mat/impls/transpose/htransm.o arch-pkgs/obj/src/mat/impls/transpose/ftn-auto/htransmf.o arch-pkgs/obj/src/mat/impls/transpose/ftn-auto/transmf.o arch-pkgs/obj/src/mat/impls/localref/mlocalref.o arch-pkgs/obj/src/mat/impls/localref/ftn-auto/mlocalreff.o arch-pkgs/obj/src/mat/impls/blockmat/seq/blockmat.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaij.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaij2.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact2.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sro.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact3.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact4.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact5.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact6.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact7.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact8.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact9.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact10.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact11.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbaijfact12.o arch-pkgs/obj/src/mat/impls/sbaij/seq/aijsbaij.o arch-pkgs/obj/src/mat/impls/sbaij/seq/ftn-auto/sbaijf.o arch-pkgs/obj/src/mat/impls/sbaij/seq/ftn-custom/zsbaijf.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbstream/sbstream.o arch-pkgs/obj/src/mat/impls/sbaij/seq/sbstream/sbstrmfact.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/mpisbaij.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/mmsbaij.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/sbaijov.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/mpiaijsbaij.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/ftn-auto/mpisbaijf.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/ftn-custom/zmpisbaijf.o arch-pkgs/obj/src/mat/impls/sbaij/mpi/sbstream/mpisbstream.o arch-pkgs/obj/src/mat/impls/aij/seq/aij.o arch-pkgs/obj/src/mat/impls/aij/seq/aijfact.o arch-pkgs/obj/src/mat/impls/aij/seq/ij.o arch-pkgs/obj/src/mat/impls/aij/seq/fdaij.o arch-pkgs/obj/src/mat/impls/aij/seq/matmatmult.o arch-pkgs/obj/src/mat/impls/aij/seq/symtranspose.o arch-pkgs/obj/src/mat/impls/aij/seq/matptap.o arch-pkgs/obj/src/mat/impls/aij/seq/matrart.o arch-pkgs/obj/src/mat/impls/aij/seq/inode.o arch-pkgs/obj/src/mat/impls/aij/seq/inode2.o arch-pkgs/obj/src/mat/impls/aij/seq/matmatmatmult.o arch-pkgs/obj/src/mat/impls/aij/seq/mattransposematmult.o arch-pkgs/obj/src/mat/impls/aij/seq/ftn-custom/zaijf.o arch-pkgs/obj/src/mat/impls/aij/seq/bas/basfactor.o arch-pkgs/obj/src/mat/impls/aij/seq/bas/spbas.o arch-pkgs/obj/src/mat/impls/aij/seq/csrperm/csrperm.o arch-pkgs/obj/src/mat/impls/aij/seq/ftn-auto/aijf.o arch-pkgs/obj/src/mat/impls/aij/seq/crl/crl.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpiaij.o arch-pkgs/obj/src/mat/impls/aij/mpi/mmaij.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpiaijpc.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpiov.o arch-pkgs/obj/src/mat/impls/aij/mpi/fdmpiaij.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpiptap.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpimatmatmult.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpb_aij.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpimatmatmatmult.o arch-pkgs/obj/src/mat/impls/aij/mpi/mpimattransposematmult.o arch-pkgs/obj/src/mat/impls/aij/mpi/ftn-custom/zmpiaijf.o arch-pkgs/obj/src/mat/impls/aij/mpi/superlu_dist/superlu_dist.o arch-pkgs/obj/src/mat/impls/aij/mpi/csrperm/mpicsrperm.o arch-pkgs/obj/src/mat/impls/aij/mpi/mumps/mumps.o arch-pkgs/obj/src/mat/impls/aij/mpi/mumps/ftn-auto/mumpsf.o arch-pkgs/obj/src/mat/impls/aij/mpi/ftn-auto/mpiaijf.o arch-pkgs/obj/src/mat/impls/aij/mpi/crl/mcrl.o arch-pkgs/obj/src/mat/impls/scatter/mscatter.o arch-pkgs/obj/src/mat/impls/scatter/ftn-auto/mscatterf.o arch-pkgs/obj/src/mat/order/sp1wd.o arch-pkgs/obj/src/mat/order/spnd.o arch-pkgs/obj/src/mat/order/spqmd.o arch-pkgs/obj/src/mat/order/sprcm.o arch-pkgs/obj/src/mat/order/sorder.o arch-pkgs/obj/src/mat/order/spectral.o arch-pkgs/obj/src/mat/order/sregis.o arch-pkgs/obj/src/mat/order/degree.o arch-pkgs/obj/src/mat/order/fnroot.o arch-pkgs/obj/src/mat/order/genqmd.o arch-pkgs/obj/src/mat/order/qmdqt.o arch-pkgs/obj/src/mat/order/rcm.o arch-pkgs/obj/src/mat/order/fn1wd.o arch-pkgs/obj/src/mat/order/gen1wd.o arch-pkgs/obj/src/mat/order/genrcm.o arch-pkgs/obj/src/mat/order/qmdrch.o arch-pkgs/obj/src/mat/order/rootls.o arch-pkgs/obj/src/mat/order/fndsep.o arch-pkgs/obj/src/mat/order/gennd.o arch-pkgs/obj/src/mat/order/qmdmrg.o arch-pkgs/obj/src/mat/order/qmdupd.o arch-pkgs/obj/src/mat/order/wbm.o arch-pkgs/obj/src/mat/order/ftn-auto/spectralf.o arch-pkgs/obj/src/mat/order/ftn-custom/zsorderf.o arch-pkgs/obj/src/mat/utils/convert.o arch-pkgs/obj/src/mat/utils/matstash.o arch-pkgs/obj/src/mat/utils/axpy.o arch-pkgs/obj/src/mat/utils/zerodiag.o arch-pkgs/obj/src/mat/utils/getcolv.o arch-pkgs/obj/src/mat/utils/gcreate.o arch-pkgs/obj/src/mat/utils/freespace.o arch-pkgs/obj/src/mat/utils/compressedrow.o arch-pkgs/obj/src/mat/utils/multequal.o arch-pkgs/obj/src/mat/utils/matstashspace.o arch-pkgs/obj/src/mat/utils/pheap.o arch-pkgs/obj/src/mat/utils/bandwidth.o arch-pkgs/obj/src/mat/utils/overlapsplit.o arch-pkgs/obj/src/mat/utils/ftn-auto/axpyf.o arch-pkgs/obj/src/mat/utils/ftn-auto/bandwidthf.o arch-pkgs/obj/src/mat/utils/ftn-auto/gcreatef.o arch-pkgs/obj/src/mat/utils/ftn-auto/getcolvf.o arch-pkgs/obj/src/mat/utils/ftn-auto/multequalf.o arch-pkgs/obj/src/mat/utils/ftn-auto/zerodiagf.o arch-pkgs/obj/src/mat/impls/elemental/matelem.o arch-pkgs/obj/src/mat/f90-mod/petscmatmod.o arch-pkgs/obj/src/dm/impls/shell/dmshell.o arch-pkgs/obj/src/dm/impls/shell/ftn-auto/dmshellf.o arch-pkgs/obj/src/dm/impls/shell/ftn-custom/zdmshellf.o arch-pkgs/obj/src/dm/impls/network/networkcreate.o arch-pkgs/obj/src/dm/impls/network/network.o arch-pkgs/obj/src/dm/impls/network/networkmonitor.o arch-pkgs/obj/src/dm/impls/network/ftn-auto/networkcreatef.o arch-pkgs/obj/src/dm/impls/network/ftn-auto/networkf.o arch-pkgs/obj/src/dm/impls/network/ftn-auto/networkmonitorf.o arch-pkgs/obj/src/dm/impls/composite/pack.o arch-pkgs/obj/src/dm/impls/composite/packm.o arch-pkgs/obj/src/dm/impls/composite/ftn-auto/packf.o arch-pkgs/obj/src/dm/impls/composite/f90-custom/zfddaf90.o arch-pkgs/obj/src/dm/impls/composite/ftn-custom/zfddaf.o arch-pkgs/obj/src/dm/impls/da/da2.o arch-pkgs/obj/src/dm/impls/da/da1.o arch-pkgs/obj/src/dm/impls/da/da3.o arch-pkgs/obj/src/dm/impls/da/daghost.o arch-pkgs/obj/src/dm/impls/da/dacorn.o arch-pkgs/obj/src/dm/impls/da/dagtol.o arch-pkgs/obj/src/dm/impls/da/daltol.o arch-pkgs/obj/src/dm/impls/da/daindex.o arch-pkgs/obj/src/dm/impls/da/dascatter.o arch-pkgs/obj/src/dm/impls/da/dacreate.o 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arch-pkgs/obj/src/dm/impls/redundant/dmredundant.o arch-pkgs/obj/src/dm/impls/redundant/ftn-auto/dmredundantf.o arch-pkgs/obj/src/dm/impls/patch/patchcreate.o arch-pkgs/obj/src/dm/impls/patch/patch.o arch-pkgs/obj/src/dm/impls/patch/ftn-auto/patchcreatef.o arch-pkgs/obj/src/dm/impls/sliced/sliced.o arch-pkgs/obj/src/dm/impls/plex/plexcreate.o arch-pkgs/obj/src/dm/impls/plex/plex.o arch-pkgs/obj/src/dm/impls/plex/plexpartition.o arch-pkgs/obj/src/dm/impls/plex/plexdistribute.o arch-pkgs/obj/src/dm/impls/plex/plexrefine.o arch-pkgs/obj/src/dm/impls/plex/plexcoarsen.o arch-pkgs/obj/src/dm/impls/plex/plexinterpolate.o arch-pkgs/obj/src/dm/impls/plex/plexpreallocate.o arch-pkgs/obj/src/dm/impls/plex/plexreorder.o arch-pkgs/obj/src/dm/impls/plex/plexgeometry.o arch-pkgs/obj/src/dm/impls/plex/plexlabel.o arch-pkgs/obj/src/dm/impls/plex/plexsubmesh.o arch-pkgs/obj/src/dm/impls/plex/plexhdf5.o arch-pkgs/obj/src/dm/impls/plex/plexexodusii.o arch-pkgs/obj/src/dm/impls/plex/plexgmsh.o 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arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexdistribute.o arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexinterpolate.o arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexsubmesh.o arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexlabel.o arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexexodusii.o arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexgmsh.o arch-pkgs/obj/src/dm/impls/plex/ftn-custom/zplexfluent.o arch-pkgs/obj/src/dm/interface/dm.o arch-pkgs/obj/src/dm/interface/dmregall.o arch-pkgs/obj/src/dm/interface/dmget.o arch-pkgs/obj/src/dm/interface/dmi.o arch-pkgs/obj/src/dm/interface/dlregisdmdm.o arch-pkgs/obj/src/dm/interface/ftn-auto/dmf.o arch-pkgs/obj/src/dm/interface/ftn-auto/dmgetf.o arch-pkgs/obj/src/dm/interface/ftn-custom/zdmf.o arch-pkgs/obj/src/dm/interface/ftn-custom/zdmgetf.o arch-pkgs/obj/src/dm/dt/interface/dt.o arch-pkgs/obj/src/dm/dt/interface/dtfe.o arch-pkgs/obj/src/dm/dt/interface/dtfv.o arch-pkgs/obj/src/dm/dt/interface/dtds.o 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arch-pkgs/obj/src/tao/interface/fdiff.o arch-pkgs/obj/src/tao/interface/fdtest.o arch-pkgs/obj/src/tao/interface/ftn-auto/taosolver_boundsf.o arch-pkgs/obj/src/tao/interface/ftn-auto/taosolver_fgf.o arch-pkgs/obj/src/tao/interface/ftn-auto/taosolver_hjf.o arch-pkgs/obj/src/tao/interface/ftn-auto/taosolverf.o arch-pkgs/obj/src/tao/interface/ftn-custom/ztaosolverf.o arch-pkgs/obj/src/tao/pde_constrained/impls/lcl/lcl.o arch-pkgs/obj/src/tao/complementarity/impls/ssls/ssls.o arch-pkgs/obj/src/tao/complementarity/impls/ssls/ssils.o arch-pkgs/obj/src/tao/complementarity/impls/ssls/ssfls.o arch-pkgs/obj/src/tao/complementarity/impls/asls/asils.o arch-pkgs/obj/src/tao/complementarity/impls/asls/asfls.o arch-pkgs/obj/src/tao/unconstrained/impls/nls/nls.o arch-pkgs/obj/src/tao/unconstrained/impls/neldermead/neldermead.o arch-pkgs/obj/src/tao/unconstrained/impls/ntr/ntr.o arch-pkgs/obj/src/tao/unconstrained/impls/cg/taocg.o arch-pkgs/obj/src/tao/unconstrained/impls/lmvm/lmvm.o arch-pkgs/obj/src/tao/unconstrained/impls/bmrm/bmrm.o arch-pkgs/obj/src/tao/unconstrained/impls/ntl/ntl.o arch-pkgs/obj/src/tao/unconstrained/impls/owlqn/owlqn.o arch-pkgs/obj/src/tao/constrained/impls/ipm/ipm.o arch-pkgs/obj/src/tao/linesearch/impls/armijo/armijo.o arch-pkgs/obj/src/tao/linesearch/impls/morethuente/morethuente.o arch-pkgs/obj/src/tao/linesearch/impls/owarmijo/owarmijo.o arch-pkgs/obj/src/tao/linesearch/impls/unit/unit.o arch-pkgs/obj/src/tao/linesearch/impls/gpcglinesearch/gpcglinesearch.o arch-pkgs/obj/src/tao/linesearch/interface/taolinesearch.o arch-pkgs/obj/src/tao/linesearch/interface/dlregis_taolinesearch.o arch-pkgs/obj/src/tao/linesearch/interface/ftn-auto/taolinesearchf.o arch-pkgs/obj/src/tao/linesearch/interface/ftn-custom/ztaolinesearchf.o arch-pkgs/obj/src/tao/leastsquares/impls/pounders/pounders.o arch-pkgs/obj/src/tao/leastsquares/impls/pounders/gqt.o -Wl,-rpath,/Users/barrysmith/Src/PETSc/arch-pkgs/lib -L/Users/barrysmith/Src/PETSc/arch-pkgs/lib -lEl -lpmrrr -lml -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/7.0.0/lib/darwin -L/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/7.0.0/lib/darwin -lclang_rt.osx -lmpicxx -lc++ -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.0/lib/darwin -L/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.0/lib/darwin -lclang_rt.osx -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lscalapack -lsuperlu_dist_4.1 -llapack -lblas -lparmetis -lpragmatic -lmetis -Wl,-rpath,/opt/X11/lib -L/opt/X11/lib -lX11 -lnetcdf_c++4 -lnetcdf -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lctetgen -lp4est -lsc -lssl -lcrypto -ltchem -lmpifort -lgfortran -Wl,-rpath,/usr/local/Cellar/gcc/5.2.0/lib/gcc/5/gcc/x86_64-apple-darwin14.4.0/5.2.0 -L/usr/local/Cellar/gcc/5.2.0/lib/gcc/5/gcc/x86_64-apple-darwin14.4.0/5.2.0 -Wl,-rpath,/usr/local/Cellar/gcc/5.2.0/lib/gcc/5 -L/usr/local/Cellar/gcc/5.2.0/lib/gcc/5 -lgfortran -lgcc_ext.10.5 -lquadmath -lm -lclang_rt.osx -lmpicxx -lc++ -lclang_rt.osx -Wl,-rpath,/Users/barrysmith/Src/PETSc/arch-pkgs/lib -L/Users/barrysmith/Src/PETSc/arch-pkgs/lib -ldl -lmpi -lpmpi -lSystem -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.0/lib/darwin -L/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.0/lib/darwin -lclang_rt.osx -ldl 
> /usr/bin/dsymutil /Users/barrysmith/Src/PETSc/arch-pkgs/lib/libpetsc.3.06.2.dylib
> make[1]: Leaving directory `/Users/barrysmith/Src/PETSc'
> =========================================
> ~/Src/petsc (barry/improve-git-download *+) arch-pkgs
> $ 
>
>
> BTW: pragmatic is built with cmake, could that be messing it up somehow?

It might be missing the cmake rpath stuff on osx that uses
install_name_tool. If I recall, that isn't set by default.