There is something going on with zlib. When I get on a compute node I get a message that zlib (and cmake) module is not found. But I add it manually and I see it, but still get the same error.
I nuked p4est and am testing Satish's fix. I'll send the log file if it is not working. Thanks, On Sat, Oct 20, 2018 at 5:14 PM Isaac, Tobin G <tis...@cc.gatech.edu> wrote: > I think adler32 is in zlib: p4est typically finds it in configure. Can > you send along config.log from externalpackages/git.p4est? > > On October 20, 2018 4:52:54 PM EDT, Mark Adams <mfad...@lbl.gov> wrote: > >I am getting this error. This was a clean build (nuked the arch > >directory). > > > >13:50 nid12922 master= ~/petsc_install/petsc$ make > > >PETSC_DIR=/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel > >PETSC_ARCH="" test > >Running test examples to verify correct installation > >Using > > >PETSC_DIR=/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel > >and PETSC_ARCH= > >*******************Error detected during compile or > >link!******************* > >See http://www.mcs.anl.gov/petsc/documentation/faq.html > >/global/homes/m/madams/petsc_install/petsc/src/snes/examples/tutorials > >ex19 > > >********************************************************************************* > >cc -o ex19.o -c -g -fp-model fast > > >-I/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/include > > `pwd`/ex19.c > >cc -g -fp-model fast -o ex19 ex19.o > >-L/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib > > >-Wl,-rpath,/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib > >-L/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib > >-lpetsc -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord > >-lscalapack -lfftw3_mpi -lfftw3 -lp4est -lsc -lflapack -lfblas > >-lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lchaco -lparmetis > >-lmetis > >-lstdc++ -ldl > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libpetsc.a(dlimpl.o): > >In function `PetscDLOpen': > >/global/u2/m/madams/petsc_install/petsc/src/sys/dll/dlimpl.c:108: > >warning: > >Using 'dlopen' in statically linked applications requires at runtime > >the > >shared libraries from the glibc version used for linking > >/usr/lib64/gcc/x86_64-suse-linux/4.8/../../../../x86_64-suse-linux/bin/ld: > >Warning: alignment 8 of symbol `ARCHITECTURE' in > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libchaco.a(user_params.o) > >is smaller than 32 in > >/opt/cray/pe/pmi/5.0.13/lib64/libpmi.a(_pmi_topology_discovery.o) > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libpetsc.a(send.o): > >In function `PetscOpenSocket': > > >/global/u2/m/madams/petsc_install/petsc/src/sys/classes/viewer/impls/socket/send.c:108: > >warning: Using 'gethostbyname' in statically linked applications > >requires > >at runtime the shared libraries from the glibc version used for linking > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libp4est.a(src_libp4est_la-p4est.o): > >In function `p4est_checksum': > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/src/p4est.c:3228: > >undefined reference to `adler32' > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/src/p4est.c:3236: > >undefined reference to `adler32_combine' > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libp4est.a(src_libp4est_la-p4est_communication.o): > >In function `p4est_comm_checksum': > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/src/p4est_communication.c:903: > >undefined reference to `adler32_combine' > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libp4est.a(src_libp4est_la-p8est.o): > >In function `p8est_checksum': > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/src/p4est.c:3228: > >undefined reference to `adler32' > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/src/p4est.c:3236: > >undefined reference to `adler32_combine' > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libp4est.a(src_libp4est_la-p8est_communication.o): > >In function `p8est_comm_checksum': > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/src/p4est_communication.c:903: > >undefined reference to `adler32_combine' > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libsc.a(src_libsc_la-sc_containers.o): > >In function `sc_array_checksum': > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/sc/src/sc_containers.c:565: > >undefined reference to `adler32' > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/sc/src/sc_containers.c:571: > >undefined reference to `adler32' > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/libsc.a(src_libsc_la-sc_io.o): > >In function `sc_vtk_write_compressed': > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/sc/src/sc_io.c:492: > >undefined reference to `compress2' > > >/global/u2/m/madams/petsc_install/petsc/arch-cori-haswell-opt-intel/externalpackages/git.p4est/sc/src/sc_io.c:507: > >undefined reference to `compress2' > > >/global/homes/m/madams/petsc_install/petsc-cori-haswell-opt-intel/lib/petsc/conf/test:13: > >recipe for target 'ex19' failed > >gmake[3]: [ex19] Error 1 (ignored) > >true ex19 > >rm ex19.o >