[petsc-users] configure error
Mark Adams
mfadams at lbl.gov
Sat May 15 19:13:24 CDT 2021
Thanks,
Now I get an error in make all. THis was working a few weeks ago.
Make.log was empty but here is the output.
....
CC arch-cori-gpu-opt-kokkos-gcc/obj/sys/error/ftn-custom/zerrf.o
CC arch-cori-gpu-opt-kokkos-gcc/obj/sys/f90-src/f90_cwrap.o
CC arch-cori-gpu-opt-kokkos-gcc/obj/vec/is/utils/hdf5io.o
PATH=/global/common/sw/cray/sles15/x86_64/zlib/1.2.11/gcc/8.2.0/pep2pal/bin:/global/common/sw/cray/cnl7/haswell/cmake/3.18.2/bin:/opt/cray/rca/2.2.20-7.0.1.1_4.62__g8e3fb5b.ari/bin:/opt/cray/alps/6.6.58-7.0.1.1_6.20__g437d88db.ari/sbin:/opt/cray/alps/default/bin:/opt/cray/job/2.2.4-7.0.1.1_3.48__g36b56f4.ari/bin:/opt/cray/pe/craype/2.6.2/bin:/usr/common/software/sles15_cgpu/openmpi/4.0.3/gcc/bin:/usr/common/software/sles15_cgpu/hpcsdk/20.11/Linux_x86_64/20.11/compilers/bin:/usr/common/software/sles15_cgpu/hpcsdk/20.11/Linux_x86_64/20.11/cuda/bin:/usr/common/software/sles15_cgpu/cuda/11.1.1/bin:/usr/common/software/sles15_cgpu/gcc/8.3.0/bin:/opt/esslurm/bin:/opt/cray/pe/modules/
3.2.11.4/bin:/usr/common/software/bin:/usr/common/nsg/bin:/opt/ovis/bin:/opt/ovis/sbin:/usr/local/bin:/usr/bin:/bin:/usr/lib/mit/bin:/usr/lib/mit/sbin:/opt/cray/pe/bin:`dirname
/usr/common/software/sles15_cgpu/cuda/11.1.1/bin/nvcc`
NVCC_WRAPPER_DEFAULT_COMPILER=/usr/common/software/sles15_cgpu/openmpi/4.0.3/gcc/bin/mpicxx
/global/homes/m/madams/petsc/arch-cori-gpu-opt-kokkos-gcc/bin/nvcc_wrapper
--expt-extended-lambda -c -arch=sm_70 -Xcompiler -rdynamic -DLANDAU_DIM=2
-DLANDAU_MAX_SPECIES=10 -DPETSC_HAVE_CUDA_ATOMIC -DLANDAU_MAX_Q=4
-Xcompiler -fPIC -O3 -gencode arch=compute_80,code=sm_80
-I/usr/common/software/sles15_cgpu/openmpi/4.0.3/gcc/include
-Wno-deprecated-gpu-targets -I/global/homes/m/madams/petsc/include
-I/global/homes/m/madams/petsc/arch-cori-gpu-opt-kokkos-gcc/include
-I/usr/common/software/sles15_cgpu/openmpi/4.0.3/gcc/include
-I/usr/common/software/sles15_cgpu/cuda/11.1.1/include
/global/u2/m/madams/petsc/src/sys/objects/kokkos/kinit.kokkos.cxx -o
arch-cori-gpu-opt-kokkos-gcc/obj/sys/objects/kokkos/kinit.o
g++: error: arch=compute_80: No such file or directory
g++: error: code=sm_80: No such file or directory
gmake[3]: *** [gmakefile:188:
arch-cori-gpu-opt-kokkos-gcc/obj/sys/objects/kokkos/kinit.o] Error 1
gmake[3]: *** Waiting for unfinished jobs....
CC arch-cori-gpu-opt-kokkos-gcc/obj/vec/is/utils/isio.o
CC arch-cori-gpu-opt-kokkos-gcc/obj/vec/is/utils/ftn-auto/pmapf.o
CC arch-cori-gpu-opt-kokkos-gcc/obj/vec/is/utils/pmap.o
CC arch-cori-gpu-opt-kokkos-gcc/obj/vec/is/utils/psort.o
CC arch-cori-gpu-opt-kokkos-gcc/obj/vec/is/utils/isltog.o
FC arch-cori-gpu-opt-kokkos-gcc/obj/vec/f90-mod/petscvecmod.o
CUDAC arch-cori-gpu-opt-kokkos-gcc/obj/sys/memory/cuda/mcudahost.o
CUDAC.dep arch-cori-gpu-opt-kokkos-gcc/obj/sys/memory/cuda/mcudahost.o
gmake[2]: *** [/global/homes/m/madams/petsc/lib/petsc/conf/rules:50: libs]
Error 2
**************************ERROR*************************************
Error during compile, check
arch-cori-gpu-opt-kokkos-gcc/lib/petsc/conf/make.log
Send it and arch-cori-gpu-opt-kokkos-gcc/lib/petsc/conf/configure.log to
petsc-maint at mcs.anl.gov
********************************************************************
gmake[1]: *** [makefile:40: all] Error 1
make: *** [GNUmakefile:9: all] Error 2
On Sat, May 15, 2021 at 5:30 PM Barry Smith <bsmith at petsc.dev> wrote:
>
> Bitbucket is off-line. Do you need fortran stubs at this moment? If not
> use --with-fortran-interface=0
>
>
> On May 15, 2021, at 2:51 PM, Mark Adams <mfadams at lbl.gov> wrote:
>
> I can build a non-kokkos PETSc here (Cori/GPU) but I get this error with
> Kokkos.
> Any suggestions?
> Thanks,
> Mark
>
> =============================================================================================
>
>
>
> =============================================================================================
>
>
> Trying to
> download git://https://bitbucket.org/petsc/pkg-sowing.git for SOWING
>
>
>
> =============================================================================================
>
>
>
> =============================================================================================
>
>
> Trying to
> download git://https://bitbucket.org/petsc/pkg-sowing.git for SOWING
>
>
>
> =============================================================================================
>
>
>
> =============================================================================================
>
>
> Trying to
> download https://bitbucket.org/petsc/pkg-sowing/get/v1.1.26-p1.tar.gz for
> SOWING
>
>
> =============================================================================================
>
>
>
>
>
>
>
> *******************************************************************************
> UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for
> details):
>
> -------------------------------------------------------------------------------
> Error during download/extract/detection of SOWING:
> Unable to clone sowing
> Could not execute "['git clone https://bitbucket.org/petsc/pkg-sowing.git
> /global/u2/m/madams/petsc/arch-cori-gpu-opt-kokkos-gcc/externalpackages/git.sowing']":
> Cloning into
> '/global/u2/m/madams/petsc/arch-cori-gpu-opt-kokkos-gcc/externalpackages/git.sowing'...
> fatal: unable to access 'https://bitbucket.org/petsc/pkg-sowing.git/':
> The requested URL returned error: 503
> Unable to download package SOWING from: git://
> https://bitbucket.org/petsc/pkg-sowing.git
> * If URL specified manually - perhaps there is a typo?
> * If your network is disconnected - please reconnect and rerun ./configure
> * Or perhaps you have a firewall blocking the download
> * You can run with --with-packages-download-dir=/adirectory and
> ./configure will instruct you what packages to download manually
> * or you can download the above URL manually, to /yourselectedlocation
> and use the configure option:
> --download-sowing=/yourselectedlocation
> Unable to clone sowing
> Could not execute "['git clone https://bitbucket.org/petsc/pkg-sowing.git
> /global/u2/m/madams/petsc/arch-cori-gpu-opt-kokkos-gcc/externalpackages/git.sowing']":
> Cloning into
> '/global/u2/m/madams/petsc/arch-cori-gpu-opt-kokkos-gcc/externalpackages/git.sowing'...
> fatal: unable to access 'https://bitbucket.org/petsc/pkg-sowing.git/':
> The requested URL returned error: 503
> Unable to download package SOWING from: git://
> https://bitbucket.org/petsc/pkg-sowing.git
> * If URL specified manually - perhaps there is a typo?
> * If your network is disconnected - please reconnect and rerun ./configure
> * Or perhaps you have a firewall blocking the download
> * You can run with --with-packages-download-dir=/adirectory and
> ./configure will instruct you what packages to download manually
> * or you can download the above URL manually, to /yourselectedlocation
> and use the configure option:
> --download-sowing=/yourselectedlocation
> file could not be opened successfully
> Downloaded package SOWING from:
> https://bitbucket.org/petsc/pkg-sowing/get/v1.1.26-p1.tar.gz is not a
> tarball.
> [or installed python cannot process compressed files]
> * If you are behind a firewall - please fix your proxy and rerun
> ./configure
> For example at LANL you may need to set the environmental variable
> http_proxy (or HTTP_PROXY?) to http://proxyout.lanl.gov
> * You can run with --with-packages-download-dir=/adirectory and
> ./configure will instruct you what packages to download manually
> * or you can download the above URL manually, to
> /yourselectedlocation/v1.1.26-p1.tar.gz
> and use the configure option:
> --download-sowing=/yourselectedlocation/v1.1.26-p1.tar.gz
>
> *******************************************************************************
> <configure.log>
>
>
>
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