[petsc-users] download zlib error
Mark Adams
mfadams at lbl.gov
Wed Jul 7 11:08:07 CDT 2021
Humm, I get this error (I just copied your whole file into here):
12:06 jczhang/fix-kokkos-includes= /gpfs/alpine/csc314/scratch/adams/petsc$
~/arch-spock-dbg-cray-kokkos.py
Traceback (most recent call last):
File "/ccs/home/adams/arch-spock-dbg-cray-kokkos.py", line 27, in <module>
'--LDFLAGS=-L'+os.environ['ROCM_PATH'],+'lib -lhsa-runtime64',
TypeError: bad operand type for unary +: 'str'
On Wed, Jul 7, 2021 at 11:08 AM Stefano Zampini <stefano.zampini at gmail.com>
wrote:
> Mark
>
> On Spock, you can use
> https://gitlab.com/petsc/petsc/-/blob/main/config/examples/arch-olcf-spock.py as
> a template for your configuration. You need to add libraries as LDFLAGS to
> resolve the hsa symbols
>
> On Jul 7, 2021, at 5:04 PM, Mark Adams <mfadams at lbl.gov> wrote:
>
> Thanks,
>
> 08:30 jczhang/fix-kokkos-includes=
> /gpfs/alpine/csc314/scratch/adams/petsc$ cd
> /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos/externalpackages/zlib-1.2.11
> && CC="cc" CFLAGS="-fPIC -fstack-protector -Qunused-arguments -g -O0
> -I${ROCM_PATH}/include"
> prefix="/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos"
> ./configure && /usr/bin/gmake -j8 -l307.2 && /usr/bin/gmake install
> Checking for shared library support...
> Building shared library libz.so.1.2.11 with cc.
> Checking for size_t... Yes.
> Checking for off64_t... Yes.
> Checking for fseeko... Yes.
> Checking for strerror... No.
> Checking for unistd.h... Yes.
> Checking for stdarg.h... Yes.
> Checking whether to use vs[n]printf() or s[n]printf()... using
> vs[n]printf().
> Checking for vsnprintf() in stdio.h... No.
> WARNING: vsnprintf() not found, falling back to vsprintf(). zlib
> can build but will be open to possible buffer-overflow security
> vulnerabilities.
> Checking for return value of vsprintf()... Yes.
> Checking for attribute(visibility) support... Yes.
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -I. -c -o example.o
> test/example.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o adler32.o adler32.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o crc32.o crc32.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o deflate.o deflate.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o infback.o infback.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o inffast.o inffast.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o inflate.o inflate.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o inftrees.o inftrees.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o trees.o trees.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o zutil.o zutil.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o compress.o compress.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o uncompr.o uncompr.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o gzclose.o gzclose.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o gzlib.o gzlib.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o gzread.o gzread.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -c -o gzwrite.o gzwrite.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -I. -c -o minigzip.o
> test/minigzip.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/adler32.o adler32.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/crc32.o crc32.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/deflate.o deflate.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/infback.o infback.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/inffast.o inffast.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/inflate.o inflate.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/inftrees.o inftrees.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/trees.o trees.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/zutil.o zutil.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/compress.o compress.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/uncompr.o uncompr.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/gzclose.o gzclose.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/gzlib.o gzlib.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/gzread.o gzread.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -DPIC
> -c -o objs/gzwrite.o gzwrite.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -I. -D_FILE_OFFSET_BITS=64 -c -o
> example64.o test/example.c
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -I. -D_FILE_OFFSET_BITS=64 -c -o
> minigzip64.o test/minigzip.c
> ar rc libz.a adler32.o crc32.o deflate.o infback.o inffast.o inflate.o
> inftrees.o trees.o zutil.o compress.o uncompr.o gzclose.o gzlib.o gzread.o
> gzwrite.o
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -o example example.o -L. libz.a
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -o minigzip minigzip.o -L. libz.a
> cc -shared -Wl,-soname,libz.so.1,--version-script,zlib.map -fPIC
> -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -fPIC
> -D_LARGEFILE64_SOURCE=1 -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -o
> libz.so.1.2.11 adler32.lo crc32.lo deflate.lo infback.lo inffast.lo
> inflate.lo inftrees.lo trees.lo zutil.lo compress.lo uncompr.lo gzclose.lo
> gzlib.lo gzread.lo gzwrite.lo -lc
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -o minigzip64 minigzip64.o -L.
> libz.a
> cc -fPIC -fstack-protector -Qunused-arguments -g -O0
> -I/sw/spock/spack-envs/views/rocm-4.1.0/include -D_LARGEFILE64_SOURCE=1
> -DNO_STRERROR -DNO_vsnprintf -DHAVE_HIDDEN -o example64 example64.o -L.
> libz.a
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_allocate
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agent_iterate_memory_pools
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_iterate_agents [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_signal_load_scacquire
> [--no-allow-shlib-undefined]
> ld.lldld.lld: : error: error:
> /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so: undefined reference to
> hsa_amd_memory_pool_allocate
> [--no-allow-shlib-undefined]/opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_unlock [--no-allow-shlib-undefined]
>
> ld.lldld.lld: : error: error:
> /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so: undefined reference to
> hsa_amd_agent_iterate_memory_pools
> [--no-allow-shlib-undefined]/opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_signal_destroy [--no-allow-shlib-undefined]
>
> ld.lldld.lld: : error: error:
> /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so: undefined reference to
> hsa_iterate_agents
> [--no-allow-shlib-undefined]/opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_get_info
> [--no-allow-shlib-undefined]
>
> ld.lldld.lld: : error: error:
> /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so: undefined reference to
> hsa_signal_load_scacquire
> [--no-allow-shlib-undefined]/opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_lock [--no-allow-shlib-undefined]
>
> ld.lldld.lld: : error: error:
> /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so: undefined reference to
> hsa_amd_memory_unlock
> [--no-allow-shlib-undefined]/opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_free [--no-allow-shlib-undefined]
>
> ld.lldld.lld: : error: error:
> /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so: undefined reference to
> hsa_signal_destroy
> [--no-allow-shlib-undefined]/opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agents_allow_access
> [--no-allow-shlib-undefined]
>
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_get_info
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_lock [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_free [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agents_allow_access
> [--no-allow-shlib-undefined]
> clang-11: error: linker command failed with exit code 1 (use -v to see
> invocation)
> clang-11: error: linker command failed with exit code 1 (use -v to see
> invocation)
> gmake: *** [Makefile:292: minigzip] Error 1
> gmake: *** Waiting for unfinished jobs....
> gmake: *** [Makefile:289: example] Error 1
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_allocate
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agent_iterate_memory_pools
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_iterate_agents [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_signal_load_scacquire
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_unlock [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_signal_destroy [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_get_info
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_lock [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_free [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agents_allow_access
> [--no-allow-shlib-undefined]
> clang-11: error: linker command failed with exit code 1 (use -v to see
> invocation)
> gmake: *** [Makefile:304: minigzip64] Error 1
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_allocate
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agent_iterate_memory_pools
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_iterate_agents [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_signal_load_scacquire
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_unlock [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_signal_destroy [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_get_info
> [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_lock [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_memory_pool_free [--no-allow-shlib-undefined]
> ld.lld: error: /opt/cray/pe/mpich/8.1.4/gtl/lib/libmpi_gtl_hsa.so:
> undefined reference to hsa_amd_agents_allow_access
> [--no-allow-shlib-undefined]
> clang-11: error: linker command failed with exit code 1 (use -v to see
> invocation)
> gmake: *** [Makefile:301: example64] Error 1
> rm -f libz.so libz.so.1
> ln -s libz.so.1.2.11 libz.so
> ln -s libz.so.1.2.11 libz.so.1
> 11:03 2 jczhang/fix-kokkos-includes=
> /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos/externalpackages/zlib-1.2.11$
>
> On Wed, Jul 7, 2021 at 9:18 AM Matthew Knepley <knepley at gmail.com> wrote:
>
>> It is hard to see the error. I suspect it is something crazy with the
>> install. Can you run the build by hand?
>>
>> cd
>> /gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos/externalpackages/zlib-1.2.11
>> && CC="cc" CFLAGS="-fPIC -fstack-protector -Qunused-arguments -g -O0
>> -I${ROCM_PATH}/include"
>> prefix="/gpfs/alpine/csc314/scratch/adams/petsc/arch-spock-opt-cray-kokkos"
>> ./configure && /usr/bin/gmake -j8 -l307.2 && /usr/bin/gmake install
>>
>> and see what happens, and what the error code is?
>>
>> Thanks,
>>
>> Matt
>>
>> On Wed, Jul 7, 2021 at 8:48 AM Mark Adams <mfadams at lbl.gov> wrote:
>>
>>> Also, this is in jczhang/fix-kokkos-includes
>>>
>>> On Wed, Jul 7, 2021 at 8:46 AM Mark Adams <mfadams at lbl.gov> wrote:
>>>
>>>> Apparently the same error with
>>>> --download-zlib=/yourselectedlocation/zlib-1.2.11.tar.gz
>>>>
>>>> On Tue, Jul 6, 2021 at 11:53 PM Barry Smith <bsmith at petsc.dev> wrote:
>>>>
>>>>> $ curl http://www.zlib.net/zlib-1.2.11.tar.gz > zlib-1.2.11.tar.gz
>>>>> % Total % Received % Xferd Average Speed Time Time
>>>>> Time Current
>>>>> Dload Upload Total Spent
>>>>> Left Speed
>>>>> 100 593k 100 593k 0 0 835k 0 --:--:-- --:--:--
>>>>> --:--:-- 834k
>>>>> ~/Src/petsc* (barry/2021-07-03/demonstrate-network-parallel-build=)*
>>>>> arch-demonstrate-network-parallel-build
>>>>> $ tar -zxf zlib-1.2.11.tar.gz
>>>>> ~/Src/petsc* (barry/2021-07-03/demonstrate-network-parallel-build=)*
>>>>> arch-demonstrate-network-parallel-build
>>>>> $ ls zlib-1.2.11
>>>>> CMakeLists.txt adler32.c deflate.c gzread.c
>>>>> inflate.h os400 watcom zlib.h
>>>>> ChangeLog amiga deflate.h gzwrite.c
>>>>> inftrees.c qnx win32 zlib.map
>>>>> FAQ compress.c doc infback.c
>>>>> inftrees.h test zconf.h zlib.pc.cmakein
>>>>> INDEX configure examples inffast.c
>>>>> make_vms.com treebuild.xml zconf.h.cmakein zlib.pc.in
>>>>> Makefile contrib gzclose.c inffast.h msdos
>>>>> trees.c zconf.h.in zlib2ansi
>>>>> Makefile.in crc32.c gzguts.h inffixed.h
>>>>> nintendods trees.h zlib.3 zutil.c
>>>>> README crc32.h gzlib.c inflate.c old
>>>>> uncompr.c zlib.3.pdf zutil.h
>>>>>
>>>>>
>>>>>
>>>>> On Jul 6, 2021, at 7:57 PM, Mark Adams <mfadams at lbl.gov> wrote:
>>>>>
>>>>>
>>>>>
>>>>> On Tue, Jul 6, 2021 at 6:42 PM Barry Smith <bsmith at petsc.dev> wrote:
>>>>>
>>>>>>
>>>>>> Mark,
>>>>>>
>>>>>> You can try what the configure error message should be suggesting
>>>>>> (it is not clear if that is being printed to your screen or no).
>>>>>>
>>>>>> ERROR: Unable to download package ZLIB from:
>>>>>> http://www.zlib.net/zlib-1.2.11.tar.gz
>>>>>
>>>>>
>>>>> My browser can not open this and I could not see a download button on
>>>>> this site.
>>>>>
>>>>> Can you download this?
>>>>>
>>>>>
>>>>>>
>>>>>> * 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/zlib-1.2.11.tar.gz
>>>>>> and use the configure option:
>>>>>> --download-zlib=/yourselectedlocation/zlib-1.2.11.tar.gz
>>>>>>
>>>>>> Barry
>>>>>>
>>>>>>
>>>>>> > On Jul 6, 2021, at 4:29 PM, Mark Adams <mfadams at lbl.gov> wrote:
>>>>>> >
>>>>>> > I am getting some sort of error in build zlib on Spock at ORNL.
>>>>>> > Other libraries are downloaded and I am sure the network is fine.
>>>>>> > Any ideas?
>>>>>> > Thanks,
>>>>>> > Mark
>>>>>> > <configure.log>
>>>>>>
>>>>>>
>>>>>
>>
>> --
>> What most experimenters take for granted before they begin their
>> experiments is infinitely more interesting than any results to which their
>> experiments lead.
>> -- Norbert Wiener
>>
>> https://www.cse.buffalo.edu/~knepley/
>> <http://www.cse.buffalo.edu/~knepley/>
>>
>
>
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