I tried to install PETSc shared library in /gpfs/alpine/scratch, which should
be faster than the home directory. But the same overhead still persists.
Hong
> On Feb 7, 2020, at 4:32 PM, Smith, Barry F. <bsm...@mcs.anl.gov> wrote:
>
>
> Perhaps the intent is that you build or install (--prefix) your libraries
> in a different place than /autofs/nccs-svm1_home1
>
>
>
>> On Feb 7, 2020, at 3:09 PM, Zhang, Hong <hongzh...@anl.gov> wrote:
>>
>> Note that the overhead was triggered by the first call to a CUDA function.
>> So it seems that the first CUDA function triggered loading petsc so (if
>> petsc so is linked), which is slow on the summit file system.
>>
>> Hong
>>
>>> On Feb 7, 2020, at 2:54 PM, Zhang, Hong via petsc-dev
>>> <petsc-dev@mcs.anl.gov> wrote:
>>>
>>> Linking any other shared library does not slow down the execution. The
>>> PETSc shared library is the only one causing trouble.
>>>
>>> Here are the ldd output for two different versions. For the first version,
>>> I removed -lpetsc and it ran very fast. The second (slow) version was
>>> linked to petsc so.
>>>
>>> bash-4.2$ ldd ex_simple
>>> linux-vdso64.so.1 => (0x0000200000050000)
>>> liblapack.so.0 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/liblapack.so.0
>>> (0x0000200000070000)
>>> libblas.so.0 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libblas.so.0
>>> (0x00002000009b0000)
>>> libhdf5hl_fortran.so.100 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5hl_fortran.so.100
>>> (0x0000200000e80000)
>>> libhdf5_fortran.so.100 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5_fortran.so.100
>>> (0x0000200000ed0000)
>>> libhdf5_hl.so.100 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5_hl.so.100
>>> (0x0000200000f50000)
>>> libhdf5.so.103 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5.so.103
>>> (0x0000200000fb0000)
>>> libX11.so.6 => /usr/lib64/libX11.so.6 (0x00002000015e0000)
>>> libcufft.so.10 => /sw/summit/cuda/10.1.168/lib64/libcufft.so.10
>>> (0x0000200001770000)
>>> libcublas.so.10 => /sw/summit/cuda/10.1.168/lib64/libcublas.so.10
>>> (0x0000200009b00000)
>>> libcudart.so.10.1 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcudart.so.10.1 (0x000020000d950000)
>>> libcusparse.so.10 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcusparse.so.10 (0x000020000d9f0000)
>>> libcusolver.so.10 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcusolver.so.10 (0x0000200012f50000)
>>> libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x000020001dc40000)
>>> libdl.so.2 => /usr/lib64/libdl.so.2 (0x000020001ddd0000)
>>> libpthread.so.0 => /usr/lib64/libpthread.so.0 (0x000020001de00000)
>>> libmpiprofilesupport.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpiprofilesupport.so.3
>>> (0x000020001de40000)
>>> libmpi_ibm_usempi.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpi_ibm_usempi.so
>>> (0x000020001de70000)
>>> libmpi_ibm_mpifh.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpi_ibm_mpifh.so.3
>>> (0x000020001dea0000)
>>> libmpi_ibm.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpi_ibm.so.3
>>> (0x000020001df40000)
>>> libpgf90rtl.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf90rtl.so
>>> (0x000020001e0b0000)
>>> libpgf90.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf90.so
>>> (0x000020001e0f0000)
>>> libpgf90_rpm1.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf90_rpm1.so
>>> (0x000020001e6a0000)
>>> libpgf902.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf902.so
>>> (0x000020001e6d0000)
>>> libpgftnrtl.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgftnrtl.so
>>> (0x000020001e700000)
>>> libatomic.so.1 => /usr/lib64/libatomic.so.1 (0x000020001e730000)
>>> libpgkomp.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgkomp.so
>>> (0x000020001e760000)
>>> libomp.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libomp.so
>>> (0x000020001e790000)
>>> libomptarget.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libomptarget.so
>>> (0x000020001e880000)
>>> libpgmath.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgmath.so
>>> (0x000020001e8b0000)
>>> libpgc.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgc.so
>>> (0x000020001e9d0000)
>>> librt.so.1 => /usr/lib64/librt.so.1 (0x000020001eb40000)
>>> libm.so.6 => /usr/lib64/libm.so.6 (0x000020001eb70000)
>>> libgcc_s.so.1 => /usr/lib64/libgcc_s.so.1 (0x000020001ec60000)
>>> libc.so.6 => /usr/lib64/libc.so.6 (0x000020001eca0000)
>>> libz.so.1 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/zlib-1.2.11-2htm7ws4hgrthi5tyjnqxtjxgpfklxsc/lib/libz.so.1
>>> (0x000020001ee90000)
>>> libxcb.so.1 => /usr/lib64/libxcb.so.1 (0x000020001eef0000)
>>> /lib64/ld64.so.2 (0x0000200000000000)
>>> libcublasLt.so.10 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcublasLt.so.10 (0x000020001ef40000)
>>> libutil.so.1 => /usr/lib64/libutil.so.1 (0x0000200020e50000)
>>> libhwloc_ompi.so.15 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libhwloc_ompi.so.15
>>> (0x0000200020e80000)
>>> libevent-2.1.so.6 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libevent-2.1.so.6
>>> (0x0000200020ef0000)
>>> libevent_pthreads-2.1.so.6 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libevent_pthreads-2.1.so.6
>>> (0x0000200020f70000)
>>> libopen-rte.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libopen-rte.so.3
>>> (0x0000200020fa0000)
>>> libopen-pal.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libopen-pal.so.3
>>> (0x00002000210b0000)
>>> libXau.so.6 => /usr/lib64/libXau.so.6 (0x00002000211a0000)
>>>
>>>
>>> bash-4.2$ ldd ex_simple_slow
>>> linux-vdso64.so.1 => (0x0000200000050000)
>>> libpetsc.so.3.012 =>
>>> /autofs/nccs-svm1_home1/hongzh/Projects/petsc/arch-olcf-summit-sell-opt/lib/libpetsc.so.3.012
>>> (0x0000200000070000)
>>> liblapack.so.0 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/liblapack.so.0
>>> (0x0000200002be0000)
>>> libblas.so.0 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libblas.so.0
>>> (0x0000200003520000)
>>> libhdf5hl_fortran.so.100 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5hl_fortran.so.100
>>> (0x00002000039f0000)
>>> libhdf5_fortran.so.100 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5_fortran.so.100
>>> (0x0000200003a40000)
>>> libhdf5_hl.so.100 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5_hl.so.100
>>> (0x0000200003ac0000)
>>> libhdf5.so.103 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/hdf5-1.10.3-pgiul2yf4auv7krecd72t6vupd7e3qgn/lib/libhdf5.so.103
>>> (0x0000200003b20000)
>>> libX11.so.6 => /usr/lib64/libX11.so.6 (0x0000200004150000)
>>> libcufft.so.10 => /sw/summit/cuda/10.1.168/lib64/libcufft.so.10
>>> (0x00002000042e0000)
>>> libcublas.so.10 => /sw/summit/cuda/10.1.168/lib64/libcublas.so.10
>>> (0x000020000c670000)
>>> libcudart.so.10.1 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcudart.so.10.1 (0x00002000104c0000)
>>> libcusparse.so.10 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcusparse.so.10 (0x0000200010560000)
>>> libcusolver.so.10 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcusolver.so.10 (0x0000200015ac0000)
>>> libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00002000207b0000)
>>> libdl.so.2 => /usr/lib64/libdl.so.2 (0x0000200020940000)
>>> libpthread.so.0 => /usr/lib64/libpthread.so.0 (0x0000200020970000)
>>> libmpiprofilesupport.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpiprofilesupport.so.3
>>> (0x00002000209b0000)
>>> libmpi_ibm_usempi.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpi_ibm_usempi.so
>>> (0x00002000209e0000)
>>> libmpi_ibm_mpifh.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpi_ibm_mpifh.so.3
>>> (0x0000200020a10000)
>>> libmpi_ibm.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libmpi_ibm.so.3
>>> (0x0000200020ab0000)
>>> libpgf90rtl.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf90rtl.so
>>> (0x0000200020c20000)
>>> libpgf90.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf90.so
>>> (0x0000200020c60000)
>>> libpgf90_rpm1.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf90_rpm1.so
>>> (0x0000200021210000)
>>> libpgf902.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgf902.so
>>> (0x0000200021240000)
>>> libpgftnrtl.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgftnrtl.so
>>> (0x0000200021270000)
>>> libatomic.so.1 => /usr/lib64/libatomic.so.1 (0x00002000212a0000)
>>> libpgkomp.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgkomp.so
>>> (0x00002000212d0000)
>>> libomp.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libomp.so
>>> (0x0000200021300000)
>>> libomptarget.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libomptarget.so
>>> (0x00002000213f0000)
>>> libpgmath.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgmath.so
>>> (0x0000200021420000)
>>> libpgc.so =>
>>> /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/pgi-19.4-6acz4xyqjlpoaonjiiqjme2aknrfnzoy/linuxpower/19.4/lib/libpgc.so
>>> (0x0000200021540000)
>>> librt.so.1 => /usr/lib64/librt.so.1 (0x00002000216b0000)
>>> libm.so.6 => /usr/lib64/libm.so.6 (0x00002000216e0000)
>>> libgcc_s.so.1 => /usr/lib64/libgcc_s.so.1 (0x00002000217d0000)
>>> libc.so.6 => /usr/lib64/libc.so.6 (0x0000200021810000)
>>> libz.so.1 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/zlib-1.2.11-2htm7ws4hgrthi5tyjnqxtjxgpfklxsc/lib/libz.so.1
>>> (0x0000200021a10000)
>>> libxcb.so.1 => /usr/lib64/libxcb.so.1 (0x0000200021a60000)
>>> /lib64/ld64.so.2 (0x0000200000000000)
>>> libcublasLt.so.10 =>
>>> /sw/summit/cuda/10.1.168/lib64/libcublasLt.so.10 (0x0000200021ab0000)
>>> libutil.so.1 => /usr/lib64/libutil.so.1 (0x00002000239c0000)
>>> libhwloc_ompi.so.15 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libhwloc_ompi.so.15
>>> (0x00002000239f0000)
>>> libevent-2.1.so.6 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libevent-2.1.so.6
>>> (0x0000200023a60000)
>>> libevent_pthreads-2.1.so.6 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libevent_pthreads-2.1.so.6
>>> (0x0000200023ae0000)
>>> libopen-rte.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libopen-rte.so.3
>>> (0x0000200023b10000)
>>> libopen-pal.so.3 =>
>>> /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/pgi-19.4/spectrum-mpi-10.3.0.1-20190611-4ymaahbai7ehhw4rves5jjiwon2laz3a/lib/libopen-pal.so.3
>>> (0x0000200023c20000)
>>> libXau.so.6 => /usr/lib64/libXau.so.6 (0x0000200023d10000)
>>>
>>>
>>>> On Feb 7, 2020, at 2:31 PM, Smith, Barry F. <bsm...@mcs.anl.gov> wrote:
>>>>
>>>>
>>>> ldd -o on the executable of both linkings of your code.
>>>>
>>>> My guess is that without PETSc it is linking the static version of the
>>>> needed libraries and with PETSc the shared. And, in typical fashion, the
>>>> shared libraries are off on some super slow file system so take a long
>>>> time to be loaded and linked in on demand.
>>>>
>>>> Still a performance bug in Summit.
>>>>
>>>> Barry
>>>>
>>>>
>>>>> On Feb 7, 2020, at 12:23 PM, Zhang, Hong via petsc-dev
>>>>> <petsc-dev@mcs.anl.gov> wrote:
>>>>>
>>>>> Hi all,
>>>>>
>>>>> Previously I have noticed that the first call to a CUDA function such as
>>>>> cudaMalloc and cudaFree in PETSc takes a long time (7.5 seconds) on
>>>>> summit. Then I prepared a simple example as attached to help OCLF
>>>>> reproduce the problem. It turned out that the problem was caused by
>>>>> PETSc. The 7.5-second overhead can be observed only when the PETSc lib is
>>>>> linked. If I do not link PETSc, it runs normally. Does anyone have any
>>>>> idea why this happens and how to fix it?
>>>>>
>>>>> Hong (Mr.)
>>>>>
>>>>> bash-4.2$ cat ex_simple.c
>>>>> #include <time.h>
>>>>> #include <cuda_runtime.h>
>>>>> #include <stdio.h>
>>>>>
>>>>> int main(int argc,char **args)
>>>>> {
>>>>> clock_t start,s1,s2,s3;
>>>>> double cputime;
>>>>> double *init,tmp[100] = {0};
>>>>>
>>>>> start = clock();
>>>>> cudaFree(0);
>>>>> s1 = clock();
>>>>> cudaMalloc((void **)&init,100*sizeof(double));
>>>>> s2 = clock();
>>>>> cudaMemcpy(init,tmp,100*sizeof(double),cudaMemcpyHostToDevice);
>>>>> s3 = clock();
>>>>> printf("free time =%lf malloc time =%lf copy time =%lf\n",((double) (s1 -
>>>>> start)) / CLOCKS_PER_SEC,((double) (s2 - s1)) / CLOCKS_PER_SEC,((double)
>>>>> (s3 - s2)) / CLOCKS_PER_SEC);
>>>>>
>>>>> return 0;
>>>>> }
>>>>>
>>>>>
>>>>
>>>
>>
>
