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khou2020khou2020
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Use hdf5 1.13.3 in git action test
Add a script to test 1.13.2
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‎.github/workflows/hdf5_1.13.2.yml‎

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name: Ubuntu_mpich
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on:
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push:
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branches: [ master, dev ]
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paths-ignore:
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- '**.md'
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- '**.txt'
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- 'docs/**'
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- 'case_studies/**'
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pull_request:
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branches: [ master, dev ]
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paths-ignore:
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- '**.md'
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- '**.txt'
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- 'case_studies/**'
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jobs:
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build:
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v3
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- name: Set up dependencies
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run: |
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sudo apt-get update
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sudo apt-get install automake autoconf libtool libtool-bin m4
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# The MPICH installed on github actions is too slow
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# sudo apt-get install mpich
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# mpicc -v
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# zlib
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sudo apt-get install zlib1g-dev
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- name: Build MPICH
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run: |
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WORKDIR=$(pwd)
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rm -rf ${WORKDIR}/MPICH
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mkdir ${WORKDIR}/MPICH
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cd ${WORKDIR}/MPICH
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wget -q https://www.mpich.org/static/downloads/4.0.2/mpich-4.0.2.tar.gz
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gzip -dc mpich-4.0.2.tar.gz | tar -xf -
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cd mpich-4.0.2
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./configure --prefix=${WORKDIR}/MPICH \
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--silent \
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--enable-romio \
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--with-file-system=ufs \
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--with-device=ch3:sock \
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--disable-fortran \
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CC=gcc
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make -s LIBTOOLFLAGS=--silent V=1 -j 4 install > qout 2>&1
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make -s -j 4 distclean >> qout 2>&1
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cd ${WORKDIR}
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- name: Install HDF5
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run: |
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WORKDIR=$(pwd)
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rm -rf ${WORKDIR}/HDF5
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mkdir ${WORKDIR}/HDF5
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cd ${WORKDIR}/HDF5
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VERSION=1.13.2
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wget -cq https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.13/hdf5-${VERSION}/src/hdf5-${VERSION}.tar.gz
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tar -zxf hdf5-${VERSION}.tar.gz
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cd hdf5-${VERSION}
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./configure --prefix=${WORKDIR}/HDF5 \
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--silent \
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--disable-fortran \
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--disable-tests \
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--enable-parallel \
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--enable-build-mode=production \
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CC=${WORKDIR}/MPICH/bin/mpicc
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make -s LIBTOOLFLAGS=--silent V=1 -j 4 install > qout 2>&1
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make -s -j 4 distclean >> qout 2>&1
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cd ${WORKDIR}
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- name: Install NetCDF
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run: |
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WORKDIR=$(pwd)
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rm -rf ${WORKDIR}/NetCDF
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mkdir ${WORKDIR}/NetCDF
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cd ${WORKDIR}/NetCDF
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wget -qc https://github.com/Unidata/netcdf-c/archive/refs/tags/v4.7.4.tar.gz
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tar -zxf v4.7.4.tar.gz
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cd netcdf-c-4.7.4
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./configure --prefix=${WORKDIR}/NetCDF \
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--silent \
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--disable-dap \
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CC=${WORKDIR}/MPICH/bin/mpicc \
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CPPFLAGS="-I${WORKDIR}/HDF5/include" \
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LDFLAGS="-L${WORKDIR}//HDF5/lib" \
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LIBS="-lhdf5"
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make -s LIBTOOLFLAGS=--silent V=1 -j 4 install > qout 2>&1
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make -s -j 4 distclean >> qout 2>&1
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cd ${WORKDIR}
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- name: Build and test Log-layout based VOL
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run: |
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WORKDIR=$(pwd)
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echo ">>>>>>>> autoreconf -i"
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autoreconf -i
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echo ">>>>>>>> ./configure --with-hdf5=${WORKDIR}/HDF5 \
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--enable-test-netcdf4=${WORKDIR}/NetCDF \
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--enable-test-hdf5-iotest \
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--with-mpi=${WORKDIR}/MPICH"
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./configure --with-hdf5=${WORKDIR}/HDF5 \
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--enable-test-netcdf4=${WORKDIR}/NetCDF \
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--enable-test-hdf5-iotest \
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--with-mpi=${WORKDIR}/MPICH
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# Do NOT test QMCPACK, as it requires FFTW which fails to build
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echo ">>>>>>>> make -j 4"
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make -j 4
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# Do NOT parallel build, cmake for external tests can fail
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echo ">>>>>>>> make tests"
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make tests
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echo ">>>>>>>> make check"
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make check
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echo ">>>>>>>> make ptest"
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make ptest
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echo ">>>>>>>> make -j4 -s V=1 LIBTOOLFLAGS=--silent distcheck DISTCHECK_CONFIGURE_FLAGS="--silent --with-hdf5=${WORKDIR}/HDF5 --with-mpi=${WORKDIR}/MPICH""
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make -j4 -s V=1 LIBTOOLFLAGS=--silent distcheck DISTCHECK_CONFIGURE_FLAGS="--silent --with-hdf5=${WORKDIR}/HDF5 --with-mpi=${WORKDIR}/MPICH"
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cd ${WORKDIR}
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- name: Print log
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if: ${{ always() }}
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run: |
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WORKDIR=$(pwd)
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cat ${WORKDIR}/config.log
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ls -laht ${WORKDIR}
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[ -f ${WORKDIR}/H5VL_log-1.3.0/_build/sub/config.log ] && cat ${WORKDIR}/H5VL_log-1.3.0/_build/sub/config.log
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cat ${WORKDIR}/tests/basic/*.log
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cat ${WORKDIR}/tests/dynamic/*.log
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cat ${WORKDIR}/tests/testcases/*.log
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cat ${WORKDIR}/tests/nc4/*.log
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cat ${WORKDIR}/tests/external/hdf5_iotest/*.log
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# cat ${WORKDIR}/tests/external/openpmd/*.log
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cat ${WORKDIR}/examples/*.log
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cat ${WORKDIR}/examples/hdf5_examples/*.log
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cat ${WORKDIR}/utils/*/*.log
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‎.github/workflows/mac_mpich.yml‎

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- name: Install HDF5
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run: |
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WORKDIR=$(pwd)
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rm -rf hdf5-1.13.2.tar.gz hdf5-1.13.2 ${WORKDIR}/.local/hdf5 qout
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wget -qc https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.13/hdf5-1.13.2/src/hdf5-1.13.2.tar.gz
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tar -zxf hdf5-1.13.2.tar.gz
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cd hdf5-1.13.2
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VERSION=1.13.3
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rm -rf hdf5-${VERSION}.tar.gz hdf5-${VERSION} ${WORKDIR}/.local/hdf5 qout
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wget -cq https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.13/hdf5-${VERSION}/src/hdf5-${VERSION}.tar.gz
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tar -zxf hdf5-${VERSION}.tar.gz
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cd hdf5-${VERSION}
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./configure --prefix=${WORKDIR}/.local/hdf5/1.13.0 \
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--silent \
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--disable-fortran \

‎.github/workflows/ubuntu_mpich.yml‎

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rm -rf ${WORKDIR}/HDF5
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mkdir ${WORKDIR}/HDF5
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cd ${WORKDIR}/HDF5
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wget -qc https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.13/hdf5-1.13.2/src/hdf5-1.13.2.tar.gz
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tar -zxf hdf5-1.13.2.tar.gz
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cd hdf5-1.13.2
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VERSION=1.13.3
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wget -cq https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.13/hdf5-${VERSION}/src/hdf5-${VERSION}.tar.gz
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tar -zxf hdf5-${VERSION}.tar.gz
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cd hdf5-${VERSION}
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./configure --prefix=${WORKDIR}/HDF5 \
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--silent \
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--disable-fortran \

‎.github/workflows/ubuntu_openmpi.yml‎

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rm -rf HDF5
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mkdir HDF5
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cd HDF5
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VERSION=1.13.2
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VERSION=1.13.3
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wget -cq https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.13/hdf5-${VERSION}/src/hdf5-${VERSION}.tar.gz
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tar -zxf hdf5-${VERSION}.tar.gz
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cd hdf5-${VERSION}

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