remove stack test #696
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| name: Build & Run SIMPLE Tests | |
| on: | |
| workflow_dispatch: | |
| branches: [ continuous-integration ] | |
| push: | |
| branches: [ continuous-integration ] | |
| jobs: | |
| Build_and_Test_Linux: | |
| name: Build and Test SIMPLE on Linux Machine | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install Dependencies | |
| run: | | |
| sudo apt-get update | |
| echo "Install Basic Dependencies" | |
| sudo apt-get -y install cmake lzma-dev libtiff-dev libwebp-dev libfftw3-dev libjpeg-dev gnuplot sqlite3 nvidia-cuda-toolkit nvidia-cuda-toolkit-gcc openmpi-bin openmpi-doc libopenmpi-dev | |
| echo "Install GCC 15.2" | |
| sudo apt install software-properties-common | |
| sudo add-apt-repository ppa:ubuntu-toolchain-r/test | |
| sudo apt-get update | |
| sudo apt-get install gcc-14 g++-14 | |
| sudo update-alternatives --install /usr/bin/gcc gcc /usr/bin/gcc-14 100 | |
| sudo update-alternatives --install /usr/bin/g++ g++ /usr/bin/g++-14 100 | |
| sudo update-alternatives --install /usr/bin/gfortran gfortran /usr/bin/gfortran-14 100 | |
| echo "Install FFTW" | |
| wget ftp://ftp.fftw.org/pub/fftw/fftw-3.3.8.tar.gz | |
| tar zxvf fftw-3.3.8.tar.gz | |
| cd fftw-3.3.8 | |
| ./bootstrap.sh --prefix=/usr/local | |
| make -j | |
| sudo make install | |
| make distclean | |
| ./bootstrap.sh --prefix=/usr/local --enable-single | |
| make -j | |
| sudo make install | |
| make distclean | |
| cd .. | |
| echo "Intall EMAN2" | |
| #wget --no-check-certificate https://cryoem.bcm.edu/cryoem/static/software/release-2.99.47/eman2.99.47_sphire1.4_sparx_huge.linux64.sh | |
| #echo "eman2" | bash eman2.99.47_sphire1.4_sparx_huge.linux64.sh | |
| wget --no-check-certificate https://cryoem.bcm.edu/cryoem/static/software/continuous_build/eman2_sphire_sparx_huge.linux.unstable.sh | |
| echo "eman2" | bash eman2_sphire_sparx_huge.linux.unstable.sh | |
| ##eval "$($GITHUB_WORKSPACE/eman2/bin/conda shell.bash hook)" | |
| #eval "$($GITHUB_WORKSPACE/eman2/bin/conda update all)" | |
| #eval "$($GITHUB_WORKSPACE/eman2/bin/conda install mamba -c conda-forge)" | |
| #eval "$($GITHUB_WORKSPACE/eman2/bin/conda create -n eman2 eman-dev==2.99.47 -c cryoem -c conda-forge)" | |
| #eval "$($GITHUB_WORKSPACE/eman2/bin/conda activate eman2)" | |
| # - name: Tests Install SIMPLE debug mode | |
| # run: | | |
| # ./compile_debug.sh | |
| # #mkdir -p build | |
| # #cd build | |
| # #cmake .. -DGUI=off -DCMAKE_BUILD_TYPE=debug -DUSE_LIBTIFF=off | |
| # #make -j install | |
| # export SIMPLE_EMAIL="my.name@uni.edu" | |
| # export SIMPLE_QSYS="local" | |
| # export SIMPLE_PATH=$GITHUB_WORKSPACE/build | |
| # export PATH=${SIMPLE_PATH}/scripts:${SIMPLE_PATH}/bin:${PATH} | |
| # cd .. | |
| - name: Install SIMPLE | |
| run: | | |
| ./compile_clean.sh | |
| #mkdir -p build | |
| #cd build | |
| #cmake -DGUI=OFF .. | |
| #make -j install | |
| export SIMPLE_EMAIL="my.name@uni.edu" | |
| export SIMPLE_QSYS="local" | |
| export SIMPLE_PATH=$GITHUB_WORKSPACE/build | |
| export PATH=${SIMPLE_PATH}/scripts:${SIMPLE_PATH}/bin:${PATH} | |
| - name: Test SIMPLE | |
| run: | | |
| export SIMPLE_EMAIL="my.name@uni.edu" | |
| export SIMPLE_QSYS="local" | |
| export SIMPLE_PATH=$GITHUB_WORKSPACE/build | |
| export PATH=${SIMPLE_PATH}/scripts:${SIMPLE_PATH}/bin:${PATH} | |
| eval "$($GITHUB_WORKSPACE/eman2/bin/conda shell.bash hook)" | |
| echo "-------------------- TEST INSTALL -------------------------" | |
| simple_test_install | |
| echo "-------------------- TEST ANGRES -------------------------" | |
| simple_test_angres | |
| echo "-------------------- TEST ANSI COLORS -------------------------" | |
| simple_test_ansi_colors | |
| echo "-------------------- TEST BINORIS -------------------------" | |
| simple_test_binoris | |
| echo "-------------------- TEST BOUNDS FROM MASK3D -------------------------" | |
| simple_test_bounds_from_mask3D | |
| echo "-------------------- TEST COORS TO WEIGHTS -------------------------" | |
| simple_test_corrs2weights | |
| echo "-------------------- TEST CTF -------------------------" | |
| simple_test_ctf | |
| echo "-------------------- TEST EXTR FRAC -------------------------" | |
| simple_test_extr_frac | |
| echo "-------------------- TEST FILE INPUT OUTPUT IN PARALLEL-------------------------" | |
| simple_test_io_parallel | |
| echo "-------------------- TEST GRAPHENE MASK -------------------------" | |
| simple_test_graphene_mask | |
| echo "-------------------- TEST IMAGE FILE -------------------------" | |
| simple_test_imgfile | |
| echo "-------------------- TEST INSIDE WRITE -------------------------" | |
| simple_test_inside_write | |
| echo "-------------------- TEST INSTALL -------------------------" | |
| simple_test_install | |
| echo "-------------------- TEST INPUT OUTPUT -------------------------" | |
| simple_test_io | |
| echo "-------------------- TEST LPLIMS -------------------------" | |
| simple_test_lplims | |
| echo "-------------------- TEST MASK -------------------------" | |
| simple_test_mask | |
| echo "-------------------- TEST MULTIMODAL -------------------------" | |
| simple_test_multinomal | |
| echo "-------------------- TEST NEIGH -------------------------" | |
| simple_test_neigh | |
| echo "-------------------- TEST OPENMP -------------------------" | |
| simple_test_openmp | |
| echo "-------------------- TEST ORDER CORR -------------------------" | |
| simple_test_order_corr | |
| echo "-------------------- TEST ORI -------------------------" | |
| simple_test_ori | |
| echo "-------------------- TEST OTSU -------------------------" | |
| simple_test_otsu | |
| echo "-------------------- TEST PHASE CORR -------------------------" | |
| simple_test_phasecorr | |
| echo "-------------------- TEST RANK WEIGHTS -------------------------" | |
| simple_test_rank_weights | |
| echo "-------------------- TEST SERIALIZE -------------------------" | |
| simple_test_serialize | |
| echo "-------------------- TEST SIMD -------------------------" | |
| simple_test_simd | |
| echo "-------------------- TEST STRINGMATCH -------------------------" | |
| simple_test_stringmatch | |
| echo "-------------------- TEST SYM -------------------------" | |
| simple_test_sym | |
| echo "-------------------- TEST UNIFORM EULER -------------------------" | |
| simple_test_uniform_euler | |
| echo "-------------------- TEST UNIFORM ROT -------------------------" | |
| simple_test_uniform_rot | |
| echo "-------------------- TEST UNITS -------------------------" | |
| simple_test_units | |
| # Build_and_Test_MacOS: | |
| # name: Build and Test SIMPLE on MacOS x86_64 | |
| # runs-on: macos-latest | |
| # steps: | |
| # - uses: actions/checkout@v3 | |
| # | |
| # - name: Install Dependencies | |
| # run: | | |
| # uname -a | |
| # echo "Install Dependencies" | |
| # brew update | |
| # brew install cmake gcc fftw libtiff jbigkit sqlite | |
| # brew upgrade | |
| # echo "Intall EMAN2" | |
| # wget https://cryoem.bcm.edu/cryoem/static/software/release-2.99.47/eman2.99.47_sphire1.4_sparx.MacOS.sh | |
| # echo "eman2" | bash eman2.99.47_sphire1.4_sparx.MacOS.sh | |
| # eval "$($GITHUB_WORKSPACE/eman2/bin/conda shell.bash hook)" | |
| # | |
| # which gfortran | |
| # | |
| # - name: Install SIMPLE | |
| # run: | | |
| # mkdir -p build | |
| # cd build | |
| # cmake -DGUI=OFF .. | |
| # make -j install | |
| # export SIMPLE_EMAIL="my.name@uni.edu" | |
| # export SIMPLE_QSYS="local" | |
| # export SIMPLE_PATH=$GITHUB_WORKSPACE/build | |
| # export PATH=${SIMPLE_PATH}/scripts:${SIMPLE_PATH}/bin:${PATH} | |
| # #xcode-select --install |