Update cmake and PDI and add kokkos, kokkos-kernels and kokkos-tools …

…in the docker image

- Update PDI to v1.8 from github (previously in gitlab)
- Update cmake to v3.27
- Install Ginkgo on Release, to minimize the image size
- Install Kokkos, Kokkos-fft, Kokkos Kernels and Kokkos Tools:
  - Serial backend in `/opt/serial`
  - OpenMP backend (Serial disabled) in `/opt/openmp`

See merge request gysela-developpers/gyselalibxx!804

--------------------------------------------

docker/gyselalibxx_env/Dockerfile

@@ -4,6 +4,7 @@ FROM ubuntu:jammy
 
 COPY bash_run /bin/
 ENV BASH_ENV=/etc/profile
+ENV PATH=/opt/cmake-3.27/bin:${PATH:+:${PATH}}
 SHELL ["/bin/bash", "-c"]
 
 
@@ -18,17 +19,15 @@ RUN chmod +x /bin/bash_run \
     apt-utils \
     ca-certificates \
     wget \
- && echo "deb [ arch=amd64 ] https://raw.githubusercontent.com/pdidev/repo/pdi-master.ubuntu jammy main" > /etc/apt/sources.list.d/pdi.list \
- && wget -O /etc/apt/trusted.gpg.d/pdidev-archive-keyring.gpg https://raw.githubusercontent.com/pdidev/repo/pdi-master.ubuntu/pdidev-archive-keyring.gpg \
+ && echo "deb [ arch=amd64 ] https://repo.pdi.dev/ubuntu jammy main" > /etc/apt/sources.list.d/pdi.list \
+ && wget -O /etc/apt/trusted.gpg.d/pdidev-archive-keyring.gpg https://repo.pdi.dev/ubuntu/pdidev-archive-keyring.gpg \
  && chmod a+r /etc/apt/trusted.gpg.d/pdidev-archive-keyring.gpg \
  && apt-get update -y \
  && apt-get install -y --no-install-recommends \
     build-essential \
     clang-format \
-    cmake \
     doxygen \
     pkg-config \
-    cmake-data \
     git \
     libfftw3-dev \
     liblapacke-dev \
@@ -41,13 +40,60 @@ RUN chmod +x /bin/bash_run \
     pdiplugin-set-value \
     python3-pip \
     libpdi-dev \
+ && wget https://cmake.org/files/v3.27/cmake-3.27.9-linux-x86_64.tar.gz \
+ && tar --extract --file cmake-3.27.9-linux-x86_64.tar.gz \
+ && mv cmake-3.27.9-linux-x86_64 /opt/cmake-3.27 \
  && git clone -b v1.8.0 https://github.com/ginkgo-project/ginkgo.git \
  && cd ginkgo \
- && cmake -S . -B build -DCMAKE_BUILD_TYPE=RelWithDebInfo -DGINKGO_BUILD_TESTS=OFF -DGINKGO_BUILD_EXAMPLES=OFF -DGINKGO_BUILD_BENCHMARKS=OFF \
+ && cmake -DCMAKE_BUILD_TYPE=Release -DGINKGO_BUILD_TESTS=OFF -DGINKGO_BUILD_EXAMPLES=OFF -DGINKGO_BUILD_BENCHMARKS=OFF -B build \
  && cmake --build build \
  && cmake --install build \
  && cd .. \
  && rm -rf ginkgo \
+ && git clone --branch 4.4.01 --depth 1 https://github.com/kokkos/kokkos.git \
+ && git clone --branch develop-spline-kernels-v2 --depth 1 https://github.com/yasahi-hpc/kokkos-kernels \
+ && git clone --branch develop --depth 1 https://github.com/kokkos/kokkos-tools.git \
+ && git clone --branch v0.2.1 --depth 1 https://github.com/kokkos/kokkos-fft.git \
+ && export Kokkos_ROOT=/opt/serial/kokkos \
+ && export KokkosFFT_ROOT=/opt/serial/kokkos-fft \
+ && export KokkosKernels_ROOT=/opt/serial/kokkos-kernels \
+ && export KokkosTools_ROOT=/opt/serial/kokkos-tools \
+ && cmake -DCMAKE_BUILD_TYPE=Release -DKokkos_ENABLE_DEPRECATED_CODE_4=OFF -DKokkos_ENABLE_SERIAL=ON -B build -S kokkos \
+ && cmake --build build \
+ && cmake --install build --prefix $Kokkos_ROOT \
+ && rm -rf build \
+ && cmake -DCMAKE_BUILD_TYPE=Release -B build -S kokkos-fft \
+ && cmake --build build \
+ && cmake --install build --prefix $KokkosFFT_ROOT \
+ && rm -rf build \
+ && cmake -DCMAKE_BUILD_TYPE=Release -B build -S kokkos-kernels \
+ && cmake --build build \
+ && cmake --install build --prefix $KokkosKernels_ROOT \
+ && rm -rf build \
+ && cmake -DCMAKE_BUILD_TYPE=Release -B build -S kokkos-tools \
+ && cmake --build build \
+ && cmake --install build --prefix $KokkosTools_ROOT \
+ && rm -rf build \
+ && export Kokkos_ROOT=/opt/openmp/kokkos \
+ && export KokkosFFT_ROOT=/opt/openmp/kokkos-fft \
+ && export KokkosKernels_ROOT=/opt/openmp/kokkos-kernels \
+ && export KokkosTools_ROOT=/opt/openmp/kokkos-tools \
+ && cmake -DCMAKE_BUILD_TYPE=Release -DKokkos_ENABLE_DEPRECATED_CODE_4=OFF -DKokkos_ENABLE_OPENMP=ON -B build -S kokkos \
+ && cmake --build build \
+ && cmake --install build --prefix $Kokkos_ROOT \
+ && rm -rf build \
+ && cmake -DCMAKE_BUILD_TYPE=Release -B build -S kokkos-fft \
+ && cmake --build build \
+ && cmake --install build --prefix $KokkosFFT_ROOT \
+ && rm -rf build \
+ && cmake -DCMAKE_BUILD_TYPE=Release -B build -S kokkos-kernels \
+ && cmake --build build \
+ && cmake --install build --prefix $KokkosKernels_ROOT \
+ && rm -rf build \
+ && cmake -DCMAKE_BUILD_TYPE=Release -B build -S kokkos-tools \
+ && cmake --build build \
+ && cmake --install build --prefix $KokkosTools_ROOT \
+ && rm -rf build kokkos kokkos-fft kokkos-kernels kokkos-tools \
  && git clone -b 2.14.2 https://github.com/danmar/cppcheck.git \
  && cd cppcheck \
  && cmake -S . -B build \