Merge branch 'release/1.9.0' into ursa-1.9.0

.github/workflows/ubuntu-ci-x86_64-gnu.yaml

@@ -137,6 +137,7 @@ jobs:
               # https://github.com/spack/spack/issues/48971
               echo "rust dependencies ..."
               spack install --verbose --source --no-check-signature --only=dependencies rust 2>&1 | tee log.install.gnu-11.4.0-buildcache.${TEMPLATE}.001.rust-dependencies
+
               # rust from source
               echo "rust (from source) ..."
               spack install --verbose --source --no-cache rust 2>&1 | tee log.install.gnu-11.4.0-buildcache.${TEMPLATE}.002.rust

configs/sites/tier1/acorn/compilers.yaml

@@ -21,7 +21,7 @@ compilers:
         CONFIG_SITE: ''
     extra_rpaths: []
 - compiler:
-    spec: intel@2022.0.2.262
+    spec: intel@2022.2.0.262
     paths:
       cc: cc
       cxx: CC

configs/sites/tier1/acorn/packages.yaml

@@ -41,3 +41,6 @@
       externals:
       - spec: [email protected]
         prefix: /usr
+    esmf:
+      require:
+      - '+python'

configs/sites/tier1/acorn/packages_intel.yaml

@@ -32,9 +32,7 @@
     py-numpy:
       require::
       - '^[virtuals=lapack,blas] openblas'
-      - '@:1.25'
-      - any_of: ['@:1.24']
-        when: '%[email protected]'
+      - '@1.26 %gcc'
     # *DH
     eckit:
       require:

configs/sites/tier1/s4/compilers.yaml

@@ -17,6 +17,27 @@ compilers:
         LD_LIBRARY_PATH: /opt/intel/oneapi/2023.2/compiler/2023.2.0/linux/compiler/lib/intel64_lin:/opt/gcc/10.2.0/lib64:/opt/gcc/10.2.0/lib
         CPATH: /opt/gcc/10.2.0/include
     extra_rpaths: []
+- compiler:
+    spec: [email protected]
+    paths:
+      cc: /opt/intel/oneapi/2024/compiler/2024.2/bin/icx
+      cxx: /opt/intel/oneapi/2024/compiler/2024.2/bin/icpx
+      f77: /opt/intel/oneapi/2024/compiler/2024.2/bin/ifort
+      fc: /opt/intel/oneapi/2024/compiler/2024.2/bin/ifort
+    flags:
+      fflags: -diag-disable=10448
+    operating_system: rocky8
+    target: x86_64
+    modules:
+    - intel/2024.2
+    environment:
+      prepend_path:
+        PATH: /opt/gcc/10.2.0/bin
+        LD_LIBRARY_PATH: /opt/gcc/10.2.0/lib64:/opt/gcc/10.2.0/lib
+        CPATH: /opt/gcc/10.2.0/include
+      append_path:
+        PATH: /opt/intel/oneapi/2024/compiler/2024.2/opt/compiler/include/intel64
+    extra_rpaths: []
 - compiler:
     spec: gcc@=13.3.0
     paths:
@@ -58,3 +79,4 @@ compilers:
     modules: []
     environment: {}
     extra_rpaths: []
+

configs/sites/tier1/s4/packages.yaml

@@ -1,8 +1,10 @@
 packages:
   all:
-    compiler:: [[email protected],[email protected]]
+    compiler:: [[email protected],[email protected]]
+    #compiler:: [[email protected],[email protected]]
     providers:
-      mpi:: [[email protected]]
+      mpi:: [[email protected]]
+      # mpi:: [[email protected]]
       # Remove the next three lines to switch to intel-oneapi-mkl
       blas:: [openblas]
       fftw-api:: [fftw]
@@ -14,18 +16,24 @@ packages:
 ### MPI, Python, MKL
   mpi:
     buildable: False
+  #intel-oneapi-mpi:
+  #  externals:
+  #  - spec: [email protected]%[email protected] +classic-names
+  #    prefix: /opt/intel/oneapi/2024
+  #    modules:
+  #    - intel/2023.2
   intel-oneapi-mpi:
     externals:
-    - spec: intel-oneapi-mpi@2021.10.0%[email protected] +classic-names
-      prefix: /opt/intel/oneapi/2023.2
+    - spec: intel-oneapi-mpi@2021.13%[email protected]
+      prefix: /opt/intel/oneapi/2024
       modules:
-      - intel/2023.2
+      - intel/2024.2
   intel-oneapi-mkl:
     # Remove buildable: False and uncomment externals section below to use intel-oneapi-mkl
     buildable: False
     #externals:
     #- spec: [email protected]%[email protected]
-    #  prefix: /opt/intel/oneapi/2023.2
+    #  prefix: /opt/intel/oneapi/2024
     #  modules:
     #  - intel/2023.2
   # Remove this section to switch to intel-oneapi-mkl
@@ -80,7 +88,7 @@ packages:
     externals:
     - spec: [email protected]
       prefix: /usr
-  # OS curl/openssl cause problems 
+  # OS curl/openssl cause problems
   #curl:
   #  externals:
   #  - spec: [email protected]+gssapi+ldap+nghttp2
@@ -203,3 +211,4 @@ packages:
     externals:
     - spec: [email protected]
       prefix: /usr
+

configs/sites/tier1/wcoss2/compilers.yaml

@@ -0,0 +1,45 @@
+compilers:
+- compiler:
+    spec: [email protected]
+    paths:
+      cc: cc
+      cxx: CC
+      f77: ftn
+      fc: ftn
+    flags: {}
+    operating_system: sles15
+    modules:
+    - PrgEnv-intel/8.3.3
+    - craype/2.7.17
+    - intel/19.1.3.304
+    - libfabric
+    environment:
+      set:
+        # OpenSUSE on WCOSS2 machines sets CONFIG_SITE so 
+        # Automake-based builds are installed in lib64 
+        # which confuses some packages.
+        CONFIG_SITE: ''
+      unset: [PYTHONPATH]
+    extra_rpaths: []
+- compiler:
+    spec: [email protected]
+    paths:
+      cc: cc
+      cxx: CC
+      f77: ftn
+      fc: ftn
+    flags: {}
+    operating_system: sles15
+    modules:
+    - PrgEnv-gnu/8.3.3
+    - craype/2.7.13
+    - gcc/10.2.0
+    - libfabric
+    environment:
+      set:
+        # OpenSUSE on WCOSS2 machines sets CONFIG_SITE so 
+        # Automake-based builds are installed in lib64 
+        # which confuses some packages.
+        CONFIG_SITE: ''
+      unset: [PYTHONPATH]
+    extra_rpaths: []

configs/sites/tier1/wcoss2/config.yaml

@@ -0,0 +1,5 @@
+config:
+  build_jobs: 6
+  template_dirs:
+  - $env/site/templates
+  - $spack/share/spack/templates

configs/sites/tier1/wcoss2/modules.yaml

@@ -0,0 +1,16 @@
+modules:
+  default:
+    enable::
+    - lmod
+    lmod:
+      include:
+      - python
+      hierarchy:
+      - mpi
+      - hdf5_virtual
+      - netcdf_c_virtual
+      - esmf_virtual
+      - python_virtual
+      boost:
+        suffixes:
+          '%gcc': gcc

configs/sites/tier1/wcoss2/packages.yaml

@@ -0,0 +1,126 @@
+  packages:
+    #
+    ### Set compiler.
+    #
+    all:
+      prefer: ['%[email protected]']
+      compiler:: [[email protected]]
+      providers:
+        mpi: [cray-mpich]
+    #
+    ### Strictly set virtual package providers.
+    #
+    mpi:
+      buildable: False
+      require: cray-mpich
+    fftw-api:
+      require: fftw
+    blas:
+      require: openblas
+    lapack:
+      require: openblas
+    jpeg:
+      require: libjpeg-turbo
+    #
+    ### External packages.
+    #
+    cray-mpich:
+      externals:
+      - spec: [email protected]~wrappers
+        modules:
+        - libfabric
+        - craype-network-ofi
+        - cray-mpich/8.1.9
+    #
+    ### Individual package settings.
+    # Use `require::` to override require's from {common,site}/packages.yaml,
+    # and `require:<newline>  - '...'` to add to existing ones.
+    #
+    boost:
+      require::
+      - '@1.84 ~atomic +chrono +date_time +exception +filesystem ~graph ~iostreams
+        ~locale ~log ~math ~mpi ~numpy +pic +program_options +python ~random +regex
+        +serialization ~signals +system +test +thread +timer ~wave visibility=hidden cxxstd=17'
+    cdo:
+      require:
+      - 'grib2=none'   # avoids eccodes/grib-api dependency
+      - '%intel'
+      - any_of: ["@2.2.2"]
+        when: "%[email protected]"
+        message: "2.3.0 is the last version to use C++17"
+      - any_of: ["@2.0.5"]
+        when: "%[email protected]"
+        message: "2.0.5 is the last version to use C++14"
+    curl:
+      require:
+      - ~nghttp2   # avoid nghttp2 dependency
+    eccodes:
+      require:
+      - any_of: ["@2.25.0"]
+        when: "%[email protected]"
+        message: "2.25.0 is the last version to use C++11 (as opposed to C++17)"
+    ecmwf-atlas:
+      'require:':
+      - +fckit ~trans ~fftw   # disabling trans and fftw to minimize dependencies; older version because newer eckit doesn't build with intel@19
+      - any_of: ['@:0.39']
+        when: '%[email protected]'
+    ectrans:
+      require::
+      - '@1.2.0 ~mkl +fftw'
+    esmf:
+      require:
+      - snapshot=none   # make sure spack-stack doesn't accidentally give us a beta snapshot
+      - '~python'
+    fckit:
+      'require:': +eckit   # older version needed for older eckit & ecmwf-atlas
+    flex:
+      require: '@2.6.4'
+    gcc-runtime:
+      require: '%gcc'
+    gdal:
+      variants: ~curl
+    gettext:
+      version: ['0.19.7']
+    git-lfs:
+      require: '%gcc'
+    glib:
+      require:
+      - any_of: ['@:2.74.3']
+        when: '%intel@:19'
+    gsibec:
+      require::
+      - '@1.2.1 ~mkl'
+    harfbuzz:
+      require: '%gcc'
+    libffi:
+      require: '@3.3'
+    libunistring:
+      require: '@:1.0'
+    mapl:
+      require:
+      - ~pflogger ~fargparse ~extdata2g #   minimize dependencies
+    netcdf-c:
+      'require:': +mpi ~parallel-netcdf ~dap ~blosc ~szip build_system=autotools # disabling dap prevents network access; disabling blosc and szip reduces dependencies
+    patchelf:
+      version: ['0.13.1']
+    py-cython::
+      require: '@0.29.36'
+    py-numpy:
+      require::
+      - '^[virtuals=lapack,blas] openblas'
+      - '@:1.25'
+      - any_of: ['@:1.24']
+        when: '%intel@:19'
+    py-pandas:
+      'require:': ~excel #   minimize dependencies
+    py-scipy:
+      require:
+      - any_of: ["@1.10.1"]
+        when: '%intel@:19'
+    py-setuptools:
+      require: '@63.4.3' #   avoid duplicate build deps
+    rhash:
+      version: ['1.3.5']
+    subversion:
+      require:
+      - ~serf +pic #   avoid serf dependency