Update Orion site config after Rocky9 transition (for develop)

configs/sites/orion/compilers.yaml

@@ -1,33 +1,35 @@
 compilers:
 - compiler:
-    spec: intel@2022.0.2
+    spec: intel@2021.9.0
     paths:
-      cc: /apps/intel-2022.1.2/intel-2022.1.2/compiler/2022.0.2/linux/bin/intel64/icc
-      cxx: /apps/intel-2022.1.2/intel-2022.1.2/compiler/2022.0.2/linux/bin/intel64/icpc
-      f77: /apps/intel-2022.1.2/intel-2022.1.2/compiler/2022.0.2/linux/bin/intel64/ifort
-      fc: /apps/intel-2022.1.2/intel-2022.1.2/compiler/2022.0.2/linux/bin/intel64/ifort
-    flags: {}
-    operating_system: centos7
+      cc: /apps/spack-managed/gcc-11.3.1/intel-oneapi-compilers-2023.1.0-sb753366rvywq75zeg4ml5k5c72xgj72/compiler/2023.1.0/linux/bin/intel64/icc
+      cxx: /apps/spack-managed/gcc-11.3.1/intel-oneapi-compilers-2023.1.0-sb753366rvywq75zeg4ml5k5c72xgj72/compiler/2023.1.0/linux/bin/intel64/icpc
+      f77: /apps/spack-managed/gcc-11.3.1/intel-oneapi-compilers-2023.1.0-sb753366rvywq75zeg4ml5k5c72xgj72/compiler/2023.1.0/linux/bin/intel64/ifort
+      fc: /apps/spack-managed/gcc-11.3.1/intel-oneapi-compilers-2023.1.0-sb753366rvywq75zeg4ml5k5c72xgj72/compiler/2023.1.0/linux/bin/intel64/ifort
+    flags:
+      cflags: -diag-disable=10441
+      cxxflags: -diag-disable=10441
+      fflags: -diag-disable=10448
+    operating_system: rocky9
     target: x86_64
     modules:
-    - intel/2022.1.2
+    - intel-oneapi-compilers/2023.1.0
     environment:
-      prepend_path:
-        PATH: '/apps/gcc-10.2.0/gcc-10.2.0/bin'
-        LD_LIBRARY_PATH: '/apps/gcc-10.2.0/gcc-10.2.0/lib64:/apps/gcc-10.2.0/gcc-10.2.0/contrib/lib'
-        CPATH: '/apps/gcc-10.2.0/gcc-10.2.0/include'
+      set:
+        # https://github.com/ufs-community/ufs-weather-model/issues/2015#issuecomment-1864438186
+        I_MPI_EXTRA_FILESYSTEM: 'ON'
     extra_rpaths: []
 - compiler:
-    spec: gcc@10.2.0
+    spec: gcc@12.2.0
     paths:
-      cc: /apps/gcc-10.2.0/gcc-10.2.0/bin/gcc
-      cxx: /apps/gcc-10.2.0/gcc-10.2.0/bin/g++
-      f77: /apps/gcc-10.2.0/gcc-10.2.0/bin/gfortran
-      fc: /apps/gcc-10.2.0/gcc-10.2.0/bin/gfortran
+      cc: /apps/spack-managed/gcc-11.3.1/gcc-12.2.0-7cu3qahzhsxpauy4jlnsbcqmlbkxbbbo/bin/gcc
+      cxx: /apps/spack-managed/gcc-11.3.1/gcc-12.2.0-7cu3qahzhsxpauy4jlnsbcqmlbkxbbbo/bin/g++
+      f77: /apps/spack-managed/gcc-11.3.1/gcc-12.2.0-7cu3qahzhsxpauy4jlnsbcqmlbkxbbbo/bin/gfortran
+      fc: /apps/spack-managed/gcc-11.3.1/gcc-12.2.0-7cu3qahzhsxpauy4jlnsbcqmlbkxbbbo/bin/gfortran
     flags: {}
-    operating_system: centos7
+    operating_system: rocky9
     target: x86_64
     modules:
-    - gcc/10.2.0
+    - gcc/12.2.0
     environment: {}
     extra_rpaths: []

configs/sites/orion/packages.yaml

@@ -1,32 +1,27 @@
 packages:
   all:
-    compiler:: [intel@2022.0.2, gcc@10.2.0]
+    compiler:: [intel@2021.9.0, gcc@12.2.0]
     providers:
-      mpi:: [intel-oneapi-mpi@2021.5.1, openmpi@4.0.4]
-      # https://github.com/JCSDA/spack-stack/issues/1055
+      mpi:: [intel-oneapi-mpi@2021.9.0, openmpi@4.1.4]
       zlib-api:: [zlib]
 
 ### MPI, Python, MKL
   mpi:
     buildable: False
   intel-oneapi-mpi:
     externals:
-    - spec: intel-oneapi-mpi@2021.5.1%intel@2022.0.2
-      prefix: /apps/intel-2022.1.2/intel-2022.1.2
+    - spec: intel-oneapi-mpi@2021.9.0%intel@2021.9.0
+      #prefix: /apps/spack-managed/oneapi-2023.1.0/intel-oneapi-mpi-2021.9.0-a66eaipzsnyrdgaqzxmqmqz64qzvhkse
       modules:
-      - impi/2022.1.2
+      - intel-oneapi-mpi/2021.9.0
   openmpi:
     externals:
-    - spec: openmpi@4.0.4%gcc@10.2.0~cuda~cxx~cxx_exceptions~java~memchecker+pmi~static~wrapper-rpath
-        fabrics=ucx schedulers=slurm +internal-hwloc +two_level_namespace
-      prefix: /apps/gcc-10.2.0/openmpi-4.0.4/openmpi-4.0.4
+    - spec: openmpi@4.1.4%gcc@12.2.0 ~atomics~cuda~cxx~cxx_exceptions~gpfs~internal-hwloc~internal-libevent~internal-pmix~java~legacylaunchers~lustre~memchecker~openshmem~orterunprefix+pmi+romio+rsh~singularity+static+vt+wrapper-rpath fabrics=none romio-filesystem=none schedulers=slurm
       modules:
-      - openmpi/4.0.4
+      - gcc/12.2.0
+      - openmpi/4.1.4
 
 ### Modifications of common packages
-  # Temporary - see https://github.com/spack/spack/issues/41947
-  cdo:
-    require: '@2.0.5'
 
 ### All other external packages listed alphabetically
   autoconf:
@@ -35,31 +30,31 @@ packages:
       prefix: /usr
   automake:
     externals:
-    - spec: automake@1.13.4
+    - spec: automake@1.16.2
       prefix: /usr
-  bash:
+  binutils:
     externals:
-    - spec: bash@4.2.46
+    - spec: binutils@2.35.2
       prefix: /usr
-  berkeley-db:
+  bison:
     externals:
-    - spec: berkeley-db@5.3.21
+    - spec: bison@3.7.4
       prefix: /usr
-  bzip2:
+  coreutils:
     externals:
-    - spec: bzip2@1.0.6
+    - spec: coreutils@8.32
       prefix: /usr
-  cpio:
+  cmake:
     externals:
-    - spec: cpio@2.11
+    - spec: cmake@3.20.2
       prefix: /usr
-  diffutils:
+  curl:
     externals:
-    - spec: diffutils@3.3
+    - spec: curl@7.76.1+gssapi+ldap+nghttp2
       prefix: /usr
-  doxygen:
+  diffutils:
     externals:
-    - spec: doxygen@1.8.5+graphviz~mscgen
+    - spec: diffutils@3.7
       prefix: /usr
   ecflow::
     buildable: False
@@ -68,128 +63,76 @@ packages:
       prefix: /work/noaa/epic/role-epic/spack-stack/orion/ecflow-5.8.4
       modules:
       - ecflow/5.8.4
-  file:
-    externals:
-    - spec: file@5.11
-      prefix: /usr
   findutils:
     externals:
-    - spec: findutils@4.5.11
+    - spec: findutils@4.8.0
       prefix: /usr
   flex:
     externals:
-    - spec: flex@2.5.37+lex
+    - spec: flex@2.6.4+lex
       prefix: /usr
   gawk:
     externals:
-    - spec: gawk@4.0.2
+    - spec: gawk@5.1.0
       prefix: /usr
   gettext:
     externals:
-    - spec: gettext@0.19.8.1
-      prefix: /usr
-  ghostscript:
-    externals:
-    - spec: ghostscript@9.07
+    - spec: gettext@0.21
       prefix: /usr
   git:
     externals:
-    - spec: git@2.28.0+tcltk
-      prefix: /apps/git-2.28.0
-    - spec: git@1.8.3.1~tcltk
+    - spec: git@2.31.1~tcltk
       prefix: /usr
   git-lfs:
     externals:
-    - spec: git-lfs@2.12.0
-      prefix: /apps/git-2.28.0
+    - spec: git-lfs@3.1.2
+      prefix: /apps/spack-managed/gcc-11.3.1/git-lfs-3.1.2
   gmake:
     externals:
-    - spec: gmake@3.82
+    - spec: gmake@4.3
       prefix: /usr
   groff:
     externals:
-    - spec: groff@1.22.2
-      prefix: /usr
-  openjdk:
-    externals:
-    - spec: openjdk@1.8.0_222-b10
-      prefix: /usr
-  krb5:
-    externals:
-    - spec: krb5@1.15.1
-      prefix: /usr
-  libfuse:
-    externals:
-    - spec: libfuse@2.9.2
-      prefix: /usr
-  libxpm:
-    externals:
-    - spec: libxpm@4.11.0
-      prefix: /usr
-  lustre:
-    externals:
-    - spec: lustre@2.12.6_ddn51
+    - spec: groff@1.22.4
       prefix: /usr
+  # Don't use, incomplete installation!
+  #libtool:
+  #  externals:
+  #  - spec: libtool@2.4.6
+  #    prefix: /usr
   m4:
     externals:
-    - spec: m4@1.4.16
+    - spec: m4@1.4.19
       prefix: /usr
-  mysql:
-    buildable: False
+  openssh:
     externals:
-    - spec: mysql@8.0.31
-      prefix: /work/noaa/epic/role-epic/spack-stack/orion/mysql-8.0.31
-      modules:
-      - mysql/8.0.31
-  ncurses:
+    - spec: openssh@8.7p1
+      prefix: /usr
+  openssl:
     externals:
-    - spec: ncurses@5.9.20130511+termlib abi=5
+    - spec: openssl@3.0.1
       prefix: /usr
   perl:
     externals:
-    - spec: perl@5.16.3+cpanm+shared+threads
+    - spec: perl@5.32.1~cpanm+opcode+open+shared+threads
       prefix: /usr
-  pkg-config:
+  pkgconf:
     externals:
-    - spec: pkg-config@0.27.1
+    - spec: pkgconf@1.7.3
       prefix: /usr
   qt:
     externals:
-    - spec: qt@5.9.2
-      prefix: /usr
-  rsync:
-    externals:
-    - spec: rsync@3.1.2
-      prefix: /usr
-  ruby:
-    externals:
-    - spec: ruby@2.0.0
-      prefix: /usr
+    - spec: qt@5.15.8
+      prefix:  /apps/spack-managed/gcc-11.3.1/qt-5.15.8-d47tsna6f5dylcpblkfgw4gpn2cucihd
   sed:
     externals:
-    - spec: sed@4.2.2
+    - spec: sed@4.8
       prefix: /usr
-  tar:
+  subversion:
     externals:
-    - spec: tar@1.26
+    - spec: subversion@1.14.1
       prefix: /usr
-  texinfo:
-    externals:
-    - spec: texinfo@5.1
-      prefix: /usr
-  texlive:
-    externals:
-    - spec: texlive@20130530
-      prefix: /usr
-  wget:
-    externals:
-    - spec: wget@1.14
-      prefix: /usr
-  xz:
-    externals:
-    - spec: xz@5.2.2
-      prefix: /usr
-  zip:
+  tar:
     externals:
-    - spec: zip@3.0
+    - spec: tar@1.34
       prefix: /usr

doc/source/PreConfiguredSites.rst

@@ -115,33 +115,34 @@ MSU Orion
 
 The following is required for building new spack environments and for using spack to build and run software.
 
+.. note:: For spack-stack develop, use module path ``/work/noaa/epic/role-epic/spack-stack/orion/modulefiles-rocky9`` instead of ``/work/noaa/epic/role-epic/spack-stack/orion/modulefiles``. Note also that the ``openmpi`` version for ``gcc@12.2.0`` changes to ``4.1.4``.
+
 .. code-block:: console
 
    module purge
    module use /work/noaa/epic/role-epic/spack-stack/orion/modulefiles
-   module load python/3.9.2
    module load ecflow/5.8.4
 
 For ``spack-stack-1.7.0`` with Intel, load the following modules after loading miniconda and ecflow:
 
 .. code-block:: console
 
-   module use /work/noaa/epic/role-epic/spack-stack/orion/spack-stack-1.7.0/envs/ue-intel-centos/install/modulefiles/Core
-   module load stack-intel/2022.0.2
-   module load stack-intel-oneapi-mpi/2021.5.1
+   module use /work/noaa/epic/role-epic/spack-stack/orion/spack-stack-1.7.0/envs/ue-intel/install/modulefiles/Core
+   module load stack-intel/2021.9.0
+   module load stack-intel-oneapi-mpi/2021.9.0
    module load stack-python/3.10.13
 
 For ``spack-stack-1.7.0`` with GNU, load the following modules after loading miniconda and ecflow:
 
 .. code-block:: console
 
-   module use /work/noaa/epic/role-epic/spack-stack/orion/spack-stack-1.7.0/envs/ue-gcc-centos/install/modulefiles/Core
-   module load stack-gcc/10.2.0
-   module load stack-openmpi/4.0.4
+   module use /work/noaa/epic/role-epic/spack-stack/orion/spack-stack-1.7.0/envs/ue-gcc/install/modulefiles/Core
+   module load stack-gcc/12.2.0
+   module load stack-openmpi/4.1.6
    module load stack-python/3.10.13
 
 .. note::
-   The unified environment on Orion uses ``cdo@2.0.5`` instead of the default ``cdo@2.2.0`` because of a bug in the ``cdo`` package recipe that affects systems that don't have a ``python3`` interpreter in the default search paths (see https://github.com/spack/spack/issues/41947) for more information. This is a temporary change on Orion for the spack-stack-1.7.0 release and will be reverted once the ``cdo`` package is updated in the upstream spack develop code.
+   The unified environment on Orion uses ``cdo@2.3.0`` instead of the default ``cdo@2.2.0``. This is a temporary change for release/1.7.0 and no longer needed on develop.
 
 ------------------------------
 MSU Hercules