From 6e64e4aff7643d7be3b3e1c7e1e4b142ae1a75b9 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Wed, 20 May 2026 16:15:20 -0400
Subject: [PATCH 01/12] Fix Intel CI workflow and migrate off Intel container
 images

updated environment variables for the intel-autotools job.
---
 .../github_autotools_intel_classic.yml        | 26 ++++++++++++-------
 1 file changed, 16 insertions(+), 10 deletions(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index f0faaf9b1f..69b5a2b9ef 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -3,6 +3,7 @@ name: Autotools build and unit testing with Intel Classic (weekly)
 on:
   schedule:
     - cron: '0 0 * * 0' # sundays @ midnight
+  push:
 
 # cancel running jobs if theres a newer push
 concurrency:
@@ -12,16 +13,14 @@ concurrency:
 jobs:
   intel-autotools:
     runs-on: ubuntu-latest
-    container:
-      image: intel/oneapi-hpckit:2023.1.0-devel-ubuntu20.04
-      env:
-        CC: mpiicc
-        FC: mpiifort
-        CFLAGS:  "-I/libs/include"
-        FCFLAGS: "-I/libs/include -g -traceback"
-        LDFLAGS: "-L/libs/lib"
-        TEST_VERBOSE: 1
-        I_MPI_FABRICS: "shm" # needed for mpi in image
+    env:
+      CC: mpiicc
+      FC: mpiifort
+      CFLAGS:  "-I/libs/include"
+      FCFLAGS: "-I/libs/include -g -traceback"
+      LDFLAGS: "-L/libs/lib"
+      TEST_VERBOSE: 1
+      I_MPI_FABRICS: "shm" # needed for mpi in image
     steps:
     - name: Cache dependencies
       id: cache
@@ -29,6 +28,13 @@ jobs:
       with:
         path: /libs
         key: intel-libs
+    - name: Install Intel compilers & MPI
+      uses: NOAA-EMC/ci-install-intel-toolkit@develop
+      with:
+        install-classic: true
+        install-oneapi: true
+        install-mpi: true
+        mpi-wrapper-setup: classic
     - name: Install packages for building
       run: apt-get update && apt-get install -y autoconf libtool automake zlibc zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'

From a316118bd39af558d59b40911db9d1ff66fdc7c2 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Wed, 27 May 2026 10:44:52 -0400
Subject: [PATCH 02/12] Revert "Fix Intel CI workflow and migrate off Intel
 container images"

---
 .../github_autotools_intel_classic.yml        | 26 +++++++------------
 1 file changed, 10 insertions(+), 16 deletions(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index 69b5a2b9ef..f0faaf9b1f 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -3,7 +3,6 @@ name: Autotools build and unit testing with Intel Classic (weekly)
 on:
   schedule:
     - cron: '0 0 * * 0' # sundays @ midnight
-  push:
 
 # cancel running jobs if theres a newer push
 concurrency:
@@ -13,14 +12,16 @@ concurrency:
 jobs:
   intel-autotools:
     runs-on: ubuntu-latest
-    env:
-      CC: mpiicc
-      FC: mpiifort
-      CFLAGS:  "-I/libs/include"
-      FCFLAGS: "-I/libs/include -g -traceback"
-      LDFLAGS: "-L/libs/lib"
-      TEST_VERBOSE: 1
-      I_MPI_FABRICS: "shm" # needed for mpi in image
+    container:
+      image: intel/oneapi-hpckit:2023.1.0-devel-ubuntu20.04
+      env:
+        CC: mpiicc
+        FC: mpiifort
+        CFLAGS:  "-I/libs/include"
+        FCFLAGS: "-I/libs/include -g -traceback"
+        LDFLAGS: "-L/libs/lib"
+        TEST_VERBOSE: 1
+        I_MPI_FABRICS: "shm" # needed for mpi in image
     steps:
     - name: Cache dependencies
       id: cache
@@ -28,13 +29,6 @@ jobs:
       with:
         path: /libs
         key: intel-libs
-    - name: Install Intel compilers & MPI
-      uses: NOAA-EMC/ci-install-intel-toolkit@develop
-      with:
-        install-classic: true
-        install-oneapi: true
-        install-mpi: true
-        mpi-wrapper-setup: classic
     - name: Install packages for building
       run: apt-get update && apt-get install -y autoconf libtool automake zlibc zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'

From 7223971a0df0980ea934b3967709312be8c2c3fa Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Wed, 27 May 2026 13:05:39 -0400
Subject: [PATCH 03/12] Fix Intel CI workflow and migrate off Intel container
 images

---
 .../github_autotools_intel_classic.yml        | 28 +++++++++++--------
 1 file changed, 17 insertions(+), 11 deletions(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index f0faaf9b1f..512bbb522e 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -3,7 +3,8 @@ name: Autotools build and unit testing with Intel Classic (weekly)
 on:
   schedule:
     - cron: '0 0 * * 0' # sundays @ midnight
-
+  push:
+  
 # cancel running jobs if theres a newer push
 concurrency:
   group: ${{ github.workflow }}-${{ github.ref }}
@@ -12,16 +13,14 @@ concurrency:
 jobs:
   intel-autotools:
     runs-on: ubuntu-latest
-    container:
-      image: intel/oneapi-hpckit:2023.1.0-devel-ubuntu20.04
-      env:
-        CC: mpiicc
-        FC: mpiifort
-        CFLAGS:  "-I/libs/include"
-        FCFLAGS: "-I/libs/include -g -traceback"
-        LDFLAGS: "-L/libs/lib"
-        TEST_VERBOSE: 1
-        I_MPI_FABRICS: "shm" # needed for mpi in image
+    env:
+      CC: mpiicc
+      FC: mpiifort
+      CFLAGS:  "-I/libs/include"
+      FCFLAGS: "-I/libs/include -g -traceback"
+      LDFLAGS: "-L/libs/lib"
+      TEST_VERBOSE: 1
+      I_MPI_FABRICS: "shm" # needed for mpi in image
     steps:
     - name: Cache dependencies
       id: cache
@@ -29,6 +28,13 @@ jobs:
       with:
         path: /libs
         key: intel-libs
+    - name: Install Intel compilers & MPI
+      uses: NOAA-EMC/ci-install-intel-toolkit@develop
+      with:
+        install-classic: true
+        install-oneapi: true
+        install-mpi: true
+        mpi-wrapper-setup: classic
     - name: Install packages for building
       run: apt-get update && apt-get install -y autoconf libtool automake zlibc zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'

From 38de55541f128abd19aee4338ca0ecc72bb33522 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Wed, 27 May 2026 15:39:13 -0400
Subject: [PATCH 04/12] fix indentation

---
 .github/workflows/github_autotools_intel_classic.yml | 1 -
 1 file changed, 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index 512bbb522e..34cccb1914 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -4,7 +4,6 @@ on:
   schedule:
     - cron: '0 0 * * 0' # sundays @ midnight
   push:
-  
 # cancel running jobs if theres a newer push
 concurrency:
   group: ${{ github.workflow }}-${{ github.ref }}

From f1e13b30d810b30bc7a404ac3f782af38199a5d6 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 1 Jun 2026 13:40:59 -0400
Subject: [PATCH 05/12] fix permissions for install packages in build

---
 .../workflows/github_autotools_intel_classic.yml   | 14 +++++++-------
 1 file changed, 7 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index 34cccb1914..bdfdf4761c 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -3,7 +3,7 @@ name: Autotools build and unit testing with Intel Classic (weekly)
 on:
   schedule:
     - cron: '0 0 * * 0' # sundays @ midnight
-  push:
+  pull_request:
 # cancel running jobs if theres a newer push
 concurrency:
   group: ${{ github.workflow }}-${{ github.ref }}
@@ -35,7 +35,7 @@ jobs:
         install-mpi: true
         mpi-wrapper-setup: classic
     - name: Install packages for building
-      run: apt-get update && apt-get install -y autoconf libtool automake zlibc zlib1g-dev
+      run: sudo apt-get update && apt-get install -y autoconf libtool automake zlibc zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'
       name: Build netcdf
       run: |
@@ -43,19 +43,19 @@ jobs:
         wget https://hdf-wordpress-1.s3.amazonaws.com/wp-content/uploads/manual/HDF5/HDF5_1_12_2/source/hdf5-1.12.2.tar.gz
         tar xf hdf5-1.12.2.tar.gz && cd hdf5-1.12.2
         ./configure --prefix=/libs
-        make -j install && cd ..
+        sudo make -j install && cd ..
         wget https://github.com/Unidata/netcdf-c/archive/refs/tags/v4.8.1.tar.gz
         tar xf v4.8.1.tar.gz && cd netcdf-c-4.8.1
         ./configure --prefix=/libs --enable-remote-fortran-bootstrap
-        make -j install
+        sudo make -j install
         # sets this here to pass embeded configure checks
         export LD_LIBRARY_PATH="/libs/lib:$LD_LIBRARY_PATH"
-        make -j -k build-netcdf-fortran
-        make -j install-netcdf-fortran
+        sudo make -j -k build-netcdf-fortran
+        sudo make -j install-netcdf-fortran
         wget https://github.com/yaml/libyaml/releases/download/0.2.5/yaml-0.2.5.tar.gz
         tar xf yaml-0.2.5.tar.gz && cd yaml-0.2.5
         ./configure --prefix=/libs
-        make -j install && cd
+        sudo make -j install && cd
     - name: checkout
       uses: actions/checkout@v4.2.2
     - name: Configure

From d2fb445e47be0aff5e6770b6fbbe3bfff346016a Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 1 Jun 2026 13:57:32 -0400
Subject: [PATCH 06/12] minor fix

---
 .github/workflows/github_autotools_intel_classic.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index bdfdf4761c..552c64d66f 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -35,7 +35,7 @@ jobs:
         install-mpi: true
         mpi-wrapper-setup: classic
     - name: Install packages for building
-      run: sudo apt-get update && apt-get install -y autoconf libtool automake zlibc zlib1g-dev
+      run: sudo apt-get update && sudo apt-get install -y autoconf libtool automake zlibc zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'
       name: Build netcdf
       run: |

From 053ad84b4431cd3bac535f6048380481e4646910 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 1 Jun 2026 14:02:01 -0400
Subject: [PATCH 07/12] Fix package installation command

---
 .github/workflows/github_autotools_intel_classic.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index 552c64d66f..e3ffb62989 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -35,7 +35,7 @@ jobs:
         install-mpi: true
         mpi-wrapper-setup: classic
     - name: Install packages for building
-      run: sudo apt-get update && sudo apt-get install -y autoconf libtool automake zlibc zlib1g-dev
+      run: sudo apt-get update && sudo apt-get install -y autoconf libtool automake zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'
       name: Build netcdf
       run: |

From 032825b95270c9c070eb0b3521346f9c7cd6634b Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 1 Jun 2026 16:27:26 -0400
Subject: [PATCH 08/12] fix: add sudo

---
 .github/workflows/github_autotools_intel_classic.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index e3ffb62989..fc7cac3376 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -39,7 +39,7 @@ jobs:
     - if: steps.cache.outputs.cache-hit != 'true'
       name: Build netcdf
       run: |
-        mkdir /libs
+        sudo mkdir /libs
         wget https://hdf-wordpress-1.s3.amazonaws.com/wp-content/uploads/manual/HDF5/HDF5_1_12_2/source/hdf5-1.12.2.tar.gz
         tar xf hdf5-1.12.2.tar.gz && cd hdf5-1.12.2
         ./configure --prefix=/libs

From ab0fa52740b26c0c14239415f93ae76a106ef6ea Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 8 Jun 2026 16:05:32 -0400
Subject: [PATCH 09/12] Add LD_LIBRARY_PATH export for library configuration

---
 .github/workflows/github_autotools_intel_classic.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index fc7cac3376..eae986ec3a 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -46,6 +46,7 @@ jobs:
         sudo make -j install && cd ..
         wget https://github.com/Unidata/netcdf-c/archive/refs/tags/v4.8.1.tar.gz
         tar xf v4.8.1.tar.gz && cd netcdf-c-4.8.1
+        export LD_LIBRARY_PATH="/libs/lib:$LD_LIBRARY_PATH"
         ./configure --prefix=/libs --enable-remote-fortran-bootstrap
         sudo make -j install
         # sets this here to pass embeded configure checks
@@ -61,7 +62,6 @@ jobs:
     - name: Configure
       run: |
         autoreconf -if ./configure.ac
-        export LD_LIBRARY_PATH="/libs/lib:$LD_LIBRARY_PATH"
         ./configure --with-yaml
     - name: Compile
       run: make -j || make

From 853e531dcdd148ebd3bc1c32d492d3b17996d76b Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 29 Jun 2026 16:13:50 -0400
Subject: [PATCH 10/12] Add debug logging for Intel compiler environment in CI

---
 .../github_autotools_intel_classic.yml        | 19 ++++++++++++++++++-
 1 file changed, 18 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index eae986ec3a..bf1e2ac63c 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -31,9 +31,20 @@ jobs:
       uses: NOAA-EMC/ci-install-intel-toolkit@develop
       with:
         install-classic: true
-        install-oneapi: true
+        install-oneapi: false
         install-mpi: true
         mpi-wrapper-setup: classic
+    - name: Debug Intel compiler environment
+      run: |
+        echo "PATH=$PATH"
+        echo "CC=$CC"
+        echo "FC=$FC"
+        which mpiicc || true
+        which mpiifort || true
+        which icc || true
+        which ifort || true
+        mpiicc --version || true
+        mpiifort --version || true
     - name: Install packages for building
       run: sudo apt-get update && sudo apt-get install -y autoconf libtool automake zlib1g-dev
     - if: steps.cache.outputs.cache-hit != 'true'
@@ -42,6 +53,12 @@ jobs:
         sudo mkdir /libs
         wget https://hdf-wordpress-1.s3.amazonaws.com/wp-content/uploads/manual/HDF5/HDF5_1_12_2/source/hdf5-1.12.2.tar.gz
         tar xf hdf5-1.12.2.tar.gz && cd hdf5-1.12.2
+        echo "===== Debug Intel Environment ====="
+        echo "PATH=$PATH"
+        which mpiicc || true
+        which mpiifort || true
+        mpiicc --version || true
+        mpiifort --version || true
         ./configure --prefix=/libs
         sudo make -j install && cd ..
         wget https://github.com/Unidata/netcdf-c/archive/refs/tags/v4.8.1.tar.gz

From 39b6fdfea62b0f1a74b1a2cead79510916741b99 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 29 Jun 2026 16:29:57 -0400
Subject: [PATCH 11/12] Update configuration for HDF5 and YAML installations

---
 .github/workflows/github_autotools_intel_classic.yml | 10 ++--------
 1 file changed, 2 insertions(+), 8 deletions(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index bf1e2ac63c..b7e8606bf6 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -53,13 +53,7 @@ jobs:
         sudo mkdir /libs
         wget https://hdf-wordpress-1.s3.amazonaws.com/wp-content/uploads/manual/HDF5/HDF5_1_12_2/source/hdf5-1.12.2.tar.gz
         tar xf hdf5-1.12.2.tar.gz && cd hdf5-1.12.2
-        echo "===== Debug Intel Environment ====="
-        echo "PATH=$PATH"
-        which mpiicc || true
-        which mpiifort || true
-        mpiicc --version || true
-        mpiifort --version || true
-        ./configure --prefix=/libs
+        CC=gcc FC=gfortran ./configure --prefix=/libs
         sudo make -j install && cd ..
         wget https://github.com/Unidata/netcdf-c/archive/refs/tags/v4.8.1.tar.gz
         tar xf v4.8.1.tar.gz && cd netcdf-c-4.8.1
@@ -72,7 +66,7 @@ jobs:
         sudo make -j install-netcdf-fortran
         wget https://github.com/yaml/libyaml/releases/download/0.2.5/yaml-0.2.5.tar.gz
         tar xf yaml-0.2.5.tar.gz && cd yaml-0.2.5
-        ./configure --prefix=/libs
+        CC=gcc ./configure --prefix=/libs
         sudo make -j install && cd
     - name: checkout
       uses: actions/checkout@v4.2.2

From f6a0c6467fd7c156745d713b910722bc3aa4c357 Mon Sep 17 00:00:00 2001
From: Vithika Shah <91550574+vithikashah001@users.noreply.github.com>
Date: Mon, 29 Jun 2026 16:40:31 -0400
Subject: [PATCH 12/12] Specify compilers in configure command for netcdf-c

---
 .github/workflows/github_autotools_intel_classic.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/github_autotools_intel_classic.yml b/.github/workflows/github_autotools_intel_classic.yml
index b7e8606bf6..c7d6d683ea 100644
--- a/.github/workflows/github_autotools_intel_classic.yml
+++ b/.github/workflows/github_autotools_intel_classic.yml
@@ -58,7 +58,7 @@ jobs:
         wget https://github.com/Unidata/netcdf-c/archive/refs/tags/v4.8.1.tar.gz
         tar xf v4.8.1.tar.gz && cd netcdf-c-4.8.1
         export LD_LIBRARY_PATH="/libs/lib:$LD_LIBRARY_PATH"
-        ./configure --prefix=/libs --enable-remote-fortran-bootstrap
+        CC=gcc FC=gfortran ./configure --prefix=/libs --enable-remote-fortran-bootstrap
         sudo make -j install
         # sets this here to pass embeded configure checks
         export LD_LIBRARY_PATH="/libs/lib:$LD_LIBRARY_PATH"