From a8477921d5bf6d9b832f2e8c07114c4fbf0e09af Mon Sep 17 00:00:00 2001
From: Bharat Medasani <mbkumar@gmail.com>
Date: Sat, 10 Feb 2024 14:49:36 -0500
Subject: [PATCH 1/5] Node.js version bump

---
 .github/workflows/conda.yml          | 4 ++--
 .github/workflows/docker.yml         | 6 +++---
 .github/workflows/docs_test.yml      | 4 ++--
 .github/workflows/extensive_test.yml | 4 ++--
 .github/workflows/linting.yml        | 4 ++--
 .github/workflows/non_simd_tests.yml | 4 ++--
 .github/workflows/singularity.yml    | 2 +-
 .github/workflows/tests.yml          | 4 ++--
 .github/workflows/wheel.yml          | 6 +++---
 9 files changed, 19 insertions(+), 19 deletions(-)

diff --git a/.github/workflows/conda.yml b/.github/workflows/conda.yml
index b178720e0..48926a07f 100644
--- a/.github/workflows/conda.yml
+++ b/.github/workflows/conda.yml
@@ -26,7 +26,7 @@ jobs:
         shell: "bash -l {0}"
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           submodules: true
 
@@ -34,7 +34,7 @@ jobs:
         run: git fetch --prune --unshallow
 
       - name: Get conda
-        uses: conda-incubator/setup-miniconda@v2
+        uses: conda-incubator/setup-miniconda@v3
         with:
           python-version: ${{ matrix.python-version }}
           channels: conda-forge
diff --git a/.github/workflows/docker.yml b/.github/workflows/docker.yml
index e6c6b38a8..878924726 100644
--- a/.github/workflows/docker.yml
+++ b/.github/workflows/docker.yml
@@ -17,16 +17,16 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
 
       - name: Fetch all history for all tags and branches
         run: git fetch --prune --unshallow
 
       - name: Setup docker Buildx
-        uses: docker/setup-buildx-action@v2
+        uses: docker/setup-buildx-action@v3
         
       - name: Login to DockerHub
-        uses: docker/login-action@v2
+        uses: docker/login-action@v3
         with:
           username: medbha
           password: ${{ secrets.DOCKER_TOKEN }}
diff --git a/.github/workflows/docs_test.yml b/.github/workflows/docs_test.yml
index 78017b9a7..57b0cfc24 100644
--- a/.github/workflows/docs_test.yml
+++ b/.github/workflows/docs_test.yml
@@ -12,10 +12,10 @@ jobs:
         python-version: [3.9]
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/extensive_test.yml b/.github/workflows/extensive_test.yml
index 43183f13f..59aca3077 100644
--- a/.github/workflows/extensive_test.yml
+++ b/.github/workflows/extensive_test.yml
@@ -63,7 +63,7 @@ jobs:
         sudo apt-get update
         sudo apt-get install -y build-essential gfortran openmpi-bin libopenmpi-dev libnetcdf-dev libnetcdff-dev liblapack-dev libscalapack-mpi-dev libhdf5-dev libhdf5-serial-dev git m4 libfftw3-dev libopenblas-dev libboost-all-dev
     
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
       # If we want submodules downloaded, uncomment the next 2 lines:
       #with:
       #  submodules: true
@@ -80,7 +80,7 @@ jobs:
         pwd
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/linting.yml b/.github/workflows/linting.yml
index ccbd8d01f..5eea66ef0 100644
--- a/.github/workflows/linting.yml
+++ b/.github/workflows/linting.yml
@@ -12,10 +12,10 @@ jobs:
         python-version: [3.9]
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/non_simd_tests.yml b/.github/workflows/non_simd_tests.yml
index 946a91db5..f3ae7c6c3 100644
--- a/.github/workflows/non_simd_tests.yml
+++ b/.github/workflows/non_simd_tests.yml
@@ -54,7 +54,7 @@ jobs:
         sudo apt-get update
         sudo apt-get install -y build-essential gfortran openmpi-bin libopenmpi-dev libnetcdf-dev libnetcdff-dev liblapack-dev libscalapack-mpi-dev libhdf5-dev libhdf5-serial-dev git m4 libfftw3-dev libboost-all-dev libopenblas-dev
 
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
 
     - name: Fetch all history for all tags
       run: git fetch --all --tags --prune --unshallow
@@ -66,7 +66,7 @@ jobs:
         pwd
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/singularity.yml b/.github/workflows/singularity.yml
index 1de6b269e..55f686e49 100644
--- a/.github/workflows/singularity.yml
+++ b/.github/workflows/singularity.yml
@@ -26,7 +26,7 @@ jobs:
     steps:
 
       - name: Check out code for the container build
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       - uses: eWaterCycle/setup-singularity@v7
         with:
           singularity-version: 3.8.3
diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index ebff4fa57..2f6900d0b 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -59,7 +59,7 @@ jobs:
         sudo apt-get update
         sudo apt-get install -y build-essential gfortran openmpi-bin libopenmpi-dev libnetcdf-dev libnetcdff-dev liblapack-dev libscalapack-mpi-dev libhdf5-dev libhdf5-serial-dev git m4 libfftw3-dev libboost-all-dev libopenblas-dev
 
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
 
     - name: Fetch all history for all tags
       run: git fetch --all --tags --prune --unshallow
@@ -75,7 +75,7 @@ jobs:
         pwd
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
 
diff --git a/.github/workflows/wheel.yml b/.github/workflows/wheel.yml
index e925d413e..8044ebfe4 100644
--- a/.github/workflows/wheel.yml
+++ b/.github/workflows/wheel.yml
@@ -11,7 +11,7 @@ jobs:
         os: [macos-11, ubuntu-20.04]
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - name: Fetch all history for all tags
         run: git fetch --prune --unshallow
@@ -37,12 +37,12 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - name: Fetch all history for all tags
         run: git fetch --prune --unshallow
 
-      - uses: actions/setup-python@v4
+      - uses: actions/setup-python@v5
         name: Install Python
         with:
           python-version: '3.9'

From 29baa9e8e440631bf3d81cec5bcb8bee0e7b11ab Mon Sep 17 00:00:00 2001
From: Matt Landreman <mattland@umd.edu>
Date: Wed, 14 Feb 2024 07:26:28 -0500
Subject: [PATCH 2/5] Updated more versions of actions used in workflows

---
 .github/workflows/extensive_test.yml | 14 +++++++-------
 .github/workflows/tests.yml          |  8 ++++----
 .github/workflows/wheel.yml          |  6 +++---
 3 files changed, 14 insertions(+), 14 deletions(-)

diff --git a/.github/workflows/extensive_test.yml b/.github/workflows/extensive_test.yml
index 59aca3077..072bedd67 100644
--- a/.github/workflows/extensive_test.yml
+++ b/.github/workflows/extensive_test.yml
@@ -68,7 +68,7 @@ jobs:
       #with:
       #  submodules: true
 
-    # We must run actions/checkout@v3 before downloading and building VMEC, since checkout deletes the contents of the directory.
+    # We must run actions/checkout before downloading and building VMEC, since checkout deletes the contents of the directory.
     - name: Download the VMEC2000 standalone repository
       if: contains(matrix.packages, 'vmec') || contains(matrix.packages, 'all')
       run: git clone https://github.com/hiddensymmetries/VMEC2000.git
@@ -112,7 +112,7 @@ jobs:
     # https://docs.github.com/en/free-pro-team@latest/github/authenticating-to-github/creating-a-personal-access-token
     - name: Check out SPEC
       if: contains(matrix.packages, 'spec') || contains(matrix.packages, 'all')
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
       with:
         repository: PrincetonUniversity/SPEC
         path: SPEC
@@ -237,7 +237,7 @@ jobs:
 
     - name: Upload uncombined coverage to github
       if: contains(matrix.test-type, 'unit')
-      uses: actions/upload-artifact@v3
+      uses: actions/upload-artifact@v4
       with:
         name: gh-actions-parallel-coverage
         path: .coverage.*
@@ -249,7 +249,7 @@ jobs:
     steps:
 
     - name: Set up Python 
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: 3.9
 
@@ -257,13 +257,13 @@ jobs:
       run: pip install coverage
 
     - name: Checkout simsopt 
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
 
     - name: Install simsopt before running coverage
       run: pip install .
 
     - name: Download artifact
-      uses: actions/download-artifact@v3
+      uses: actions/download-artifact@v4
       with:
         name: gh-actions-parallel-coverage
         path: ./
@@ -278,7 +278,7 @@ jobs:
         coverage xml
 
     - name: Upload coverage to github
-      uses: actions/upload-artifact@v3
+      uses: actions/upload-artifact@v4
       with:
         name: tox-gh-actions-coverage
         path: coverage.xml
diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 2f6900d0b..b9c0ad3d7 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -64,7 +64,7 @@ jobs:
     - name: Fetch all history for all tags
       run: git fetch --all --tags --prune --unshallow
 
-    # We must run actions/checkout@v3 before downloading and building VMEC, since checkout deletes the contents of the directory.
+    # We must run actions/checkout before downloading and building VMEC, since checkout deletes the contents of the directory.
     - name: Download the VMEC2000 standalone repository
       run: git clone --depth=1 https://github.com/hiddensymmetries/VMEC2000.git
 
@@ -105,7 +105,7 @@ jobs:
     # https://stackoverflow.com/questions/57612428/cloning-private-github-repository-within-organisation-in-actions
     # https://docs.github.com/en/free-pro-team@latest/github/authenticating-to-github/creating-a-personal-access-token
     - name: Check out SPEC
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
       with:
         repository: PrincetonUniversity/SPEC
         path: SPEC
@@ -209,7 +209,7 @@ jobs:
 
     - name: Upload coverage to github
       if: contains(matrix.test-type, 'unit')
-      uses: actions/upload-artifact@v3
+      uses: actions/upload-artifact@v4
       with:
         name: tox-gh-actions-coverage
         path: coverage.xml
@@ -218,7 +218,7 @@ jobs:
     - name: Upload coverage to Codecov
       # The last conditional on the next line prevents github from trying to upload to Codecov on forks of the repository, avoiding a permissions error
       if: contains(matrix.test-type, 'unit') && github.repository_owner == 'hiddenSymmetries'
-      uses: codecov/codecov-action@v3
+      uses: codecov/codecov-action@v4
       with:
         token: ${{ secrets.CODECOV_TOKEN }}
         file: ./coverage.xml
diff --git a/.github/workflows/wheel.yml b/.github/workflows/wheel.yml
index 8044ebfe4..981fa413a 100644
--- a/.github/workflows/wheel.yml
+++ b/.github/workflows/wheel.yml
@@ -28,7 +28,7 @@ jobs:
           CIBW_SKIP: cp27-* cp36-* cp37-*
           CIBW_DEPENDENCY_VERSIONS: latest
 
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
         with:
           path: ./wheelhouse/*.whl
 
@@ -56,7 +56,7 @@ jobs:
       - name: Build sdist
         run: python -m build -s -o dist .
         
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
         with:
           path: dist/*.tar.gz
 
@@ -68,7 +68,7 @@ jobs:
     # alternatively, to publish when a GitHub Release is created, use the following rule:
     # if: github.event_name == 'release' && github.event.action == 'published'
     steps:
-      - uses: actions/download-artifact@v3
+      - uses: actions/download-artifact@v4
         with:
           name: artifact
           path: dist

From 67fb89b624e0aba33493d9dd1b362c622df2c5a2 Mon Sep 17 00:00:00 2001
From: Bharat Medasani <mbkumar@gmail.com>
Date: Thu, 15 Feb 2024 13:00:35 -0500
Subject: [PATCH 3/5] Update extensive_test.yml

---
 .github/workflows/extensive_test.yml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/extensive_test.yml b/.github/workflows/extensive_test.yml
index 072bedd67..37b5ddc4b 100644
--- a/.github/workflows/extensive_test.yml
+++ b/.github/workflows/extensive_test.yml
@@ -237,7 +237,7 @@ jobs:
 
     - name: Upload uncombined coverage to github
       if: contains(matrix.test-type, 'unit')
-      uses: actions/upload-artifact@v4
+      uses: actions/upload-artifact@v3
       with:
         name: gh-actions-parallel-coverage
         path: .coverage.*
@@ -263,7 +263,7 @@ jobs:
       run: pip install .
 
     - name: Download artifact
-      uses: actions/download-artifact@v4
+      uses: actions/download-artifact@v3
       with:
         name: gh-actions-parallel-coverage
         path: ./
@@ -278,7 +278,7 @@ jobs:
         coverage xml
 
     - name: Upload coverage to github
-      uses: actions/upload-artifact@v4
+      uses: actions/upload-artifact@v3
       with:
         name: tox-gh-actions-coverage
         path: coverage.xml

From 9105404e41ca9e92966db6408c846caed2361c5c Mon Sep 17 00:00:00 2001
From: Bharat Medasani <mbkumar@gmail.com>
Date: Thu, 15 Feb 2024 13:01:35 -0500
Subject: [PATCH 4/5] Update tests.yml

---
 .github/workflows/tests.yml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index b9c0ad3d7..637981a4c 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -6,7 +6,7 @@
 # This appears to be a known harmless annoyance:
 # https://gitlab.alpinelinux.org/alpine/aports/-/issues/11122
 
-name: Simple CI
+name: Tests
 
 on: 
   push:
@@ -209,7 +209,7 @@ jobs:
 
     - name: Upload coverage to github
       if: contains(matrix.test-type, 'unit')
-      uses: actions/upload-artifact@v4
+      uses: actions/upload-artifact@v3
       with:
         name: tox-gh-actions-coverage
         path: coverage.xml

From 193b89e0ef7367c44284697cb309d7bf53d3fa51 Mon Sep 17 00:00:00 2001
From: Bharat Medasani <mbkumar@gmail.com>
Date: Thu, 15 Feb 2024 13:06:02 -0500
Subject: [PATCH 5/5] Update wheel.yml

---
 .github/workflows/wheel.yml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/wheel.yml b/.github/workflows/wheel.yml
index 981fa413a..8044ebfe4 100644
--- a/.github/workflows/wheel.yml
+++ b/.github/workflows/wheel.yml
@@ -28,7 +28,7 @@ jobs:
           CIBW_SKIP: cp27-* cp36-* cp37-*
           CIBW_DEPENDENCY_VERSIONS: latest
 
-      - uses: actions/upload-artifact@v4
+      - uses: actions/upload-artifact@v3
         with:
           path: ./wheelhouse/*.whl
 
@@ -56,7 +56,7 @@ jobs:
       - name: Build sdist
         run: python -m build -s -o dist .
         
-      - uses: actions/upload-artifact@v4
+      - uses: actions/upload-artifact@v3
         with:
           path: dist/*.tar.gz
 
@@ -68,7 +68,7 @@ jobs:
     # alternatively, to publish when a GitHub Release is created, use the following rule:
     # if: github.event_name == 'release' && github.event.action == 'published'
     steps:
-      - uses: actions/download-artifact@v4
+      - uses: actions/download-artifact@v3
         with:
           name: artifact
           path: dist