Merge branch 'microsoft:main' into feature/add-cryomagnetics-tm620-driver

Author: trlemon

.github/workflows/codeql-analysis.yml

@@ -35,16 +35,16 @@ jobs:
         egress-policy: audit
 
     - name: Checkout repository
-      uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
 
     # Initializes the CodeQL tools for scanning.
     - name: Initialize CodeQL
-      uses: github/codeql-action/init@51f77329afa6477de8c49fc9c7046c15b9a4e79d # v3.29.5
+      uses: github/codeql-action/init@df559355d593797519d70b90fc8edd5db049e7a2 # v3.29.5
       with:
         languages: ${{ matrix.language }}
 
     - name: Autobuild
-      uses: github/codeql-action/autobuild@51f77329afa6477de8c49fc9c7046c15b9a4e79d # v3.29.5
+      uses: github/codeql-action/autobuild@df559355d593797519d70b90fc8edd5db049e7a2 # v3.29.5
 
     - name: Perform CodeQL Analysis
-      uses: github/codeql-action/analyze@51f77329afa6477de8c49fc9c7046c15b9a4e79d # v3.29.5
+      uses: github/codeql-action/analyze@df559355d593797519d70b90fc8edd5db049e7a2 # v3.29.5

.github/workflows/copilot-setup-steps.yml

@@ -36,7 +36,7 @@ jobs:
         with:
           egress-policy: audit
 
-      - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+      - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           submodules: true
           # we need full history with tags for the version number

.github/workflows/dependency-review.yml

@@ -22,6 +22,6 @@ jobs:
           egress-policy: audit
 
       - name: 'Checkout Repository'
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
       - name: 'Dependency Review'
         uses: actions/dependency-review-action@da24556b548a50705dd671f47852072ea4c105d9 # v4.7.1

.github/workflows/docs.yaml

@@ -44,7 +44,7 @@ jobs:
       uses: step-security/harden-runner@ec9f2d5744a09debf3a187a3f4f675c53b671911 # v2.13.0
       with:
         egress-policy: audit
-    - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+    - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
       with:
         # we need full history with tags for the version number
         fetch-depth: '0'
@@ -115,10 +115,10 @@ jobs:
       with:
         egress-policy: audit
 
-    - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+    - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
 
     - name: Download artifact
-      uses: actions/download-artifact@d3f86a106a0bac45b974a628896c90dbdf5c8093 # v4.3.0
+      uses: actions/download-artifact@634f93cb2916e3fdff6788551b99b062d0335ce0 # v5.0.0
       with:
         name: docs_3.11_ubuntu-latest
         path: build_docs

.github/workflows/pre-commit.yml

@@ -22,6 +22,6 @@ jobs:
       with:
         egress-policy: audit
 
-    - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+    - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
     - uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
     - uses: pre-commit/action@2c7b3805fd2a0fd8c1884dcaebf91fc102a13ecd # v3.0.1

.github/workflows/pytest.yaml

@@ -54,7 +54,7 @@ jobs:
       with:
         egress-policy: audit
 
-    - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+    - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
       with:
         submodules: true
         # we need full history with tags for the version number

.github/workflows/scorecards.yml

@@ -36,7 +36,7 @@ jobs:
           egress-policy: audit
 
       - name: "Checkout code"
-        uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+        uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
         with:
           persist-credentials: false
 
@@ -71,6 +71,6 @@ jobs:
 
       # Upload the results to GitHub's code scanning dashboard.
       - name: "Upload to code-scanning"
-        uses: github/codeql-action/upload-sarif@51f77329afa6477de8c49fc9c7046c15b9a4e79d # v3.29.5
+        uses: github/codeql-action/upload-sarif@df559355d593797519d70b90fc8edd5db049e7a2 # v3.29.5
         with:
           sarif_file: results.sarif

.github/workflows/upload_to_pypi.yaml

@@ -21,7 +21,7 @@ jobs:
       with:
         egress-policy: audit
 
-    - uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4.2.2
+    - uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5.0.0
     - name: Set up Python
       uses: actions/setup-python@a26af69be951a213d495a4c3e4e4022e16d87065 # v5.6.0
       with:

pyproject.toml

@@ -37,7 +37,6 @@ dependencies = [
     "pyvisa>=1.11.0, <1.16.0",
     "ruamel.yaml>=0.16.0,!=0.16.6",
     "tabulate>=0.9.0",
-    "types-networkx >= 3.1", # Version should match the networkx requirment
     "typing_extensions>=4.6.0",
     "tqdm>=4.59.0",
     "uncertainties>=3.2.0",
@@ -63,7 +62,7 @@ Changelog = "https://microsoft.github.io/Qcodes/changes/index.html"
 zurichinstruments = ["zhinst-qcodes>=0.3"]
 loop = ["qcodes_loop>=0.1.2"]
 test = [
-    "coverage[toml]>=6.3.0",
+    "coverage[toml]>=7.6.9",
     "deepdiff>=5.0.2",
     "hypothesis>=6.130.0",
     "lxml>=4.9.4",
@@ -79,6 +78,7 @@ test = [
     "PyVisa-sim>=0.6.0",
     "sphinx>=4.5.0",  # sphinx extension tests
     "types-jsonschema>=4.16.0",
+    "types-networkx >= 3.1", # Version should match the networkx requirment
     "types_requests>=0.1.8",
     "types-tabulate>=0.1.0",
     "types-tqdm>=4.64.6",

requirements.txt

@@ -2,6 +2,8 @@
 #    uv pip compile pyproject.toml --extra test --extra docs --output-file .\requirements.txt
 #    manually removed qcodes it self from the requirements and added version and platform specific env markers
 #    for pywin32
+accessible-pygments==0.0.5
+    # via furo
 alabaster==1.0.0
     # via sphinx
 asttokens==3.0.0
@@ -27,11 +29,11 @@ broadbean==0.14.0
     #   qcodes
 certifi==2025.8.3
     # via requests
-cf-xarray==0.10.6
+cf-xarray==0.10.7
     # via
     #   qcodes (pyproject.toml)
     #   qcodes
-charset-normalizer==3.4.2
+charset-normalizer==3.4.3
     # via requests
 click==8.2.1
     # via
@@ -52,7 +54,7 @@ comm==0.2.3
     #   ipywidgets
 contourpy==1.3.3
     # via matplotlib
-coverage==7.10.2
+coverage==7.10.3
     # via
     #   qcodes (pyproject.toml)
     #   pytest-cov
@@ -62,11 +64,11 @@ dask==2025.7.0
     # via
     #   qcodes (pyproject.toml)
     #   qcodes
-debugpy==1.8.15
+debugpy==1.8.16
     # via ipykernel
 decorator==5.2.1
     # via ipython
-deepdiff==8.5.0
+deepdiff==8.6.0
     # via qcodes (pyproject.toml)
 defusedxml==0.7.1
     # via nbconvert
@@ -79,15 +81,15 @@ execnet==2.1.1
     # via pytest-xdist
 executing==2.2.0
     # via stack-data
-fastjsonschema==2.21.1
+fastjsonschema==2.21.2
     # via nbformat
-fonttools==4.59.0
+fonttools==4.59.1
     # via matplotlib
 fsspec==2025.7.0
     # via dask
 furo==2025.7.19
     # via qcodes (pyproject.toml)
-h5netcdf==1.6.3
+h5netcdf==1.6.4
     # via
     #   qcodes (pyproject.toml)
     #   qcodes
@@ -100,7 +102,7 @@ h5py==3.14.0
     #   qcodes-loop
 hickle==5.0.3
     # via qcodes-loop
-hypothesis==6.137.0
+hypothesis==6.138.0
     # via qcodes (pyproject.toml)
 idna==3.10
     # via requests
@@ -116,7 +118,6 @@ ipykernel==6.30.1
     #   qcodes
 ipython==9.4.0
     # via
-    #   qcodes (pyproject.toml)
     #   ipykernel
     #   ipywidgets
     #   qcodes
@@ -131,7 +132,6 @@ jedi==0.19.2
     # via ipython
 jinja2==3.1.6
     # via
-    #   qcodes (pyproject.toml)
     #   nbconvert
     #   nbsphinx
     #   sphinx
@@ -163,7 +163,7 @@ jupyterlab-pygments==0.3.0
     # via nbconvert
 jupyterlab-widgets==3.0.15
     # via ipywidgets
-kiwisolver==1.4.8
+kiwisolver==1.4.9
     # via matplotlib
 lazy-loader==0.4
     # via qcodes-loop
@@ -208,6 +208,8 @@ nbsphinx==0.9.6
     # via qcodes (pyproject.toml)
 nest-asyncio==1.6.0
     # via ipykernel
+networkx==3.5
+    # via qcodes (pyproject.toml)
 numpy==2.3.2
     # via
     #   qcodes (pyproject.toml)
@@ -221,6 +223,7 @@ numpy==2.3.2
     #   qcodes
     #   qcodes-loop
     #   scipy
+    #   types-networkx
     #   xarray
     #   zhinst-core
     #   zhinst-qcodes
@@ -289,6 +292,7 @@ pyelftools==0.32
     # via zhinst-toolkit
 pygments==2.19.2
     # via
+    #   accessible-pygments
     #   furo
     #   ipython
     #   ipython-pygments-lexers
@@ -356,7 +360,7 @@ requests==2.32.4
     #   sphinx-jsonschema
 roman-numerals-py==3.1.0
     # via sphinx
-rpds-py==0.26.0
+rpds-py==0.27.0
     # via
     #   jsonschema
     #   referencing
@@ -424,9 +428,8 @@ toolz==1.0.0
     # via
     #   dask
     #   partd
-tornado==6.5.1
+tornado==6.5.2
     # via
-    #   qcodes (pyproject.toml)
     #   ipykernel
     #   jupyter-client
     #   qcodes
@@ -440,7 +443,6 @@ tqdm==4.67.1
     #   qcodes
 traitlets==5.14.3
     # via
-    #   comm
     #   ipykernel
     #   ipython
     #   ipywidgets
@@ -451,19 +453,21 @@ traitlets==5.14.3
     #   nbconvert
     #   nbformat
     #   nbsphinx
-types-jsonschema==4.25.0.20250720
+types-jsonschema==4.25.0.20250809
+    # via qcodes (pyproject.toml)
+types-networkx==3.5.0.20250812
     # via qcodes (pyproject.toml)
-types-pytz==2025.2.0.20250516
+types-pytz==2025.2.0.20250809
     # via pandas-stubs
-types-pywin32==311.0.0.20250801
+types-pywin32==311.0.0.20250809
     # via qcodes (pyproject.toml)
-types-requests==2.32.4.20250611
+types-requests==2.32.4.20250809
     # via
     #   qcodes (pyproject.toml)
     #   types-tqdm
 types-tabulate==0.9.0.20241207
     # via qcodes (pyproject.toml)
-types-tqdm==4.67.0.20250516
+types-tqdm==4.67.0.20250809
     # via qcodes (pyproject.toml)
 typing-extensions==4.14.1
     # via
@@ -506,9 +510,9 @@ websockets==15.0.1
     #   qcodes
 widgetsnbextension==4.0.14
     # via ipywidgets
-wrapt==1.17.2
+wrapt==1.17.3
     # via qcodes
-xarray==2025.7.1
+xarray==2025.8.0
     # via
     #   qcodes (pyproject.toml)
     #   cf-xarray