Use Pixi in macOS-intel CI

.github/workflows/tests.yml

@@ -4,9 +4,9 @@ concurrency:
   cancel-in-progress: true
 on:  # yamllint disable-line rule:truthy
   push:
-    branches: ["main", "maint/*"]
+    branches: ["main", "maint/*", "pixi2"]
   pull_request:
-    branches: ["main", "maint/*"]
+    branches: ["main", "maint/*", "pixi2"]
   # adapted from spyder-ide/spyder
   workflow_dispatch:
     inputs:
@@ -81,7 +81,7 @@ jobs:
             kind: mamba
           - os: macos-15-intel  # intel: Sequoia
             python: '3.13'
-            kind: mamba
+            kind: pixi
           - os: windows-latest
             python: '3.11'
             kind: mamba
@@ -123,6 +123,12 @@ jobs:
         with:
           python-version: ${{ matrix.python }}
         if: startswith(matrix.kind, 'pip')
+      - uses: prefix-dev/setup-pixi@v0.9.4
+        with:
+          manifest-path: tools/pixi.toml
+          # https://github.com/prefix-dev/setup-pixi/issues/139
+          activate-environment: true
+        if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda
         run: |

tools/github_actions_dependencies.sh

@@ -3,6 +3,7 @@
 set -eo pipefail
 
 SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
+
 STD_ARGS="--progress-bar off --upgrade"
 INSTALL_ARGS="-e"
 if [ ! -z "$CONDA_ENV" ]; then
@@ -39,6 +40,10 @@ elif [[ "${MNE_CI_KIND}" == "old" ]]; then
 elif [[ "${MNE_CI_KIND}" == "pip" ]]; then
 	GROUP="test_extra"
 	EXTRAS="[full-pyside6]"
+elif [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+	GROUP="test_extra"
+	EXTRAS="[hdf5]"
+	INSTALL_ARGS=""
 else
 	test "${MNE_CI_KIND}" == "pip-pre"
 	STD_ARGS="$STD_ARGS --pre"
@@ -61,6 +66,6 @@ else
 	echo "::group::Installing MNE in development mode using pip"
 fi
 set -x
-python -m pip install $STD_ARGS $INSTALL_ARGS .$EXTRAS $GROUP_ARG
+${PREFIX} python -m pip install $STD_ARGS $INSTALL_ARGS .$EXTRAS $GROUP_ARG
 set +x
 echo "::endgroup::"

tools/github_actions_download.sh

@@ -1,6 +1,7 @@
 #!/bin/bash -ef
 
+# TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${MNE_CI_KIND}" != "minimal" ]; then
-	python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
-	python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
+	${PREFIX} python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
+	${PREFIX} python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
 fi

tools/github_actions_env_vars.sh

@@ -17,13 +17,18 @@ elif [[ "$MNE_CI_KIND" == "old" ]]; then
     echo "MNE_IGNORE_WARNINGS_IN_TESTS=true" | tee -a $GITHUB_ENV
     echo "MNE_SKIP_NETWORK_TESTS=1" | tee -a $GITHUB_ENV
     echo "MNE_QT_BACKEND=PyQt5" | tee -a $GITHUB_ENV
-else  # conda-like
+else  # conda-like or pixi
     echo "Setting conda env vars for $MNE_CI_KIND"
     if [[ "$MNE_CI_KIND" == "minimal" ]]; then
         echo "CONDA_ENV=tools/environment_minimal.yml" | tee -a $GITHUB_ENV
         echo "MNE_QT_BACKEND=PySide6" | tee -a $GITHUB_ENV
-    else  # conda, mamba (use warning level for completeness)
-        echo "CONDA_ENV=environment.yml" | tee -a $GITHUB_ENV
+    else  # conda, mamba, pixi (use warning level for completeness)
+        if [[ "$MNE_CI_KIND" == "pixi" ]]; then
+            echo "PREFIX=pixi run" | tee -a $GITHUB_ENV;
+        else
+            echo "CONDA_ENV=environment.yml" | tee -a $GITHUB_ENV
+        fi
+
         echo "MNE_LOGGING_LEVEL=warning" | tee -a $GITHUB_ENV
         echo "MNE_QT_BACKEND=PySide6" | tee -a $GITHUB_ENV
         # TODO: Also need "|unreliable on GitHub Actions conda" on macOS, but omit for now to make sure the failure actually shows up

tools/github_actions_infos.sh

@@ -2,4 +2,4 @@
 
 which mne
 mne sys_info -pd
-python -c "import numpy; numpy.show_config()"
+${PREFIX} python -c "import numpy; numpy.show_config()"

tools/github_actions_test.sh

@@ -2,6 +2,7 @@
 
 set -eo pipefail
 
+
 if [[ "${CI_OS_NAME}" == "ubuntu"* ]]; then
   CONDITION="not (ultraslowtest or pgtest)"
 else  # macOS or Windows
@@ -35,5 +36,5 @@ if [[ ! -z "$CONDA_ENV" ]] && [[ "${RUNNER_OS}" != "Windows" ]] && [[ "${MNE_CI_
 fi
 
 set -x
-pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
+${PREFIX} pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
 echo "Exited with code $?"

tools/pixi.toml

@@ -0,0 +1,75 @@
+[workspace]
+authors = ["Scott Huberty <seh33@uw.edu>"] # TODO: fix this
+channels = ["conda-forge"]
+name = "mne"
+platforms = ["osx-64"]
+version = "0.1.0"
+
+[tasks]
+
+[dependencies]
+python = ">=3.10"
+antio = ">=0.5.0"
+curryreader = ">=0.1.2"
+darkdetect = "*"
+decorator = "*"
+defusedxml = "*"
+dipy = "*"
+edfio = ">=0.4.10"
+eeglabio = "*"
+filelock = ">=3.18.0"
+h5io = ">=0.2.4"
+h5py = "*"
+imageio = ">=2.6.1"
+imageio-ffmpeg = ">=0.4.1"
+ipyevents = "*"
+ipympl = "*"
+ipython = "!=8.7.0"
+ipywidgets = "*"
+jinja2 = "*"
+joblib = "*"
+jupyter = "*"
+lazy_loader = ">=0.3"
+mamba = "*"
+matplotlib = ">=3.8"
+mffpy = ">=0.5.7"
+mne-qt-browser = "*"
+nibabel = "*"
+nilearn = "*"
+nomkl = "*"
+numba = "*"
+numpy = ">=1.26,<3"
+openmeeg = ">=2.5.7"
+packaging = "*"
+pandas = ">=2.2"
+pillow = "*"
+pip = "*"
+pooch = ">=1.5"
+pyarrow = "*"
+pybv = "*"
+pymatreader = "*"
+pyside6 = "!=6.9.1"
+python-neo = "*"
+python-picard = "*"
+pyvista = ">=0.43"
+pyvistaqt = ">=0.11"
+qdarkstyle = "!=3.2.2"
+qtpy = "*"
+scikit-learn = ">=1.4"
+scipy = ">=1.12"
+sip = "*"
+snirf = "*"
+statsmodels = "*"
+threadpoolctl = "*"
+tqdm = "*"
+traitlets = "*"
+trame = "*"
+trame-vtk = "*"
+trame-vuetify = "*"
+vtk = ">=9.2"
+xlrd = "*"
+
+[pypi-dependencies]
+nest-asyncio2 = "*"
+pymef = "*"
+pyobjc-framework-cocoa = ">=5.2.0"