From 37ff4b358d16e3915486df45101b291f9b833955 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:01:00 -0800
Subject: [PATCH 001/117] WIP: Add pixi CI runner

---
 .github/workflows/tests.yml          | 23 ++++++++++++++++++++---
 tools/github_actions_dependencies.sh |  3 +++
 tools/github_actions_env_vars.sh     |  9 ++++++++-
 3 files changed, 31 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 14c79460e2f..be2cd1bf42a 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -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 +123,13 @@ jobs:
         with:
           python-version: ${{ matrix.python }}
         if: startswith(matrix.kind, 'pip')
+      - uses: prefix-dev/setup-pixi@v0.9.4
+        with:
+          activate-environment: true
+          cache: true  # skip installation, use cached environment built from pixi.lock
+          # suggested constraint of cache-use to main, so we dont blow GH's cache limit.
+          cache-write: ${{ github.event_name == 'push' && github.ref_name == 'main' }}
+        if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda
         run: |
@@ -142,7 +149,7 @@ jobs:
               echo "MNE_IS_OSMESA=true" | tee -a $GITHUB_ENV
             fi
           fi
-        if: matrix.kind == 'conda' || matrix.kind == 'mamba'
+        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == "pixi"
       - uses: mamba-org/setup-micromamba@v2
         with:
           environment-file: ${{ env.CONDA_ENV }}
@@ -151,8 +158,18 @@ jobs:
           create-args: >-
             python=${{ env.PYTHON_VERSION }}
             -v
-        if: ${{ !startswith(matrix.kind, 'pip') }}
+        if: ${{ !startswith(matrix.kind, 'pip') && matrix.kind != 'pixi' }}
         timeout-minutes: 20
+      - name: Create pixi.toml
+        if: matrix.kind == 'pixi'
+        # environment.yml specifies the same python version as macos-intel CI (3.13)
+        # but let's expliclty set the version, in case these ever diverge in the future?
+        run: |
+          pixi init --import environment.yml
+          pixi add "python ==${{ matrix.python }}"
+      - name: Setup pixi environment
+        if: matrix.kind == 'pixi'
+        run: pixi install
       - run: bash ./tools/github_actions_dependencies.sh
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'
diff --git a/tools/github_actions_dependencies.sh b/tools/github_actions_dependencies.sh
index 8835270734b..27a8795d1d7 100755
--- a/tools/github_actions_dependencies.sh
+++ b/tools/github_actions_dependencies.sh
@@ -25,6 +25,9 @@ if [ ! -z "$CONDA_ENV" ]; then
 		GROUP="test_extra"
 		EXTRAS="[hdf5]"
 	fi
+elif [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+	GROUP="test_extra"
+	EXTRAS="[hdf5]"
 elif [[ "${MNE_CI_KIND}" == "pip" ]]; then
 	GROUP="test_extra"
 	EXTRAS="[full-pyside6]"
diff --git a/tools/github_actions_env_vars.sh b/tools/github_actions_env_vars.sh
index 37875308995..ee568976184 100755
--- a/tools/github_actions_env_vars.sh
+++ b/tools/github_actions_env_vars.sh
@@ -24,7 +24,14 @@ else  # conda-like
         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 $GITHUB_ENV
+        # Pixi is treated as Conda-like (it uses environment.yaml) but it should not export
+        # CONDA_ENV because github_actions_dependencies.sh uses the existence of the
+        # CONDA_ENV environment variable to assume that the conda/mamba command is on
+        # PATH, which it is not for pixi jobs.
+        if [[ "$MNE_CI_KIND" != "pixi" ]]; then
+            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

From 9bf2882bbc0f58bd7bef5ab101cbcb26d8ca61d7 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:05:17 -0800
Subject: [PATCH 002/117] FIX: syntax

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index be2cd1bf42a..0fc7b68e138 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -149,7 +149,7 @@ jobs:
               echo "MNE_IS_OSMESA=true" | tee -a $GITHUB_ENV
             fi
           fi
-        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == "pixi"
+        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == 'pixi'
       - uses: mamba-org/setup-micromamba@v2
         with:
           environment-file: ${{ env.CONDA_ENV }}

From e736f17df1adf303ba1b0e56c7511f40fb491716 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:10:40 -0800
Subject: [PATCH 003/117] TST: test branch

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 0fc7b68e138..822d6f0fbd0 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -4,7 +4,7 @@ concurrency:
   cancel-in-progress: true
 on:  # yamllint disable-line rule:truthy
   push:
-    branches: ["main", "maint/*"]
+    branches: ["main", "maint/*", "pixi"]
   pull_request:
     branches: ["main", "maint/*"]
   # adapted from spyder-ide/spyder

From 07ff86e22a55cfdeb9762c14fceb94e658c4f12b Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:17:40 -0800
Subject: [PATCH 004/117] FIX: skip cache for now

---
 .github/workflows/tests.yml | 4 +---
 1 file changed, 1 insertion(+), 3 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 822d6f0fbd0..49e09ee2c07 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -126,9 +126,7 @@ jobs:
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
           activate-environment: true
-          cache: true  # skip installation, use cached environment built from pixi.lock
-          # suggested constraint of cache-use to main, so we dont blow GH's cache limit.
-          cache-write: ${{ github.event_name == 'push' && github.ref_name == 'main' }}
+          cache: false  # caching depends on existence of a pixi.lock file
         if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda

From 7fa7b7d8d57948f4a2ea8b0b892a12c8fee68582 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:25:04 -0800
Subject: [PATCH 005/117] FIX: create pixi.toml

---
 .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 49e09ee2c07..06454c03d6d 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -163,8 +163,8 @@ jobs:
         # environment.yml specifies the same python version as macos-intel CI (3.13)
         # but let's expliclty set the version, in case these ever diverge in the future?
         run: |
-          pixi init --import environment.yml
-          pixi add "python ==${{ matrix.python }}"
+          pixi init --format pixi --import environment.yml
+          pixi add "python==${{ matrix.python }}"
       - name: Setup pixi environment
         if: matrix.kind == 'pixi'
         run: pixi install

From c26c307382885844b5e22e5c8147078db7cea9d1 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:34:40 -0800
Subject: [PATCH 006/117] check

---
 .github/workflows/tests.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 06454c03d6d..0b780dc7380 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -165,6 +165,7 @@ jobs:
         run: |
           pixi init --format pixi --import environment.yml
           pixi add "python==${{ matrix.python }}"
+          ls -la pixi.toml
       - name: Setup pixi environment
         if: matrix.kind == 'pixi'
         run: pixi install

From 1ff86249a6bd6f54f15cc202053a12076ccf9832 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:45:50 -0800
Subject: [PATCH 007/117] try

---
 .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 0b780dc7380..8bcd1feb03e 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -125,7 +125,7 @@ jobs:
         if: startswith(matrix.kind, 'pip')
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          activate-environment: true
+          activate-environment: false
           cache: false  # caching depends on existence of a pixi.lock file
         if: matrix.kind == 'pixi'
       # Python (if conda)
@@ -164,7 +164,7 @@ jobs:
         # but let's expliclty set the version, in case these ever diverge in the future?
         run: |
           pixi init --format pixi --import environment.yml
-          pixi add "python==${{ matrix.python }}"
+          pixi add "python==${{ matrix.python }}" --no-install
           ls -la pixi.toml
       - name: Setup pixi environment
         if: matrix.kind == 'pixi'

From 03b2f2940bd9cb6fa8d35e0b50cd7afffcf00572 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 14:57:52 -0800
Subject: [PATCH 008/117] dont install

---
 .github/workflows/tests.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 8bcd1feb03e..226c4b4c0a9 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -125,7 +125,8 @@ jobs:
         if: startswith(matrix.kind, 'pip')
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          activate-environment: false
+          activate-environment: true
+          run-install: false
           cache: false  # caching depends on existence of a pixi.lock file
         if: matrix.kind == 'pixi'
       # Python (if conda)

From 8b73058dccb2cd5397ca8510a15d0f9fbac31b9b Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 15:08:48 -0800
Subject: [PATCH 009/117] try again

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 226c4b4c0a9..aeeb452b3bd 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -125,7 +125,7 @@ jobs:
         if: startswith(matrix.kind, 'pip')
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          activate-environment: true
+          activate-environment: false
           run-install: false
           cache: false  # caching depends on existence of a pixi.lock file
         if: matrix.kind == 'pixi'

From 962a49e17a0d147fa1a69ffe44b5032c76add15f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 15:16:29 -0800
Subject: [PATCH 010/117] activate environment

---
 .github/workflows/tests.yml | 7 +++++++
 1 file changed, 7 insertions(+)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index aeeb452b3bd..a482ec666d7 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -170,6 +170,13 @@ jobs:
       - name: Setup pixi environment
         if: matrix.kind == 'pixi'
         run: pixi install
+      # Now run setup-pixi again in order to activate the enviroment
+      - uses: prefix-dev/setup-pixi@v0.9.4
+        if: matrix.kind == 'pixi'
+        with:
+          run-install: false
+          activate-environment: true
+          cache: false
       - run: bash ./tools/github_actions_dependencies.sh
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'

From 05359d8436057e6f31440aa23a104ffa272d189f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 15:19:06 -0800
Subject: [PATCH 011/117] FIX: rm cruft

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index a482ec666d7..ccb53218518 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -164,7 +164,7 @@ jobs:
         # environment.yml specifies the same python version as macos-intel CI (3.13)
         # but let's expliclty set the version, in case these ever diverge in the future?
         run: |
-          pixi init --format pixi --import environment.yml
+          pixi init --import environment.yml
           pixi add "python==${{ matrix.python }}" --no-install
           ls -la pixi.toml
       - name: Setup pixi environment

From 460c24a198c62308248470aa01367e4fb75ea6a7 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 17:46:56 -0800
Subject: [PATCH 012/117] debug

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index ccb53218518..9e211efe07f 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -177,6 +177,12 @@ jobs:
           run-install: false
           activate-environment: true
           cache: false
+      - name: Debug Qt availability
+        if: matrix.kind == 'pixi'
+        run: |
+          python -c "import sys; print(sys.executable)"
+          python -c "import importlib; print('PySide6', importlib.util.find_spec('PySide6'))"
+          pixi list | grep -i side || true
       - run: bash ./tools/github_actions_dependencies.sh
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'

From 5a16daac041aabd6c696f0e7f025de0e2775b8a1 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 17:51:17 -0800
Subject: [PATCH 013/117] arg

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 9e211efe07f..9dd15bdec8c 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -181,7 +181,7 @@ jobs:
         if: matrix.kind == 'pixi'
         run: |
           python -c "import sys; print(sys.executable)"
-          python -c "import importlib; print('PySide6', importlib.util.find_spec('PySide6'))"
+          python -c "from importlib import util; print('PySide6', util.find_spec('PySide6'))"
           pixi list | grep -i side || true
       - run: bash ./tools/github_actions_dependencies.sh
       - run: python ./tools/github_actions_check_old.py

From dc25bece7cbae1387203264f1846d040936b60d6 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 20:02:49 -0800
Subject: [PATCH 014/117] more debug

---
 .github/workflows/tests.yml | 5 +++++
 1 file changed, 5 insertions(+)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 9dd15bdec8c..e483ceafbe8 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -202,6 +202,11 @@ jobs:
           key: ${{ env.TESTING_VERSION }}
           path: ~/mne_data
       - run: bash ./tools/github_actions_download.sh
+      - name: Debug interpreter + Qt
+        if: matrix.kind == 'pixi'
+        run: |
+          pixi run python -c "import sys; print(sys.executable)"
+          pixi run python -c "import PySide6; print(PySide6.__version__)"
       - run: bash ./tools/github_actions_test.sh  # for some reason on macOS we need to run "bash X" in order for a failed test run to show up
       - uses: codecov/codecov-action@v5
         with:

From d1c45e24aa52f1fe61e0429e7543cf3f5756ced9 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 20:20:50 -0800
Subject: [PATCH 015/117] tests

---
 .github/workflows/tests.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index e483ceafbe8..dbec1ecde7a 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -183,6 +183,7 @@ jobs:
           python -c "import sys; print(sys.executable)"
           python -c "from importlib import util; print('PySide6', util.find_spec('PySide6'))"
           pixi list | grep -i side || true
+          python -c "import sys; assert '/.pixi/envs/default/bin/python' in sys.executable"
       - run: bash ./tools/github_actions_dependencies.sh
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'

From 14c0687e416716c9e2db4358cc3161db3ca0a3ec Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 20:30:15 -0800
Subject: [PATCH 016/117] more

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index dbec1ecde7a..e83c48c4348 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -177,6 +177,8 @@ jobs:
           run-install: false
           activate-environment: true
           cache: false
+      - name: Verify Environment
+        run: echo $PATH
       - name: Debug Qt availability
         if: matrix.kind == 'pixi'
         run: |

From 0376aaee74093e4abc0798297ada2acebd3f9cc1 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 20:35:54 -0800
Subject: [PATCH 017/117] try

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index e83c48c4348..ca02443e851 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -174,7 +174,7 @@ jobs:
       - uses: prefix-dev/setup-pixi@v0.9.4
         if: matrix.kind == 'pixi'
         with:
-          run-install: false
+          run-install: true
           activate-environment: true
           cache: false
       - name: Verify Environment

From a2076039ca74d4f0ebad9b57fa241ab26aeff309 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 20:48:11 -0800
Subject: [PATCH 018/117] hack: prepend path with executable

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index ca02443e851..24b7d319caf 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -177,6 +177,12 @@ jobs:
           run-install: true
           activate-environment: true
           cache: false
+      - name: Prepend pixi env to PATH
+        if: matrix.kind == 'pixi'
+        run: |
+          echo "PATH=${{ github.workspace }}/.pixi/envs/default/bin:${PATH}" >> "$GITHUB_ENV"
+          which python
+          python -c "import sys; print(sys.executable)"
       - name: Verify Environment
         run: echo $PATH
       - name: Debug Qt availability

From 4f0770fc120ae09ab6cb1d56b239bae7b799dda3 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 20:56:42 -0800
Subject: [PATCH 019/117] FIX: wrong var

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 24b7d319caf..c7518738a44 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -180,7 +180,7 @@ jobs:
       - name: Prepend pixi env to PATH
         if: matrix.kind == 'pixi'
         run: |
-          echo "PATH=${{ github.workspace }}/.pixi/envs/default/bin:${PATH}" >> "$GITHUB_ENV"
+          echo "PATH=${{ github.workspace }}/.pixi/envs/default/bin:${PATH}" >> "$GITHUB_PATH"
           which python
           python -c "import sys; print(sys.executable)"
       - name: Verify Environment

From e0d0865c25128bff4af54e156bea43f92667a5e3 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 22 Feb 2026 21:03:21 -0800
Subject: [PATCH 020/117] FIX: shell

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index c7518738a44..c92fa67c58b 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -54,7 +54,7 @@ jobs:
     runs-on: ${{ matrix.os }}
     defaults:
       run:
-        shell: bash -el {0}
+        shell: bash -e {0}
     env:
       PYTHON_VERSION: '${{ matrix.python }}'
       MKL_NUM_THREADS: '1'

From 7c443435122b464a1aa8db7f7b3b67c12f468af4 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 23 Feb 2026 07:58:52 -0800
Subject: [PATCH 021/117] Found the issue (login shell). Now try to remove
 previous hack

---
 .github/workflows/tests.yml | 6 ------
 1 file changed, 6 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index c92fa67c58b..4c70385b871 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -177,12 +177,6 @@ jobs:
           run-install: true
           activate-environment: true
           cache: false
-      - name: Prepend pixi env to PATH
-        if: matrix.kind == 'pixi'
-        run: |
-          echo "PATH=${{ github.workspace }}/.pixi/envs/default/bin:${PATH}" >> "$GITHUB_PATH"
-          which python
-          python -c "import sys; print(sys.executable)"
       - name: Verify Environment
         run: echo $PATH
       - name: Debug Qt availability

From fe5a459bf45ff6335a8ae2b086c7c67536b07b51 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 23 Feb 2026 08:28:22 -0800
Subject: [PATCH 022/117] now debug failiing conda-ish CI's

---
 .github/workflows/tests.yml | 8 +++-----
 1 file changed, 3 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 4c70385b871..0d66d213c1b 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -148,7 +148,7 @@ jobs:
               echo "MNE_IS_OSMESA=true" | tee -a $GITHUB_ENV
             fi
           fi
-        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == 'pixi'
+        if: matrix.kind == 'conda' || matrix.kind == 'mamba'
       - uses: mamba-org/setup-micromamba@v2
         with:
           environment-file: ${{ env.CONDA_ENV }}
@@ -166,7 +166,6 @@ jobs:
         run: |
           pixi init --import environment.yml
           pixi add "python==${{ matrix.python }}" --no-install
-          ls -la pixi.toml
       - name: Setup pixi environment
         if: matrix.kind == 'pixi'
         run: pixi install
@@ -180,12 +179,11 @@ jobs:
       - name: Verify Environment
         run: echo $PATH
       - name: Debug Qt availability
-        if: matrix.kind == 'pixi'
+        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == "old" || matrix.kind == "minimal"
         run: |
           python -c "import sys; print(sys.executable)"
+          python -c "from importlib.metadata import version; print('pip version', version('pip'))"
           python -c "from importlib import util; print('PySide6', util.find_spec('PySide6'))"
-          pixi list | grep -i side || true
-          python -c "import sys; assert '/.pixi/envs/default/bin/python' in sys.executable"
       - run: bash ./tools/github_actions_dependencies.sh
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'

From c2f8a97ffbd1e1200de948ab074bd65371617205 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 23 Feb 2026 08:45:23 -0800
Subject: [PATCH 023/117] arggh GH YAML syntax doesnt allow double quotes

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 0d66d213c1b..2cf9271fe18 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -179,7 +179,7 @@ jobs:
       - name: Verify Environment
         run: echo $PATH
       - name: Debug Qt availability
-        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == "old" || matrix.kind == "minimal"
+        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == 'old' || matrix.kind == 'minimal'
         run: |
           python -c "import sys; print(sys.executable)"
           python -c "from importlib.metadata import version; print('pip version', version('pip'))"

From de6704c5ee4eade27b7a305a0bc7b284a473a697 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 23 Feb 2026 09:56:57 -0800
Subject: [PATCH 024/117] try using shell wrapper

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 2cf9271fe18..122589e3ca7 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -157,6 +157,8 @@ jobs:
           create-args: >-
             python=${{ env.PYTHON_VERSION }}
             -v
+          generate-run-shell: true
+          init-shell: none
         if: ${{ !startswith(matrix.kind, 'pip') && matrix.kind != 'pixi' }}
         timeout-minutes: 20
       - name: Create pixi.toml
@@ -185,6 +187,8 @@ jobs:
           python -c "from importlib.metadata import version; print('pip version', version('pip'))"
           python -c "from importlib import util; print('PySide6', util.find_spec('PySide6'))"
       - run: bash ./tools/github_actions_dependencies.sh
+        if: ${{ matrix.kind != 'pixi' && !startswith(matrix.kind, 'pip') && runner.os != 'Windows' }}
+        shell: micromamba-shell {0}
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'
       # Minimal commands on Linux (macOS stalls)
@@ -209,6 +213,8 @@ jobs:
           pixi run python -c "import sys; print(sys.executable)"
           pixi run python -c "import PySide6; print(PySide6.__version__)"
       - run: bash ./tools/github_actions_test.sh  # for some reason on macOS we need to run "bash X" in order for a failed test run to show up
+        if: ${{ matrix.kind != 'pixi' && !startswith(matrix.kind, 'pip') && runner.os != 'Windows' }}
+        shell: micromamba-shell {0}
       - uses: codecov/codecov-action@v5
         with:
           token: ${{ secrets.CODECOV_TOKEN }}

From 6e651d83317f95dcf01696487b210177f23b5de6 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 23 Feb 2026 11:08:20 -0800
Subject: [PATCH 025/117] more

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 122589e3ca7..41ff332b0cc 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -191,10 +191,13 @@ jobs:
         shell: micromamba-shell {0}
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'
+        shell: micromamba-shell {0}
       # Minimal commands on Linux (macOS stalls)
       - run: bash ./tools/get_minimal_commands.sh
         if: startswith(matrix.os, 'ubuntu') && matrix.kind != 'minimal' && matrix.kind != 'old'
       - run: bash ./tools/github_actions_infos.sh
+        if: ${{ matrix.kind != 'pixi' && !startswith(matrix.kind, 'pip') && runner.os != 'Windows' }}
+        shell: micromamba-shell {0}
       # Check Qt
       - run: bash ./tools/check_qt_import.sh $MNE_QT_BACKEND
         if: env.MNE_QT_BACKEND != ''

From a46fc3bd884491d21f413b5fd3a84e16940d3232 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Fri, 27 Feb 2026 16:20:26 -0800
Subject: [PATCH 026/117] remove branch

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 41ff332b0cc..6f2327b2458 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -4,7 +4,7 @@ concurrency:
   cancel-in-progress: true
 on:  # yamllint disable-line rule:truthy
   push:
-    branches: ["main", "maint/*", "pixi"]
+    branches: ["main", "maint/*"]
   pull_request:
     branches: ["main", "maint/*"]
   # adapted from spyder-ide/spyder

From 0e6aeaf370ebdbeec0666308c4ea6e7280b8d7ad Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 08:54:02 -0700
Subject: [PATCH 027/117] restore login shell

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 6f2327b2458..043f9808902 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -54,7 +54,7 @@ jobs:
     runs-on: ${{ matrix.os }}
     defaults:
       run:
-        shell: bash -e {0}
+        shell: bash -el {0}
     env:
       PYTHON_VERSION: '${{ matrix.python }}'
       MKL_NUM_THREADS: '1'

From 1ca07e70daa8536f87477cd30b726e2c2b640a47 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 08:55:33 -0700
Subject: [PATCH 028/117] specify manifest path

---
 .github/workflows/tests.yml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 043f9808902..6b8047b7909 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -125,7 +125,8 @@ jobs:
         if: startswith(matrix.kind, 'pip')
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          activate-environment: false
+          manifest-path: tools/pixi-macos.lock
+          activate-environment: true
           run-install: false
           cache: false  # caching depends on existence of a pixi.lock file
         if: matrix.kind == 'pixi'

From 79291ffecf6c4340e622447d28fa9b633c8cacff Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 08:56:07 -0700
Subject: [PATCH 029/117] do install

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 6b8047b7909..3875ac4db81 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -127,8 +127,6 @@ jobs:
         with:
           manifest-path: tools/pixi-macos.lock
           activate-environment: true
-          run-install: false
-          cache: false  # caching depends on existence of a pixi.lock file
         if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda

From e246da45cf2b235cf8bd36d4e516132d4b5045d0 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 08:57:23 -0700
Subject: [PATCH 030/117] revert tmp conda tweaks

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 3875ac4db81..45c7e6e93ba 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -156,8 +156,6 @@ jobs:
           create-args: >-
             python=${{ env.PYTHON_VERSION }}
             -v
-          generate-run-shell: true
-          init-shell: none
         if: ${{ !startswith(matrix.kind, 'pip') && matrix.kind != 'pixi' }}
         timeout-minutes: 20
       - name: Create pixi.toml

From c0e16a25b2f33f1684c12a4cd007117f98c0a730 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 08:58:20 -0700
Subject: [PATCH 031/117] revert pixi toml creation

---
 .github/workflows/tests.yml | 18 +-----------------
 1 file changed, 1 insertion(+), 17 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 45c7e6e93ba..a653f85f2ff 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -158,23 +158,7 @@ jobs:
             -v
         if: ${{ !startswith(matrix.kind, 'pip') && matrix.kind != 'pixi' }}
         timeout-minutes: 20
-      - name: Create pixi.toml
-        if: matrix.kind == 'pixi'
-        # environment.yml specifies the same python version as macos-intel CI (3.13)
-        # but let's expliclty set the version, in case these ever diverge in the future?
-        run: |
-          pixi init --import environment.yml
-          pixi add "python==${{ matrix.python }}" --no-install
-      - name: Setup pixi environment
-        if: matrix.kind == 'pixi'
-        run: pixi install
-      # Now run setup-pixi again in order to activate the enviroment
-      - uses: prefix-dev/setup-pixi@v0.9.4
-        if: matrix.kind == 'pixi'
-        with:
-          run-install: true
-          activate-environment: true
-          cache: false
+
       - name: Verify Environment
         run: echo $PATH
       - name: Debug Qt availability

From 83c66f5e5940c986f8d7c3df90025c5233b90d4f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 08:58:52 -0700
Subject: [PATCH 032/117] remove cruft

---
 .github/workflows/tests.yml | 6 ------
 1 file changed, 6 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index a653f85f2ff..abed7f073e7 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -161,12 +161,6 @@ jobs:
 
       - name: Verify Environment
         run: echo $PATH
-      - name: Debug Qt availability
-        if: matrix.kind == 'conda' || matrix.kind == 'mamba' || matrix.kind == 'old' || matrix.kind == 'minimal'
-        run: |
-          python -c "import sys; print(sys.executable)"
-          python -c "from importlib.metadata import version; print('pip version', version('pip'))"
-          python -c "from importlib import util; print('PySide6', util.find_spec('PySide6'))"
       - run: bash ./tools/github_actions_dependencies.sh
         if: ${{ matrix.kind != 'pixi' && !startswith(matrix.kind, 'pip') && runner.os != 'Windows' }}
         shell: micromamba-shell {0}

From cb0f1596ab352cbdd4ac59d372ed047485b3a16a Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 18 Mar 2026 09:00:35 -0700
Subject: [PATCH 033/117] remove micromamba shell [skip actions] [skip az[] [ci
 skip]

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index abed7f073e7..892a1d81bf7 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -163,7 +163,6 @@ jobs:
         run: echo $PATH
       - run: bash ./tools/github_actions_dependencies.sh
         if: ${{ matrix.kind != 'pixi' && !startswith(matrix.kind, 'pip') && runner.os != 'Windows' }}
-        shell: micromamba-shell {0}
       - run: python ./tools/github_actions_check_old.py
         if: matrix.kind == 'old'
         shell: micromamba-shell {0}

From d798ce948fe39dfffb61749f7f151da96f928fa6 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 6 Apr 2026 17:58:44 -0700
Subject: [PATCH 034/117] checkpoint before rebase

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 892a1d81bf7..6e6afd192bd 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -6,7 +6,7 @@ on:  # yamllint disable-line rule:truthy
   push:
     branches: ["main", "maint/*"]
   pull_request:
-    branches: ["main", "maint/*"]
+    branches: ["main", "maint/*", "pixi2"]
   # adapted from spyder-ide/spyder
   workflow_dispatch:
     inputs:

From 2422d5867d6c6897a397fe5a093653ccabf6a9c8 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 16:17:45 -0700
Subject: [PATCH 035/117] add lock file

---
 tools/pixi.lock | 6506 +++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 6506 insertions(+)
 create mode 100644 tools/pixi.lock

diff --git a/tools/pixi.lock b/tools/pixi.lock
new file mode 100644
index 00000000000..ac54b3f921a
--- /dev/null
+++ b/tools/pixi.lock
@@ -0,0 +1,6506 @@
+version: 6
+environments:
+  default:
+    channels:
+    - url: https://conda.anaconda.org/conda-forge/
+    indexes:
+    - https://pypi.org/simple
+    packages:
+      osx-64:
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.1-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.13.5-py313h6f5309d_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.6.1-py311hc9d285c_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.13.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.9.1-hf036a51_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/appnope-0.1.4-pyhd8ed1ab_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-3.0.1-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/async-lru-2.3.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-26.1.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-auth-0.10.1-hfd47d4b_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-cal-0.9.13-hea39f9f_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-common-0.12.6-h8616949_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-compression-0.3.2-hb9ea233_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-event-stream-0.6.0-ha9bd753_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-http-0.10.12-h1037d30_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-io-0.26.3-hc95b61d_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-mqtt-0.15.2-h6fabf1c_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-s3-0.11.5-hb15a67f_5.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-sdkutils-0.2.4-h901532c_4.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-checksums-0.2.10-h31279ed_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-crt-cpp-0.37.4-h1135fef_3.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-sdk-cpp-1.11.747-h17cee85_3.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-core-cpp-1.16.2-h87f1c7e_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-identity-cpp-1.13.3-h1135191_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-storage-blobs-cpp-12.16.0-h9b4319f_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-storage-common-cpp-12.12.0-h7373072_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-storage-files-datalake-cpp-12.14.0-he1781d6_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/babel-2.18.0-pyhcf101f3_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/backports.zstd-1.3.0-py313h591e92b_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/beautifulsoup4-4.14.3-pyha770c72_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/bleach-6.3.0-pyhcf101f3_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/bleach-with-css-6.3.0-hbca2aae_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/blosc-1.21.6-hd145fbb_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-1.2.0-hf139dec_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-bin-1.2.0-h8616949_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-python-1.2.0-py313h8d69aa9_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/bzip2-1.0.8-h500dc9f_9.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/c-ares-1.34.6-hb5e19a0_0.conda
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+  license_family: Apache
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+  license_family: MIT
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From 676a84540c9b4adc9acf71b7e8a99654b36e4823 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 16:19:09 -0700
Subject: [PATCH 036/117] for debugging

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 4c94f52fcea..2cf48f3bb26 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -4,7 +4,7 @@ concurrency:
   cancel-in-progress: true
 on:  # yamllint disable-line rule:truthy
   push:
-    branches: ["main", "maint/*"]
+    branches: ["main", "maint/*", "pixi2"]
   pull_request:
     branches: ["main", "maint/*", "pixi2"]
   # adapted from spyder-ide/spyder

From b56aa5cc8e84d6687fa15fcaf71060795de390a7 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 16:51:07 -0700
Subject: [PATCH 037/117] FIX: filename

---
 .github/workflows/tests.yml                | 2 +-
 tools/{pixi.lock => pixi-macos-intel.lock} | 0
 2 files changed, 1 insertion(+), 1 deletion(-)
 rename tools/{pixi.lock => pixi-macos-intel.lock} (100%)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 2cf48f3bb26..6d07e71af9d 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -125,7 +125,7 @@ jobs:
         if: startswith(matrix.kind, 'pip')
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          manifest-path: tools/pixi-macos.lock
+          manifest-path: tools/pixi-macos-intel.lock
           activate-environment: true
         if: matrix.kind == 'pixi'
       # Python (if conda)
diff --git a/tools/pixi.lock b/tools/pixi-macos-intel.lock
similarity index 100%
rename from tools/pixi.lock
rename to tools/pixi-macos-intel.lock

From ad9df3f596f191007805079bfd6ea1077a5d6a00 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 17:04:24 -0700
Subject: [PATCH 038/117] FIX: try toml

---
 .github/workflows/tests.yml |  2 +-
 tools/pixi.toml             | 75 +++++++++++++++++++++++++++++++++++++
 2 files changed, 76 insertions(+), 1 deletion(-)
 create mode 100644 tools/pixi.toml

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 6d07e71af9d..35d34dad315 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -125,7 +125,7 @@ jobs:
         if: startswith(matrix.kind, 'pip')
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          manifest-path: tools/pixi-macos-intel.lock
+          manifest-path: tools/pixi.toml
           activate-environment: true
         if: matrix.kind == 'pixi'
       # Python (if conda)
diff --git a/tools/pixi.toml b/tools/pixi.toml
new file mode 100644
index 00000000000..f08b039df43
--- /dev/null
+++ b/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"

From 38dd081f271aab2d549535748a8541545afa3db0 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 22:01:10 -0700
Subject: [PATCH 039/117] guard

---
 .github/workflows/tests.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 35d34dad315..e1408f8812c 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -168,6 +168,7 @@ jobs:
           python-version: ${{ matrix.python }}
         if: matrix.kind == 'old'
       - run: bash ./tools/github_actions_dependencies.sh
+        if: matrix.kind != 'pixi'
       - run: python ./tools/github_actions_check_old_env.py
         if: matrix.kind == 'old'
         shell: micromamba-shell {0}

From f40a537603bd793bcf34563de0fce1bc5adbd8a7 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 22:09:18 -0700
Subject: [PATCH 040/117] cruft

---
 .github/workflows/tests.yml | 3 ---
 1 file changed, 3 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index e1408f8812c..612afe1c9cb 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -171,13 +171,10 @@ jobs:
         if: matrix.kind != 'pixi'
       - run: python ./tools/github_actions_check_old_env.py
         if: matrix.kind == 'old'
-        shell: micromamba-shell {0}
       # Minimal commands on Linux (macOS stalls)
       - run: bash ./tools/get_minimal_commands.sh
         if: startswith(matrix.os, 'ubuntu') && matrix.kind != 'minimal' && matrix.kind != 'old'
       - run: bash ./tools/github_actions_infos.sh
-        if: ${{ matrix.kind != 'pixi' && !startswith(matrix.kind, 'pip') && runner.os != 'Windows' }}
-        shell: micromamba-shell {0}
       # Check Qt
       - run: bash ./tools/check_qt_import.sh $MNE_QT_BACKEND
         if: env.MNE_QT_BACKEND != ''

From e1dba77266405d62f52ee41a9f9a63247130c744 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 22:25:34 -0700
Subject: [PATCH 041/117] temp debugging statements

---
 .github/workflows/tests.yml | 14 +++++++++-----
 1 file changed, 9 insertions(+), 5 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 612afe1c9cb..7c70ee0810a 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -186,12 +186,16 @@ jobs:
         with:
           key: ${{ env.TESTING_VERSION }}
           path: ~/mne_data
-      - run: bash ./tools/github_actions_download.sh
-      - name: Debug interpreter + Qt
-        if: matrix.kind == 'pixi'
+      - name: temporary debugging check
         run: |
-          pixi run python -c "import sys; print(sys.executable)"
-          pixi run python -c "import PySide6; print(PySide6.__version__)"
+          command -v python || true
+          command -v pytest || true
+          command -v pixi || true
+          python -V || true
+          pixi run python -V || true
+          pytest --version || true
+          pixi run python -m pytest --version || true
+      - run: bash ./tools/github_actions_download.sh
       - run: bash ./tools/github_actions_test.sh  # for some reason on macOS we need to run "bash X" in order for a failed test run to show up
       - uses: codecov/codecov-action@v6
         with:

From 9f747ae71545a7411e001abe9c797a7e71f17528 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Tue, 7 Apr 2026 22:25:54 -0700
Subject: [PATCH 042/117] triage

---
 tools/github_actions_download.sh | 12 ++++++++++--
 1 file changed, 10 insertions(+), 2 deletions(-)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 7543275b58e..0a567109fae 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,6 +1,14 @@
 #!/bin/bash -ef
+run_python() {
+  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+    pixi run python "$@"
+  else
+    python "$@"
+  fi
+}
 
+# TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
-	python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
-	python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
+	run_python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
+	run_python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
 fi

From e10c59a9b6f8e488fd788c405d4302fb6d632fe9 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 08:45:00 -0700
Subject: [PATCH 043/117] debug

---
 .github/workflows/tests.yml | 21 ++++++++++++---------
 1 file changed, 12 insertions(+), 9 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 7c70ee0810a..3599eaf5133 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -126,8 +126,20 @@ jobs:
       - 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'
+
+      - name: temporary debugging check
+        run: |
+          command -v python || true
+          command -v pytest || true
+          command -v pixi || true
+          python -V || true
+          pixi run python -V || true
+          pytest --version || true
+          pixi run python -m pytest --version || true
+        if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda
         run: |
@@ -186,15 +198,6 @@ jobs:
         with:
           key: ${{ env.TESTING_VERSION }}
           path: ~/mne_data
-      - name: temporary debugging check
-        run: |
-          command -v python || true
-          command -v pytest || true
-          command -v pixi || true
-          python -V || true
-          pixi run python -V || true
-          pytest --version || true
-          pixi run python -m pytest --version || true
       - run: bash ./tools/github_actions_download.sh
       - run: bash ./tools/github_actions_test.sh  # for some reason on macOS we need to run "bash X" in order for a failed test run to show up
       - uses: codecov/codecov-action@v6

From ca03ac8a8e48896da51dc4e120ea70fa2b6a0a6f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 09:00:20 -0700
Subject: [PATCH 044/117] TMP: triage python/pytest command

---
 tools/github_actions_download.sh | 8 +-------
 tools/github_actions_infos.sh    | 3 ++-
 tools/github_actions_test.sh     | 3 ++-
 3 files changed, 5 insertions(+), 9 deletions(-)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 0a567109fae..736880cb555 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,11 +1,5 @@
 #!/bin/bash -ef
-run_python() {
-  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
-    pixi run python "$@"
-  else
-    python "$@"
-  fi
-}
+source ./github_actions_helpers.sh
 
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index 95d18cdd2ba..59d05cc3ff5 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -1,5 +1,6 @@
 #!/bin/bash -ef
+source ./github_actions_helpers.sh
 
 which mne
 mne sys_info -pd
-python -c "import numpy; numpy.show_config()"
+run_python -c "import numpy; numpy.show_config()"
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 202b041bc79..30e7cf9798f 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -1,4 +1,5 @@
 #!/bin/bash
+source ./github_actions_helpers.sh
 
 set -eo pipefail
 
@@ -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 ${USE_DIRS}
+run_pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
 echo "Exited with code $?"

From bb8e9a73fe99e4ba7d8a4121488be3224b29afc6 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 09:27:06 -0700
Subject: [PATCH 045/117] Revert "TMP: triage python/pytest command"

This reverts commit ca03ac8a8e48896da51dc4e120ea70fa2b6a0a6f.
---
 tools/github_actions_download.sh | 8 +++++++-
 tools/github_actions_infos.sh    | 3 +--
 tools/github_actions_test.sh     | 3 +--
 3 files changed, 9 insertions(+), 5 deletions(-)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 736880cb555..0a567109fae 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,5 +1,11 @@
 #!/bin/bash -ef
-source ./github_actions_helpers.sh
+run_python() {
+  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+    pixi run python "$@"
+  else
+    python "$@"
+  fi
+}
 
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index 59d05cc3ff5..95d18cdd2ba 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -1,6 +1,5 @@
 #!/bin/bash -ef
-source ./github_actions_helpers.sh
 
 which mne
 mne sys_info -pd
-run_python -c "import numpy; numpy.show_config()"
+python -c "import numpy; numpy.show_config()"
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 30e7cf9798f..202b041bc79 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -1,5 +1,4 @@
 #!/bin/bash
-source ./github_actions_helpers.sh
 
 set -eo pipefail
 
@@ -36,5 +35,5 @@ if [[ ! -z "$CONDA_ENV" ]] && [[ "${RUNNER_OS}" != "Windows" ]] && [[ "${MNE_CI_
 fi
 
 set -x
-run_pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
+pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
 echo "Exited with code $?"

From 336495ead38bb0129912111ebfc0cb21644cff05 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 09:31:27 -0700
Subject: [PATCH 046/117] reveal PATH

---
 .github/workflows/tests.yml      | 11 +++++++----
 tools/github_actions_download.sh |  8 --------
 2 files changed, 7 insertions(+), 12 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 3599eaf5133..dd944302544 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -123,6 +123,8 @@ jobs:
         with:
           python-version: ${{ matrix.python }}
         if: startswith(matrix.kind, 'pip')
+      - name: temporary debugging check 1
+        run: echo "$PATH"
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
           manifest-path: tools/pixi.toml
@@ -130,11 +132,12 @@ jobs:
           activate-environment: true
         if: matrix.kind == 'pixi'
 
-      - name: temporary debugging check
+      - name: temporary debugging check 2
         run: |
-          command -v python || true
-          command -v pytest || true
-          command -v pixi || true
+          echo "$PATH"
+          which python || true
+          which pytest || true
+          which pixi || true
           python -V || true
           pixi run python -V || true
           pytest --version || true
diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 0a567109fae..fe209bc29bc 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,12 +1,4 @@
 #!/bin/bash -ef
-run_python() {
-  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
-    pixi run python "$@"
-  else
-    python "$@"
-  fi
-}
-
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
 	run_python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';

From 649e2b2eac248c46f919fc6e4d3977316d0d3699 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 09:37:30 -0700
Subject: [PATCH 047/117] fix: cruft

---
 tools/github_actions_download.sh | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index fe209bc29bc..2356a34b4e1 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,6 +1,6 @@
 #!/bin/bash -ef
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
-	run_python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
-	run_python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
+	python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
+	python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
 fi

From a09b73442c20e5df422de73e4e79994f28f14f46 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 09:44:32 -0700
Subject: [PATCH 048/117] foo

---
 .github/workflows/tests.yml | 16 +++++++++-------
 1 file changed, 9 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index dd944302544..492bde90225 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -135,13 +135,15 @@ jobs:
       - name: temporary debugging check 2
         run: |
           echo "$PATH"
-          which python || true
-          which pytest || true
-          which pixi || true
-          python -V || true
-          pixi run python -V || true
-          pytest --version || true
-          pixi run python -m pytest --version || true
+          which python
+          which pixi
+          pixi shell
+          which python
+        if: matrix.kind == 'pixi'
+      - run: |
+          echo "$PATH"
+          which python
+        shell: pixi run {0}
         if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda

From ab625ba404bb42124120c8b82719db92ba25ddaa Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 09:50:51 -0700
Subject: [PATCH 049/117] bar

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 492bde90225..9286c07f4b1 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -137,8 +137,6 @@ jobs:
           echo "$PATH"
           which python
           which pixi
-          pixi shell
-          which python
         if: matrix.kind == 'pixi'
       - run: |
           echo "$PATH"

From 22ba9eb8dc7b6bb4b012649265d4616c77d5c853 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 10:04:46 -0700
Subject: [PATCH 050/117] baz

---
 .github/workflows/tests.yml | 5 ++---
 1 file changed, 2 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 9286c07f4b1..3367f3f5705 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -139,9 +139,8 @@ jobs:
           which pixi
         if: matrix.kind == 'pixi'
       - run: |
-          echo "$PATH"
-          which python
-        shell: pixi run {0}
+          pixi run which python
+          pixi run echo "$PATH"
         if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda

From 279fa65f42b2c4eadceed5befd7a9fac95f6fe9f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 14:05:32 -0700
Subject: [PATCH 051/117] shell-hook

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 3367f3f5705..b0a24950a22 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -132,6 +132,9 @@ jobs:
           activate-environment: true
         if: matrix.kind == 'pixi'
 
+      - run: |
+          eval "$(pixi shell-hook)"
+        if: matrix.kind == 'pixi'
       - name: temporary debugging check 2
         run: |
           echo "$PATH"
@@ -142,6 +145,7 @@ jobs:
           pixi run which python
           pixi run echo "$PATH"
         if: matrix.kind == 'pixi'
+
       # Python (if conda)
       - name: Fixes for conda
         run: |

From e08d2cdaa6595f6e0bb8667d22cd6ee5feaa73c9 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 14:12:03 -0700
Subject: [PATCH 052/117] persist across steps?

---
 .github/workflows/tests.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index b0a24950a22..da964f4bd6f 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -137,6 +137,7 @@ jobs:
         if: matrix.kind == 'pixi'
       - name: temporary debugging check 2
         run: |
+          eval "$(pixi shell-hook)"
           echo "$PATH"
           which python
           which pixi

From 25073c6090a738d2dcbb561217286aa4f7051aa2 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 14:15:50 -0700
Subject: [PATCH 053/117] pipe

---
 .github/workflows/tests.yml | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index da964f4bd6f..ec57d8fed34 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -133,11 +133,10 @@ jobs:
         if: matrix.kind == 'pixi'
 
       - run: |
-          eval "$(pixi shell-hook)"
+          eval "$(pixi shell-hook)" >> $GITHUB_ENV
         if: matrix.kind == 'pixi'
       - name: temporary debugging check 2
         run: |
-          eval "$(pixi shell-hook)"
           echo "$PATH"
           which python
           which pixi

From a3db53df649a20a9e51bb49f9354bebdee96bc4c Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 15:22:23 -0700
Subject: [PATCH 054/117] wrapper

---
 tools/github_actions_download.sh | 10 ++++++++--
 tools/github_actions_helpers.sh  | 18 ++++++++++++++++++
 tools/github_actions_infos.sh    |  4 +++-
 tools/github_actions_test.sh     |  5 ++++-
 4 files changed, 33 insertions(+), 4 deletions(-)
 create mode 100644 tools/github_actions_helpers.sh

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 2356a34b4e1..04b9b171996 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,6 +1,12 @@
 #!/bin/bash -ef
+
+set -eo pipefail
+
+TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
+source "$TOOLS_DIR/.github_actions_helpers.sh"
+
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
-	python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
-	python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
+	run_python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
+	run_python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
 fi
diff --git a/tools/github_actions_helpers.sh b/tools/github_actions_helpers.sh
new file mode 100644
index 00000000000..368d155665b
--- /dev/null
+++ b/tools/github_actions_helpers.sh
@@ -0,0 +1,18 @@
+#!/bin/bash
+
+# For non-pixi 'kinds', we assume a pre-activated environment
+run_python() {
+  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+    pixi run python "$@"
+  else
+    python "$@"
+  fi
+}
+
+run_pytest() {
+  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+    pixi run pytest "$@"
+  else
+    pytest "$@"
+  fi
+}
\ No newline at end of file
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index 95d18cdd2ba..cfc203fce7f 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -1,5 +1,7 @@
 #!/bin/bash -ef
+TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
+source "$TOOLS_DIR/.github_actions_helpers.sh"
 
 which mne
 mne sys_info -pd
-python -c "import numpy; numpy.show_config()"
+run_python -c "import numpy; numpy.show_config()"
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 202b041bc79..2d7d22124a9 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -2,6 +2,9 @@
 
 set -eo pipefail
 
+TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
+source "$TOOLS_DIR/.github_actions_helpers.sh"
+
 if [[ "${CI_OS_NAME}" == "ubuntu"* ]]; then
   CONDITION="not (ultraslowtest or pgtest)"
 else  # macOS or Windows
@@ -35,5 +38,5 @@ 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 ${USE_DIRS}
+run_pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
 echo "Exited with code $?"

From ad04dec04fe58101ba22bd3e564a1438fce2c527 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 15:37:01 -0700
Subject: [PATCH 055/117] oops.. typo

---
 tools/github_actions_download.sh | 2 +-
 tools/github_actions_infos.sh    | 5 ++++-
 tools/github_actions_test.sh     | 2 +-
 3 files changed, 6 insertions(+), 3 deletions(-)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 04b9b171996..5d48a99e162 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -3,7 +3,7 @@
 set -eo pipefail
 
 TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
-source "$TOOLS_DIR/.github_actions_helpers.sh"
+source "$TOOLS_DIR/github_actions_helpers.sh"
 
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index cfc203fce7f..32523c210a1 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -1,6 +1,9 @@
 #!/bin/bash -ef
+
+set -eo pipefail
+
 TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
-source "$TOOLS_DIR/.github_actions_helpers.sh"
+source "$TOOLS_DIR/github_actions_helpers.sh"
 
 which mne
 mne sys_info -pd
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 2d7d22124a9..dbfd475409b 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -3,7 +3,7 @@
 set -eo pipefail
 
 TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
-source "$TOOLS_DIR/.github_actions_helpers.sh"
+source "$TOOLS_DIR/github_actions_helpers.sh"
 
 if [[ "${CI_OS_NAME}" == "ubuntu"* ]]; then
   CONDITION="not (ultraslowtest or pgtest)"

From ed263ed734a625d33ddffbbed6b5e63bad14b897 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Apr 2026 20:10:43 -0700
Subject: [PATCH 056/117] just use erics line of code and also run
 gh_actions_deps

---
 .github/workflows/tests.yml          | 1 -
 tools/github_actions_dependencies.sh | 8 +++++++-
 tools/github_actions_download.sh     | 4 ++--
 tools/github_actions_infos.sh        | 4 ++--
 tools/github_actions_test.sh         | 4 ++--
 5 files changed, 13 insertions(+), 8 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index ec57d8fed34..b560140064b 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -186,7 +186,6 @@ jobs:
           python-version: ${{ matrix.python }}
         if: matrix.kind == 'old'
       - run: bash ./tools/github_actions_dependencies.sh
-        if: matrix.kind != 'pixi'
       - run: python ./tools/github_actions_check_old_env.py
         if: matrix.kind == 'old'
       # Minimal commands on Linux (macOS stalls)
diff --git a/tools/github_actions_dependencies.sh b/tools/github_actions_dependencies.sh
index 8621a7a9709..b03de01a7ac 100755
--- a/tools/github_actions_dependencies.sh
+++ b/tools/github_actions_dependencies.sh
@@ -3,6 +3,8 @@
 set -eo pipefail
 
 SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
+source "$SCRIPT_DIR/github_actions_helpers.sh"
+
 STD_ARGS="--progress-bar off --upgrade"
 INSTALL_ARGS="-e"
 if [ ! -z "$CONDA_ENV" ]; then
@@ -39,6 +41,10 @@ elif [[ "${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 +67,6 @@ else
 	echo "::group::Installing MNE in development mode using pip"
 fi
 set -x
-python -m pip install $STD_ARGS $INSTALL_ARGS .$EXTRAS $GROUP_ARG
+run_python -m pip install $STD_ARGS $INSTALL_ARGS .$EXTRAS $GROUP_ARG
 set +x
 echo "::endgroup::"
diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 5d48a99e162..0b1c07a35c5 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -2,8 +2,8 @@
 
 set -eo pipefail
 
-TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
-source "$TOOLS_DIR/github_actions_helpers.sh"
+SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
+source "$SCRIPT_DIR/github_actions_helpers.sh"
 
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index 32523c210a1..77055ebf963 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -2,8 +2,8 @@
 
 set -eo pipefail
 
-TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
-source "$TOOLS_DIR/github_actions_helpers.sh"
+SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
+source "$SCRIPT_DIR/github_actions_helpers.sh"
 
 which mne
 mne sys_info -pd
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index dbfd475409b..85d1752c3af 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -2,8 +2,8 @@
 
 set -eo pipefail
 
-TOOLS_DIR=$(dirname "${BASH_SOURCE[0]}") 
-source "$TOOLS_DIR/github_actions_helpers.sh"
+SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
+source "$SCRIPT_DIR/github_actions_helpers.sh"
 
 if [[ "${CI_OS_NAME}" == "ubuntu"* ]]; then
   CONDITION="not (ultraslowtest or pgtest)"

From 92e30faba73d1d2844e05c489999c252f15c53a5 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 15 Apr 2026 10:03:28 -0700
Subject: [PATCH 057/117] Pixi run prefix

---
 tools/github_actions_dependencies.sh |  3 +--
 tools/github_actions_download.sh     |  9 ++-------
 tools/github_actions_env_vars.sh     | 12 +++++-------
 tools/github_actions_helpers.sh      | 18 ------------------
 tools/github_actions_infos.sh        |  7 +------
 tools/github_actions_test.sh         |  4 +---
 6 files changed, 10 insertions(+), 43 deletions(-)
 delete mode 100644 tools/github_actions_helpers.sh

diff --git a/tools/github_actions_dependencies.sh b/tools/github_actions_dependencies.sh
index b03de01a7ac..5c21282a791 100755
--- a/tools/github_actions_dependencies.sh
+++ b/tools/github_actions_dependencies.sh
@@ -3,7 +3,6 @@
 set -eo pipefail
 
 SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
-source "$SCRIPT_DIR/github_actions_helpers.sh"
 
 STD_ARGS="--progress-bar off --upgrade"
 INSTALL_ARGS="-e"
@@ -67,6 +66,6 @@ else
 	echo "::group::Installing MNE in development mode using pip"
 fi
 set -x
-run_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::"
diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 0b1c07a35c5..9cd373f0c2a 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,12 +1,7 @@
 #!/bin/bash -ef
 
-set -eo pipefail
-
-SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
-source "$SCRIPT_DIR/github_actions_helpers.sh"
-
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${DEPS}" != "minimal" ]; then
-	run_python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
-	run_python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
+	${PREFIX} python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
+	${PREFIX} python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
 fi
diff --git a/tools/github_actions_env_vars.sh b/tools/github_actions_env_vars.sh
index 75bb959ae77..14df21ef3ad 100755
--- a/tools/github_actions_env_vars.sh
+++ b/tools/github_actions_env_vars.sh
@@ -17,17 +17,15 @@ elif [[ "$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 $GITHUB_ENV
-    else  # conda, mamba (use warning level for completeness)
-        # Pixi is treated as Conda-like (it uses environment.yaml) but it should not export
-        # CONDA_ENV because github_actions_dependencies.sh uses the existence of the
-        # CONDA_ENV environment variable to assume that the conda/mamba command is on
-        # PATH, which it is not for pixi jobs.
-        if [[ "$MNE_CI_KIND" != "pixi" ]]; then
+    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
 
diff --git a/tools/github_actions_helpers.sh b/tools/github_actions_helpers.sh
deleted file mode 100644
index 368d155665b..00000000000
--- a/tools/github_actions_helpers.sh
+++ /dev/null
@@ -1,18 +0,0 @@
-#!/bin/bash
-
-# For non-pixi 'kinds', we assume a pre-activated environment
-run_python() {
-  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
-    pixi run python "$@"
-  else
-    python "$@"
-  fi
-}
-
-run_pytest() {
-  if [[ "${MNE_CI_KIND}" == "pixi" ]]; then
-    pixi run pytest "$@"
-  else
-    pytest "$@"
-  fi
-}
\ No newline at end of file
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index 77055ebf963..14e12f9213d 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -1,10 +1,5 @@
 #!/bin/bash -ef
 
-set -eo pipefail
-
-SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
-source "$SCRIPT_DIR/github_actions_helpers.sh"
-
 which mne
 mne sys_info -pd
-run_python -c "import numpy; numpy.show_config()"
+${PREFIX} python -c "import numpy; numpy.show_config()"
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 85d1752c3af..29b1e5a2d8e 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -2,8 +2,6 @@
 
 set -eo pipefail
 
-SCRIPT_DIR=$( cd -- "$( dirname -- "${BASH_SOURCE[0]}" )" &> /dev/null && pwd )
-source "$SCRIPT_DIR/github_actions_helpers.sh"
 
 if [[ "${CI_OS_NAME}" == "ubuntu"* ]]; then
   CONDITION="not (ultraslowtest or pgtest)"
@@ -38,5 +36,5 @@ if [[ ! -z "$CONDA_ENV" ]] && [[ "${RUNNER_OS}" != "Windows" ]] && [[ "${MNE_CI_
 fi
 
 set -x
-run_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 $?"

From 0cd364a0ad2e02df412da066ce674dc0a98a15f1 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 15 Apr 2026 10:11:50 -0700
Subject: [PATCH 058/117] FIX: syntax

---
 tools/github_actions_dependencies.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/github_actions_dependencies.sh b/tools/github_actions_dependencies.sh
index 5c21282a791..f35fb967a96 100755
--- a/tools/github_actions_dependencies.sh
+++ b/tools/github_actions_dependencies.sh
@@ -66,6 +66,6 @@ else
 	echo "::group::Installing MNE in development mode using pip"
 fi
 set -x
-$"{PREFIX}" 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::"

From 69d264c1b4daf4dba39c09b456f1c9159afca21e Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 15 Apr 2026 10:29:40 -0700
Subject: [PATCH 059/117] try storing value without quotes

---
 tools/github_actions_env_vars.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/github_actions_env_vars.sh b/tools/github_actions_env_vars.sh
index 14df21ef3ad..bc9b428e7bd 100755
--- a/tools/github_actions_env_vars.sh
+++ b/tools/github_actions_env_vars.sh
@@ -24,7 +24,7 @@ else  # conda-like or pixi
         echo "MNE_QT_BACKEND=PySide6" | 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;
+            echo "PREFIX=pixi run" | tee -a $GITHUB_ENV;
         else
             echo "CONDA_ENV=environment.yml" | tee -a $GITHUB_ENV
         fi

From b02265cd4f617120b52575ce2839b0dfa01896ac Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 15 Apr 2026 11:55:42 -0700
Subject: [PATCH 060/117] activate environment false

---
 .github/workflows/tests.yml | 19 +------------------
 1 file changed, 1 insertion(+), 18 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index b560140064b..2b891bdb6d3 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -123,29 +123,12 @@ jobs:
         with:
           python-version: ${{ matrix.python }}
         if: startswith(matrix.kind, 'pip')
-      - name: temporary debugging check 1
-        run: echo "$PATH"
       - 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'
-
-      - run: |
-          eval "$(pixi shell-hook)" >> $GITHUB_ENV
+          activate-environment: false
         if: matrix.kind == 'pixi'
-      - name: temporary debugging check 2
-        run: |
-          echo "$PATH"
-          which python
-          which pixi
-        if: matrix.kind == 'pixi'
-      - run: |
-          pixi run which python
-          pixi run echo "$PATH"
-        if: matrix.kind == 'pixi'
-
       # Python (if conda)
       - name: Fixes for conda
         run: |

From 019ddf4aad09b361f6a637c2612ad618d65339c9 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 15 Apr 2026 12:00:12 -0700
Subject: [PATCH 061/117] FIX: syntax

---
 tools/github_actions_download.sh | 1 +
 1 file changed, 1 insertion(+)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index f28ecf03a53..057778e26a3 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -4,3 +4,4 @@
 if [ "${MNE_CI_KIND}" != "minimal" ]; then
 	${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
\ No newline at end of file

From f4eab60c21c3231ff3b1e14864be0a1717b01b48 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 15 Apr 2026 12:09:00 -0700
Subject: [PATCH 062/117] activate environment

---
 .github/workflows/tests.yml      | 2 +-
 tools/github_actions_download.sh | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 2b891bdb6d3..f7aa605c6fd 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -127,7 +127,7 @@ jobs:
         with:
           manifest-path: tools/pixi.toml
           # https://github.com/prefix-dev/setup-pixi/issues/139
-          activate-environment: false
+          activate-environment: true
         if: matrix.kind == 'pixi'
       # Python (if conda)
       - name: Fixes for conda
diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 057778e26a3..96e577aedb6 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -4,4 +4,4 @@
 if [ "${MNE_CI_KIND}" != "minimal" ]; then
 	${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
\ No newline at end of file
+fi

From c856ffad054245f3aa76c08ec721dc4948d36be8 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 20 Apr 2026 14:18:58 -0700
Subject: [PATCH 063/117] Fixes for Pixi

Co-authored-by: Daniel McCloy <dan@mccloy.info>
---
 tools/pixi-macos-intel.lock | 3354 +++++++++++++++++------------------
 tools/pixi.toml             |    4 +-
 2 files changed, 1599 insertions(+), 1759 deletions(-)

diff --git a/tools/pixi-macos-intel.lock b/tools/pixi-macos-intel.lock
index ac54b3f921a..c155e69cdb8 100644
--- a/tools/pixi-macos-intel.lock
+++ b/tools/pixi-macos-intel.lock
@@ -10,7 +10,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.1-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.13.5-py313h6f5309d_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohttp-3.13.5-pyhf64b827_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.6.1-py311hc9d285c_2.conda
@@ -18,80 +18,78 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.9.1-hf036a51_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/appnope-0.1.4-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py314h6482030_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-3.0.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/async-lru-2.3.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/async-timeout-5.0.1-pyhcf101f3_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-26.1.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-auth-0.10.1-hfd47d4b_2.conda
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-  - libglib >=2.86.3,<3.0a0
-  - libpng >=1.6.53,<1.7.0a0
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-  - python_abi 3.13.* *_cp313
+  - python >=3.14,<3.15.0a0
+  - python_abi 3.14.* *_cp314
   license: MIT
   license_family: MIT
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-  timestamp: 1764518652276
+  - pkg:pypi/click?source=compressed-mapping
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/contourpy-1.3.3-py313h98b818e_4.conda
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-  md5: 24c06ae9a202f16555c5a1f8006a0bd7
+- conda: https://conda.anaconda.org/conda-forge/osx-64/contourpy-1.3.3-py314h22a2ed9_4.conda
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+  - python_abi 3.14.* *_cp314
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   license_family: BSD
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-- conda: https://conda.anaconda.org/conda-forge/noarch/cpython-3.13.12-py313hd8ed1ab_100.conda
+- conda: https://conda.anaconda.org/conda-forge/noarch/cpython-3.14.4-py314hd8ed1ab_100.conda
   noarch: generic
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-  - python_abi * *_cp313
+  - python >=3.14,<3.15.0a0
+  - python_abi * *_cp314
   license: Python-2.0
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-- conda: https://conda.anaconda.org/conda-forge/noarch/cyclopts-4.10.1-pyhcf101f3_0.conda
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+  - libcxx >=18
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-  - openssl >=3.5.5,<4.0a0
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+  - __osx >=10.13
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   license: MIT
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/dipy-1.12.0-np2py313h2589dda_0.conda
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-  md5: 1a7f903fed6ff18cd365df082920a91b
+- conda: https://conda.anaconda.org/conda-forge/osx-64/dipy-1.12.0-np2py314h72ea864_1.conda
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@@ -1393,16 +1372,16 @@ packages:
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   - packaging >=21
-  - libcxx >=19
   - __osx >=11.0
-  - python_abi 3.13.* *_cp313
+  - libcxx >=19
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+  - python_abi 3.14.* *_cp314
   license: BSD-3-Clause
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+  - pkg:pypi/dipy?source=compressed-mapping
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 - conda: https://conda.anaconda.org/conda-forge/noarch/docstring_parser-0.17.0-pyhd8ed1ab_0.conda
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/eigen-abi-5.0.1.80-h969a130_0.conda
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/ffmpeg-8.0.0-gpl_hf226373_105.conda
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-  - harfbuzz >=12.3.2
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-  - libexpat >=2.7.4,<3.0a0
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-  python_site_packages_path: lib/python3.13/site-packages
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+  python_site_packages_path: lib/python3.14/site-packages
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+  - cpython 3.14.4.*
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-- conda: https://conda.anaconda.org/conda-forge/noarch/python_abi-3.13-8_cp313.conda
+- conda: https://conda.anaconda.org/conda-forge/noarch/python_abi-3.14-8_cp314.conda
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+  - python >=3.14,<3.15.0a0
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-  - libfreetype >=2.14.3
-  - libfreetype6 >=2.14.3
-  - jsoncpp >=1.9.6,<1.9.7.0a0
-  - libpng >=1.6.56,<1.7.0a0
-  - libjpeg-turbo >=3.1.2,<4.0a0
-  - libxml2
-  - libxml2-16 >=2.14.6
+  - matplotlib-base >=2.0.0
+  - nlohmann_json
+  - numpy
+  - proj >=9.6.2,<9.7.0a0
   - pugixml >=1.15,<1.16.0a0
-  - fmt >=12.1.0,<12.2.0a0
-  - libexpat >=2.7.5,<3.0a0
-  - python_abi 3.13.* *_cp313
+  - python >=3.14.0rc2,<3.15.0a0
+  - python_abi 3.14.* *_cp314
+  - qt6-main >=6.9.2,<6.10.0a0
+  - tbb >=2021.13.0
+  - utfcpp
+  - wslink
   constrains:
   - libboost-headers >=1.88.0,<1.89.0a0
+  - paraview ==9999999999
   license: BSD-3-Clause
   license_family: BSD
   purls:
   - pkg:pypi/vtk?source=hash-mapping
-  size: 66080470
-  timestamp: 1775133395925
-- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.6.1-py313h36942df_0.conda
-  sha256: bd8e7de8263b69337aaa30fe0439661ab5087bebdfa53717e02b2b7f2ca34634
-  md5: 47965f989da5dd53bcf9b5e33f3c2382
-  depends:
-  - vtk-base ==9.6.1 py313hb8da4e8_0
-  - ffmpeg
-  - python_abi 3.13.* *_cp313
-  - ffmpeg >=8.0.1,<9.0a0
+  size: 47291142
+  timestamp: 1757761299674
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.5.1-h031cfde_2.conda
+  sha256: aa08b49731f78286c3c877cee105359a6438d23a0191be7ae6fe1705dc62ffc2
+  md5: 9910b4cd03a82fc9356689faa61cd669
+  depends:
+  - ffmpeg >=8.0.0,<9.0a0
+  - python_abi 3.14.* *_cp314
+  - vtk-base 9.5.1 py314ha1c4576_2
   license: BSD-3-Clause
   license_family: BSD
   purls: []
-  size: 96481
-  timestamp: 1775133395925
+  size: 78734
+  timestamp: 1757761499498
 - conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.6.0-pyhd8ed1ab_0.conda
   sha256: e298b508b2473c4227206800dfb14c39e4b14fd79d4636132e9e1e4244cdf4aa
   md5: c3197f8c0d5b955c904616b716aca093
@@ -6310,19 +6146,19 @@ packages:
   - pkg:pypi/widgetsnbextension?source=hash-mapping
   size: 889195
   timestamp: 1762040404362
-- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.1.2-py313hf59fe81_0.conda
-  sha256: a57f98b175c17cd5e1795129a7358bd688c2762b5d4a6c5809145bcd29d48435
-  md5: 7f40a21e6319c0b68e6bada3864caea6
+- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.1.2-py314h217eccc_0.conda
+  sha256: a25c0f6a486667e3763363e2f95cb25cab3c12b9c4004c781c3f473b637b4f81
+  md5: 9b1b8f36ea2b86b37c56cd78606aeff2
   depends:
   - __osx >=11.0
-  - python >=3.13,<3.14.0a0
-  - python_abi 3.13.* *_cp313
+  - python >=3.14,<3.15.0a0
+  - python_abi 3.14.* *_cp314
   license: BSD-2-Clause
   license_family: BSD
   purls:
   - pkg:pypi/wrapt?source=hash-mapping
-  size: 84573
-  timestamp: 1772794979701
+  size: 85336
+  timestamp: 1772795064007
 - conda: https://conda.anaconda.org/conda-forge/noarch/wslink-2.5.6-pyhd8ed1ab_0.conda
   sha256: 0754558be231485ee835b0db11bace246ecd5465143a355029b039803ea716b0
   md5: d34454e27bb9ec7025cefccfa92908ad
@@ -6418,59 +6254,47 @@ packages:
   purls: []
   size: 145204
   timestamp: 1745308032698
-- conda: https://conda.anaconda.org/conda-forge/osx-64/yarl-1.23.0-py313h035b7d0_0.conda
-  sha256: 5aab7ac9f93b8b5ca87fc4bbd00e3596ded9f87991ae0ddf205ca9753008754e
-  md5: 89e89e8253cb448d833a766ab5a05099
+- conda: https://conda.anaconda.org/conda-forge/noarch/yarl-1.23.0-pyh7db6752_0.conda
+  sha256: efab7a6002d12c8b009ca91271020f704ebe2d148bcc31494298dd19607ea708
+  md5: 9db770f25f3abcb0f97fca493fe46646
   depends:
-  - __osx >=11.0
   - idna >=2.0
   - multidict >=4.0
   - propcache >=0.2.1
-  - python >=3.13,<3.14.0a0
-  - python_abi 3.13.* *_cp313
+  - python >=3.10
+  track_features:
+  - yarl_no_compile
   license: Apache-2.0
   license_family: Apache
   purls:
   - pkg:pypi/yarl?source=hash-mapping
-  size: 141492
-  timestamp: 1772409672019
-- conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h27d9b8f_10.conda
-  sha256: c7265cc5184897358af8b87c614288bc79645ef4340e01c2cd8469078dc56007
-  md5: 1a774dcaff94c2dd98451a26a46714b8
+  size: 74947
+  timestamp: 1772409403116
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h6c33b1e_9.conda
+  sha256: 30aa5a2e9c7b8dbf6659a2ccd8b74a9994cdf6f87591fcc592970daa6e7d3f3c
+  md5: d940d809c42fbf85b05814c3290660f5
   depends:
+  - __osx >=10.13
   - libcxx >=19
-  - __osx >=11.0
-  - libsodium >=1.0.21,<1.0.22.0a0
-  - krb5 >=1.22.2,<1.23.0a0
+  - libsodium >=1.0.20,<1.0.21.0a0
+  - krb5 >=1.21.3,<1.22.0a0
   license: MPL-2.0
   license_family: MOZILLA
   purls: []
-  size: 260841
-  timestamp: 1772476936933
-- conda: https://conda.anaconda.org/conda-forge/osx-64/zfp-1.0.1-h1b13a81_4.conda
-  sha256: fa9f5df5c864abe1360633029789c9d54881d75752e064d0b76ea0ba578cbff6
-  md5: ab3f885d2b4f24cdcbc91926f3ad9301
-  depends:
-  - __osx >=10.13
-  - libcxx >=19
-  - llvm-openmp >=19.1.7
-  license: BSD-3-Clause
-  license_family: BSD
-  purls: []
-  size: 211942
-  timestamp: 1766458562226
-- conda: https://conda.anaconda.org/conda-forge/noarch/zipp-3.23.0-pyhcf101f3_1.conda
-  sha256: b4533f7d9efc976511a73ef7d4a2473406d7f4c750884be8e8620b0ce70f4dae
-  md5: 30cd29cb87d819caead4d55184c1d115
+  size: 259628
+  timestamp: 1757371000392
+- conda: https://conda.anaconda.org/conda-forge/noarch/zipp-3.23.1-pyhcf101f3_0.conda
+  sha256: 523616c0530d305d2216c2b4a8dfd3872628b60083255b89c5e0d8c42e738cca
+  md5: e1c36c6121a7c9c76f2f148f1e83b983
   depends:
   - python >=3.10
   - python
   license: MIT
   license_family: MIT
   purls:
-  - pkg:pypi/zipp?source=hash-mapping
-  size: 24194
-  timestamp: 1764460141901
+  - pkg:pypi/zipp?source=compressed-mapping
+  size: 24461
+  timestamp: 1776131454755
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zlib-1.3.2-hbb4bfdb_2.conda
   sha256: 5dd728cebca2e96fa48d41661f1a35ed0ee3cb722669eee4e2d854c6745655eb
   md5: 6276aa61ffc361cbf130d78cfb88a237
@@ -6493,6 +6317,22 @@ packages:
   purls: []
   size: 120464
   timestamp: 1770168263684
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zstandard-0.25.0-py314hd1e8ddb_1.conda
+  sha256: cf12b4c138eef5160b12990278ac77dec5ca91de60638dd6cf1e60e4331d8087
+  md5: b94712955dc017da312e6f6b4c6d4866
+  depends:
+  - python
+  - cffi >=1.11
+  - zstd >=1.5.7,<1.5.8.0a0
+  - __osx >=10.13
+  - python_abi 3.14.* *_cp314
+  - zstd >=1.5.7,<1.6.0a0
+  license: BSD-3-Clause
+  license_family: BSD
+  purls:
+  - pkg:pypi/zstandard?source=hash-mapping
+  size: 470136
+  timestamp: 1762512696464
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zstd-1.5.7-h3eecb57_6.conda
   sha256: 47101a4055a70a4876ffc87b750ab2287b67eca793f21c8224be5e1ee6394d3f
   md5: 727109b184d680772e3122f40136d5ca
diff --git a/tools/pixi.toml b/tools/pixi.toml
index f08b039df43..58299b83124 100644
--- a/tools/pixi.toml
+++ b/tools/pixi.toml
@@ -48,7 +48,7 @@ pooch = ">=1.5"
 pyarrow = "*"
 pybv = "*"
 pymatreader = "*"
-pyside6 = "!=6.9.1"
+pyside6 = "==6.9.2"
 python-neo = "*"
 python-picard = "*"
 pyvista = ">=0.43"
@@ -66,7 +66,7 @@ traitlets = "*"
 trame = "*"
 trame-vtk = "*"
 trame-vuetify = "*"
-vtk = ">=9.2"
+vtk = "==9.5.1"
 xlrd = "*"
 
 [pypi-dependencies]

From 4fc7fb6393b54bafbbdb0d39c1c948fb347bae7d Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 22 Apr 2026 09:00:04 -0700
Subject: [PATCH 064/117] WIP: Try solving gen lock file from Pyprojec.toml

---
 tools/pixi-macos-intel.lock | 6343 +----------------------------------
 tools/pixi.toml             |   69 +-
 2 files changed, 4 insertions(+), 6408 deletions(-)

diff --git a/tools/pixi-macos-intel.lock b/tools/pixi-macos-intel.lock
index c155e69cdb8..0bf99606469 100644
--- a/tools/pixi-macos-intel.lock
+++ b/tools/pixi-macos-intel.lock
@@ -3,6344 +3,5 @@ environments:
   default:
     channels:
     - url: https://conda.anaconda.org/conda-forge/
-    indexes:
-    - https://pypi.org/simple
-    packages:
-      osx-64:
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-      - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.1-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohttp-3.13.5-pyhf64b827_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.6.1-py311hc9d285c_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.13.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.9.1-hf036a51_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/appnope-0.1.4-pyhd8ed1ab_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py314h6482030_2.conda
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-- conda: https://conda.anaconda.org/conda-forge/noarch/yarl-1.23.0-pyh7db6752_0.conda
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+packages: []
diff --git a/tools/pixi.toml b/tools/pixi.toml
index 58299b83124..18189b391f5 100644
--- a/tools/pixi.toml
+++ b/tools/pixi.toml
@@ -1,75 +1,10 @@
 [workspace]
-authors = ["Scott Huberty <seh33@uw.edu>"] # TODO: fix this
+authors = ["Scott Huberty <seh33@uw.edu>"]
 channels = ["conda-forge"]
-name = "mne"
+name = "mne-python"
 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 = "==6.9.2"
-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 = "==9.5.1"
-xlrd = "*"
-
-[pypi-dependencies]
-nest-asyncio2 = "*"
-pymef = "*"
-pyobjc-framework-cocoa = ">=5.2.0"

From 4a03f4708bdab31804b697e3dd46fbce422c8166 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 22 Apr 2026 09:15:41 -0700
Subject: [PATCH 065/117] Revert "WIP: Try solving gen lock file from
 Pyprojec.toml"

This reverts commit 4fc7fb6393b54bafbbdb0d39c1c948fb347bae7d.
---
 tools/pixi-macos-intel.lock | 6343 ++++++++++++++++++++++++++++++++++-
 tools/pixi.toml             |   69 +-
 2 files changed, 6408 insertions(+), 4 deletions(-)

diff --git a/tools/pixi-macos-intel.lock b/tools/pixi-macos-intel.lock
index 0bf99606469..c155e69cdb8 100644
--- a/tools/pixi-macos-intel.lock
+++ b/tools/pixi-macos-intel.lock
@@ -3,5 +3,6344 @@ environments:
   default:
     channels:
     - url: https://conda.anaconda.org/conda-forge/
-    packages: {}
-packages: []
+    indexes:
+    - https://pypi.org/simple
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+  license: MPL-2.0
+  license_family: MOZILLA
+  purls: []
+  size: 259628
+  timestamp: 1757371000392
+- conda: https://conda.anaconda.org/conda-forge/noarch/zipp-3.23.1-pyhcf101f3_0.conda
+  sha256: 523616c0530d305d2216c2b4a8dfd3872628b60083255b89c5e0d8c42e738cca
+  md5: e1c36c6121a7c9c76f2f148f1e83b983
+  depends:
+  - python >=3.10
+  - python
+  license: MIT
+  license_family: MIT
+  purls:
+  - pkg:pypi/zipp?source=compressed-mapping
+  size: 24461
+  timestamp: 1776131454755
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zlib-1.3.2-hbb4bfdb_2.conda
+  sha256: 5dd728cebca2e96fa48d41661f1a35ed0ee3cb722669eee4e2d854c6745655eb
+  md5: 6276aa61ffc361cbf130d78cfb88a237
+  depends:
+  - __osx >=11.0
+  - libzlib 1.3.2 hbb4bfdb_2
+  license: Zlib
+  license_family: Other
+  purls: []
+  size: 92411
+  timestamp: 1774073075482
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zlib-ng-2.3.3-h8bce59a_1.conda
+  sha256: 4a1beb656761c7d8c9a53474bfd3932c30d82af5d93a32b8ef626c01c059d981
+  md5: b3ecb6480fd46194e3f7dd0ff4445dff
+  depends:
+  - __osx >=10.13
+  - libcxx >=19
+  license: Zlib
+  license_family: Other
+  purls: []
+  size: 120464
+  timestamp: 1770168263684
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zstandard-0.25.0-py314hd1e8ddb_1.conda
+  sha256: cf12b4c138eef5160b12990278ac77dec5ca91de60638dd6cf1e60e4331d8087
+  md5: b94712955dc017da312e6f6b4c6d4866
+  depends:
+  - python
+  - cffi >=1.11
+  - zstd >=1.5.7,<1.5.8.0a0
+  - __osx >=10.13
+  - python_abi 3.14.* *_cp314
+  - zstd >=1.5.7,<1.6.0a0
+  license: BSD-3-Clause
+  license_family: BSD
+  purls:
+  - pkg:pypi/zstandard?source=hash-mapping
+  size: 470136
+  timestamp: 1762512696464
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zstd-1.5.7-h3eecb57_6.conda
+  sha256: 47101a4055a70a4876ffc87b750ab2287b67eca793f21c8224be5e1ee6394d3f
+  md5: 727109b184d680772e3122f40136d5ca
+  depends:
+  - __osx >=10.13
+  - libzlib >=1.3.1,<2.0a0
+  license: BSD-3-Clause
+  license_family: BSD
+  purls: []
+  size: 528148
+  timestamp: 1764777156963
diff --git a/tools/pixi.toml b/tools/pixi.toml
index 18189b391f5..58299b83124 100644
--- a/tools/pixi.toml
+++ b/tools/pixi.toml
@@ -1,10 +1,75 @@
 [workspace]
-authors = ["Scott Huberty <seh33@uw.edu>"]
+authors = ["Scott Huberty <seh33@uw.edu>"] # TODO: fix this
 channels = ["conda-forge"]
-name = "mne-python"
+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 = "==6.9.2"
+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 = "==9.5.1"
+xlrd = "*"
+
+[pypi-dependencies]
+nest-asyncio2 = "*"
+pymef = "*"
+pyobjc-framework-cocoa = ">=5.2.0"

From ea8861d68ee71eeb98823f4ad73a90a8b2f14c33 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 22 Apr 2026 12:08:49 -0500
Subject: [PATCH 066/117] WIP pixi from pyproj [ci skip]

---
 tools/write-pixi-toml.py | 32 ++++++++++++++++++++++++++++++++
 1 file changed, 32 insertions(+)
 create mode 100644 tools/write-pixi-toml.py

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
new file mode 100644
index 00000000000..8cc8b43020b
--- /dev/null
+++ b/tools/write-pixi-toml.py
@@ -0,0 +1,32 @@
+import tomlkit
+import tomllib
+
+with open("../pyproject.toml", "rb") as fid:
+    foo = tomllib.load(fid)
+
+# in keys: build-system, dependency-groups, project, tool
+
+# out keys: workspace, dependencies, pypi-dependencies (may need tasks)
+out = dict()
+workspace = dict(
+    authors=["MNE-Python contributors"],
+    channels=["conda-forge"],
+    name=foo["project"]["name"],
+    platforms=["osx-64"],
+    version="0.1.0",
+)
+dependencies = foo["project"]["dependencies"]
+dependencies.extend(foo["dependency-groups"]["test"])
+dependencies.extend(foo["dependency-groups"]["test_extra"])
+dependencies.extend(foo["project"]["optional-dependencies"]["hdf5"])
+dependencies.extend(foo["project"]["optional-dependencies"]["full-no-qt"])
+dependencies.extend(foo["project"]["optional-dependencies"]["full-pyside6"])
+dependencies = list(
+    filter(lambda x: isinstance(x, str) and "mne[" not in x, dependencies)
+)
+dependencies = sorted(set(dependencies))
+
+out = {"workspace": workspace, "dependencies": dependencies, "pypi-dependencies": []}
+
+with open("pixi-new.toml", "w") as fid:
+    tomlkit.dump(out, fid, sort_keys=True)

From 4025a14e9b2dc1f35e4091575503285250525447 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Apr 2026 09:29:47 -0700
Subject: [PATCH 067/117] Remove PREFIX strategy

---
 tools/github_actions_dependencies.sh | 2 +-
 tools/github_actions_download.sh     | 4 ++--
 tools/github_actions_env_vars.sh     | 4 +---
 tools/github_actions_infos.sh        | 2 +-
 tools/github_actions_test.sh         | 2 +-
 5 files changed, 6 insertions(+), 8 deletions(-)

diff --git a/tools/github_actions_dependencies.sh b/tools/github_actions_dependencies.sh
index f35fb967a96..66486d5aeb6 100755
--- a/tools/github_actions_dependencies.sh
+++ b/tools/github_actions_dependencies.sh
@@ -66,6 +66,6 @@ else
 	echo "::group::Installing MNE in development mode using pip"
 fi
 set -x
-${PREFIX} python -m pip install $STD_ARGS $INSTALL_ARGS .$EXTRAS $GROUP_ARG
+python -m pip install $STD_ARGS $INSTALL_ARGS .$EXTRAS $GROUP_ARG
 set +x
 echo "::endgroup::"
diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 96e577aedb6..3627e8d4446 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -2,6 +2,6 @@
 
 # TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${MNE_CI_KIND}" != "minimal" ]; then
-	${PREFIX} python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
-	${PREFIX} python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
+	python -c 'import mne; mne.datasets.testing.data_path(verbose=True)';
+	python -c "import mne; mne.datasets.misc.data_path(verbose=True)";
 fi
diff --git a/tools/github_actions_env_vars.sh b/tools/github_actions_env_vars.sh
index bc9b428e7bd..6f6815fb10e 100755
--- a/tools/github_actions_env_vars.sh
+++ b/tools/github_actions_env_vars.sh
@@ -23,9 +23,7 @@ else  # conda-like or pixi
         echo "CONDA_ENV=tools/environment_minimal.yml" | tee -a $GITHUB_ENV
         echo "MNE_QT_BACKEND=PySide6" | 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 $GITHUB_ENV;
-        else
+        if [[ "$MNE_CI_KIND" != "pixi" ]]; then
             echo "CONDA_ENV=environment.yml" | tee -a $GITHUB_ENV
         fi
 
diff --git a/tools/github_actions_infos.sh b/tools/github_actions_infos.sh
index 14e12f9213d..95d18cdd2ba 100755
--- a/tools/github_actions_infos.sh
+++ b/tools/github_actions_infos.sh
@@ -2,4 +2,4 @@
 
 which mne
 mne sys_info -pd
-${PREFIX} python -c "import numpy; numpy.show_config()"
+python -c "import numpy; numpy.show_config()"
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 29b1e5a2d8e..e5936c6e008 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -36,5 +36,5 @@ if [[ ! -z "$CONDA_ENV" ]] && [[ "${RUNNER_OS}" != "Windows" ]] && [[ "${MNE_CI_
 fi
 
 set -x
-${PREFIX} pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
+pytest -m "${CONDITION}" --cov=mne --cov-report xml --color=yes --continue-on-collection-errors --junit-xml=$JUNIT_PATH -vv ${USE_DIRS}
 echo "Exited with code $?"

From 4446fcae8dbbdff1f4762e9817d3708e6380ff1a Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Apr 2026 09:40:33 -0700
Subject: [PATCH 068/117] work around for macOS login shells

---
 .github/workflows/tests.yml | 8 ++++++--
 1 file changed, 6 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index f7aa605c6fd..f9b9a5a7e07 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -4,9 +4,9 @@ concurrency:
   cancel-in-progress: true
 on:  # yamllint disable-line rule:truthy
   push:
-    branches: ["main", "maint/*", "pixi2"]
+    branches: ["main", "maint/*"]
   pull_request:
-    branches: ["main", "maint/*", "pixi2"]
+    branches: ["main", "maint/*"]
   # adapted from spyder-ide/spyder
   workflow_dispatch:
     inputs:
@@ -111,6 +111,10 @@ jobs:
         timeout-minutes: 80
         with:
           detached: true
+      # Bash login shell on MacOS prepend /usr/bin to PATH, which masks all other installations of Python
+      - name: Workaround for macOS behavior on login shells
+        run: echo "export PATH=\"${{ github.workspace }}/.pixi/envs/default/bin:$PATH\"" | tee -a ~/.bash_profile
+        if: startsWith(matrix.os, 'macos')
       - run: ./tools/github_actions_env_vars.sh
       # Xvfb/OpenGL
       - uses: pyvista/setup-headless-display-action@v4

From d28bda67bcc07e48a2dcf590cc75c2e84fbe3e94 Mon Sep 17 00:00:00 2001
From: "autofix-ci[bot]" <114827586+autofix-ci[bot]@users.noreply.github.com>
Date: Wed, 29 Apr 2026 16:41:45 +0000
Subject: [PATCH 069/117] [autofix.ci] apply automated fixes

---
 tools/write-pixi-toml.py | 4 ++++
 1 file changed, 4 insertions(+)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 8cc8b43020b..75bddbf932b 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -1,3 +1,7 @@
+# Authors: The MNE-Python contributors.
+# License: BSD-3-Clause
+# Copyright the MNE-Python contributors.
+
 import tomlkit
 import tomllib
 

From a441306f58b0bb92e370cba01aa6ba75fa76c87a Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Apr 2026 10:07:43 -0700
Subject: [PATCH 070/117] FIX: do prepend path hack AFTER pixi setup

---
 .github/workflows/tests.yml | 17 +++++++++++++----
 1 file changed, 13 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index f9b9a5a7e07..8f379c29d76 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -111,10 +111,6 @@ jobs:
         timeout-minutes: 80
         with:
           detached: true
-      # Bash login shell on MacOS prepend /usr/bin to PATH, which masks all other installations of Python
-      - name: Workaround for macOS behavior on login shells
-        run: echo "export PATH=\"${{ github.workspace }}/.pixi/envs/default/bin:$PATH\"" | tee -a ~/.bash_profile
-        if: startsWith(matrix.os, 'macos')
       - run: ./tools/github_actions_env_vars.sh
       # Xvfb/OpenGL
       - uses: pyvista/setup-headless-display-action@v4
@@ -127,12 +123,25 @@ jobs:
         with:
           python-version: ${{ matrix.python }}
         if: startswith(matrix.kind, 'pip')
+      # Python (if pixi)
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
           manifest-path: tools/pixi.toml
           # https://github.com/prefix-dev/setup-pixi/issues/139
           activate-environment: true
+          frozen: true
         if: matrix.kind == 'pixi'
+      # Bash login shell on MacOS prepend /usr/bin to PATH, which masks all other installations of Python
+      - name: Workaround for macOS behavior on login shells
+        run: echo "export PATH=\"${{ github.workspace }}/.pixi/envs/default/bin:$PATH\"" | tee -a ~/.bash_profile
+        if: startsWith(matrix.os, 'macos')
+      - name: Verify that the pixi env is on PATH
+        if: matrix.kind == 'pixi'
+        run: |
+          if [[ "$(which python)" != *'/.pixi/'* ]]; then
+            echo "Python is NOT running from a virtual environment"
+            exit 1
+          fi
       # Python (if conda)
       - name: Fixes for conda
         run: |

From 803e324fdb59bf2b03435d0ade09d6862f4089e9 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 29 Apr 2026 12:26:28 -0500
Subject: [PATCH 071/117] move/rename manifest and lockfile

---
 .github/workflows/tests.yml                               | 2 +-
 tools/{pixi-macos-intel.lock => ci/macos-intel/pixi.lock} | 0
 tools/{ => ci/macos-intel}/pixi.toml                      | 0
 3 files changed, 1 insertion(+), 1 deletion(-)
 rename tools/{pixi-macos-intel.lock => ci/macos-intel/pixi.lock} (100%)
 rename tools/{ => ci/macos-intel}/pixi.toml (100%)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 8f379c29d76..13e2ea4fc40 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -126,7 +126,7 @@ jobs:
       # Python (if pixi)
       - uses: prefix-dev/setup-pixi@v0.9.4
         with:
-          manifest-path: tools/pixi.toml
+          manifest-path: tools/ci/macos-intel/pixi.toml
           # https://github.com/prefix-dev/setup-pixi/issues/139
           activate-environment: true
           frozen: true
diff --git a/tools/pixi-macos-intel.lock b/tools/ci/macos-intel/pixi.lock
similarity index 100%
rename from tools/pixi-macos-intel.lock
rename to tools/ci/macos-intel/pixi.lock
diff --git a/tools/pixi.toml b/tools/ci/macos-intel/pixi.toml
similarity index 100%
rename from tools/pixi.toml
rename to tools/ci/macos-intel/pixi.toml

From 7d2081432a79fbf7b8e4a9d1a112a0340b1b7d53 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Apr 2026 11:36:14 -0700
Subject: [PATCH 072/117] visibility [skip circle] [skip azp]

---
 .github/workflows/tests.yml | 7 +++++--
 1 file changed, 5 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 8f379c29d76..0f4859a4980 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -138,8 +138,11 @@ jobs:
       - name: Verify that the pixi env is on PATH
         if: matrix.kind == 'pixi'
         run: |
-          if [[ "$(which python)" != *'/.pixi/'* ]]; then
-            echo "Python is NOT running from a virtual environment"
+          want="/.pixi/"
+          got="$(which python)"
+          if [[ "$got" != *"$want"* ]]; then
+            echo "Python is NOT running from a virtual environment."
+            echo "Got : $got"
             exit 1
           fi
       # Python (if conda)

From 8996abd4175842da155034f946886e69ad011997 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Apr 2026 11:53:58 -0700
Subject: [PATCH 073/117] FIX: path

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 4eb29a4bcf5..c2ba6c367f6 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -133,7 +133,7 @@ jobs:
         if: matrix.kind == 'pixi'
       # Bash login shell on MacOS prepend /usr/bin to PATH, which masks all other installations of Python
       - name: Workaround for macOS behavior on login shells
-        run: echo "export PATH=\"${{ github.workspace }}/.pixi/envs/default/bin:$PATH\"" | tee -a ~/.bash_profile
+        run: echo 'export PATH="${{ github.workspace }}/tools/ci/macos-intel/.pixi/envs/default/bin:$PATH"' | tee -a ~/.bash_profile
         if: startsWith(matrix.os, 'macos')
       - name: Verify that the pixi env is on PATH
         if: matrix.kind == 'pixi'

From 95a52662c42f81c8b13fa4b01873309d97e228df Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Apr 2026 12:13:52 -0700
Subject: [PATCH 074/117] FIX: guard [skip circle] [skip azp]

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index c2ba6c367f6..8f48dda3c23 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -134,7 +134,7 @@ jobs:
       # Bash login shell on MacOS prepend /usr/bin to PATH, which masks all other installations of Python
       - name: Workaround for macOS behavior on login shells
         run: echo 'export PATH="${{ github.workspace }}/tools/ci/macos-intel/.pixi/envs/default/bin:$PATH"' | tee -a ~/.bash_profile
-        if: startsWith(matrix.os, 'macos')
+        if: startsWith(matrix.os, 'macos') && matrix.kind == 'pixi'
       - name: Verify that the pixi env is on PATH
         if: matrix.kind == 'pixi'
         run: |

From 1b0b26f475d2bda9e8374c66360c2adcdd76bb38 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 10:17:06 -0700
Subject: [PATCH 075/117] restore pixi [skip circle] [skip azp]

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index f9f59815c56..b77fa3998c0 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -81,7 +81,7 @@ jobs:
             kind: pip
           - os: macos-15-intel  # Intel
             python: '3.13'
-            kind: pip
+            kind: pixi
           - os: ubuntu-latest
             python: '3.12'
             kind: minimal

From 3a031baa891f39e8e306bf43a8d1101632e0a9ee Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 10:45:40 -0700
Subject: [PATCH 076/117] add pixi to verify python [skip circle] [skip azp]

---
 tools/github_actions_verify_python.sh | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/tools/github_actions_verify_python.sh b/tools/github_actions_verify_python.sh
index c33a5cdec93..64d533ea39a 100755
--- a/tools/github_actions_verify_python.sh
+++ b/tools/github_actions_verify_python.sh
@@ -21,6 +21,8 @@ elif [[ "${MNE_CI_KIND}" == "old" ]]; then
 	WANT="mne-python/mne-python/.venv/bin"
 elif [[ "${MNE_CI_KIND}" == "pip" ]] || [[ "${MNE_CI_KIND}" == "pip-pre" ]] || [[ "${MNE_CI_KIND}" == "minimal" ]]; then
 	WANT="/hostedtoolcache/"
+elif [[ "${MNE_CI_KIND}" == "pixi" ]]; then
+	WANT="mne-python/mne-python/tools/ci/macos-intel/.pixi/"
 else
 	echo "✕ ERROR: Unrecognized MNE_CI_KIND=${MNE_CI_KIND}"
 	exit 1

From 1cfaeb53f6fd1b97f4a530a2b6d3bdb90119579e Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 11:26:08 -0700
Subject: [PATCH 077/117] pixi path [skip circle] [skip azp]

---
 .github/workflows/tests.yml | 11 ++++++++++-
 1 file changed, 10 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index b77fa3998c0..c44683d648c 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -130,7 +130,16 @@ jobs:
           frozen: true
         if: matrix.kind == 'pixi'
       # Workaround macOS path behavior with login shells (which puts system Python first)
-      - run: echo "export PATH=\"$(dirname ${{ steps.setup-python.outputs.python-path }}):$PATH\"" | tee -a ~/.bash_profile  # zizmor: ignore[template-injection]
+      - run: |  # zizmor: ignore[template-injection]
+          if [[ $MNE_CI_KIND == "pip" ]];
+            prepend_path=$(dirname ${{ steps.setup-python.outputs.python-path }})
+          elif [[ $MNE_CI_KIND == "pixi" ]]; then
+            prepend_path="${{ github.workspace }}/tools/ci/macos-intel/.pixi/envs/default/bin"
+          else
+            echo "Unsupported CI Kind: $MNE_CI_KIND"
+            exit 1
+          fi
+          echo "export PATH=\"$prepend_path:$PATH\"" | tee -a ~/.bash_profile
         if: (startswith(matrix.kind, 'pip') || matrix.kind == 'pixi') && startswith(matrix.os, 'macos')
       # Python (if conda)
       - uses: mamba-org/setup-micromamba@v3

From b7971c3941e7fd935997669cbb81e99871118ec7 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 11:38:12 -0700
Subject: [PATCH 078/117] fix syntax [skip circle] [skip azp]

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index c44683d648c..14b03acf3b1 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -132,7 +132,7 @@ jobs:
       # Workaround macOS path behavior with login shells (which puts system Python first)
       - run: |  # zizmor: ignore[template-injection]
           if [[ $MNE_CI_KIND == "pip" ]];
-            prepend_path=$(dirname ${{ steps.setup-python.outputs.python-path }})
+            prepend_path="$(dirname ${{ steps.setup-python.outputs.python-path }})"
           elif [[ $MNE_CI_KIND == "pixi" ]]; then
             prepend_path="${{ github.workspace }}/tools/ci/macos-intel/.pixi/envs/default/bin"
           else

From 105f23adc05a5eacdb3625eb4983baaf5020f603 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 11:48:10 -0700
Subject: [PATCH 079/117] doh [skip circle] [skip azp]

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 14b03acf3b1..469c31a7113 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -131,7 +131,7 @@ jobs:
         if: matrix.kind == 'pixi'
       # Workaround macOS path behavior with login shells (which puts system Python first)
       - run: |  # zizmor: ignore[template-injection]
-          if [[ $MNE_CI_KIND == "pip" ]];
+          if [[ $MNE_CI_KIND == "pip" ]]; then
             prepend_path="$(dirname ${{ steps.setup-python.outputs.python-path }})"
           elif [[ $MNE_CI_KIND == "pixi" ]]; then
             prepend_path="${{ github.workspace }}/tools/ci/macos-intel/.pixi/envs/default/bin"

From ca4ba7f1f6af38b1fc6fcf4f249bb32d813f43aa Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 12:18:12 -0700
Subject: [PATCH 080/117] udpate lockfile to match want python

---
 tools/ci/macos-intel/pixi.lock | 1377 ++++++++++++++++----------------
 tools/ci/macos-intel/pixi.toml |    3 +-
 2 files changed, 680 insertions(+), 700 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index c155e69cdb8..33909ba581c 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -10,19 +10,18 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.1-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohttp-3.13.5-pyhf64b827_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.13.5-py313h6f5309d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.6.1-py311hc9d285c_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.7.0-py311hadf7373_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.13.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.9.1-hf036a51_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/appnope-0.1.4-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py314h6482030_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-3.0.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/async-lru-2.3.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/async-timeout-5.0.1-pyhcf101f3_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-26.1.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-auth-0.9.1-h2e727e9_3.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/aws-c-cal-0.9.2-h6f29d6d_1.conda
@@ -49,35 +48,35 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/blosc-1.21.6-hd145fbb_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-1.1.0-h1c43f85_4.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-bin-1.1.0-h1c43f85_4.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-python-1.1.0-py314hb6723d8_4.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/brotli-python-1.1.0-py313h253db18_4.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/bzip2-1.0.8-h500dc9f_9.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/c-ares-1.34.6-hb5e19a0_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/ca-certificates-2026.2.25-hbd8a1cb_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/ca-certificates-2026.4.22-hbd8a1cb_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/cached-property-1.5.2-hd8ed1ab_1.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/noarch/cached_property-1.5.2-pyha770c72_1.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/osx-64/cairo-1.18.4-h950ec3b_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/certifi-2026.2.25-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/cffi-2.0.0-py314h8ca4d5a_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/certifi-2026.4.22-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/cffi-2.0.0-py313hf57695f_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/charset-normalizer-3.4.7-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/click-8.3.2-pyhc90fa1f_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/click-8.3.3-pyhc90fa1f_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/comm-0.2.3-pyhe01879c_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/contourpy-1.3.3-py314h22a2ed9_4.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/contourpy-1.3.3-py313h98b818e_4.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/cpp-expected-1.3.1-h0ba0a54_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/cpython-3.14.4-py314hd8ed1ab_100.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/cpython-3.13.13-py313hd8ed1ab_100.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/curryreader-0.1.2-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/cycler-0.12.1-pyhcf101f3_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/cyclopts-4.10.2-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/cyclopts-4.11.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/cyrus-sasl-2.1.28-h610c526_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/darkdetect-0.8.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/dav1d-1.2.1-h0dc2134_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/dbus-1.16.2-h6e7f9a9_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/debugpy-1.8.20-py314h2f9fc56_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/debugpy-1.8.20-py313h8b5a893_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/decorator-5.2.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/deepdiff-9.0.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/defusedxml-0.7.1-pyhd8ed1ab_0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/noarch/deprecated-1.3.1-pyhd8ed1ab_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/dipy-1.12.0-np2py314h72ea864_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/dipy-1.12.1-np2py313h2589dda_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/docstring_parser-0.17.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/docutils-0.22.4-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/double-conversion-3.3.1-h240833e_0.conda
@@ -97,11 +96,11 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/fontconfig-2.17.1-h7a4440b_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/fonts-conda-ecosystem-1-0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/noarch/fonts-conda-forge-1-hc364b38_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/fonttools-4.62.1-pyh7db6752_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/fonttools-4.62.1-py313h035b7d0_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/fqdn-1.5.1-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/freetype-2.14.3-h694c41f_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/fribidi-1.0.16-h8616949_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/frozenlist-1.7.0-pyhf298e5d_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/frozenlist-1.7.0-py313haf29b43_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/gdk-pixbuf-2.44.4-h07555a4_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/gflags-2.2.2-hac325c4_1005.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/glog-0.7.1-h2790a97_0.conda
@@ -110,8 +109,8 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/graphite2-1.3.14-h21dd04a_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/h11-0.16.0-pyhcf101f3_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/h2-4.3.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/h5io-0.2.5-pyhc455866_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/h5py-3.16.0-nompi_py314hd1d8aca_102.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/h5io-0.2.5-pyhc455866_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/h5py-3.16.0-nompi_py313hd52a848_102.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/harfbuzz-12.2.0-hc5d3ef4_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/hdf4-4.2.15-h8138101_7.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/hdf5-1.14.6-nompi_hf563b80_106.conda
@@ -120,7 +119,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/httpx-0.28.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/hyperframe-6.1.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/icu-75.1-h120a0e1_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/idna-3.11-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/idna-3.13-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/imageio-2.37.0-pyhfb79c49_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/imageio-ffmpeg-0.6.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/importlib-metadata-8.8.0-pyhcf101f3_0.conda
@@ -128,7 +127,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipyevents-2.0.4-pyhbbac1ac_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipykernel-7.2.0-pyh5552912_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipympl-0.10.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/ipython-9.12.0-pyhecfbec7_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/ipython-9.13.0-pyh53cf698_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipython_pygments_lexers-1.1.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipywidgets-8.1.8-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/isoduration-20.11.0-pyhd8ed1ab_1.conda
@@ -146,20 +145,20 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_client-8.8.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_console-6.6.3-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_core-5.9.1-pyhc90fa1f_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_events-0.12.0-pyhe01879c_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_events-0.12.1-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_server-2.17.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_server_terminals-0.5.4-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab-4.5.6-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab-4.5.7-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab_pygments-0.3.0-pyhd8ed1ab_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab_server-2.28.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab_widgets-3.0.16-pyhcf101f3_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/kiwisolver-1.5.0-py314hd6e1bd6_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/kiwisolver-1.5.0-py313h224b87c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/krb5-1.21.3-h37d8d59_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/lame-3.100-hb7f2c08_1003.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/noarch/lark-1.3.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/lazy-loader-0.5-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/lazy_loader-0.5-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/lcms2-2.18-h90db99b_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/lcms2-2.19-h5ea7634_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/lerc-4.1.0-h35c7297_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libabseil-20250512.1-cxx17_hfc00f1c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libaec-1.1.5-he7c3a48_0.conda
@@ -170,19 +169,19 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libarrow-dataset-21.0.0-h2db2d7d_8_cpu.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libarrow-substrait-21.0.0-h4653b8a_8_cpu.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libass-0.17.4-h87c4fc2_0.conda
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   - matplotlib-inline >=0.1.6
   - prompt-toolkit >=3.0.41,<3.1.0
+  - psutil >=7
   - pygments >=2.14.0
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+  - python >=3.11
   - stack_data >=0.6.0
   - traitlets >=5.13.0
+  - typing_extensions >=4.6
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   license_family: BSD
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-  size: 649967
-  timestamp: 1774609994657
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-- conda: https://conda.anaconda.org/conda-forge/noarch/jupyter_events-0.12.0-pyhe01879c_0.conda
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-  md5: 31e11c30bbee1682a55627f953c6725a
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   - packaging
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+  - python >=3.10
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   - pyyaml >=5.3
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   license_family: BSD
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   license_family: MIT
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-  - libopenblas >=0.3.32,<1.0a0
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-  - liblapack  3.11.0   6*_openblas
+  - blas * netlib
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+  - blas_netlib_2
   license: BSD-3-Clause
   license_family: BSD
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-  - liblapack  3.11.0   6*_openblas
+  - __osx >=10.13
+  - libblas 3.11.0.*
+  - libgfortran
+  - libgfortran5 >=14.3.0
+  - libgfortran5 >=15.2.0
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+  - blas_netlib_2
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   license_family: Apache
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-  - liblapacke 3.11.0   6*_openblas
-  - blas 2.306   openblas
+  - __osx >=10.13
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+  - libgfortran
+  - libgfortran5 >=14.3.0
+  - libgfortran5 >=15.2.0
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+  - blas_netlib_2
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+  - openblas >=0.3.33,<0.3.34.0a0
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+  - python_abi 3.13.* *_cp313
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+  - python >=3.13,<3.14.0a0
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+  - python >=3.13,<3.14.0a0
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-  sha256: 922c574e1c54f8e49b58dfc2512f4549db3f5994b70d3a2282783759300f40aa
-  md5: 56199d023e7769cab1d595a57a79ecbb
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-9.5.1-hbcce353_7.conda
+  sha256: 851f583b2d0f0e7dcc9b623bd3759159f2c40e6dd8713b7216c57e59a42e2fef
+  md5: d1adca234db91fb06ab4ca9f002b1a07
   depends:
   - eigen
   - expat
   - libboost-devel
   - liblzma-devel
-  - python_abi 3.14.* *_cp314
+  - python_abi 3.13.* *_cp313
   - tbb-devel
   - vtk-base >=9.5.1,<9.5.2.0a0
   - vtk-io-ffmpeg >=9.5.1,<9.5.2.0a0
   license: BSD-3-Clause
   license_family: BSD
   purls: []
-  size: 28058
-  timestamp: 1760150643438
-- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-base-9.5.1-py314ha1c4576_2.conda
-  sha256: 269d55ccda3fb5422c4b73d9964726ce3f2598ff05807e04e2835e62bdbb7196
-  md5: 2de692073485c40ee66d84d58329e0d5
+  size: 27797
+  timestamp: 1760148961681
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-base-9.5.1-py313h49a8658_2.conda
+  sha256: f0cfa23c5cb3e169a3cea770be03b71daec33a075a48c850e378954bf71c2ac1
+  md5: 9c346fdf3ca4ccb71ca8908f576bc330
   depends:
   - __osx >=11.0
   - double-conversion >=3.3.1,<3.4.0a0
@@ -6064,8 +6044,8 @@ packages:
   - numpy
   - proj >=9.6.2,<9.7.0a0
   - pugixml >=1.15,<1.16.0a0
-  - python >=3.14.0rc2,<3.15.0a0
-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   - qt6-main >=6.9.2,<6.10.0a0
   - tbb >=2021.13.0
   - utfcpp
@@ -6077,31 +6057,30 @@ packages:
   license_family: BSD
   purls:
   - pkg:pypi/vtk?source=hash-mapping
-  size: 47291142
-  timestamp: 1757761299674
-- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.5.1-h031cfde_2.conda
-  sha256: aa08b49731f78286c3c877cee105359a6438d23a0191be7ae6fe1705dc62ffc2
-  md5: 9910b4cd03a82fc9356689faa61cd669
+  size: 47223731
+  timestamp: 1757763783737
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.5.1-h05a0aa4_2.conda
+  sha256: 17fbd95d28094db013112ef20f3958d641ccbc20a3b27ec651104dfc4257444b
+  md5: 6b823a10f2d90fc480f6334c5c9543ae
   depends:
   - ffmpeg >=8.0.0,<9.0a0
-  - python_abi 3.14.* *_cp314
-  - vtk-base 9.5.1 py314ha1c4576_2
+  - python_abi 3.13.* *_cp313
+  - vtk-base 9.5.1 py313h49a8658_2
   license: BSD-3-Clause
   license_family: BSD
   purls: []
-  size: 78734
-  timestamp: 1757761499498
-- conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.6.0-pyhd8ed1ab_0.conda
-  sha256: e298b508b2473c4227206800dfb14c39e4b14fd79d4636132e9e1e4244cdf4aa
-  md5: c3197f8c0d5b955c904616b716aca093
+  size: 78640
+  timestamp: 1757764042676
+- conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.7.0-pyhd8ed1ab_0.conda
+  sha256: 1ee2d8384972ecbf8630ce8a3ea9d16858358ad3e8566675295e66996d5352da
+  md5: eb9538b8e55069434a18547f43b96059
   depends:
   - python >=3.10
   license: MIT
-  license_family: MIT
   purls:
-  - pkg:pypi/wcwidth?source=hash-mapping
-  size: 71550
-  timestamp: 1770634638503
+  - pkg:pypi/wcwidth?source=compressed-mapping
+  size: 82917
+  timestamp: 1777744489106
 - conda: https://conda.anaconda.org/conda-forge/noarch/webcolors-25.10.0-pyhd8ed1ab_0.conda
   sha256: 21f6c8a20fe050d09bfda3fb0a9c3493936ce7d6e1b3b5f8b01319ee46d6c6f6
   md5: 6639b6b0d8b5a284f027a2003669aa65
@@ -6146,19 +6125,19 @@ packages:
   - pkg:pypi/widgetsnbextension?source=hash-mapping
   size: 889195
   timestamp: 1762040404362
-- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.1.2-py314h217eccc_0.conda
-  sha256: a25c0f6a486667e3763363e2f95cb25cab3c12b9c4004c781c3f473b637b4f81
-  md5: 9b1b8f36ea2b86b37c56cd78606aeff2
+- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.1.2-py313hf59fe81_0.conda
+  sha256: a57f98b175c17cd5e1795129a7358bd688c2762b5d4a6c5809145bcd29d48435
+  md5: 7f40a21e6319c0b68e6bada3864caea6
   depends:
   - __osx >=11.0
-  - python >=3.14,<3.15.0a0
-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   license: BSD-2-Clause
   license_family: BSD
   purls:
   - pkg:pypi/wrapt?source=hash-mapping
-  size: 85336
-  timestamp: 1772795064007
+  size: 84573
+  timestamp: 1772794979701
 - conda: https://conda.anaconda.org/conda-forge/noarch/wslink-2.5.6-pyhd8ed1ab_0.conda
   sha256: 0754558be231485ee835b0db11bace246ecd5465143a355029b039803ea716b0
   md5: d34454e27bb9ec7025cefccfa92908ad
@@ -6254,22 +6233,22 @@ packages:
   purls: []
   size: 145204
   timestamp: 1745308032698
-- conda: https://conda.anaconda.org/conda-forge/noarch/yarl-1.23.0-pyh7db6752_0.conda
-  sha256: efab7a6002d12c8b009ca91271020f704ebe2d148bcc31494298dd19607ea708
-  md5: 9db770f25f3abcb0f97fca493fe46646
+- conda: https://conda.anaconda.org/conda-forge/osx-64/yarl-1.23.0-py313h035b7d0_0.conda
+  sha256: 5aab7ac9f93b8b5ca87fc4bbd00e3596ded9f87991ae0ddf205ca9753008754e
+  md5: 89e89e8253cb448d833a766ab5a05099
   depends:
+  - __osx >=11.0
   - idna >=2.0
   - multidict >=4.0
   - propcache >=0.2.1
-  - python >=3.10
-  track_features:
-  - yarl_no_compile
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   license: Apache-2.0
   license_family: Apache
   purls:
   - pkg:pypi/yarl?source=hash-mapping
-  size: 74947
-  timestamp: 1772409403116
+  size: 141492
+  timestamp: 1772409672019
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h6c33b1e_9.conda
   sha256: 30aa5a2e9c7b8dbf6659a2ccd8b74a9994cdf6f87591fcc592970daa6e7d3f3c
   md5: d940d809c42fbf85b05814c3290660f5
@@ -6317,22 +6296,22 @@ packages:
   purls: []
   size: 120464
   timestamp: 1770168263684
-- conda: https://conda.anaconda.org/conda-forge/osx-64/zstandard-0.25.0-py314hd1e8ddb_1.conda
-  sha256: cf12b4c138eef5160b12990278ac77dec5ca91de60638dd6cf1e60e4331d8087
-  md5: b94712955dc017da312e6f6b4c6d4866
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zstandard-0.25.0-py313hcb05632_1.conda
+  sha256: eed36460cfd4afdcb5e3dbca1f493dd9251e90ad793680064efdeb72d95f16a0
+  md5: da657125cfc67fe18e4499cf88dbe512
   depends:
   - python
   - cffi >=1.11
   - zstd >=1.5.7,<1.5.8.0a0
   - __osx >=10.13
-  - python_abi 3.14.* *_cp314
+  - python_abi 3.13.* *_cp313
   - zstd >=1.5.7,<1.6.0a0
   license: BSD-3-Clause
   license_family: BSD
   purls:
   - pkg:pypi/zstandard?source=hash-mapping
-  size: 470136
-  timestamp: 1762512696464
+  size: 468984
+  timestamp: 1762512716065
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zstd-1.5.7-h3eecb57_6.conda
   sha256: 47101a4055a70a4876ffc87b750ab2287b67eca793f21c8224be5e1ee6394d3f
   md5: 727109b184d680772e3122f40136d5ca
diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index 58299b83124..f7c7a9575b2 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -1,3 +1,4 @@
+# THIS FILE IS AUTO-GENERATED BY tools/hooks/update_environment_file.py AND WILL BE OVERWRITTEN
 [workspace]
 authors = ["Scott Huberty <seh33@uw.edu>"] # TODO: fix this
 channels = ["conda-forge"]
@@ -8,7 +9,7 @@ version = "0.1.0"
 [tasks]
 
 [dependencies]
-python = ">=3.10"
+python = "3.13.*"
 antio = ">=0.5.0"
 curryreader = ">=0.1.2"
 darkdetect = "*"

From 5130043285c3f631bf50f57850c82d379597a1eb Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sat, 2 May 2026 12:20:27 -0700
Subject: [PATCH 081/117] skip [skip azp] [skip circle]


From 0cc9aa85bc6e85a61a8139d2c6fed010c9cc8925 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 3 Jun 2026 10:05:56 -0700
Subject: [PATCH 082/117] handle pypi deps

---
 tools/write-pixi-toml.py | 32 ++++++++++++++++++++------------
 1 file changed, 20 insertions(+), 12 deletions(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 75bddbf932b..d820e346487 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -1,13 +1,14 @@
 # Authors: The MNE-Python contributors.
 # License: BSD-3-Clause
 # Copyright the MNE-Python contributors.
+from pathlib import Path
 
 import tomlkit
-import tomllib
 
-with open("../pyproject.toml", "rb") as fid:
-    foo = tomllib.load(fid)
+pypi_dependencies = ["pymef"]  # "nest-asyncio2", "pyobjc-framework-Cocoa"]
 
+pyproject_fpath = Path(__file__).resolve().parent.parent / "pyproject.toml"
+pyproject = tomlkit.loads(pyproject_fpath.read_bytes())
 # in keys: build-system, dependency-groups, project, tool
 
 # out keys: workspace, dependencies, pypi-dependencies (may need tasks)
@@ -15,22 +16,29 @@
 workspace = dict(
     authors=["MNE-Python contributors"],
     channels=["conda-forge"],
-    name=foo["project"]["name"],
+    name=pyproject["project"]["name"],
     platforms=["osx-64"],
     version="0.1.0",
 )
-dependencies = foo["project"]["dependencies"]
-dependencies.extend(foo["dependency-groups"]["test"])
-dependencies.extend(foo["dependency-groups"]["test_extra"])
-dependencies.extend(foo["project"]["optional-dependencies"]["hdf5"])
-dependencies.extend(foo["project"]["optional-dependencies"]["full-no-qt"])
-dependencies.extend(foo["project"]["optional-dependencies"]["full-pyside6"])
+dependencies = pyproject["project"]["dependencies"]
+dependencies.extend(pyproject["dependency-groups"]["test"])
+dependencies.extend(pyproject["dependency-groups"]["test_extra"])
+dependencies.extend(pyproject["project"]["optional-dependencies"]["hdf5"])
+dependencies.extend(pyproject["project"]["optional-dependencies"]["full-no-qt"])
+dependencies.extend(pyproject["project"]["optional-dependencies"]["full-pyside6"])
 dependencies = list(
     filter(lambda x: isinstance(x, str) and "mne[" not in x, dependencies)
 )
-dependencies = sorted(set(dependencies))
+for ix, dep in enumerate(dependencies):
+    if (split_ix := dep.find(";")) >= 0:
+        dependencies[ix] = dep[:split_ix].strip()
 
-out = {"workspace": workspace, "dependencies": dependencies, "pypi-dependencies": []}
+dependencies = sorted(set(dependencies) - set(pypi_dependencies))
 
+out = {
+    "workspace": workspace,
+    "dependencies": dependencies,
+    "pypi-dependencies": pypi_dependencies,
+}
 with open("pixi-new.toml", "w") as fid:
     tomlkit.dump(out, fid, sort_keys=True)

From 471efe425ffc2226cd295bca082b33a3b18c7270 Mon Sep 17 00:00:00 2001
From: "autofix-ci[bot]" <114827586+autofix-ci[bot]@users.noreply.github.com>
Date: Wed, 3 Jun 2026 17:06:35 +0000
Subject: [PATCH 083/117] [autofix.ci] apply automated fixes

---
 tools/write-pixi-toml.py | 1 +
 1 file changed, 1 insertion(+)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index d820e346487..341e6fd53e3 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -1,6 +1,7 @@
 # Authors: The MNE-Python contributors.
 # License: BSD-3-Clause
 # Copyright the MNE-Python contributors.
+
 from pathlib import Path
 
 import tomlkit

From 2dc89ca7e46ae6efab3b919ad222a900a9542f8b Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 3 Jun 2026 12:30:35 -0500
Subject: [PATCH 084/117] convert pip-style specifiers to dict

---
 tools/write-pixi-toml.py | 19 ++++++++++++++++---
 1 file changed, 16 insertions(+), 3 deletions(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 341e6fd53e3..d4507611770 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -6,6 +6,19 @@
 
 import tomlkit
 
+
+def pip_to_pixi(dependencies_list):
+    """Convert pip dependency specifier strings to a pixi-style dict."""
+    out = dict()
+    for dep in dependencies_list:
+        if " " in dep:
+            name, version = dep.split(" ", maxsplit=1)
+        else:
+            name, version = dep, "*"
+        out[name] = version
+    return out
+
+
 pypi_dependencies = ["pymef"]  # "nest-asyncio2", "pyobjc-framework-Cocoa"]
 
 pyproject_fpath = Path(__file__).resolve().parent.parent / "pyproject.toml"
@@ -38,8 +51,8 @@
 
 out = {
     "workspace": workspace,
-    "dependencies": dependencies,
-    "pypi-dependencies": pypi_dependencies,
+    "dependencies": pip_to_pixi(dependencies),
+    "pypi-dependencies": pip_to_pixi(pypi_dependencies),
 }
 with open("pixi-new.toml", "w") as fid:
-    tomlkit.dump(out, fid, sort_keys=True)
+    tomlkit.dump(out, fid, sort_keys=False)

From e53eae5ce12ed495ecc65ff90296fc7139ebb6dd Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 10 Jun 2026 11:27:33 -0500
Subject: [PATCH 085/117] write to correct file loc

---
 tools/ci/macos-intel/pixi.toml | 101 +++++++++++++++++++--------------
 tools/write-pixi-toml.py       |  10 +++-
 2 files changed, 64 insertions(+), 47 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index f7c7a9575b2..b64594705c6 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -1,76 +1,89 @@
-# THIS FILE IS AUTO-GENERATED BY tools/hooks/update_environment_file.py AND WILL BE OVERWRITTEN
 [workspace]
-authors = ["Scott Huberty <seh33@uw.edu>"] # TODO: fix this
+authors = ["MNE-Python contributors"]
 channels = ["conda-forge"]
 name = "mne"
 platforms = ["osx-64"]
 version = "0.1.0"
 
-[tasks]
-
 [dependencies]
-python = "3.13.*"
-antio = ">=0.5.0"
-curryreader = ">=0.1.2"
+PySide6 = "!= 6.7.0, != 6.8.0, != 6.8.0.1, != 6.9.1"
+antio = ">= 0.5.0"
+codespell = "*"
+curryreader = ">= 0.1.2"
 darkdetect = "*"
-decorator = "*"
+decorator = ">= 5.1"
 defusedxml = "*"
-dipy = "*"
-edfio = ">=0.4.10"
+dipy = ">= 0.8"
+edfio = ">= 0.4.10"
 eeglabio = "*"
-filelock = ">=3.18.0"
-h5io = ">=0.2.4"
-h5py = "*"
-imageio = ">=2.6.1"
-imageio-ffmpeg = ">=0.4.1"
+filelock = ">= 3.18.0"
+h5io = ">= 0.2.4"
+h5py = ">= 2.4"
+hedtools = "*"
+imageio = ">= 2.6.1"
+imageio-ffmpeg = ">= 0.4.1"
 ipyevents = "*"
 ipympl = "*"
-ipython = "!=8.7.0"
+ipython = ">= 8.20"
 ipywidgets = "*"
-jinja2 = "*"
-joblib = "*"
+jinja2 = ">= 3.1"
+joblib = ">= 0.8"
 jupyter = "*"
-lazy_loader = ">=0.3"
-mamba = "*"
-matplotlib = ">=3.8"
-mffpy = ">=0.5.7"
+jupyter_client = "*"
+lazy_loader = ">= 0.3"
+matplotlib = ">= 3.8"
+mffpy = ">= 0.5.7"
+mne-bids = "*"
 mne-qt-browser = "*"
-nibabel = "*"
+mypy = ">= 0.14"
+nbclient = "*"
+nbformat = "*"
+neo = "*"
+nest-asyncio2 = "*"
+nibabel = ">= 2.0"
 nilearn = "*"
-nomkl = "*"
-numba = "*"
-numpy = ">=1.26,<3"
-openmeeg = ">=2.5.7"
+nitime = ">= 0.7"
+numba = ">= 0.35"
+numpy = ">= 1.26, < 3"
+numpydoc = ">= 1.6"
+openmeeg = ">= 2.5.7"
 packaging = "*"
-pandas = ">=2.2"
-pillow = "*"
-pip = "*"
-pooch = ">=1.5"
+pandas = ">= 2.2"
+pillow = ">= 10.2"
+pooch = ">= 1.5"
+pre-commit = "*"
 pyarrow = "*"
 pybv = "*"
 pymatreader = "*"
-pyside6 = "==6.9.2"
-python-neo = "*"
-python-picard = "*"
-pyvista = ">=0.43"
-pyvistaqt = ">=0.11"
-qdarkstyle = "!=3.2.2"
+pyobjc-framework-Cocoa = ">= 5.2.0"
+pytest = ">= 8.0"
+pytest-cov = ">= 4.1"
+pytest-qt = ">= 4.3"
+pytest-rerunfailures = "*"
+pytest-timeout = ">= 2.2"
+python-picard = ">= 0.4"
+pyvista = ">= 0.43"
+pyvistaqt = ">= 0.11"
+qdarkstyle = "!= 3.2.2"
 qtpy = "*"
-scikit-learn = ">=1.4"
-scipy = ">=1.12"
+ruff = ">= 0.1"
+scikit-learn = ">= 1.4"
+scipy = ">= 1.13"
 sip = "*"
 snirf = "*"
-statsmodels = "*"
+sphinx-gallery = "*"
+statsmodels = ">= 0.6"
 threadpoolctl = "*"
-tqdm = "*"
+tqdm = ">= 4.66"
 traitlets = "*"
 trame = "*"
 trame-vtk = "*"
 trame-vuetify = "*"
-vtk = "==9.5.1"
+twine = "*"
+vtk = ">= 9.2"
+vulture = "*"
+wheel = ">= 0.21"
 xlrd = "*"
 
 [pypi-dependencies]
-nest-asyncio2 = "*"
 pymef = "*"
-pyobjc-framework-cocoa = ">=5.2.0"
diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index d4507611770..a9793c185fa 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -21,10 +21,12 @@ def pip_to_pixi(dependencies_list):
 
 pypi_dependencies = ["pymef"]  # "nest-asyncio2", "pyobjc-framework-Cocoa"]
 
-pyproject_fpath = Path(__file__).resolve().parent.parent / "pyproject.toml"
+repo_root = Path(__file__).resolve().parent.parent
+pyproject_fpath = repo_root / "pyproject.toml"
 pyproject = tomlkit.loads(pyproject_fpath.read_bytes())
-# in keys: build-system, dependency-groups, project, tool
+outfile = repo_root / "tools" / "ci" / "macos-intel" / "pixi.toml"
 
+# in keys: build-system, dependency-groups, project, tool
 # out keys: workspace, dependencies, pypi-dependencies (may need tasks)
 out = dict()
 workspace = dict(
@@ -54,5 +56,7 @@ def pip_to_pixi(dependencies_list):
     "dependencies": pip_to_pixi(dependencies),
     "pypi-dependencies": pip_to_pixi(pypi_dependencies),
 }
-with open("pixi-new.toml", "w") as fid:
+# write the file
+outfile.parent.mkdir(parents=True, exist_ok=True)
+with open(outfile, "w") as fid:
     tomlkit.dump(out, fid, sort_keys=False)

From 8a352cfadf0c16abb6f52f23df58840551910c45 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 10 Jun 2026 11:36:43 -0500
Subject: [PATCH 086/117] fix pypi/cf name mismatch; comments

---
 tools/write-pixi-toml.py | 12 +++++++++++-
 1 file changed, 11 insertions(+), 1 deletion(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index a9793c185fa..6053ac08870 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -15,7 +15,7 @@ def pip_to_pixi(dependencies_list):
             name, version = dep.split(" ", maxsplit=1)
         else:
             name, version = dep, "*"
-        out[name] = version
+        out[name] = "".join(version.split(" "))  # pixi hates internal spaces
     return out
 
 
@@ -26,6 +26,9 @@ def pip_to_pixi(dependencies_list):
 pyproject = tomlkit.loads(pyproject_fpath.read_bytes())
 outfile = repo_root / "tools" / "ci" / "macos-intel" / "pixi.toml"
 
+# handle naming differences between PyPI and conda-forge
+remapping = dict(neo="python-neo")
+
 # in keys: build-system, dependency-groups, project, tool
 # out keys: workspace, dependencies, pypi-dependencies (may need tasks)
 out = dict()
@@ -42,13 +45,20 @@ def pip_to_pixi(dependencies_list):
 dependencies.extend(pyproject["project"]["optional-dependencies"]["hdf5"])
 dependencies.extend(pyproject["project"]["optional-dependencies"]["full-no-qt"])
 dependencies.extend(pyproject["project"]["optional-dependencies"]["full-pyside6"])
+# exclude recursive MNE deps
 dependencies = list(
     filter(lambda x: isinstance(x, str) and "mne[" not in x, dependencies)
 )
+# strip out platform specifiers; for now this affects only pyobj-framework-cocoa, and
+# since this pixi.toml is destined for macos-intel job, we want it in there so we're
+# skipping writing the logic to parse the platform spec.
 for ix, dep in enumerate(dependencies):
     if (split_ix := dep.find(";")) >= 0:
         dependencies[ix] = dep[:split_ix].strip()
+# handle mismatch between names on PyPI and conda-forge
+dependencies = [remapping.get(dep, dep) for dep in dependencies]
 
+# exclude pypi-only deps
 dependencies = sorted(set(dependencies) - set(pypi_dependencies))
 
 out = {

From fd1f2756e0fada5ee596e1d4ec4885befc6f1e54 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 10 Jun 2026 11:37:12 -0500
Subject: [PATCH 087/117] regen toml and lock files

---
 tools/ci/macos-intel/pixi.lock | 1104 +++++++++++++++++++++++++++-----
 tools/ci/macos-intel/pixi.toml |   88 +--
 2 files changed, 981 insertions(+), 211 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index 33909ba581c..22a0eedaac7 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -5,6 +5,8 @@ environments:
     - url: https://conda.anaconda.org/conda-forge/
     indexes:
     - https://pypi.org/simple
+    options:
+      pypi-prerelease-mode: if-necessary-or-explicit
     packages:
       osx-64:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
@@ -12,6 +14,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.13.5-py313h6f5309d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/alabaster-1.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.7.0-py311hadf7373_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.13.0-pyhcf101f3_0.conda
@@ -20,6 +23,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/ast-serialize-0.5.0-py310hb9b2626_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-3.0.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/async-lru-2.3.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-26.1.0-pyhcf101f3_0.conda
@@ -42,6 +46,8 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-storage-common-cpp-12.10.0-h18ceab9_2.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/azure-storage-files-datalake-cpp-12.12.0-h8df8335_3.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/babel-2.18.0-pyhcf101f3_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/backports-1.0-pyhd8ed1ab_5.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/backports.tarfile-1.2.0-pyhcf101f3_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/beautifulsoup4-4.14.3-pyha770c72_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/bleach-6.3.0-pyhcf101f3_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/bleach-with-css-6.3.0-hbca2aae_1.conda
@@ -57,12 +63,16 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/cairo-1.18.4-h950ec3b_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/certifi-2026.4.22-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/cffi-2.0.0-py313hf57695f_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/cfgv-3.5.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/charset-normalizer-3.4.7-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/click-8.3.3-pyhc90fa1f_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/click-option-group-0.5.6-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/cmarkgfm-2024.11.20-py313h585f44e_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/codespell-2.4.2-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/comm-0.2.3-pyhe01879c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/contourpy-1.3.3-py313h98b818e_4.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/cpp-expected-1.3.1-h0ba0a54_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/coverage-7.14.1-py313h035b7d0_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/cpython-3.13.13-py313hd8ed1ab_100.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/curryreader-0.1.2-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/cycler-0.12.1-pyhcf101f3_2.conda
@@ -77,12 +87,14 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/defusedxml-0.7.1-pyhd8ed1ab_0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/noarch/deprecated-1.3.1-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/dipy-1.12.1-np2py313h2589dda_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/distlib-0.4.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/docstring_parser-0.17.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/docutils-0.22.4-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/double-conversion-3.3.1-h240833e_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/edfio-0.4.13-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/eeglabio-0.1.3-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/eigen-5.0.1-h4ff50a2_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/et_xmlfile-2.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.3.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/executing-2.2.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/expat-2.7.5-hcc62823_0.conda
@@ -114,16 +126,22 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/harfbuzz-12.2.0-hc5d3ef4_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/hdf4-4.2.15-h8138101_7.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/hdf5-1.14.6-nompi_hf563b80_106.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/hedtools-1.1.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/hpack-4.1.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/httpcore-1.0.9-pyh29332c3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/httpx-0.28.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/hyperframe-6.1.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/icu-75.1-h120a0e1_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/id-1.6.1-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/identify-2.6.19-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/idna-3.13-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/imageio-2.37.0-pyhfb79c49_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/imageio-ffmpeg-0.6.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/imagesize-2.0.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/importlib-metadata-8.8.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/importlib_resources-7.1.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/inflect-7.5.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/iniconfig-2.3.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipyevents-2.0.4-pyhbbac1ac_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipykernel-7.2.0-pyh5552912_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipympl-0.10.0-pyhcf101f3_0.conda
@@ -131,6 +149,9 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipython_pygments_lexers-1.1.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipywidgets-8.1.8-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/isoduration-20.11.0-pyhd8ed1ab_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/jaraco.classes-3.4.0-pyhcf101f3_3.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/jaraco.context-6.1.2-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/jaraco.functools-4.5.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jedi-0.19.2-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jinja2-3.1.6-pyhcf101f3_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/joblib-1.5.3-pyhd8ed1ab_0.conda
@@ -152,6 +173,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab_pygments-0.3.0-pyhd8ed1ab_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab_server-2.28.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/jupyterlab_widgets-3.0.16-pyhcf101f3_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/keyring-25.7.0-pyh534df25_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/kiwisolver-1.5.0-py313h224b87c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/krb5-1.21.3-h37d8d59_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/lame-3.100-hb7f2c08_1003.tar.bz2
@@ -162,7 +184,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/lerc-4.1.0-h35c7297_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libabseil-20250512.1-cxx17_hfc00f1c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libaec-1.1.5-he7c3a48_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/libarchive-3.8.1-gpl_h9912a37_100.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libarrow-21.0.0-h3202d62_8_cpu.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libarrow-acero-21.0.0-h2db2d7d_8_cpu.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libarrow-compute-21.0.0-h7751554_8_cpu.conda
@@ -206,7 +227,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libllvm21-21.1.0-h9b4ebcc_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/liblzma-5.8.3-hbb4bfdb_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/liblzma-devel-5.8.3-hbb4bfdb_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/libmamba-2.3.2-h87c5c07_2.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libmatio-1.5.30-h0881fde_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libmpdec-4.0.0-hf3981d6_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libnetcdf-4.9.3-nompi_hd7ff75f_102.conda
@@ -235,7 +255,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libre2-11-2025.11.05-h554ac88_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/librsvg-2.58.4-h21a6cfa_3.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libsodium-1.0.20-hfdf4475_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/libsolv-0.7.37-hf97c9bc_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libsqlite-3.53.0-h77d7759_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libssh2-1.11.1-hed3591d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libtheora-1.1.1-hfdf4475_1006.conda
@@ -257,8 +276,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/loguru-0.7.3-pyh707e725_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/lxml-6.0.2-py313hab0d6fc_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/lz4-c-1.10.0-h240833e_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/lzo-2.10-h4132b18_1002.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/mamba-2.3.2-hbfd6720_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/markdown-it-py-4.0.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/markupsafe-3.0.3-py313h035b7d0_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/matplotlib-3.10.9-py313habf4b1d_0.conda
@@ -268,30 +285,38 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/mffpy-0.10.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/mistune-3.2.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/mne-base-1.12.1-pyh694c41f_200.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/mne-bids-0.19.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/mne-qt-browser-0.7.4-pyh0555025_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/more-itertools-11.0.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/msgpack-python-1.1.2-py313h5eff275_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/multidict-6.7.1-py313h84cef87_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/munkres-1.1.4-pyhd8ed1ab_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/mypy-2.1.0-py313h0b0ee5e_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/mypy_extensions-1.1.0-pyha770c72_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/nbclient-0.10.4-pyhd8ed1ab_0.conda
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       - conda: https://conda.anaconda.org/conda-forge/noarch/nest-asyncio-1.6.0-pyhd8ed1ab_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/nest-asyncio2-1.7.2-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/networkx-3.6.1-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/nh3-0.3.5-py310hb9b2626_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/nibabel-5.4.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/nilearn-0.13.1-pyhd8ed1ab_0.conda
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diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index b64594705c6..98db694b162 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -6,83 +6,83 @@ platforms = ["osx-64"]
 version = "0.1.0"
 
 [dependencies]
-PySide6 = "!= 6.7.0, != 6.8.0, != 6.8.0.1, != 6.9.1"
-antio = ">= 0.5.0"
+PySide6 = "!=6.7.0,!=6.8.0,!=6.8.0.1,!=6.9.1"
+antio = ">=0.5.0"
 codespell = "*"
-curryreader = ">= 0.1.2"
+curryreader = ">=0.1.2"
 darkdetect = "*"
-decorator = ">= 5.1"
+decorator = ">=5.1"
 defusedxml = "*"
-dipy = ">= 0.8"
-edfio = ">= 0.4.10"
+dipy = ">=0.8"
+edfio = ">=0.4.10"
 eeglabio = "*"
-filelock = ">= 3.18.0"
-h5io = ">= 0.2.4"
-h5py = ">= 2.4"
+filelock = ">=3.18.0"
+h5io = ">=0.2.4"
+h5py = ">=2.4"
 hedtools = "*"
-imageio = ">= 2.6.1"
-imageio-ffmpeg = ">= 0.4.1"
+imageio = ">=2.6.1"
+imageio-ffmpeg = ">=0.4.1"
 ipyevents = "*"
 ipympl = "*"
-ipython = ">= 8.20"
+ipython = ">=8.20"
 ipywidgets = "*"
-jinja2 = ">= 3.1"
-joblib = ">= 0.8"
+jinja2 = ">=3.1"
+joblib = ">=0.8"
 jupyter = "*"
 jupyter_client = "*"
-lazy_loader = ">= 0.3"
-matplotlib = ">= 3.8"
-mffpy = ">= 0.5.7"
+lazy_loader = ">=0.3"
+matplotlib = ">=3.8"
+mffpy = ">=0.5.7"
 mne-bids = "*"
 mne-qt-browser = "*"
-mypy = ">= 0.14"
+mypy = ">=0.14"
 nbclient = "*"
 nbformat = "*"
-neo = "*"
 nest-asyncio2 = "*"
-nibabel = ">= 2.0"
+nibabel = ">=2.0"
 nilearn = "*"
-nitime = ">= 0.7"
-numba = ">= 0.35"
-numpy = ">= 1.26, < 3"
-numpydoc = ">= 1.6"
-openmeeg = ">= 2.5.7"
+nitime = ">=0.7"
+numba = ">=0.35"
+numpy = ">=1.26,<3"
+numpydoc = ">=1.6"
+openmeeg = ">=2.5.7"
 packaging = "*"
-pandas = ">= 2.2"
-pillow = ">= 10.2"
-pooch = ">= 1.5"
+pandas = ">=2.2"
+pillow = ">=10.2"
+pooch = ">=1.5"
 pre-commit = "*"
 pyarrow = "*"
 pybv = "*"
 pymatreader = "*"
-pyobjc-framework-Cocoa = ">= 5.2.0"
-pytest = ">= 8.0"
-pytest-cov = ">= 4.1"
-pytest-qt = ">= 4.3"
+pyobjc-framework-Cocoa = ">=5.2.0"
+pytest = ">=8.0"
+pytest-cov = ">=4.1"
+pytest-qt = ">=4.3"
 pytest-rerunfailures = "*"
-pytest-timeout = ">= 2.2"
-python-picard = ">= 0.4"
-pyvista = ">= 0.43"
-pyvistaqt = ">= 0.11"
-qdarkstyle = "!= 3.2.2"
+pytest-timeout = ">=2.2"
+python-neo = "*"
+python-picard = ">=0.4"
+pyvista = ">=0.43"
+pyvistaqt = ">=0.11"
+qdarkstyle = "!=3.2.2"
 qtpy = "*"
-ruff = ">= 0.1"
-scikit-learn = ">= 1.4"
-scipy = ">= 1.13"
+ruff = ">=0.1"
+scikit-learn = ">=1.4"
+scipy = ">=1.13"
 sip = "*"
 snirf = "*"
 sphinx-gallery = "*"
-statsmodels = ">= 0.6"
+statsmodels = ">=0.6"
 threadpoolctl = "*"
-tqdm = ">= 4.66"
+tqdm = ">=4.66"
 traitlets = "*"
 trame = "*"
 trame-vtk = "*"
 trame-vuetify = "*"
 twine = "*"
-vtk = ">= 9.2"
+vtk = ">=9.2"
 vulture = "*"
-wheel = ">= 0.21"
+wheel = ">=0.21"
 xlrd = "*"
 
 [pypi-dependencies]

From c221707df64832168c88d81b3abdc7ccbbe1765a Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 10 Jun 2026 12:13:36 -0500
Subject: [PATCH 088/117] add macos-intel pixi ci lockfile update to spec-zero
 workflow

---
 .github/workflows/spec_zero.yml | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/.github/workflows/spec_zero.yml b/.github/workflows/spec_zero.yml
index 487267bc955..e7b14bab2a8 100644
--- a/.github/workflows/spec_zero.yml
+++ b/.github/workflows/spec_zero.yml
@@ -64,6 +64,14 @@ jobs:
             echo "dirty=true" >> $GITHUB_OUTPUT
           fi
         id: status
+      - name: Setup Pixi
+        uses: prefix-dev/setup-pixi@v0.9.4
+        if: steps.status.outputs.dirty == 'true'
+      - name: Update pixi.toml and pixi.lock for macos-intel CI job
+        run: |
+          pixi run python tools/write-pixi-toml.py
+          pixi lock --no-install --manifest-path tools/ci/macos-intel/
+        if: steps.status.outputs.dirty == 'true'
       - name: Run pre-commit hooks to update other files
         run: |
           uv pip install pre-commit

From e70b44d54ade3891a117c9805e455138b89a57d9 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 10 Jun 2026 12:14:13 -0500
Subject: [PATCH 089/117] update lockfile (again)

---
 tools/ci/macos-intel/pixi.lock | 4261 +++++++++++++++++---------------
 1 file changed, 2225 insertions(+), 2036 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index 22a0eedaac7..0b44e4af513 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -11,141 +11,147 @@ environments:
       osx-64:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.1-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.13.5-py313h6f5309d_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.2-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohttp-3.14.1-pyhf64b827_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/alabaster-1.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.7.0-py311hadf7373_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.13.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.9.1-hf036a51_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.14.1-pl5321h3d58d69_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/appnope-0.1.4-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py314h6482030_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/ast-serialize-0.5.0-py310hb9b2626_1.conda
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-  - python_abi 3.13.* *_cp313
+  - python >=3.14,<3.15.0a0
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+  - packaging >=23.2
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+  - double-conversion >=3.4.0,<3.5.0a0
+  - icu >=78.3,<79.0a0
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   license: LGPL-3.0-only
   license_family: LGPL
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-  size: 46805561
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+  - libre2-11 2025.11.05 h6e8c311_1
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   purls: []
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+  - python >=3.10
+  - python
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-  size: 17481
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+  - pkg:pypi/readme-renderer?source=compressed-mapping
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-- conda: https://conda.anaconda.org/conda-forge/noarch/requests-2.33.1-pyhcf101f3_1.conda
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+  - __osx >=11.0
+  - python_abi 3.14.* *_cp314
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-  - __osx >=10.13
+  - __osx >=11.0
   license: MIT
   license_family: MIT
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-  size: 370868
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+  - pkg:pypi/rpds-py?source=compressed-mapping
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+  - joblib >=1.4.0
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-  - __osx >=10.13
-  - python_abi 3.13.* *_cp313
+  - libcxx >=19
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+  - python_abi 3.14.* *_cp314
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-  - python >=3.13,<3.14.0a0
-  - python_abi 3.13.* *_cp313
+  - python >=3.14,<3.15.0a0
+  - python_abi 3.14.* *_cp314
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   license_family: BSD
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+  - spirv-tools >=2026,<2027.0a0
   license: Apache-2.0
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/sip-6.15.3-py313hbc4457e_0.conda
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+  - python >=3.14,<3.15.0a0
+  - python_abi 3.14.* *_cp314
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   license: BSD-2-Clause
   license_family: BSD
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+  - pkg:pypi/soupsieve?source=compressed-mapping
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+  - spirv-headers >=1.4.350.0,<1.4.350.1.0a0
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+  - vtk-base >=9.6.2,<9.6.3.0a0
+  - vtk-io-ffmpeg >=9.6.2,<9.6.3.0a0
   - libboost-devel
   - liblzma-devel
-  - python_abi 3.13.* *_cp313
   - tbb-devel
-  - vtk-base >=9.5.1,<9.5.2.0a0
-  - vtk-io-ffmpeg >=9.5.1,<9.5.2.0a0
+  - eigen
+  - expat
+  - python_abi 3.14.* *_cp314
   license: BSD-3-Clause
   license_family: BSD
   purls: []
-  size: 27797
-  timestamp: 1760148961681
-- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-base-9.5.1-py313h49a8658_2.conda
-  sha256: f0cfa23c5cb3e169a3cea770be03b71daec33a075a48c850e378954bf71c2ac1
-  md5: 9c346fdf3ca4ccb71ca8908f576bc330
+  size: 27627
+  timestamp: 1780078536003
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-base-9.6.2-py314h46e7b30_2.conda
+  sha256: 8447e3da842d505abb64c1c006c5797efe956b5250862dc15a14c6097ea2e2b4
+  md5: 2ec0ad4606c8050ad1b39004bd0a15fb
   depends:
+  - python
+  - utfcpp
+  - nlohmann_json
+  - cli11
+  - numpy
+  - wslink
+  - matplotlib-base >=2.0.0
   - __osx >=11.0
-  - double-conversion >=3.3.1,<3.4.0a0
-  - fmt >=11.2.0,<11.3.0a0
-  - hdf5 >=1.14.6,<1.14.7.0a0
-  - jsoncpp >=1.9.6,<1.9.7.0a0
   - libcxx >=18
-  - libexpat >=2.7.1,<3.0a0
-  - libfreetype >=2.14.0
-  - libfreetype6 >=2.14.0
-  - libjpeg-turbo >=3.1.0,<4.0a0
-  - liblzma >=5.8.1,<6.0a0
-  - libnetcdf >=4.9.3,<4.9.4.0a0
+  - pugixml >=1.15,<1.16.0a0
+  - double-conversion >=3.4.0,<3.5.0a0
+  - libzlib >=1.3.2,<2.0a0
+  - proj >=9.8.1,<9.9.0a0
   - libogg >=1.3.5,<1.4.0a0
-  - libpng >=1.6.50,<1.7.0a0
-  - libsqlite >=3.50.4,<4.0a0
-  - libtheora >=1.1.1,<1.2.0a0
-  - libtiff >=4.7.0,<4.8.0a0
-  - libxml2 >=2.13.8,<2.14.0a0
-  - libzlib >=1.3.1,<2.0a0
-  - loguru
   - lz4-c >=1.10.0,<1.11.0a0
-  - matplotlib-base >=2.0.0
-  - nlohmann_json
-  - numpy
-  - proj >=9.6.2,<9.7.0a0
-  - pugixml >=1.15,<1.16.0a0
-  - python >=3.13,<3.14.0a0
-  - python_abi 3.13.* *_cp313
-  - qt6-main >=6.9.2,<6.10.0a0
-  - tbb >=2021.13.0
-  - utfcpp
-  - wslink
+  - python_abi 3.14.* *_cp314
+  - fmt >=12.1.0,<12.2.0a0
+  - viskores >=1.1.1,<1.2.0a0
+  - libnetcdf >=4.10.0,<4.10.1.0a0
+  - libtheora >=1.1.1,<1.2.0a0
+  - eigen-abi >=5.0.1.80,<5.0.1.81.0a0
+  - libfreetype >=2.14.3
+  - libfreetype6 >=2.14.3
+  - qt6-main >=6.11.1,<6.12.0a0
+  - libexpat >=2.8.1,<3.0a0
+  - libxml2
+  - libxml2-16 >=2.14.6
+  - hdf5 >=1.14.6,<1.14.7.0a0
+  - libpng >=1.6.58,<1.7.0a0
+  - liblzma >=5.8.3,<6.0a0
+  - libtiff >=4.7.1,<4.8.0a0
+  - jsoncpp >=1.9.7,<1.9.8.0a0
+  - tbb >=2023.0.0
+  - libjpeg-turbo >=3.1.4.1,<4.0a0
+  - libsqlite >=3.53.1,<4.0a0
   constrains:
-  - libboost-headers >=1.88.0,<1.89.0a0
-  - paraview ==9999999999
+  - libboost-headers >=1.90.0,<1.91.0a0
   license: BSD-3-Clause
   license_family: BSD
   purls:
   - pkg:pypi/vtk?source=hash-mapping
-  size: 47223731
-  timestamp: 1757763783737
-- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.5.1-h05a0aa4_2.conda
-  sha256: 17fbd95d28094db013112ef20f3958d641ccbc20a3b27ec651104dfc4257444b
-  md5: 6b823a10f2d90fc480f6334c5c9543ae
+  size: 66130465
+  timestamp: 1780078536003
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.6.2-py314hf590916_2.conda
+  sha256: 0ff2fda0e4d90087b971fcfe4c2c23ede83a5475fb989a712ebe6fb8e45309ff
+  md5: 1e1253336396c135ffb23dc1d22e5184
   depends:
-  - ffmpeg >=8.0.0,<9.0a0
-  - python_abi 3.13.* *_cp313
-  - vtk-base 9.5.1 py313h49a8658_2
+  - vtk-base ==9.6.2 py314h46e7b30_2
+  - ffmpeg
+  - ffmpeg >=8.1.1,<9.0a0
+  - python_abi 3.14.* *_cp314
   license: BSD-3-Clause
   license_family: BSD
   purls: []
-  size: 78640
-  timestamp: 1757764042676
+  size: 96378
+  timestamp: 1780078536003
 - conda: https://conda.anaconda.org/conda-forge/noarch/vulture-2.16-pyhd8ed1ab_0.conda
   sha256: 8110ce046263dfaf60b79f81e6b58189352ce0332dc9410e3e0f5dd05a6c17f0
   md5: 07eb801541c33aef793e6ce25de33eab
@@ -6840,16 +7032,17 @@ packages:
   - pkg:pypi/vulture?source=hash-mapping
   size: 29832
   timestamp: 1774490312775
-- conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.7.0-pyhd8ed1ab_0.conda
-  sha256: 1ee2d8384972ecbf8630ce8a3ea9d16858358ad3e8566675295e66996d5352da
-  md5: eb9538b8e55069434a18547f43b96059
+- conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.8.1-pyhd8ed1ab_0.conda
+  sha256: 5ddde23d65aecde7e8dac0b9d9c7821ead2b87a320d787f9e4288c0ee00fa332
+  md5: 19c961dd9cab6c3e13cd195f0176dbfa
   depends:
   - python >=3.10
   license: MIT
+  license_family: MIT
   purls:
   - pkg:pypi/wcwidth?source=compressed-mapping
-  size: 82917
-  timestamp: 1777744489106
+  size: 133769
+  timestamp: 1780932915297
 - conda: https://conda.anaconda.org/conda-forge/noarch/webcolors-25.10.0-pyhd8ed1ab_0.conda
   sha256: 21f6c8a20fe050d09bfda3fb0a9c3493936ce7d6e1b3b5f8b01319ee46d6c6f6
   md5: 6639b6b0d8b5a284f027a2003669aa65
@@ -6906,22 +7099,22 @@ packages:
   - pkg:pypi/widgetsnbextension?source=hash-mapping
   size: 889195
   timestamp: 1762040404362
-- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.1.2-py313hf59fe81_0.conda
-  sha256: a57f98b175c17cd5e1795129a7358bd688c2762b5d4a6c5809145bcd29d48435
-  md5: 7f40a21e6319c0b68e6bada3864caea6
+- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.2.1-py314h217eccc_0.conda
+  sha256: a90d03514537eee94864d6a04609302cb23a431dc8309d3aea6fbe1d1f8a756b
+  md5: 9f86c3d4374e038ff6adf8b048d63e41
   depends:
   - __osx >=11.0
-  - python >=3.13,<3.14.0a0
-  - python_abi 3.13.* *_cp313
+  - python >=3.14,<3.15.0a0
+  - python_abi 3.14.* *_cp314
   license: BSD-2-Clause
   license_family: BSD
   purls:
   - pkg:pypi/wrapt?source=hash-mapping
-  size: 84573
-  timestamp: 1772794979701
-- conda: https://conda.anaconda.org/conda-forge/noarch/wslink-2.5.6-pyhd8ed1ab_0.conda
-  sha256: 0754558be231485ee835b0db11bace246ecd5465143a355029b039803ea716b0
-  md5: d34454e27bb9ec7025cefccfa92908ad
+  size: 113324
+  timestamp: 1779477771375
+- conda: https://conda.anaconda.org/conda-forge/noarch/wslink-2.5.7-pyhd8ed1ab_0.conda
+  sha256: 894762dc1a6520888de7cbe8d6f59999a94005aad11951fddcfdbef85d726a2d
+  md5: 410dee7cbee308f33b01645f16f11efc
   depends:
   - aiohttp <4
   - msgpack-python >=1,<2
@@ -6929,9 +7122,9 @@ packages:
   license: BSD-3-Clause
   license_family: BSD
   purls:
-  - pkg:pypi/wslink?source=hash-mapping
-  size: 36729
-  timestamp: 1773305846931
+  - pkg:pypi/wslink?source=compressed-mapping
+  size: 36803
+  timestamp: 1778826669944
 - conda: https://conda.anaconda.org/conda-forge/osx-64/x264-1!164.3095-h775f41a_2.tar.bz2
   sha256: de611da29f4ed0733a330402e163f9260218e6ba6eae593a5f945827d0ee1069
   md5: 23e9c3180e2c0f9449bb042914ec2200
@@ -7003,38 +7196,50 @@ packages:
   purls: []
   size: 79419
   timestamp: 1753484072608
-- conda: https://conda.anaconda.org/conda-forge/osx-64/yarl-1.23.0-py313h035b7d0_0.conda
-  sha256: 5aab7ac9f93b8b5ca87fc4bbd00e3596ded9f87991ae0ddf205ca9753008754e
-  md5: 89e89e8253cb448d833a766ab5a05099
+- conda: https://conda.anaconda.org/conda-forge/noarch/yarl-1.24.2-pyh7db6752_0.conda
+  sha256: 360b1a9367e076fdb7889d6fc902a57041e6c190ecfd4d3660f84bd3c91a36b5
+  md5: 517da2b90b0910492f03ae3b297efff9
   depends:
-  - __osx >=11.0
   - idna >=2.0
   - multidict >=4.0
   - propcache >=0.2.1
-  - python >=3.13,<3.14.0a0
-  - python_abi 3.13.* *_cp313
+  - python >=3.10
+  track_features:
+  - yarl_no_compile
   license: Apache-2.0
   license_family: Apache
   purls:
   - pkg:pypi/yarl?source=hash-mapping
-  size: 141492
-  timestamp: 1772409672019
-- conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h6c33b1e_9.conda
-  sha256: 30aa5a2e9c7b8dbf6659a2ccd8b74a9994cdf6f87591fcc592970daa6e7d3f3c
-  md5: d940d809c42fbf85b05814c3290660f5
+  size: 81559
+  timestamp: 1779246114561
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h84953be_11.conda
+  sha256: 2ba9b6a3131b5a97641068559d38c044f37fd29b54c10dd6d073f1cf81fc4e4c
+  md5: 8a622d1db89d80a94477b1c03824d611
   depends:
-  - __osx >=10.13
   - libcxx >=19
-  - libsodium >=1.0.20,<1.0.21.0a0
-  - krb5 >=1.21.3,<1.22.0a0
+  - __osx >=11.0
+  - krb5 >=1.22.2,<1.23.0a0
+  - libsodium >=1.0.22,<1.0.23.0a0
   license: MPL-2.0
   license_family: MOZILLA
   purls: []
-  size: 259628
-  timestamp: 1757371000392
-- conda: https://conda.anaconda.org/conda-forge/noarch/zipp-3.23.1-pyhcf101f3_0.conda
-  sha256: 523616c0530d305d2216c2b4a8dfd3872628b60083255b89c5e0d8c42e738cca
-  md5: e1c36c6121a7c9c76f2f148f1e83b983
+  size: 260817
+  timestamp: 1779124180318
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zfp-1.0.1-h1b13a81_4.conda
+  sha256: fa9f5df5c864abe1360633029789c9d54881d75752e064d0b76ea0ba578cbff6
+  md5: ab3f885d2b4f24cdcbc91926f3ad9301
+  depends:
+  - __osx >=10.13
+  - libcxx >=19
+  - llvm-openmp >=19.1.7
+  license: BSD-3-Clause
+  license_family: BSD
+  purls: []
+  size: 211942
+  timestamp: 1766458562226
+- conda: https://conda.anaconda.org/conda-forge/noarch/zipp-4.1.0-pyhcf101f3_0.conda
+  sha256: 210bd31c22bb88f5e2a167df24c95bb5f152b2ada7502f9b8c49d1f5366db423
+  md5: ba3dcdc8584155c97c648ae9c044b7a3
   depends:
   - python >=3.10
   - python
@@ -7042,8 +7247,8 @@ packages:
   license_family: MIT
   purls:
   - pkg:pypi/zipp?source=compressed-mapping
-  size: 24461
-  timestamp: 1776131454755
+  size: 24190
+  timestamp: 1779159948016
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zlib-1.3.2-hbb4bfdb_2.conda
   sha256: 5dd728cebca2e96fa48d41661f1a35ed0ee3cb722669eee4e2d854c6745655eb
   md5: 6276aa61ffc361cbf130d78cfb88a237
@@ -7066,22 +7271,6 @@ packages:
   purls: []
   size: 120464
   timestamp: 1770168263684
-- conda: https://conda.anaconda.org/conda-forge/osx-64/zstandard-0.25.0-py313hcb05632_1.conda
-  sha256: eed36460cfd4afdcb5e3dbca1f493dd9251e90ad793680064efdeb72d95f16a0
-  md5: da657125cfc67fe18e4499cf88dbe512
-  depends:
-  - python
-  - cffi >=1.11
-  - zstd >=1.5.7,<1.5.8.0a0
-  - __osx >=10.13
-  - python_abi 3.13.* *_cp313
-  - zstd >=1.5.7,<1.6.0a0
-  license: BSD-3-Clause
-  license_family: BSD
-  purls:
-  - pkg:pypi/zstandard?source=hash-mapping
-  size: 468984
-  timestamp: 1762512716065
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zstd-1.5.7-h3eecb57_6.conda
   sha256: 47101a4055a70a4876ffc87b750ab2287b67eca793f21c8224be5e1ee6394d3f
   md5: 727109b184d680772e3122f40136d5ca

From c8628ba84eb5d1e1829026029ccc9636e1f401d2 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 24 Jun 2026 11:25:01 -0500
Subject: [PATCH 090/117] bump py

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 469c31a7113..c082fb7d41b 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -80,7 +80,7 @@ jobs:
             python: '3.14'
             kind: pip
           - os: macos-15-intel  # Intel
-            python: '3.13'
+            python: '3.14'
             kind: pixi
           - os: ubuntu-latest
             python: '3.12'

From a0b21d48af4d6449889b3c2c03c53d34ee88a889 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 24 Jun 2026 11:43:07 -0500
Subject: [PATCH 091/117] skip gh_actions_deps.sh for pixi

---
 .github/workflows/tests.yml          | 1 +
 tools/github_actions_dependencies.sh | 4 ----
 2 files changed, 1 insertion(+), 4 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index c082fb7d41b..52cfda1586f 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -164,6 +164,7 @@ jobs:
       - run: bash ./tools/github_actions_verify_python.sh "${{ matrix.python }}"
       - run: bash ./tools/github_actions_dependencies.sh
         timeout-minutes: 10
+        if: matrix.kind != 'pixi'
       - run: python ./tools/github_actions_check_old_env.py
         if: matrix.kind == 'old'
       # Minimal commands on Linux (macOS stalls)
diff --git a/tools/github_actions_dependencies.sh b/tools/github_actions_dependencies.sh
index b5acea877e3..3ee5986cfa9 100755
--- a/tools/github_actions_dependencies.sh
+++ b/tools/github_actions_dependencies.sh
@@ -36,10 +36,6 @@ elif [[ "${MNE_CI_KIND}" == "pip" ]]; then
 	GROUP="test_extra"
 	EXTRAS="[full-pyside6]"
 	python -m pip install --upgrade pip setuptools
-elif [[ "${MNE_CI_KIND}" == "pixi" ]]; then
-	GROUP="test_extra"
-	EXTRAS="[hdf5]"
-	INSTALL_ARGS=""
 else
 	test "${MNE_CI_KIND}" == "pip-pre"
 	python -m pip install $STD_ARGS pip setuptools

From 814e1d160f3135b7a4076e6571270d355aee391f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 8 Jul 2026 21:17:24 -0700
Subject: [PATCH 092/117] [skip circle][skip azp] specify python version

---
 .github/workflows/tests.yml    |    2 +-
 tools/ci/macos-intel/pixi.lock | 3006 ++++++++++++++++----------------
 tools/ci/macos-intel/pixi.toml |    1 +
 tools/write-pixi-toml.py       |   18 +
 4 files changed, 1551 insertions(+), 1476 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 52cfda1586f..81b89e8fc45 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -80,7 +80,7 @@ jobs:
             python: '3.14'
             kind: pip
           - os: macos-15-intel  # Intel
-            python: '3.14'
+            python: '3.13'
             kind: pixi
           - os: ubuntu-latest
             python: '3.12'
diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index 0b44e4af513..96bba5f31f5 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -5,93 +5,90 @@ environments:
     - url: https://conda.anaconda.org/conda-forge/
     indexes:
     - https://pypi.org/simple
-    options:
-      pypi-prerelease-mode: if-necessary-or-explicit
     packages:
       osx-64:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.6.2-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohttp-3.14.1-pyhf64b827_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.7.1-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.14.1-py313h6f5309d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/alabaster-1.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.7.0-py311hadf7373_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.13.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.14.1-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.14.1-pl5321h3d58d69_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/appnope-0.1.4-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py314h6482030_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/ast-serialize-0.5.0-py310hb9b2626_1.conda
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+  - pkg:pypi/distlib?source=compressed-mapping
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+  md5: c74610f2af492e29a28848880c048d09
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+  - libexpat 2.8.1 hcc62823_1
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/ffmpeg-8.1.2-gpl_h5ea587e_102.conda
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-  - harfbuzz >=14.2.1
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-  - libass >=0.17.4,<0.17.5.0a0
+  - libass >=0.17.5,<0.17.6.0a0
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   - libexpat >=2.8.1,<3.0a0
   - libfreetype >=2.14.3
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+  - libharfbuzz >=14.2.1
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-  - libopenvino-tensorflow-lite-frontend >=2026.2.0,<2026.2.1.0a0
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   - openh264 >=2.6.0,<2.6.1.0a0
-  - openssl >=3.5.6,<4.0a0
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-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
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+  - typeguard >=4.5.2
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+  - python >=3.13,<3.14.0a0
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-  - python >=3.14,<3.15.0a0
-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
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+  - python_abi 3.13.* *_cp313
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+  - python_abi 3.13.* *_cp313
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   - psutil >=4.0
   - __osx >=11.0
-  - python_abi 3.14.* *_cp314
+  - python_abi 3.13.* *_cp313
   license: MIT
-  license_family: MIT
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-  - pkg:pypi/mypy?source=compressed-mapping
-  size: 14767202
-  timestamp: 1780315780679
+  - pkg:pypi/mypy?source=hash-mapping
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+  timestamp: 1783529252836
 - conda: https://conda.anaconda.org/conda-forge/noarch/mypy_extensions-1.1.0-pyha770c72_0.conda
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   timestamp: 1745776666688
-- conda: https://conda.anaconda.org/conda-forge/noarch/narwhals-2.22.1-pyhcf101f3_0.conda
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-  md5: 9450fb40fb1e147d0bcbdf07cd02ca96
+- conda: https://conda.anaconda.org/conda-forge/noarch/narwhals-2.23.0-pyhcf101f3_0.conda
+  sha256: e7dbd69d1de038b0411636c50bd9a935d05ca37269c4a155a78571afbaa7994a
+  md5: a537eb35988a6f2b1ceda6cce83e2f0e
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   - python
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   license_family: MIT
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-  size: 285532
-  timestamp: 1780672242196
+  size: 288381
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/nh3-0.3.5-py310hb9b2626_1.conda
+- conda: https://conda.anaconda.org/conda-forge/osx-64/nh3-0.3.6-py310hb9b2626_0.conda
   noarch: python
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-  md5: 5a6375a3990ae19d8e856f56d97610cb
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   - __osx >=11.0
   - _python_abi3_support 1.*
   - cpython >=3.10
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+  - __osx >=11.0
   license: MIT
   license_family: MIT
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-  size: 658479
-  timestamp: 1777219253389
+  size: 652268
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@@ -4710,13 +4785,13 @@ packages:
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-- conda: https://conda.anaconda.org/conda-forge/noarch/notebook-7.5.7-pyhcf101f3_1.conda
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-  md5: 92b46e8c96039d3d7c4958f426bca753
+- conda: https://conda.anaconda.org/conda-forge/noarch/notebook-7.6.0-pyhcf101f3_0.conda
+  sha256: 5b48c26a966caae81169cc8056321a4c139103880eb01e1f4f02ad6ff9390421
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-  - jupyter_server >=2.4.0,<3
-  - jupyterlab >=4.5.8,<4.6
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+  - jupyter-builder >=1.0.2,<2
+  - jupyterlab >=4.6.0,<4.7
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   - notebook-shim >=0.2,<0.3
   - python >=3.10
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   license_family: BSD
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-  size: 10118664
-  timestamp: 1780599271871
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/numba-0.65.1-py314h34b395f_1.conda
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-  md5: af9134924a0f620b0e80cf339b8abaed
+- conda: https://conda.anaconda.org/conda-forge/osx-64/numba-0.65.1-py313h4fc6aae_1.conda
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   - numpy >=1.23,<3
-  - python >=3.14,<3.15.0a0
-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   constrains:
-  - cudatoolkit >=11.2
+  - libopenblas !=0.3.6
+  - tbb >=2021.6.0
   - scipy >=1.0
+  - cudatoolkit >=11.2
   - cuda-version >=11.2
-  - tbb >=2021.6.0
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-  - libopenblas !=0.3.6
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/numexpr-2.14.1-py313hb9105e7_2.conda
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-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   license: MIT
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-  - libcxx >=19
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-  - libblas >=3.9.0,<4.0a0
-  - python_abi 3.14.* *_cp314
+  - libcxx >=19
   - liblapack >=3.9.0,<4.0a0
+  - libblas >=3.9.0,<4.0a0
   - libcblas >=3.9.0,<4.0a0
+  - python_abi 3.13.* *_cp313
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   license: BSD-3-Clause
   license_family: BSD
   purls:
   - pkg:pypi/numpy?source=hash-mapping
-  size: 8155498
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+  size: 8068573
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 - conda: https://conda.anaconda.org/conda-forge/noarch/numpydoc-1.10.0-pyhcf101f3_0.conda
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/openh264-2.6.0-h4883158_0.conda
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   purls: []
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/openmeeg-2.5.16-np2py310hea33e51_3.conda
+  noarch: python
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-  - libgfortran
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-  - numpy >=1.23,<3
-  - python >=3.14,<3.15.0a0
-  - python_abi 3.14.* *_cp314
-  - zlib
+  - libmatio >=1.5.30,<1.5.31.0a0
+  - numpy >=1.21,<3
+  - _python_abi3_support 1.*
+  - cpython >=3.10
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+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   license: MIT
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   purls:
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-  - zstd >=1.5.7,<1.6.0a0
+  - __osx >=12.0
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-  - lz4-c >=1.10.0,<1.11.0a0
-  - libabseil >=20260107.1,<20260108.0a0
+  - libprotobuf >=7.35.1,<7.35.2.0a0
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+  - libabseil >=20260526.0,<20260527.0a0
   - libabseil * cxx17*
+  - lz4-c >=1.10.0,<1.11.0a0
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   license: Apache-2.0
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/pandas-3.0.3-py314h99bb933_0.conda
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/pandas-3.0.3-py313hfd25234_0.conda
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+  md5: 4942165df70ab41f6487ceaa0ff6bb67
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-  - __osx >=11.0
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+  - __osx >=11.0
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-  - python_abi 3.14.* *_cp314
+  - python_abi 3.13.* *_cp313
   constrains:
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@@ -5009,8 +5081,8 @@ packages:
   license_family: BSD
   purls:
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-  size: 14597208
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+  size: 14290954
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/pillow-12.2.0-py314hc904d5e_0.conda
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/pillow-12.3.0-py313h23d381d_0.conda
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-  - lcms2 >=2.18,<3.0a0
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+  - python_abi 3.13.* *_cp313
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-  - zlib-ng >=2.3.3,<2.4.0a0
-  - openjpeg >=2.5.4,<3.0a0
-  - libjpeg-turbo >=3.1.2,<4.0a0
-  - python_abi 3.14.* *_cp314
-  - libxcb >=1.17.0,<2.0a0
+  - lcms2 >=2.19.1,<3.0a0
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+  - openjpeg >=2.5.4,<3.0a0
+  - zlib-ng >=2.3.3,<2.4.0a0
+  - libjpeg-turbo >=3.1.4.1,<4.0a0
   license: HPND
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-  size: 1015315
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+  - pkg:pypi/pillow?source=compressed-mapping
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 - conda: https://conda.anaconda.org/conda-forge/noarch/pip-26.1.2-pyh145f28c_0.conda
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/portalocker-3.2.0-py314hee6578b_1.conda
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/portalocker-3.2.0-py313habf4b1d_1.conda
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+  - libsqlite >=3.53.3,<4.0a0
+  - qt6-main >=6.11.1,<7.0a0
+  - fmt >=12.1.0,<12.2.0a0
+  - libpng >=1.6.58,<1.7.0a0
+  - viskores >=1.1.1,<1.2.0a0
   constrains:
   - libboost-headers >=1.90.0,<1.91.0a0
   license: BSD-3-Clause
   license_family: BSD
   purls:
   - pkg:pypi/vtk?source=hash-mapping
-  size: 66130465
-  timestamp: 1780078536003
-- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.6.2-py314hf590916_2.conda
-  sha256: 0ff2fda0e4d90087b971fcfe4c2c23ede83a5475fb989a712ebe6fb8e45309ff
-  md5: 1e1253336396c135ffb23dc1d22e5184
+  size: 66111218
+  timestamp: 1783197801977
+- conda: https://conda.anaconda.org/conda-forge/osx-64/vtk-io-ffmpeg-9.6.2-py313h75f3ab7_4.conda
+  sha256: 82f1e8d9e58e9fc662f1183f37329ad833205b07cedcd27511ff97eaaf5670f8
+  md5: 820ba16ec24c8ee19ff517884f0bccb3
   depends:
-  - vtk-base ==9.6.2 py314h46e7b30_2
+  - vtk-base ==9.6.2 py313h7f27744_4
   - ffmpeg
-  - ffmpeg >=8.1.1,<9.0a0
-  - python_abi 3.14.* *_cp314
+  - ffmpeg >=8.1.2,<9.0a0
+  - python_abi 3.13.* *_cp313
   license: BSD-3-Clause
   license_family: BSD
   purls: []
-  size: 96378
-  timestamp: 1780078536003
+  size: 96998
+  timestamp: 1783197801977
 - conda: https://conda.anaconda.org/conda-forge/noarch/vulture-2.16-pyhd8ed1ab_0.conda
   sha256: 8110ce046263dfaf60b79f81e6b58189352ce0332dc9410e3e0f5dd05a6c17f0
   md5: 07eb801541c33aef793e6ce25de33eab
@@ -7032,17 +7088,17 @@ packages:
   - pkg:pypi/vulture?source=hash-mapping
   size: 29832
   timestamp: 1774490312775
-- conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.8.1-pyhd8ed1ab_0.conda
-  sha256: 5ddde23d65aecde7e8dac0b9d9c7821ead2b87a320d787f9e4288c0ee00fa332
-  md5: 19c961dd9cab6c3e13cd195f0176dbfa
+- conda: https://conda.anaconda.org/conda-forge/noarch/wcwidth-0.8.2-pyhd8ed1ab_0.conda
+  sha256: 4acf845da404e84cef1acccc66cc0156af1b83a5b5d7077b2ca19b705c561e57
+  md5: 99f7755ec8648a042b0dbe906234f888
   depends:
   - python >=3.10
   license: MIT
   license_family: MIT
   purls:
   - pkg:pypi/wcwidth?source=compressed-mapping
-  size: 133769
-  timestamp: 1780932915297
+  size: 132415
+  timestamp: 1782771807703
 - conda: https://conda.anaconda.org/conda-forge/noarch/webcolors-25.10.0-pyhd8ed1ab_0.conda
   sha256: 21f6c8a20fe050d09bfda3fb0a9c3493936ce7d6e1b3b5f8b01319ee46d6c6f6
   md5: 6639b6b0d8b5a284f027a2003669aa65
@@ -7099,19 +7155,19 @@ packages:
   - pkg:pypi/widgetsnbextension?source=hash-mapping
   size: 889195
   timestamp: 1762040404362
-- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.2.1-py314h217eccc_0.conda
-  sha256: a90d03514537eee94864d6a04609302cb23a431dc8309d3aea6fbe1d1f8a756b
-  md5: 9f86c3d4374e038ff6adf8b048d63e41
+- conda: https://conda.anaconda.org/conda-forge/osx-64/wrapt-2.2.2-py313hf59fe81_0.conda
+  sha256: 892f41507f2dcf8392229c996f7f9ea2baea154f58e45b9b8785ed663f0a6408
+  md5: ccdb745108d3bcfa77d6691d172e6992
   depends:
   - __osx >=11.0
-  - python >=3.14,<3.15.0a0
-  - python_abi 3.14.* *_cp314
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   license: BSD-2-Clause
   license_family: BSD
   purls:
-  - pkg:pypi/wrapt?source=hash-mapping
-  size: 113324
-  timestamp: 1779477771375
+  - pkg:pypi/wrapt?source=compressed-mapping
+  size: 113519
+  timestamp: 1782134186680
 - conda: https://conda.anaconda.org/conda-forge/noarch/wslink-2.5.7-pyhd8ed1ab_0.conda
   sha256: 894762dc1a6520888de7cbe8d6f59999a94005aad11951fddcfdbef85d726a2d
   md5: 410dee7cbee308f33b01645f16f11efc
@@ -7196,22 +7252,22 @@ packages:
   purls: []
   size: 79419
   timestamp: 1753484072608
-- conda: https://conda.anaconda.org/conda-forge/noarch/yarl-1.24.2-pyh7db6752_0.conda
-  sha256: 360b1a9367e076fdb7889d6fc902a57041e6c190ecfd4d3660f84bd3c91a36b5
-  md5: 517da2b90b0910492f03ae3b297efff9
+- conda: https://conda.anaconda.org/conda-forge/osx-64/yarl-1.24.2-py313h035b7d0_0.conda
+  sha256: edbf070467ee70fee10c06b658ac30d607d9197073f1f6c615a26134a43afb34
+  md5: 4b8c1c9d00e55f1cfd38e4f0c79f314f
   depends:
+  - __osx >=11.0
   - idna >=2.0
   - multidict >=4.0
   - propcache >=0.2.1
-  - python >=3.10
-  track_features:
-  - yarl_no_compile
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
   license: Apache-2.0
   license_family: Apache
   purls:
   - pkg:pypi/yarl?source=hash-mapping
-  size: 81559
-  timestamp: 1779246114561
+  size: 148142
+  timestamp: 1779246485846
 - conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h84953be_11.conda
   sha256: 2ba9b6a3131b5a97641068559d38c044f37fd29b54c10dd6d073f1cf81fc4e4c
   md5: 8a622d1db89d80a94477b1c03824d611
diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index 98db694b162..0b36abed4c4 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -60,6 +60,7 @@ pytest-cov = ">=4.1"
 pytest-qt = ">=4.3"
 pytest-rerunfailures = "*"
 pytest-timeout = ">=2.2"
+python = "3.13.*"
 python-neo = "*"
 python-picard = ">=0.4"
 pyvista = ">=0.43"
diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 6053ac08870..9616fbf62b4 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -5,6 +5,7 @@
 from pathlib import Path
 
 import tomlkit
+import yaml
 
 
 def pip_to_pixi(dependencies_list):
@@ -22,6 +23,7 @@ def pip_to_pixi(dependencies_list):
 pypi_dependencies = ["pymef"]  # "nest-asyncio2", "pyobjc-framework-Cocoa"]
 
 repo_root = Path(__file__).resolve().parent.parent
+tests_yaml_fpath = repo_root / ".github" / "workflows" / "tests.yml"
 pyproject_fpath = repo_root / "pyproject.toml"
 pyproject = tomlkit.loads(pyproject_fpath.read_bytes())
 outfile = repo_root / "tools" / "ci" / "macos-intel" / "pixi.toml"
@@ -29,6 +31,19 @@ def pip_to_pixi(dependencies_list):
 # handle naming differences between PyPI and conda-forge
 remapping = dict(neo="python-neo")
 
+# Specify the python version that our pixi job wants
+with open(tests_yaml_fpath) as fid:
+    test_yaml = yaml.safe_load(fid)
+
+foo = test_yaml["jobs"]["pytest"]["strategy"]["matrix"]["include"]
+for job in foo:
+    if job["os"] == "macos-15-intel":
+        python_version = job["python"]
+        # Pixi complains if we don't specify a patch version
+        if len(python_version.split(".")) <= 2:
+            python_version += ".*"
+        break
+
 # in keys: build-system, dependency-groups, project, tool
 # out keys: workspace, dependencies, pypi-dependencies (may need tasks)
 out = dict()
@@ -58,6 +73,9 @@ def pip_to_pixi(dependencies_list):
 # handle mismatch between names on PyPI and conda-forge
 dependencies = [remapping.get(dep, dep) for dep in dependencies]
 
+# Add Python Version
+dependencies.append(f"python {python_version}")
+
 # exclude pypi-only deps
 dependencies = sorted(set(dependencies) - set(pypi_dependencies))
 

From 1f9e87d0707d115ee399d215c6438453060187c4 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Thu, 9 Jul 2026 10:18:58 -0700
Subject: [PATCH 093/117] update pixi toml/lock

---
 tools/ci/macos-intel/pixi.lock | 303 +++++++--------------------------
 tools/ci/macos-intel/pixi.toml |  22 +--
 2 files changed, 67 insertions(+), 258 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index 96bba5f31f5..9c464d40807 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -67,7 +67,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/charset-normalizer-3.4.9-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/cli11-2.6.2-h2fb4741_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/click-8.4.2-pyhc90fa1f_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/click-option-group-0.5.6-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/codespell-2.4.2-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/comm-0.2.3-pyhe01879c_0.conda
@@ -96,7 +95,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/eeglabio-0.1.3-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/eigen-5.0.1-h4ff50a2_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/eigen-abi-5.0.1.80-h969a130_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/et_xmlfile-2.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.3.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/executing-2.2.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/expat-2.8.1-hcc62823_1.conda
@@ -129,7 +127,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/harfbuzz-14.2.1-h694c41f_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/hdf4-4.2.15-h8138101_7.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/hdf5-1.14.6-nompi_h13accda_110.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/hedtools-1.1.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/hpack-4.2.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/httpcore-1.0.9-pyh29332c3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/httpx-0.28.1-pyhd8ed1ab_0.conda
@@ -143,7 +140,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/imagesize-2.0.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/importlib-metadata-9.0.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/importlib_resources-7.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/inflect-7.5.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/iniconfig-2.3.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipyevents-2.0.4-pyhbbac1ac_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ipykernel-7.3.0-pyh01cf8df_0.conda
@@ -202,8 +198,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libbrotlidec-1.2.0-h8616949_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libbrotlienc-1.2.0-h8616949_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcblas-3.11.0-8_h9b27e0a_openblas.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/libclang-cpp22.1-22.1.8-default_h5a1b869_3.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/libclang13-22.1.8-default_h9a620b7_3.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcrc32c-1.1.2-he49afe7_0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcurl-8.21.0-h06afde3_2.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcxx-22.1.8-h19cb2f5_0.conda
@@ -222,7 +216,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libglib-2.88.2-hf28f236_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libgoogle-cloud-3.6.0-he806f76_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libgoogle-cloud-storage-3.6.0-h1159701_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/libgrpc-1.82.0-h00dac5a_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/libgrpc-1.82.1-h00dac5a_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libharfbuzz-14.2.1-h97ceea7_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libharfbuzz-devel-14.2.1-h97ceea7_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libhwloc-2.13.0-default_h4e3125e_1000.conda
@@ -295,9 +289,8 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/mdurl-0.1.2-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/mesalib-26.0.3-hd99e324_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/mffpy-0.11.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/mistune-3.3.2-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/mistune-3.3.3-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/mne-base-1.12.1-pyh694c41f_200.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/mne-bids-0.19.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/mne-qt-browser-0.7.5-pyh0555025_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/more-itertools-11.1.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/msgpack-python-1.2.1-py313h224b87c_1.conda
@@ -328,7 +321,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/openjpeg-2.5.4-h52bb76a_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/openldap-2.6.13-h2f5043c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/openmeeg-2.5.16-np2py310hea33e51_3.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/openpyxl-3.1.5-py313hc34da29_3.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/openssl-3.6.3-hc881268_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/orc-2.3.0-h982cfee_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/orderly-set-5.5.0-pyhe01879c_0.conda
@@ -349,7 +341,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/pluggy-1.6.0-pyhf9edf01_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/ply-3.11-pyhd8ed1ab_3.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pooch-1.9.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/portalocker-3.2.0-py313habf4b1d_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pre-commit-4.6.0-pyha770c72_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/proj-9.8.1-he69a98e_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/prometheus-cpp-1.3.0-h7802330_0.conda
@@ -372,7 +363,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/pyobjc-framework-cocoa-12.2.1-py313hc6ffd0f_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.3.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pyqtgraph-0.14.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/pyside6-6.11.1-py313ha920778_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha55dd90_7.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-9.1.1-pyhc364b38_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-cov-7.1.0-pyhcf101f3_0.conda
@@ -381,7 +371,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-timeout-2.4.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/python-3.13.14-h3d5d122_100_cp313.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-dateutil-2.9.0.post0-pyhe01879c_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/python-discovery-1.4.3-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/python-discovery-1.4.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-fastjsonschema-2.21.2-pyhe01879c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-gil-3.13.14-h4df99d1_100.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-json-logger-4.1.0-pyhd8ed1ab_0.conda
@@ -404,6 +394,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/readline-8.3-h68b038d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/readme_renderer-45.0-pyhcf101f3_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/referencing-0.37.0-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/refleak-0.1.1-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/requests-2.34.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/requests-toolbelt-1.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/rfc3339-validator-0.1.4-pyhd8ed1ab_1.conda
@@ -420,7 +411,6 @@ environments:
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-  md5: 7d5de798a497fbcd6720b862478975ed
-  depends:
-  - python >=2.7
-  license: BSD-2-Clause
-  license_family: BSD
-  purls:
-  - pkg:pypi/semantic-version?source=hash-mapping
-  size: 17923
-  timestamp: 1653579450384
 - conda: https://conda.anaconda.org/conda-forge/noarch/send2trash-2.1.0-pyh5552912_1.conda
   sha256: 8fc024bf1a7b99fc833b131ceef4bef8c235ad61ecb95a71a6108be2ccda63e8
   md5: b70e2d44e6aa2beb69ba64206a16e4c6
@@ -6442,19 +6279,6 @@ packages:
   - pkg:pypi/sphinx?source=hash-mapping
   size: 1584836
   timestamp: 1767271941650
-- conda: https://conda.anaconda.org/conda-forge/noarch/sphinx-gallery-0.21.0-pyhd8ed1ab_0.conda
-  sha256: e6d29bca607436e72362f07638b5425892e4453476f997fd93698dfae3893b60
-  md5: 9b783047bd5bef0998f129bef8fad477
-  depends:
-  - pillow
-  - python >=3.10
-  - sphinx >=4
-  license: BSD-3-Clause
-  license_family: BSD
-  purls:
-  - pkg:pypi/sphinx-gallery?source=hash-mapping
-  size: 398898
-  timestamp: 1777021908652
 - conda: https://conda.anaconda.org/conda-forge/noarch/sphinxcontrib-applehelp-2.0.0-pyhd8ed1ab_1.conda
   sha256: d7433a344a9ad32a680b881c81b0034bc61618d12c39dd6e3309abeffa9577ba
   md5: 16e3f039c0aa6446513e94ab18a8784b
@@ -6769,6 +6593,23 @@ packages:
   - pkg:pypi/trame-common?source=hash-mapping
   size: 30742
   timestamp: 1781144524072
+- conda: https://conda.anaconda.org/conda-forge/noarch/trame-pyvista-0.1.1-pyhd8ed1ab_0.conda
+  sha256: f57d75ab1c94f780cf9ce6815537e1c8b8837266eaeb6d07f4cf70175d25dd55
+  md5: 859860608d349eb9554b679cfb3eee1e
+  depends:
+  - python >=3.10
+  - pyvista >=0.48
+  - trame >=2.5.2
+  - trame-client >=2.12.7
+  - trame-server >=2.11.7,!=3.7.*,!=3.8.0
+  - trame-vtk >=2.5.8,<2.11.9,!=2.10.3,!=2.11.0,!=2.11.1,!=2.11.2,!=2.11.3,!=2.11.4,!=2.11.5,!=2.11.6
+  - trame-vuetify >=2.3.1
+  license: MIT
+  license_family: MIT
+  purls:
+  - pkg:pypi/trame-pyvista?source=hash-mapping
+  size: 27109
+  timestamp: 1778525677153
 - conda: https://conda.anaconda.org/conda-forge/noarch/trame-server-3.12.5-pyhd8ed1ab_0.conda
   sha256: 943d621fdfe14ad12e8d7ca69bbd5c0a1a86a2dbff8d58051381abae7284a58d
   md5: f1cb3d096b4f98c66b4781cc0a4d5d08
@@ -6783,9 +6624,9 @@ packages:
   - pkg:pypi/trame-server?source=hash-mapping
   size: 43294
   timestamp: 1781146298878
-- conda: https://conda.anaconda.org/conda-forge/noarch/trame-vtk-2.11.13-pyh36a8613_0.conda
-  sha256: b415778857d19121f26e0cde525c9302936dbb10c8a073e89b1869dd33a4851a
-  md5: 0efc61a93ae063ca034d34864b4c13f1
+- conda: https://conda.anaconda.org/conda-forge/noarch/trame-vtk-2.11.8-pyh36a8613_0.conda
+  sha256: 99453a52e147a67b1d592381ac169b5c2e92005b3b2d13a53d209c571a41726c
+  md5: 0a48f51cdf078022449f7a8a55acc99b
   depends:
   - python >=3.10
   - trame-client
@@ -6793,8 +6634,8 @@ packages:
   license_family: BSD
   purls:
   - pkg:pypi/trame-vtk?source=hash-mapping
-  size: 588275
-  timestamp: 1782876707175
+  size: 620764
+  timestamp: 1777000907104
 - conda: https://conda.anaconda.org/conda-forge/noarch/trame-vuetify-3.2.2-pyhd8ed1ab_0.conda
   sha256: 7de14bd1a7064571ed501f6fe2eb2f76a17b1d0e50b3af3baab1195e67a0f5e7
   md5: e53dfbb2c92d6341b234a8bb5ea54422
@@ -6845,22 +6686,6 @@ packages:
   - pkg:pypi/twine?source=hash-mapping
   size: 42488
   timestamp: 1757013705407
-- conda: https://conda.anaconda.org/conda-forge/noarch/typeguard-4.5.2-pyhcf101f3_0.conda
-  sha256: 59d7851d32fddb5b510272e6557aa982edeb927d349648dac27f5bf01d18bb26
-  md5: 4460f039b7dedf15f7df086446ca75ae
-  depends:
-  - typing_extensions >=4.14.0
-  - python >=3.10
-  - importlib-metadata >=3.6
-  - python
-  constrains:
-  - pytest >=7
-  license: MIT
-  license_family: MIT
-  purls:
-  - pkg:pypi/typeguard?source=hash-mapping
-  size: 38297
-  timestamp: 1778779291237
 - conda: https://conda.anaconda.org/conda-forge/noarch/typer-0.26.8-pyhcf101f3_0.conda
   sha256: a97b824609402c81951640f61abe010bdaa728889c23673ac6c43863cb946c45
   md5: 8bd9c1e0ff3a31a11e21c3f04c2d0f8b
@@ -7132,18 +6957,6 @@ packages:
   - pkg:pypi/websocket-client?source=hash-mapping
   size: 61391
   timestamp: 1759928175142
-- conda: https://conda.anaconda.org/conda-forge/noarch/wheel-0.47.0-pyhd8ed1ab_0.conda
-  sha256: 9e156ffaefb8463437144326ada4b85d1de17961b9997ac5f1cbbaf747bd8bed
-  md5: d0e3b2f0030cf4fca58bde71d246e94c
-  depends:
-  - packaging >=24.0
-  - python >=3.10
-  license: MIT
-  license_family: MIT
-  purls:
-  - pkg:pypi/wheel?source=hash-mapping
-  size: 33491
-  timestamp: 1776878563806
 - conda: https://conda.anaconda.org/conda-forge/noarch/widgetsnbextension-4.0.15-pyhd8ed1ab_0.conda
   sha256: 826af5e2c09e5e45361fa19168f46ff524e7a766022615678c3a670c45895d9a
   md5: dc257b7e7cad9b79c1dfba194e92297b
diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index 0b36abed4c4..f0c3bc9f0e7 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -6,7 +6,6 @@ platforms = ["osx-64"]
 version = "0.1.0"
 
 [dependencies]
-PySide6 = "!=6.7.0,!=6.8.0,!=6.8.0.1,!=6.9.1"
 antio = ">=0.5.0"
 codespell = "*"
 curryreader = ">=0.1.2"
@@ -19,7 +18,6 @@ eeglabio = "*"
 filelock = ">=3.18.0"
 h5io = ">=0.2.4"
 h5py = ">=2.4"
-hedtools = "*"
 imageio = ">=2.6.1"
 imageio-ffmpeg = ">=0.4.1"
 ipyevents = "*"
@@ -31,23 +29,21 @@ joblib = ">=0.8"
 jupyter = "*"
 jupyter_client = "*"
 lazy_loader = ">=0.3"
-matplotlib = ">=3.8"
-mffpy = ">=0.5.7"
-mne-bids = "*"
+matplotlib = ">=3.9"
+mffpy = ">=0.11.0"
 mne-qt-browser = "*"
 mypy = ">=0.14"
 nbclient = "*"
-nbformat = "*"
 nest-asyncio2 = "*"
 nibabel = ">=2.0"
 nilearn = "*"
 nitime = ">=0.7"
 numba = ">=0.35"
-numpy = ">=1.26,<3"
+numpy = ">=2.0,<3"
 numpydoc = ">=1.6"
 openmeeg = ">=2.5.7"
 packaging = "*"
-pandas = ">=2.2"
+pandas = ">=2.2,!=3.0.4"
 pillow = ">=10.2"
 pooch = ">=1.5"
 pre-commit = "*"
@@ -55,7 +51,7 @@ pyarrow = "*"
 pybv = "*"
 pymatreader = "*"
 pyobjc-framework-Cocoa = ">=5.2.0"
-pytest = ">=8.0"
+pytest = ">=8.0,!=9.1.0"
 pytest-cov = ">=4.1"
 pytest-qt = ">=4.3"
 pytest-rerunfailures = "*"
@@ -67,23 +63,23 @@ pyvista = ">=0.43"
 pyvistaqt = ">=0.11"
 qdarkstyle = "!=3.2.2"
 qtpy = "*"
+refleak = "*"
 ruff = ">=0.1"
-scikit-learn = ">=1.4"
-scipy = ">=1.13"
+scikit-learn = ">=1.5"
+scipy = ">=1.14"
 sip = "*"
 snirf = "*"
-sphinx-gallery = "*"
 statsmodels = ">=0.6"
 threadpoolctl = "*"
 tqdm = ">=4.66"
 traitlets = "*"
 trame = "*"
+trame-pyvista = "*"
 trame-vtk = "*"
 trame-vuetify = "*"
 twine = "*"
 vtk = ">=9.2"
 vulture = "*"
-wheel = ">=0.21"
 xlrd = "*"
 
 [pypi-dependencies]

From bd5538e39212fdeb3bb96f5c7dae1fab23dcdd3f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Thu, 9 Jul 2026 14:40:04 -0700
Subject: [PATCH 094/117] [circle skip][skip azp] need pyside6

---
 tools/ci/macos-intel/pixi.lock | 76 ++++++++++++++++++++++++++++++----
 tools/ci/macos-intel/pixi.toml |  3 ++
 tools/write-pixi-toml.py       |  1 +
 3 files changed, 73 insertions(+), 7 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index 9c464d40807..204f590a4b6 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -198,6 +198,8 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libbrotlidec-1.2.0-h8616949_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libbrotlienc-1.2.0-h8616949_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcblas-3.11.0-8_h9b27e0a_openblas.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/libclang-cpp22.1-22.1.8-default_h5a1b869_3.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/libclang13-22.1.8-default_h9a620b7_3.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcrc32c-1.1.2-he49afe7_0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcurl-8.21.0-h06afde3_2.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/libcxx-22.1.8-h19cb2f5_0.conda
@@ -363,6 +365,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/pyobjc-framework-cocoa-12.2.1-py313hc6ffd0f_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.3.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pyqtgraph-0.14.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/pyside6-6.11.1-py313ha920778_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha55dd90_7.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-9.1.1-pyhc364b38_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-cov-7.1.0-pyhcf101f3_0.conda
@@ -390,6 +393,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/qt6-main-6.11.1-pl5321h64d128d_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/qtpy-2.4.3-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/quantities-0.16.4-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/rcssmin-1.2.2-py313hf59fe81_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/re2-2025.11.05-hcc9a9c6_2.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/readline-8.3-h68b038d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/readme_renderer-45.0-pyhcf101f3_1.conda
@@ -412,7 +416,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/sdl2-2.32.56-h2fb4741_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/sdl3-3.4.12-hf9078ff_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/send2trash-2.1.0-pyh5552912_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/setuptools-82.0.1-pyh332efcf_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/setuptools-83.0.0-pyh332efcf_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/shaderc-2026.2-hce4445a_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/shellingham-1.5.4-pyhd8ed1ab_2.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/sip-6.15.3-py313hbc4457e_0.conda
@@ -3109,6 +3113,31 @@ packages:
   purls: []
   size: 19049
   timestamp: 1779860025163
+- conda: https://conda.anaconda.org/conda-forge/osx-64/libclang-cpp22.1-22.1.8-default_h5a1b869_3.conda
+  sha256: f61fdbaf250135d9fe8981de0dbfbe8d4e983efcb94c6dc0d1b8b5fc8c21317d
+  md5: 300864557417d3d65d917181fb959c50
+  depends:
+  - libcxx >=22.1.8
+  - __osx >=11.0
+  - libllvm22 >=22.1.8,<22.2.0a0
+  license: Apache-2.0 WITH LLVM-exception
+  license_family: APACHE
+  purls: []
+  size: 17143866
+  timestamp: 1782358919535
+- conda: https://conda.anaconda.org/conda-forge/osx-64/libclang13-22.1.8-default_h9a620b7_3.conda
+  sha256: 509eaf0d2608e5a793f459ec470b594f9c602c81da287c6ddb7248e0c438715e
+  md5: 7bbcde00a3ae376fe21f9bfd45abb237
+  depends:
+  - libclang-cpp22.1 ==22.1.8 default_h5a1b869_3
+  - libcxx >=22.1.8
+  - __osx >=11.0
+  - libllvm22 >=22.1.8,<22.2.0a0
+  license: Apache-2.0 WITH LLVM-exception
+  license_family: APACHE
+  purls: []
+  size: 10703945
+  timestamp: 1782358919535
 - conda: https://conda.anaconda.org/conda-forge/osx-64/libcrc32c-1.1.2-he49afe7_0.tar.bz2
   sha256: 3043869ac1ee84554f177695e92f2f3c2c507b260edad38a0bf3981fce1632ff
   md5: 23d6d5a69918a438355d7cbc4c3d54c9
@@ -5438,6 +5467,27 @@ packages:
   - pkg:pypi/pyqtgraph?source=hash-mapping
   size: 1436545
   timestamp: 1763549841016
+- conda: https://conda.anaconda.org/conda-forge/osx-64/pyside6-6.11.1-py313ha920778_1.conda
+  sha256: 95fa125779932fdaa91a4440a05b7cab39edce21b55d1d1bea5dbc4e89525c51
+  md5: 6c0e9289a4db0427f131e05b8a23f1fd
+  depends:
+  - python
+  - qt6-main 6.11.1.*
+  - __osx >=11.0
+  - libcxx >=19
+  - libxml2
+  - libxml2-16 >=2.14.6
+  - libclang13 >=19.1.7
+  - python_abi 3.13.* *_cp313
+  - libxslt >=1.1.43,<2.0a0
+  - qt6-main >=6.11.1,<6.12.0a0
+  license: LGPL-3.0-only
+  license_family: LGPL
+  purls:
+  - pkg:pypi/pyside6?source=hash-mapping
+  - pkg:pypi/shiboken6?source=hash-mapping
+  size: 15495919
+  timestamp: 1778934079651
 - conda: https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha55dd90_7.conda
   sha256: ba3b032fa52709ce0d9fd388f63d330a026754587a2f461117cac9ab73d8d0d8
   md5: 461219d1a5bd61342293efa2c0c90eac
@@ -5824,6 +5874,18 @@ packages:
   - pkg:pypi/quantities?source=hash-mapping
   size: 85836
   timestamp: 1768585469020
+- conda: https://conda.anaconda.org/conda-forge/osx-64/rcssmin-1.2.2-py313hf59fe81_1.conda
+  sha256: 91d6649af753dc76a10237f0d5be589351e8806b7c36dd1c5ec010a5dc8975e1
+  md5: 4f441ba2e8d0d78eaae84cb243c96e39
+  depends:
+  - __osx >=11.0
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
+  license: Apache-2.0 AND BSD-3-Clause
+  purls:
+  - pkg:pypi/rcssmin?source=hash-mapping
+  size: 35681
+  timestamp: 1783048075801
 - conda: https://conda.anaconda.org/conda-forge/osx-64/re2-2025.11.05-hcc9a9c6_2.conda
   sha256: 5c3f92ec989e1ab87a79b300c2975b04434d0db0abba030e85ee97f0f4a3a415
   md5: 2307e1e580ad566c95ab3164b0d4a1cc
@@ -6125,17 +6187,17 @@ packages:
   - pkg:pypi/send2trash?source=hash-mapping
   size: 22519
   timestamp: 1770937603551
-- conda: https://conda.anaconda.org/conda-forge/noarch/setuptools-82.0.1-pyh332efcf_0.conda
-  sha256: 82088a6e4daa33329a30bc26dc19a98c7c1d3f05c0f73ce9845d4eab4924e9e1
-  md5: 8e194e7b992f99a5015edbd4ebd38efd
+- conda: https://conda.anaconda.org/conda-forge/noarch/setuptools-83.0.0-pyh332efcf_0.conda
+  sha256: 48a9f96016505debadfc67f06de7ac548decbc38d327409b24b0432ef6f16335
+  md5: 6bf6acbab2499830180ec88c3aff2fa4
   depends:
   - python >=3.10
   license: MIT
   license_family: MIT
   purls:
-  - pkg:pypi/setuptools?source=hash-mapping
-  size: 639697
-  timestamp: 1773074868565
+  - pkg:pypi/setuptools?source=compressed-mapping
+  size: 642081
+  timestamp: 1783619174976
 - conda: https://conda.anaconda.org/conda-forge/osx-64/shaderc-2026.2-hce4445a_0.conda
   sha256: 53b067144e8eb8393c27d56c13fc4164bf984a55ff11b7f12c1c5b7f4496409f
   md5: 6bc5fe09c7ecb3adb61c43f90da7a26a
diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index f0c3bc9f0e7..f12d34b539b 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -45,12 +45,14 @@ openmeeg = ">=2.5.7"
 packaging = "*"
 pandas = ">=2.2,!=3.0.4"
 pillow = ">=10.2"
+pip = ">=25.1"
 pooch = ">=1.5"
 pre-commit = "*"
 pyarrow = "*"
 pybv = "*"
 pymatreader = "*"
 pyobjc-framework-Cocoa = ">=5.2.0"
+pyside6 = ">=6.11.1"
 pytest = ">=8.0,!=9.1.0"
 pytest-cov = ">=4.1"
 pytest-qt = ">=4.3"
@@ -63,6 +65,7 @@ pyvista = ">=0.43"
 pyvistaqt = ">=0.11"
 qdarkstyle = "!=3.2.2"
 qtpy = "*"
+rcssmin = ">=1.1"
 refleak = "*"
 ruff = ">=0.1"
 scikit-learn = ">=1.5"
diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 9616fbf62b4..31dc972559d 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -55,6 +55,7 @@ def pip_to_pixi(dependencies_list):
     version="0.1.0",
 )
 dependencies = pyproject["project"]["dependencies"]
+dependencies.extend(pyproject["dependency-groups"]["dev"])
 dependencies.extend(pyproject["dependency-groups"]["test"])
 dependencies.extend(pyproject["dependency-groups"]["test_extra"])
 dependencies.extend(pyproject["project"]["optional-dependencies"]["hdf5"])

From d8052383d373c5eb7f139f1fff94be93bee564bb Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Thu, 9 Jul 2026 16:26:29 -0700
Subject: [PATCH 095/117] Dont set MNE_TEST_ALLOW_SKIP in Pixi job
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

- The Pixi job replaces teh MacOS pip job on main.

- The MacOS pip job on main does not set MNE_TEST_ALLOW_SKIP

- mne/conftest.py:1357 treats unset MNE_TEST_ALLOW_SKIP as “allow all skips"
---
 tools/github_actions_env_vars.sh | 1 -
 1 file changed, 1 deletion(-)

diff --git a/tools/github_actions_env_vars.sh b/tools/github_actions_env_vars.sh
index 0cf79b03fb5..64afce2a29c 100755
--- a/tools/github_actions_env_vars.sh
+++ b/tools/github_actions_env_vars.sh
@@ -44,7 +44,6 @@ elif [[ "$MNE_CI_KIND" == "pixi" ]]; then
     echo "Setting env vars for $MNE_CI_KIND"
     echo "MNE_LOGGING_LEVEL=warning" | tee -a $GITHUB_ENV
     echo "MNE_QT_BACKEND=PySide6" | tee -a $GITHUB_ENV
-    echo "MNE_TEST_ALLOW_SKIP=.*(Requires (spm|brainstorm) dataset|CUDA not|PySide6 causes segfaults|Accelerate|Flakey verbose behavior).*" | tee -a $GITHUB_ENV
     # Our cache_dir test has problems when the path is too long, so prevent it from getting too long
     if [[ "$RUNNER_OS" == "macOS" ]]; then
         echo "PYTEST_DEBUG_TEMPROOT=/tmp" | tee -a $GITHUB_ENV

From 8bc139bdb1030b9b6718b547d5cd84f816098f58 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 22 Jul 2026 11:52:43 -0700
Subject: [PATCH 096/117] regen pixi toml/lock

---
 tools/ci/macos-intel/pixi.lock | 114 ++++++++++-----------------------
 tools/ci/macos-intel/pixi.toml |   9 +--
 2 files changed, 39 insertions(+), 84 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
index 204f590a4b6..0d0de6091ef 100644
--- a/tools/ci/macos-intel/pixi.lock
+++ b/tools/ci/macos-intel/pixi.lock
@@ -21,7 +21,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/argon2-cffi-25.1.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-25.1.0-py313hf050af9_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/arrow-1.4.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/ast-serialize-0.6.0-py310hb9b2626_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-3.0.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/async-lru-2.3.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-26.1.0-pyhcf101f3_0.conda
@@ -96,6 +95,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/eigen-5.0.1-h4ff50a2_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/eigen-abi-5.0.1.80-h969a130_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.3.1-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/execnet-2.1.2-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/executing-2.2.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/expat-2.8.1-hcc62823_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/ffmpeg-8.1.2-gpl_h5ea587e_102.conda
@@ -298,8 +298,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/msgpack-python-1.2.1-py313h224b87c_1.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/multidict-6.7.1-py313h84cef87_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/munkres-1.1.4-pyhd8ed1ab_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/mypy-2.2.0-py313h0b0ee5e_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/mypy_extensions-1.1.0-pyha770c72_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/narwhals-2.23.0-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/nbclient-0.11.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/nbconvert-core-7.17.1-pyhcf101f3_0.conda
@@ -332,7 +330,6 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/pandocfilters-1.5.0-pyhd8ed1ab_0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/osx-64/pango-1.56.4-hf280016_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/parso-0.8.7-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/pathspec-1.1.1-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/patsy-1.0.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/pcre2-10.47-h13923f0_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pexpect-4.9.0-pyhd8ed1ab_1.conda
@@ -372,13 +369,13 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-qt-4.5.0-pyhdecd6ff_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-rerunfailures-16.4-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-timeout-2.4.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/pytest-xdist-3.8.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-64/python-3.13.14-h3d5d122_100_cp313.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-dateutil-2.9.0.post0-pyhe01879c_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-discovery-1.4.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-fastjsonschema-2.21.2-pyhe01879c_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-gil-3.13.14-h4df99d1_100.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-json-logger-4.1.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/python-librt-0.13.0-py313h22ab4a2_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-neo-0.14.5-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-picard-0.8.1-pyh9493f07_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python-tzdata-2026.2-pyhd8ed1ab_0.conda
@@ -398,7 +395,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/osx-64/readline-8.3-h68b038d_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/readme_renderer-45.0-pyhcf101f3_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/referencing-0.37.0-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/refleak-0.1.1-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/refleak-0.2.1-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/requests-2.34.2-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/requests-toolbelt-1.0.0-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/rfc3339-validator-0.1.4-pyhd8ed1ab_1.conda
@@ -690,23 +687,6 @@ packages:
   - pkg:pypi/arrow?source=hash-mapping
   size: 113854
   timestamp: 1760831179410
-- conda: https://conda.anaconda.org/conda-forge/osx-64/ast-serialize-0.6.0-py310hb9b2626_0.conda
-  noarch: python
-  sha256: ef842a0511ab1f111c05bf3fca24d11b6be11c4d0e5f8d306d6ba2fd536e1e0e
-  md5: c0c3e461c0f9843a214767a1ec3c420e
-  depends:
-  - python >=3.10
-  - __osx >=11.0
-  - _python_abi3_support 1.*
-  - cpython >=3.10
-  constrains:
-  - __osx >=11.0
-  license: MIT
-  license_family: MIT
-  purls:
-  - pkg:pypi/ast-serialize?source=hash-mapping
-  size: 1111573
-  timestamp: 1782863893027
 - conda: https://conda.anaconda.org/conda-forge/noarch/asttokens-3.0.1-pyhd8ed1ab_0.conda
   sha256: ee4da0f3fe9d59439798ee399ef3e482791e48784873d546e706d0935f9ff010
   md5: 9673a61a297b00016442e022d689faa6
@@ -1649,6 +1629,17 @@ packages:
   - pkg:pypi/exceptiongroup?source=hash-mapping
   size: 21333
   timestamp: 1763918099466
+- conda: https://conda.anaconda.org/conda-forge/noarch/execnet-2.1.2-pyhd8ed1ab_0.conda
+  sha256: 1acc6a420efc5b64c384c1f35f49129966f8a12c93b4bb2bdc30079e5dc9d8a8
+  md5: a57b4be42619213a94f31d2c69c5dda7
+  depends:
+  - python >=3.10
+  license: MIT
+  license_family: MIT
+  purls:
+  - pkg:pypi/execnet?source=hash-mapping
+  size: 39499
+  timestamp: 1762974150770
 - conda: https://conda.anaconda.org/conda-forge/noarch/executing-2.2.1-pyhd8ed1ab_0.conda
   sha256: 210c8165a58fdbf16e626aac93cc4c14dbd551a01d1516be5ecad795d2422cad
   md5: ff9efb7f7469aed3c4a8106ffa29593c
@@ -4462,35 +4453,6 @@ packages:
   - pkg:pypi/munkres?source=hash-mapping
   size: 15851
   timestamp: 1749895533014
-- conda: https://conda.anaconda.org/conda-forge/osx-64/mypy-2.2.0-py313h0b0ee5e_0.conda
-  sha256: fbcacb9a47f71c692e10f6998213776cd5cd72dc09f9e974e64688c9bcb78193
-  md5: 1ff96b48f42aa676419fb4fc12ecb368
-  depends:
-  - ast-serialize >=0.6.0,<1.0.0
-  - mypy_extensions >=1.0.0
-  - pathspec >=1.0.0
-  - python
-  - python-librt >=0.12.0
-  - typing_extensions >=4.6.0
-  - psutil >=4.0
-  - __osx >=11.0
-  - python_abi 3.13.* *_cp313
-  license: MIT
-  purls:
-  - pkg:pypi/mypy?source=hash-mapping
-  size: 14682178
-  timestamp: 1783529252836
-- conda: https://conda.anaconda.org/conda-forge/noarch/mypy_extensions-1.1.0-pyha770c72_0.conda
-  sha256: 6ed158e4e5dd8f6a10ad9e525631e35cee8557718f83de7a4e3966b1f772c4b1
-  md5: e9c622e0d00fa24a6292279af3ab6d06
-  depends:
-  - python >=3.9
-  license: MIT
-  license_family: MIT
-  purls:
-  - pkg:pypi/mypy-extensions?source=hash-mapping
-  size: 11766
-  timestamp: 1745776666688
 - conda: https://conda.anaconda.org/conda-forge/noarch/narwhals-2.23.0-pyhcf101f3_0.conda
   sha256: e7dbd69d1de038b0411636c50bd9a935d05ca37269c4a155a78571afbaa7994a
   md5: a537eb35988a6f2b1ceda6cce83e2f0e
@@ -5025,17 +4987,6 @@ packages:
   - pkg:pypi/parso?source=hash-mapping
   size: 82472
   timestamp: 1777722955579
-- conda: https://conda.anaconda.org/conda-forge/noarch/pathspec-1.1.1-pyhd8ed1ab_0.conda
-  sha256: 6eaee417d33f298db79bc7185ab1208604c0e6cf51dade34cd513c6f9db9c6f3
-  md5: 11adc78451c998c0fd162584abfa3559
-  depends:
-  - python >=3.10
-  license: MPL-2.0
-  license_family: MOZILLA
-  purls:
-  - pkg:pypi/pathspec?source=hash-mapping
-  size: 56559
-  timestamp: 1777271601895
 - conda: https://conda.anaconda.org/conda-forge/noarch/patsy-1.0.2-pyhcf101f3_0.conda
   sha256: 9678f4745e6b82b36fab9657a19665081862268cb079cf9acf878ab2c4fadee9
   md5: 8678577a52161cc4e1c93fcc18e8a646
@@ -5575,6 +5526,21 @@ packages:
   - pkg:pypi/pytest-timeout?source=hash-mapping
   size: 20137
   timestamp: 1746533140824
+- conda: https://conda.anaconda.org/conda-forge/noarch/pytest-xdist-3.8.0-pyhd8ed1ab_0.conda
+  sha256: b7b58a5be090883198411337b99afb6404127809c3d1c9f96e99b59f36177a96
+  md5: 8375cfbda7c57fbceeda18229be10417
+  depends:
+  - execnet >=2.1
+  - pytest >=7.0.0
+  - python >=3.9
+  constrains:
+  - psutil >=3.0
+  license: MIT
+  license_family: MIT
+  purls:
+  - pkg:pypi/pytest-xdist?source=hash-mapping
+  size: 39300
+  timestamp: 1751452761594
 - conda: https://conda.anaconda.org/conda-forge/osx-64/python-3.13.14-h3d5d122_100_cp313.conda
   build_number: 100
   sha256: a92dd0f84a8a715dc7ac45bacbfdfca9f06eadd2b327cbe915fff9d386ae9ffb
@@ -5659,18 +5625,6 @@ packages:
   - pkg:pypi/python-json-logger?source=hash-mapping
   size: 19249
   timestamp: 1781036004580
-- conda: https://conda.anaconda.org/conda-forge/osx-64/python-librt-0.13.0-py313h22ab4a2_0.conda
-  sha256: 883786f791238e287330b296dfe03a289bf6e54a028ae724665b0c609e1684f4
-  md5: ff757ac3e73aaff154bd201363403aab
-  depends:
-  - python
-  - __osx >=11.0
-  - python_abi 3.13.* *_cp313
-  license: MIT
-  purls:
-  - pkg:pypi/librt?source=hash-mapping
-  size: 135927
-  timestamp: 1783529548144
 - conda: https://conda.anaconda.org/conda-forge/noarch/python-neo-0.14.5-pyhd8ed1ab_0.conda
   sha256: 71acd1913445ea9bfc5633ceef45870aca322ed82b7aca52812db2c644601ec3
   md5: 07daaa5809e8724baad914ac3c054e56
@@ -5938,9 +5892,9 @@ packages:
   - pkg:pypi/referencing?source=hash-mapping
   size: 51788
   timestamp: 1760379115194
-- conda: https://conda.anaconda.org/conda-forge/noarch/refleak-0.1.1-pyhcf101f3_0.conda
-  sha256: 7f910abff106c458088f1ff7cfea6f813cccef9eab94e3271a7df15e66667db7
-  md5: 729ce3096670f5c239d5de2772169bec
+- conda: https://conda.anaconda.org/conda-forge/noarch/refleak-0.2.1-pyhcf101f3_0.conda
+  sha256: 2c1c709cd9bcf02141e48e5ac96e21ef6e17844567e104bcd7ae25a0c3b08ce7
+  md5: f4451a3671553a5f40829f6296118e5f
   depends:
   - python >=3.10
   - python
@@ -5948,8 +5902,8 @@ packages:
   license_family: BSD
   purls:
   - pkg:pypi/refleak?source=hash-mapping
-  size: 18189
-  timestamp: 1783194837606
+  size: 25831
+  timestamp: 1783700338829
 - conda: https://conda.anaconda.org/conda-forge/noarch/requests-2.34.2-pyhcf101f3_0.conda
   sha256: 1715246b19c9f85ee022933b4845f2fc14ac9184981b7b7d9b728bec8e9588da
   md5: 4a85203c1d80c1059086ae860836ffb9
diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index f12d34b539b..9bec4a7db74 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -32,7 +32,6 @@ lazy_loader = ">=0.3"
 matplotlib = ">=3.9"
 mffpy = ">=0.11.0"
 mne-qt-browser = "*"
-mypy = ">=0.14"
 nbclient = "*"
 nest-asyncio2 = "*"
 nibabel = ">=2.0"
@@ -58,15 +57,16 @@ pytest-cov = ">=4.1"
 pytest-qt = ">=4.3"
 pytest-rerunfailures = "*"
 pytest-timeout = ">=2.2"
+pytest-xdist = ">=3.6.1"
 python = "3.13.*"
 python-neo = "*"
 python-picard = ">=0.4"
-pyvista = ">=0.43"
+pyvista = ">=0.44"
 pyvistaqt = ">=0.11"
 qdarkstyle = "!=3.2.2"
 qtpy = "*"
 rcssmin = ">=1.1"
-refleak = "*"
+refleak = ">=0.2.1"
 ruff = ">=0.1"
 scikit-learn = ">=1.5"
 scipy = ">=1.14"
@@ -79,8 +79,9 @@ traitlets = "*"
 trame = "*"
 trame-pyvista = "*"
 trame-vtk = "*"
-trame-vuetify = "*"
+trame-vuetify = "!=3.2.3"
 twine = "*"
+typing-extensions = ">=4.15"
 vtk = ">=9.2"
 vulture = "*"
 xlrd = "*"

From e5bd471c7ae8a8c25b48ccbf469314a678a6ccac Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Sun, 26 Jul 2026 20:56:19 -0700
Subject: [PATCH 097/117] comment

---
 tools/ci/macos-intel/pixi.toml | 2 ++
 tools/write-pixi-toml.py       | 9 ++++++++-
 2 files changed, 10 insertions(+), 1 deletion(-)

diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index 9bec4a7db74..83dea38b304 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -1,3 +1,5 @@
+# THIS FILE IS AUTO-GENERATED BY tools/write_pixi_toml.py AND WILL BE OVERWRITTEN
+
 [workspace]
 authors = ["MNE-Python contributors"]
 channels = ["conda-forge"]
diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 31dc972559d..8f3166b45cc 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -85,7 +85,14 @@ def pip_to_pixi(dependencies_list):
     "dependencies": pip_to_pixi(dependencies),
     "pypi-dependencies": pip_to_pixi(pypi_dependencies),
 }
+
+doc = tomlkit.document()
+doc.add(tomlkit.comment(
+    "THIS FILE IS AUTO-GENERATED BY tools/write_pixi_toml.py AND WILL BE OVERWRITTEN"
+    )
+)
+doc.update(out)
 # write the file
 outfile.parent.mkdir(parents=True, exist_ok=True)
 with open(outfile, "w") as fid:
-    tomlkit.dump(out, fid, sort_keys=False)
+    tomlkit.dump(doc, fid, sort_keys=False)

From a62727c7540a256f5aec934ece8311407c5c5024 Mon Sep 17 00:00:00 2001
From: "autofix-ci[bot]" <114827586+autofix-ci[bot]@users.noreply.github.com>
Date: Mon, 27 Jul 2026 04:10:38 +0000
Subject: [PATCH 098/117] [autofix.ci] apply automated fixes

---
 tools/write-pixi-toml.py | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 8f3166b45cc..4c89dc2cf32 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -87,8 +87,9 @@ def pip_to_pixi(dependencies_list):
 }
 
 doc = tomlkit.document()
-doc.add(tomlkit.comment(
-    "THIS FILE IS AUTO-GENERATED BY tools/write_pixi_toml.py AND WILL BE OVERWRITTEN"
+doc.add(
+    tomlkit.comment(
+        "THIS FILE IS AUTO-GENERATED BY tools/write_pixi_toml.py AND WILL BE OVERWRITTEN"
     )
 )
 doc.update(out)

From 9cd7b0d03db5fcdc796501fbe4d965d2e6fdd70d Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 27 Jul 2026 11:56:51 -0700
Subject: [PATCH 099/117] ping


From 8a001624ade1da3272ea1847aa08ca7af428036d Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Mon, 27 Jul 2026 11:58:11 -0700
Subject: [PATCH 100/117] ping


From e4dbfc33dc7d6d8a3627c67e2cdfcaf412326224 Mon Sep 17 00:00:00 2001
From: Daniel McCloy <dan@mccloy.info>
Date: Wed, 29 Jul 2026 12:09:11 -0500
Subject: [PATCH 101/117] Apply suggestion from @drammock

---
 tools/write-pixi-toml.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 4c89dc2cf32..8cdaafaad00 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -89,7 +89,7 @@ def pip_to_pixi(dependencies_list):
 doc = tomlkit.document()
 doc.add(
     tomlkit.comment(
-        "THIS FILE IS AUTO-GENERATED BY tools/write_pixi_toml.py AND WILL BE OVERWRITTEN"
+        "THIS FILE IS AUTO-GENERATED BY tools/write_pixi_toml.py AND WILL BE OVERWRITTEN"  # noqa E501
     )
 )
 doc.update(out)

From cef741d42c32e11bb9b32d5510d70d13c488cb01 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Jul 2026 11:53:03 -0700
Subject: [PATCH 102/117] try...

---
 .github/workflows/tests.yml | 13 ++++++++++++-
 1 file changed, 12 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 2105ea2c2dd..e88b5df7a36 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -105,7 +105,18 @@ jobs:
         if: startswith(matrix.kind, 'pip') || matrix.kind == 'minimal'
         id: setup-python
       # Python (if pixi)
-      - uses: prefix-dev/setup-pixi@v0.9.4
+      - uses: prefix-dev/setup-pixi@v0.10.0
+        with:
+          manifest-path: tools/ci/macos-intel/pixi.toml
+          # https://github.com/prefix-dev/setup-pixi/issues/139
+          # activate-environment: true
+          # frozen: true
+          run-install: false
+        if: matrix.kind == 'pixi'
+      - name: Install development version of MNE into pixi environment
+        run: pixi add --editable /Users/runner/work/mne-python/mne-python
+        if: matrix.kind == 'pixi'
+      - uses: prefix-dev/setup-pixi@v0.10.0
         with:
           manifest-path: tools/ci/macos-intel/pixi.toml
           # https://github.com/prefix-dev/setup-pixi/issues/139

From cbc7847d9cc066240e931d73c5fbe1dc60a8a5c3 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Jul 2026 11:56:25 -0700
Subject: [PATCH 103/117] flag

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index e88b5df7a36..9911d3f3768 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -114,7 +114,7 @@ jobs:
           run-install: false
         if: matrix.kind == 'pixi'
       - name: Install development version of MNE into pixi environment
-        run: pixi add --editable /Users/runner/work/mne-python/mne-python
+        run: pixi add --editable --pypi /Users/runner/work/mne-python/mne-python
         if: matrix.kind == 'pixi'
       - uses: prefix-dev/setup-pixi@v0.10.0
         with:

From da2988d18ca39d839749442efb922d72c5f99217 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Jul 2026 12:10:37 -0700
Subject: [PATCH 104/117] fix

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 9911d3f3768..a14f127c305 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -114,7 +114,7 @@ jobs:
           run-install: false
         if: matrix.kind == 'pixi'
       - name: Install development version of MNE into pixi environment
-        run: pixi add --editable --pypi /Users/runner/work/mne-python/mne-python
+        run: pixi add --editable --pypi mne '@ file:///Users/runner/work/mne-python/mne-python'
         if: matrix.kind == 'pixi'
       - uses: prefix-dev/setup-pixi@v0.10.0
         with:

From 29565b9f184c846cc9465022fc4c65b751c9f623 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 29 Jul 2026 12:29:48 -0700
Subject: [PATCH 105/117] fix

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index a14f127c305..107804a80c9 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -114,7 +114,7 @@ jobs:
           run-install: false
         if: matrix.kind == 'pixi'
       - name: Install development version of MNE into pixi environment
-        run: pixi add --editable --pypi mne '@ file:///Users/runner/work/mne-python/mne-python'
+        run: pixi add --editable --pypi 'mne @ file:///Users/runner/work/mne-python/mne-python'
         if: matrix.kind == 'pixi'
       - uses: prefix-dev/setup-pixi@v0.10.0
         with:

From 949c14f8eedf222c0676b40115c6952107fa7668 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 5 Aug 2026 11:25:12 -0700
Subject: [PATCH 106/117] try manifest path

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

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 107804a80c9..236d4543979 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -114,7 +114,7 @@ jobs:
           run-install: false
         if: matrix.kind == 'pixi'
       - name: Install development version of MNE into pixi environment
-        run: pixi add --editable --pypi 'mne @ file:///Users/runner/work/mne-python/mne-python'
+        run: pixi add --editable --pypi 'mne @ file:///Users/runner/work/mne-python/mne-python' --manifest-path /Users/runner/work/mne-python/mne-python/tools/ci/macos-intel
         if: matrix.kind == 'pixi'
       - uses: prefix-dev/setup-pixi@v0.10.0
         with:

From 371fefac9e6ef78eac188b6ad52b4b457173e3b2 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 5 Aug 2026 11:52:27 -0700
Subject: [PATCH 107/117] WIP: force mne directory

---
 tools/ci/macos-intel/pixi.toml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index 83dea38b304..0bd0a5c5ae3 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -90,3 +90,4 @@ xlrd = "*"
 
 [pypi-dependencies]
 pymef = "*"
+mne = { path="/Users/runner/work/mne-python/mne-python", editable=true }

From 649ef49efaf97268e6c2297e3bbeff05b79759b0 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 5 Aug 2026 11:54:46 -0700
Subject: [PATCH 108/117] WIP: remove step to add mne dev dep in pixi job

---
 .github/workflows/tests.yml | 3 ---
 1 file changed, 3 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 236d4543979..d71f2c17872 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -113,9 +113,6 @@ jobs:
           # frozen: true
           run-install: false
         if: matrix.kind == 'pixi'
-      - name: Install development version of MNE into pixi environment
-        run: pixi add --editable --pypi 'mne @ file:///Users/runner/work/mne-python/mne-python' --manifest-path /Users/runner/work/mne-python/mne-python/tools/ci/macos-intel
-        if: matrix.kind == 'pixi'
       - uses: prefix-dev/setup-pixi@v0.10.0
         with:
           manifest-path: tools/ci/macos-intel/pixi.toml

From dc692c3bac388e8c180439fe53b3a83f5e7d64b1 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Fri, 7 Aug 2026 12:39:15 -0500
Subject: [PATCH 109/117] remove lock file

---
 .github/workflows/tests.yml    |    2 +-
 tools/ci/macos-intel/pixi.lock | 7169 --------------------------------
 2 files changed, 1 insertion(+), 7170 deletions(-)
 delete mode 100644 tools/ci/macos-intel/pixi.lock

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index d71f2c17872..adca85f31ca 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -118,7 +118,7 @@ jobs:
           manifest-path: tools/ci/macos-intel/pixi.toml
           # https://github.com/prefix-dev/setup-pixi/issues/139
           activate-environment: true
-          frozen: true
+          frozen: false
         if: matrix.kind == 'pixi'
       # Workaround macOS path behavior with login shells (which puts system Python first)
       - run: |  # zizmor: ignore[template-injection]
diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
deleted file mode 100644
index 0d0de6091ef..00000000000
--- a/tools/ci/macos-intel/pixi.lock
+++ /dev/null
@@ -1,7169 +0,0 @@
-version: 6
-environments:
-  default:
-    channels:
-    - url: https://conda.anaconda.org/conda-forge/
-    indexes:
-    - https://pypi.org/simple
-    packages:
-      osx-64:
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/_openmp_mutex-4.5-7_kmp_llvm.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/_python_abi3_support-1.0-hd8ed1ab_2.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.7.1-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.14.1-py313h6f5309d_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/alabaster-1.0.0-pyhd8ed1ab_1.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.4-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.7.0-py311hadf7373_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/anyio-4.14.1-pyhcf101f3_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/osx-64/aom-3.14.1-pl5321h3d58d69_1.conda
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-- conda: https://conda.anaconda.org/conda-forge/osx-64/zstd-1.5.7-h3eecb57_6.conda
-  sha256: 47101a4055a70a4876ffc87b750ab2287b67eca793f21c8224be5e1ee6394d3f
-  md5: 727109b184d680772e3122f40136d5ca
-  depends:
-  - __osx >=10.13
-  - libzlib >=1.3.1,<2.0a0
-  license: BSD-3-Clause
-  license_family: BSD
-  purls: []
-  size: 528148
-  timestamp: 1764777156963

From d2bc0bc59e662a33bdc30001c9cef93f5f590403 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 12 Aug 2026 11:20:12 -0700
Subject: [PATCH 110/117] try moving mne-qt-browser to pypi channel

---
 tools/ci/macos-intel/pixi.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index 0bd0a5c5ae3..b874cc69465 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -33,7 +33,6 @@ jupyter_client = "*"
 lazy_loader = ">=0.3"
 matplotlib = ">=3.9"
 mffpy = ">=0.11.0"
-mne-qt-browser = "*"
 nbclient = "*"
 nest-asyncio2 = "*"
 nibabel = ">=2.0"
@@ -90,4 +89,5 @@ xlrd = "*"
 
 [pypi-dependencies]
 pymef = "*"
+mne-qt-browser = "*"
 mne = { path="/Users/runner/work/mne-python/mne-python", editable=true }

From 16c7db79af209482daf312b49c91642542ee332d Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 12 Aug 2026 12:21:17 -0700
Subject: [PATCH 111/117] move mne-qt-browser to pypi channel

---
 tools/ci/macos-intel/pixi.toml | 20 +++++++++-----------
 tools/write-pixi-toml.py       | 28 ++++++++++++++++++----------
 2 files changed, 27 insertions(+), 21 deletions(-)

diff --git a/tools/ci/macos-intel/pixi.toml b/tools/ci/macos-intel/pixi.toml
index b874cc69465..4ee54b37dc2 100644
--- a/tools/ci/macos-intel/pixi.toml
+++ b/tools/ci/macos-intel/pixi.toml
@@ -14,7 +14,7 @@ curryreader = ">=0.1.2"
 darkdetect = "*"
 decorator = ">=5.1"
 defusedxml = "*"
-dipy = ">=0.8"
+dipy = ">=1.9"
 edfio = ">=0.4.10"
 eeglabio = "*"
 filelock = ">=3.18.0"
@@ -35,15 +35,15 @@ matplotlib = ">=3.9"
 mffpy = ">=0.11.0"
 nbclient = "*"
 nest-asyncio2 = "*"
-nibabel = ">=2.0"
-nilearn = "*"
+nibabel = ">=5.2"
+nilearn = ">=0.10"
 nitime = ">=0.7"
-numba = ">=0.35"
-numpy = ">=2.0,<3"
+numba = ">=0.60"
+numpy = "<3,>=2.0"
 numpydoc = ">=1.6"
 openmeeg = ">=2.5.7"
 packaging = "*"
-pandas = ">=2.2,!=3.0.4"
+pandas = "!=3.0.4,>=2.2"
 pillow = ">=10.2"
 pip = ">=25.1"
 pooch = ">=1.5"
@@ -53,13 +53,12 @@ pybv = "*"
 pymatreader = "*"
 pyobjc-framework-Cocoa = ">=5.2.0"
 pyside6 = ">=6.11.1"
-pytest = ">=8.0,!=9.1.0"
+pytest = "!=9.1.0,>=8.0"
 pytest-cov = ">=4.1"
 pytest-qt = ">=4.3"
 pytest-rerunfailures = "*"
 pytest-timeout = ">=2.2"
 pytest-xdist = ">=3.6.1"
-python = "3.13.*"
 python-neo = "*"
 python-picard = ">=0.4"
 pyvista = ">=0.44"
@@ -82,12 +81,11 @@ trame-pyvista = "*"
 trame-vtk = "*"
 trame-vuetify = "!=3.2.3"
 twine = "*"
-typing-extensions = ">=4.15"
 vtk = ">=9.2"
 vulture = "*"
 xlrd = "*"
+python = "3.13.*"
 
 [pypi-dependencies]
-pymef = "*"
 mne-qt-browser = "*"
-mne = { path="/Users/runner/work/mne-python/mne-python", editable=true }
+pymef = "*"
diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 8cdaafaad00..d389c7b3be1 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -6,21 +6,23 @@
 
 import tomlkit
 import yaml
+from packaging.requirements import Requirement
+
+# alphabeetize
+# replace "" with "*"
 
 
 def pip_to_pixi(dependencies_list):
     """Convert pip dependency specifier strings to a pixi-style dict."""
     out = dict()
     for dep in dependencies_list:
-        if " " in dep:
-            name, version = dep.split(" ", maxsplit=1)
-        else:
-            name, version = dep, "*"
-        out[name] = "".join(version.split(" "))  # pixi hates internal spaces
+        out[dep.name] = str(dep.specifier)
+        if str(dep.specifier) == "":
+            out[dep.name] += "*"
     return out
 
 
-pypi_dependencies = ["pymef"]  # "nest-asyncio2", "pyobjc-framework-Cocoa"]
+pypi_dependencies = sorted(["mne-qt-browser", "pymef"])
 
 repo_root = Path(__file__).resolve().parent.parent
 tests_yaml_fpath = repo_root / ".github" / "workflows" / "tests.yml"
@@ -73,18 +75,24 @@ def pip_to_pixi(dependencies_list):
         dependencies[ix] = dep[:split_ix].strip()
 # handle mismatch between names on PyPI and conda-forge
 dependencies = [remapping.get(dep, dep) for dep in dependencies]
-
-# Add Python Version
-dependencies.append(f"python {python_version}")
+dependencies.sort()
 
 # exclude pypi-only deps
-dependencies = sorted(set(dependencies) - set(pypi_dependencies))
+dependencies = [Requirement(dep) for dep in dependencies]
+pypi_dependencies = [Requirement(dep) for dep in pypi_dependencies]
+
+dependencies = [
+    dep
+    for dep in dependencies
+    if dep.name not in {pdep.name for pdep in pypi_dependencies}
+]
 
 out = {
     "workspace": workspace,
     "dependencies": pip_to_pixi(dependencies),
     "pypi-dependencies": pip_to_pixi(pypi_dependencies),
 }
+out["dependencies"].update(python=python_version)
 
 doc = tomlkit.document()
 doc.add(

From 1e17ea41cb3bee66062d4d18bcb6b88ba8a0907f Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 12 Aug 2026 13:05:01 -0700
Subject: [PATCH 112/117] add lockfile back [circle skip]

---
 .github/workflows/tests.yml    |    2 +-
 tools/ci/macos-intel/pixi.lock | 7371 ++++++++++++++++++++++++++++++++
 2 files changed, 7372 insertions(+), 1 deletion(-)
 create mode 100644 tools/ci/macos-intel/pixi.lock

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 25e782c875c..6d444962563 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -118,7 +118,7 @@ jobs:
           manifest-path: tools/ci/macos-intel/pixi.toml
           # https://github.com/prefix-dev/setup-pixi/issues/139
           activate-environment: true
-          frozen: false
+          frozen: true
         if: matrix.kind == 'pixi'
       # Workaround macOS path behavior with login shells (which puts system Python first)
       - run: |  # zizmor: ignore[template-injection]
diff --git a/tools/ci/macos-intel/pixi.lock b/tools/ci/macos-intel/pixi.lock
new file mode 100644
index 00000000000..a1372f2a382
--- /dev/null
+++ b/tools/ci/macos-intel/pixi.lock
@@ -0,0 +1,7371 @@
+version: 6
+environments:
+  default:
+    channels:
+    - url: https://conda.anaconda.org/conda-forge/
+    indexes:
+    - https://pypi.org/simple
+    packages:
+      osx-64:
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+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiohappyeyeballs-2.7.1-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/aiohttp-3.14.3-py313h6f5309d_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.4.0-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/alabaster-1.0.0-pyhd8ed1ab_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-doc-0.0.5-pyhcf101f3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-64/antio-0.7.1-py311hadf7373_1.conda
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+  license_family: BSD
+  purls:
+  - pkg:pypi/wrapt?source=hash-mapping
+  size: 113971
+  timestamp: 1785422522880
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+  - python >=3.10
+  license: BSD-3-Clause
+  license_family: BSD
+  purls:
+  - pkg:pypi/wslink?source=hash-mapping
+  size: 36803
+  timestamp: 1778826669944
+- conda: https://conda.anaconda.org/conda-forge/osx-64/x264-1!164.3095-h775f41a_2.tar.bz2
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+  license: GPL-2.0-or-later
+  license_family: GPL
+  purls: []
+  size: 937077
+  timestamp: 1660323305349
+- conda: https://conda.anaconda.org/conda-forge/osx-64/x265-3.5-hbb4e6a2_3.tar.bz2
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+  license: GPL-2.0-or-later
+  license_family: GPL
+  purls: []
+  size: 3433205
+  timestamp: 1646610148268
+- conda: https://conda.anaconda.org/conda-forge/noarch/xlrd-2.0.2-pyhd8ed1ab_0.conda
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+  md5: 91f5637b706492b9e418da1872fd61ce
+  depends:
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+  license: BSD-3-Clause AND BSD-4-Clause
+  license_family: BSD
+  purls:
+  - pkg:pypi/xlrd?source=hash-mapping
+  size: 93671
+  timestamp: 1756170155688
+- conda: https://conda.anaconda.org/conda-forge/noarch/xmltodict-1.0.4-pyhcf101f3_0.conda
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+  depends:
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+  - python
+  license: MIT
+  license_family: MIT
+  purls:
+  - pkg:pypi/xmltodict?source=hash-mapping
+  size: 20673
+  timestamp: 1771770296472
+- conda: https://conda.anaconda.org/conda-forge/osx-64/xorg-libxau-1.0.12-ha1e9b39_2.conda
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+  license: MIT
+  license_family: MIT
+  purls: []
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/xorg-libxdmcp-1.1.5-ha1e9b39_2.conda
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+  license: MIT
+  license_family: MIT
+  purls: []
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/yaml-0.2.5-h4132b18_3.conda
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+  license: MIT
+  license_family: MIT
+  purls: []
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/yarl-1.24.5-py313h035b7d0_0.conda
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+  - idna >=2.0
+  - multidict >=4.0
+  - propcache >=0.2.1
+  - python >=3.13,<3.14.0a0
+  - python_abi 3.13.* *_cp313
+  license: Apache-2.0
+  license_family: Apache
+  purls:
+  - pkg:pypi/yarl?source=hash-mapping
+  size: 164279
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/zeromq-4.3.5-h84953be_11.conda
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+  size: 260817
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/zfp-1.0.1-h1b13a81_4.conda
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+  - llvm-openmp >=19.1.7
+  license: BSD-3-Clause
+  license_family: BSD
+  purls: []
+  size: 211942
+  timestamp: 1766458562226
+- conda: https://conda.anaconda.org/conda-forge/noarch/zipp-4.1.0-pyhcf101f3_0.conda
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+  - python
+  license: MIT
+  license_family: MIT
+  purls:
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+  size: 24190
+  timestamp: 1779159948016
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zlib-1.3.2-hbb4bfdb_3.conda
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+  license: Zlib
+  license_family: Other
+  purls: []
+  size: 93115
+  timestamp: 1785276829908
+- conda: https://conda.anaconda.org/conda-forge/osx-64/zlib-ng-2.3.3-h8bce59a_1.conda
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+  license: Zlib
+  license_family: Other
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+- conda: https://conda.anaconda.org/conda-forge/osx-64/zstd-1.5.7-h3eecb57_6.conda
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+  license: BSD-3-Clause
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+  size: 528148
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From 7042a70a05bf2c6bd19ceef852a5c3aa39d459ca Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 12 Aug 2026 13:33:13 -0700
Subject: [PATCH 113/117] strip down to a single setup pixi [circle skip]

---
 .github/workflows/tests.yml | 8 --------
 1 file changed, 8 deletions(-)

diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml
index 6d444962563..7a2e2d30347 100644
--- a/.github/workflows/tests.yml
+++ b/.github/workflows/tests.yml
@@ -105,14 +105,6 @@ jobs:
         if: startswith(matrix.kind, 'pip') || matrix.kind == 'minimal'
         id: setup-python
       # Python (if pixi)
-      - uses: prefix-dev/setup-pixi@v0.10.0
-        with:
-          manifest-path: tools/ci/macos-intel/pixi.toml
-          # https://github.com/prefix-dev/setup-pixi/issues/139
-          # activate-environment: true
-          # frozen: true
-          run-install: false
-        if: matrix.kind == 'pixi'
       - uses: prefix-dev/setup-pixi@v0.10.0
         with:
           manifest-path: tools/ci/macos-intel/pixi.toml

From 777737c30cf2a45fd83a98c32cd651dbab6fb748 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Wed, 12 Aug 2026 14:39:59 -0700
Subject: [PATCH 114/117] clean up

---
 tools/github_actions_download.sh | 1 -
 tools/github_actions_env_vars.sh | 1 -
 tools/github_actions_test.sh     | 1 -
 tools/write-pixi-toml.py         | 4 +---
 4 files changed, 1 insertion(+), 6 deletions(-)

diff --git a/tools/github_actions_download.sh b/tools/github_actions_download.sh
index 3f3c5e771dd..b67d430578e 100755
--- a/tools/github_actions_download.sh
+++ b/tools/github_actions_download.sh
@@ -1,6 +1,5 @@
 #!/bin/bash -ef
 
-# TODO: I think that DEPS is cruft. Its not set anywhere??
 if [ "${MNE_CI_KIND}" != "minimal" ]; then
 	python -uc "import mne; mne.datasets.testing.data_path(verbose=True)"
 	# Make read-only to make sure we don't modify its contents
diff --git a/tools/github_actions_env_vars.sh b/tools/github_actions_env_vars.sh
index fedc73b8633..09f230433ed 100755
--- a/tools/github_actions_env_vars.sh
+++ b/tools/github_actions_env_vars.sh
@@ -61,7 +61,6 @@ elif [[ "$MNE_CI_KIND" == "conda" ]]; then
     echo "MNE_LOGGING_LEVEL=warning" | tee -a $GITHUB_ENV
     echo "MNE_TEST_ALLOW_SKIP=.*(on conda|Requires (spm|brainstorm|misc) dataset|CUDA not|Flakey verbose behavior|PySide6 causes segfaults|SCIPY_ARRAY_API).*" | tee -a $GITHUB_ENV
     echo "MNE_QT_BACKEND=PySide6" | tee -a $GITHUB_ENV
-# NON-DRY but just gonna get it working and then refactor.
 elif [[ "$MNE_CI_KIND" == "pixi" ]]; then
     echo "Setting env vars for $MNE_CI_KIND"
     echo "MNE_LOGGING_LEVEL=warning" | tee -a $GITHUB_ENV
diff --git a/tools/github_actions_test.sh b/tools/github_actions_test.sh
index 29d1b7d575e..8a84e2b7ef8 100755
--- a/tools/github_actions_test.sh
+++ b/tools/github_actions_test.sh
@@ -2,7 +2,6 @@
 
 set -eo pipefail
 
-
 if [[ "${CI_OS_NAME}" == "ubuntu"* ]]; then
   CONDITION="not (ultraslowtest or pgtest)"
 elif [[ "${CI_OS_NAME}" == "macos"* ]]; then
diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index d389c7b3be1..4cb32d4eb56 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -16,9 +16,7 @@ def pip_to_pixi(dependencies_list):
     """Convert pip dependency specifier strings to a pixi-style dict."""
     out = dict()
     for dep in dependencies_list:
-        out[dep.name] = str(dep.specifier)
-        if str(dep.specifier) == "":
-            out[dep.name] += "*"
+        out[dep.name] = str(dep.specifier) if str(dep.specifier) != "" else "*"
     return out
 
 

From 2e7827a3a93c10eb3b1da13771e4c022e7da4014 Mon Sep 17 00:00:00 2001
From: Scott Huberty <52462026+scott-huberty@users.noreply.github.com>
Date: Thu, 13 Aug 2026 08:13:28 -0700
Subject: [PATCH 115/117] rm cruft comments

Co-authored-by: Scott Huberty <52462026+scott-huberty@users.noreply.github.com>
---
 tools/write-pixi-toml.py | 2 --
 1 file changed, 2 deletions(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index 4cb32d4eb56..e595b73eee4 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -8,8 +8,6 @@
 import yaml
 from packaging.requirements import Requirement
 
-# alphabeetize
-# replace "" with "*"
 
 
 def pip_to_pixi(dependencies_list):

From 4f24eab4196924422e37c407f04f74c927b33ab4 Mon Sep 17 00:00:00 2001
From: "autofix-ci[bot]" <114827586+autofix-ci[bot]@users.noreply.github.com>
Date: Thu, 13 Aug 2026 15:14:46 +0000
Subject: [PATCH 116/117] [autofix.ci] apply automated fixes

---
 tools/write-pixi-toml.py | 1 -
 1 file changed, 1 deletion(-)

diff --git a/tools/write-pixi-toml.py b/tools/write-pixi-toml.py
index e595b73eee4..d875eaef61b 100644
--- a/tools/write-pixi-toml.py
+++ b/tools/write-pixi-toml.py
@@ -9,7 +9,6 @@
 from packaging.requirements import Requirement
 
 
-
 def pip_to_pixi(dependencies_list):
     """Convert pip dependency specifier strings to a pixi-style dict."""
     out = dict()

From 1ed621767ad329c0ce3e58bc7465989a6dedae62 Mon Sep 17 00:00:00 2001
From: Scott Huberty <seh33@uw.edu>
Date: Thu, 13 Aug 2026 08:15:20 -0700
Subject: [PATCH 117/117] ping