Switch Plexon2 to a cron job/ workflow dispatch

.github/workflows/io-test.yml

@@ -114,12 +114,12 @@ jobs:
       #  run: |
       #    pip install --no-dependencies -e .
 
-      - name: Install wine
-        run: |
-          sudo rm -f /etc/apt/sources.list.d/microsoft-prod.list
-          sudo dpkg --add-architecture i386
-          sudo apt-get update -qq
-          sudo apt-get install -yqq --allow-downgrades libc6:i386 libgcc-s1:i386 libstdc++6:i386 wine
+      #- name: Install wine
+      #  run: |
+      #    sudo rm -f /etc/apt/sources.list.d/microsoft-prod.list
+      #    sudo dpkg --add-architecture i386
+      #    sudo apt-get update -qq
+      #    sudo apt-get install -yqq --allow-downgrades libc6:i386 libgcc-s1:i386 libstdc++6:i386 wine
 
       - name: Pip list
         run: |

.github/workflows/plexon2-testing.yml

@@ -0,0 +1,112 @@
+name: NeoPlexon2Test
+
+on:
+  workflow_dispatch:
+    schedule:
+      - cron: "0 12 * * 0" # weekly at noon UTC on Sundays
+
+concurrency:  # Cancel previous workflows on the same pull request
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  build-and-test:
+    name: Test on (${{ inputs.os }}) (${{ matrix.python-version}}) (${{ matrix.numpy-version }})
+    runs-on: ${{ inputs.os }}
+    strategy:
+      fail-fast: true
+      matrix:
+        python-version: ['3.9', '3.12']
+        numpy-version: ['1.26', '2.0']
+    defaults:
+      # by default run in bash mode (required for conda usage)
+      run:
+        shell: bash -l {0}
+    steps:
+
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Get current year-month
+        id: date
+        run: echo "date=$(date +'%Y-%m')" >> $GITHUB_OUTPUT
+
+      - name: Get ephy_testing_data current head hash
+        # the key depend on the last commit repo https://gin.g-node.org/NeuralEnsemble/ephy_testing_data.git
+        id: ephy_testing_data
+        run: |
+          echo "dataset_hash=$(git ls-remote https://gin.g-node.org/NeuralEnsemble/ephy_testing_data.git HEAD | cut -f1)" >> $GITHUB_OUTPUT
+
+      - uses: actions/cache/restore@v4
+        # Loading cache of ephys_testing_dataset
+        id: cache-datasets
+        with:
+          path: ~/ephy_testing_data
+          key: ${{ runner.os }}-datasets-${{ steps.ephy_testing_data.outputs.dataset_hash }}
+          restore-keys: ${{ runner.os }}-datasets-
+
+      - uses: conda-incubator/setup-miniconda@v3
+        with:
+          activate-environment: neo-test-env-${{ matrix.python-version }}
+          python-version: "${{ matrix.python-version }}"
+
+      - name: Install testing dependencies
+        # testing environment is only created from yml if no cache was found
+        # restore-key hits should result in `cache-hit` == 'false'
+        #if: steps.cache-conda-env.outputs.cache-hit != 'true'
+        run: |
+          conda install pip numpy=${{ matrix.numpy-version }} -c conda-forge
+        # this command is for updating cache. We are resting removal.
+        # conda env update --name neo-test-env-${{ matrix.python-version }} --file environment_testing.yml --prune
+
+      - name: Install git-annex
+        # this is the trick from the spikeinterface repo for getting git-annex to work with datalad
+        # see https://github.com/SpikeInterface/spikeinterface/pull/3877 for more info
+        shell: bash
+        run: |
+          pip install datalad-installer
+          datalad-installer --sudo ok git-annex --method datalad/packages
+          git config --global filter.annex.process "git-annex filter-process"  # recommended for efficiency
+
+      - name: Configure git
+        run: |
+          git config --global user.email "neo_ci@fake_mail.com"
+          git config --global user.name "neo CI"
+
+      - name: Python version
+        run: |
+          which python
+          python --version
+
+      - name: Install neo including dependencies
+        # installation with dependencies is only required if no cache was found
+        # restore-key hits should result in `cache-hit` == 'false'
+        # if: steps.cache-conda-env.outputs.cache-hit != 'true'
+        run: |
+          pip install --upgrade -e .
+          pip install .[test]
+
+
+      - name: Install wine
+        run: |
+          sudo rm -f /etc/apt/sources.list.d/microsoft-prod.list
+          sudo dpkg --add-architecture i386
+          sudo apt-get update -qq
+          sudo apt-get install -yqq --allow-downgrades libc6:i386 libgcc-s1:i386 libstdc++6:i386 wine
+
+      - name: Pip list
+        run: |
+          pip list
+
+      - name: Conda list
+        run: |
+          conda list
+
+      - name: Test with pytest
+        env:
+          HDF5_PLUGIN_PATH: ${{ github.workspace }}/hdf5_local_plugin_path
+          PLEXON2_TEST: True
+        run: |
+          # only neo.rawio and neo.io
+          pytest --cov=neo neo/test/rawiotest
+          pytest --cov=neo neo/test/iotest

neo/test/iotest/test_plexon2io.py

@@ -3,6 +3,7 @@
 """
 
 import unittest
+import os
 
 from neo.io import Plexon2IO
 from neo.test.iotest.common_io_test import BaseTestIO
@@ -17,8 +18,9 @@
 except (ImportError, TimeoutError):
     HAVE_PYPL2 = False
 
+TEST_PLEXON2 = bool(os.getenv("PLEXON2_TEST"))
 
-@unittest.skipUnless(HAVE_PYPL2, "requires pypl package and all its dependencies")
+@unittest.skipUnless(HAVE_PYPL2 and TEST_PLEXON2, "requires pypl package and all its dependencies")
 class TestPlexon2IO(BaseTestIO, unittest.TestCase):
     entities_to_download = TestPlexon2RawIO.entities_to_download
     entities_to_test = TestPlexon2RawIO.entities_to_test

neo/test/rawiotest/test_plexon2rawio.py

@@ -1,14 +1,13 @@
 """
-Tests of neo.rawio.mearecrawio
+Tests of neo.rawio.plexon2
 
 """
 
 import unittest
+import os
 
 from neo.rawio.plexon2rawio import Plexon2RawIO
-
 from neo.test.rawiotest.common_rawio_test import BaseTestRawIO
-
 from numpy.testing import assert_equal
 
 try:
@@ -18,8 +17,9 @@
 except (ImportError, TimeoutError):
     HAVE_PYPL2 = False
 
+TEST_PLEXON2 = bool(os.getenv("PLEXON2_TEST"))
 
-@unittest.skipUnless(HAVE_PYPL2, "requires pypl package and all its dependencies")
+@unittest.skipUnless(HAVE_PYPL2 and TEST_PLEXON2, "requires pypl package and all its dependencies")
 class TestPlexon2RawIO(
     BaseTestRawIO,
     unittest.TestCase,