add pre-commit

int-brain-lab · Sep 12, 2023 · 296a034 · 296a034
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diff --git a/.flake8 b/.flake8
@@ -5,4 +5,4 @@ exclude =
     .git,
     scratch_*.py,
     Bonsai,
-    venv*
+    venv*
diff --git a/.github/workflows/documentation.yaml b/.github/workflows/documentation.yaml
@@ -22,4 +22,4 @@ jobs:
           publish_branch: gh-pages
           github_token: ${{ secrets.GITHUB_TOKEN }}
           publish_dir: docs/build/html
-          force_orphan: true
+          force_orphan: true
diff --git a/.gitignore b/.gitignore
@@ -34,3 +34,4 @@ app.log
 /.idea/*
 /venv/
 *.autosave
+build
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
@@ -0,0 +1,14 @@
+repos:
+
+-   repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v3.4.0
+    hooks:
+    -   id: check-yaml
+    -   id: end-of-file-fixer
+    -   id: trailing-whitespace
+    -   id: check-toml
+
+-   repo: https://github.com/pycqa/flake8
+    rev: 6.1.0
+    hooks:
+    -   id: flake8
diff --git a/Bonsai/Bonsai.config b/Bonsai/Bonsai.config
@@ -180,4 +180,4 @@
     <LibraryFolder path="Packages\Rhythm.Net.1.5.0\build\native\bin\x64" platform="x64" />
     <LibraryFolder path="Packages\Rhythm.Net.1.5.0\build\native\bin\x86" platform="x86" />
   </LibraryFolders>
-</PackageConfiguration>
+</PackageConfiguration>
diff --git a/Bonsai/Packages/Bonsai.PointGrey.2.2.0-ivo2/build/net45/Bonsai.PointGrey.props b/Bonsai/Packages/Bonsai.PointGrey.2.2.0-ivo2/build/net45/Bonsai.PointGrey.props
@@ -10,4 +10,4 @@
       <HintPath>$(MSBuildThisFileDirectory)..\..\build\net45\bin\x64\FlyCapture2Managed_v100.dll</HintPath>
     </Reference>
   </ItemGroup>
-</Project>
+</Project>
diff --git a/Bonsai/Packages/Bonsai.PointGrey.2.2.0-ivo2/build/net45/Bonsai.PointGrey.targets b/Bonsai/Packages/Bonsai.PointGrey.2.2.0-ivo2/build/net45/Bonsai.PointGrey.targets
@@ -22,4 +22,4 @@
       </None>
     </ItemGroup>
   </Target>
-</Project>
+</Project>
diff --git a/Bonsai/install.ps1 b/Bonsai/install.ps1
@@ -3,4 +3,4 @@ if (!(Test-Path "./Bonsai.exe")) {
     Expand-Archive "temp.zip" -DestinationPath "." -Force
     Remove-Item -Path "temp.zip"
 }
-& .\Bonsai.exe --no-editor
+& .\Bonsai.exe --no-editor
diff --git a/Bonsai/setup.bat b/Bonsai/setup.bat
@@ -1 +1 @@
-powershell -ExecutionPolicy Bypass -File .\install.ps1
+powershell -ExecutionPolicy Bypass -File .\install.ps1
diff --git a/LICENSE b/LICENSE
@@ -18,4 +18,4 @@ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
-SOFTWARE.
+SOFTWARE.
diff --git a/README.md b/README.md
@@ -2,7 +2,7 @@
 
 Welcome to the International Brain Laboratory decision making task implementation.
 
-The task is implemented in the Bpod system (Sanworks) and uses the Bonsai visual programming language (on Windows) for the visual stimuli and Python for all other purposes. 
+The task is implemented in the Bpod system (Sanworks) and uses the Bonsai visual programming language (on Windows) for the visual stimuli and Python for all other purposes.
 
 
 ## Documentation and installation steps here:
@@ -19,14 +19,14 @@ python -m unittest discover ./iblrig/test
 ### Build the documentation
 ```shell
 # make sure pre-requisites are installed
-pip install -r requirements-dev.txt   
+pip install -r requirements-dev.txt
 # create the static directory
 rm -rf ./docs/build
-mkdir -p ./docs/build/html/_static  
+mkdir -p ./docs/build/html/_static
 # unit tests generate task diagrams
-python -m unittest discover ./iblrig/test  
+python -m unittest discover ./iblrig/test
 # generate class diagrams
-pyreverse -o png -m y --ignore iblrig.test -A --output-directory ./docs/build/html/_static ./iblrig_tasks 
+pyreverse -o png -m y --ignore iblrig.test -A --output-directory ./docs/build/html/_static ./iblrig_tasks
 # build and serve the docs locally
-sphinx-autobuild ./docs/source ./docs/build/html/  
+sphinx-autobuild ./docs/source ./docs/build/html/
 ```
diff --git a/devices/camera_recordings/Extensions/GetFrameData.bonsai b/devices/camera_recordings/Extensions/GetFrameData.bonsai
@@ -93,4 +93,4 @@
       <Edge From="15" To="16" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/camera_recordings/Osc.config b/devices/camera_recordings/Osc.config
@@ -6,4 +6,4 @@
     <RemoteHostName>127.0.0.1</RemoteHostName>
     <RemotePort>0</RemotePort>
   </TransportConfiguration>
-</TransportConfigurationSettings>
+</TransportConfigurationSettings>
diff --git a/devices/camera_recordings/TrainingRig_SaveVideo_TrainingTasks.bonsai b/devices/camera_recordings/TrainingRig_SaveVideo_TrainingTasks.bonsai
@@ -136,4 +136,4 @@
       <Edge From="17" To="18" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/camera_recordings/TrainingRig_SaveVideo_TrainingTasks.bonsai.layout b/devices/camera_recordings/TrainingRig_SaveVideo_TrainingTasks.bonsai.layout
@@ -234,4 +234,4 @@
     </Size>
     <WindowState>Normal</WindowState>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/camera_recordings/one_camera.bonsai.layout b/devices/camera_recordings/one_camera.bonsai.layout
@@ -482,4 +482,4 @@
     </Size>
     <WindowState>Normal</WindowState>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/camera_setup/setup_video.bonsai b/devices/camera_setup/setup_video.bonsai
@@ -138,4 +138,4 @@
       <Edge From="13" To="14" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/camera_setup/setup_video.bonsai.layout b/devices/camera_setup/setup_video.bonsai.layout
@@ -219,4 +219,4 @@
       <IplImageVisualizer />
     </VisualizerSettings>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/harp_photodiode/photodiode_harp.bonsai b/devices/harp_photodiode/photodiode_harp.bonsai
@@ -60,4 +60,4 @@
       <Edge From="1" To="2" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/harp_photodiode/photodiode_harp.bonsai.layout b/devices/harp_photodiode/photodiode_harp.bonsai.layout
@@ -112,4 +112,4 @@
       </DialogSettings>
     </EditorVisualizerLayout>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/harp_photodiode/screen_sweep_harp_photodiode.bonsai b/devices/harp_photodiode/screen_sweep_harp_photodiode.bonsai
@@ -469,4 +469,4 @@ def process(value):
       <Edge From="25" To="26" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/harp_photodiode/screen_sweep_harp_photodiode.bonsai.layout b/devices/harp_photodiode/screen_sweep_harp_photodiode.bonsai.layout
@@ -542,4 +542,4 @@
       </DialogSettings>
     </EditorVisualizerLayout>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/microphone/record_mic.bonsai b/devices/microphone/record_mic.bonsai
@@ -92,4 +92,4 @@
       <Edge From="9" To="10" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/microphone/record_mic.bonsai.layout b/devices/microphone/record_mic.bonsai.layout
@@ -146,4 +146,4 @@
     </Size>
     <WindowState>Normal</WindowState>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/screen_calibration/AppleLCD_EDID.txt b/devices/screen_calibration/AppleLCD_EDID.txt
diff --git a/devices/screen_calibration/instructions.txt b/devices/screen_calibration/instructions.txt
@@ -19,4 +19,3 @@ Hue              -> 0
 
 Click on Apply (bottom right of the window)
 Close the Nvidia control panel.
-
diff --git a/devices/screen_calibration/wrkflws/Extensions/range.bonsai b/devices/screen_calibration/wrkflws/Extensions/range.bonsai
@@ -86,4 +86,4 @@
       <Edge From="12" To="13" Label="Source1" />
     </Edges>
   </Workflow>
-</WorkflowBuilder>
+</WorkflowBuilder>
diff --git a/devices/screen_calibration/wrkflws/Extensions/range.bonsai.layout b/devices/screen_calibration/wrkflws/Extensions/range.bonsai.layout
@@ -179,4 +179,4 @@
     </Size>
     <WindowState>Normal</WindowState>
   </DialogSettings>
-</VisualizerLayout>
+</VisualizerLayout>
diff --git a/devices/screen_calibration/wrkflws/Osc.config b/devices/screen_calibration/wrkflws/Osc.config
@@ -12,4 +12,4 @@
     <RemoteHostName>localhost</RemoteHostName>
     <RemotePort>6668</RemotePort>
   </TransportConfiguration>
-</TransportConfigurationSettings>
+</TransportConfigurationSettings>
diff --git a/devices/screen_calibration/wrkflws/Shaders.config b/devices/screen_calibration/wrkflws/Shaders.config
@@ -47,4 +47,4 @@
       <QuadEffects>None</QuadEffects>
     </MeshConfiguration>
   </Meshes>
-</ShaderWindowSettings>
+</ShaderWindowSettings>
-Original file line number
+Diff line change
@@ Expand Up / @@ -5,4 +5,4 @@ exclude = @@
         .git,
         scratch_*.py,
         Bonsai,
-        venv*
+        venv*
Original file line number	Diff line number	Diff line change
		@@ -1 +1 @@
		powershell -ExecutionPolicy Bypass -File .\install.ps1
		powershell -ExecutionPolicy Bypass -File .\install.ps1
Original file line number	Diff line number	Diff line change
Expand Up		@@ -19,4 +19,3 @@ Hue -> 0

		Click on Apply (bottom right of the window)
		Close the Nvidia control panel.