Change dependencies. See details.

- `trajectory_analysis_tools` and `replay_trajectory_classification` are
  superceded by `non_local_detector`.
- `dask-cuda` not in use, per @edeno

environment.yml

@@ -16,8 +16,7 @@ channels:
 dependencies:
   - bottleneck
   # - cudatoolkit=11.3 # dlc-only
-  # - cupy # dlc-only
-  # - dask-cuda # dlc-only
+  - cupy
   # - ffmpeg # dlc-only
   - ipympl
   - jupyterlab>=3.*
@@ -32,17 +31,14 @@ dependencies:
   - pyfftw<=0.12.0  # ghostipy req. install from conda-forge for Mac ARM
   - python>=3.9,<3.10
   - pytorch<1.12.0
-  - replay_trajectory_classification
   - ripple_detection
   - seaborn
   # - torchaudio # dlc-only
   # - torchvision # dlc-only
   - track_linearization>=2.3
-  # - trajectory_analysis_tools # dlc-only
   - pip:
       - datajoint>=0.13.6
       # - deeplabcut<2.3.0 # dlc-only
-      - figurl-jupyter
       - ghostipy # for common_filter
       - ndx-franklab-novela>=0.1.0
       - mountainsort4

environment_dlc.yml

@@ -10,39 +10,35 @@ name: spyglass-dlc
 channels:
   - conda-forge
   - defaults
-  - pytorch  # dlc-only
+  - pytorch   # dlc-only
   - franklab
   - edeno
 dependencies:
   - bottleneck
-  - cudatoolkit=11.3  # dlc-only
-  - cupy  # dlc-only
-  - dask-cuda  # dlc-only
-  - ffmpeg  # dlc-only
+  - cudatoolkit=11.3   # dlc-only
+  - cupy
+  - ffmpeg   # dlc-only
   - ipympl
   - jupyterlab>=3.*
-  - libgcc  # dlc-only
+  - libgcc   # dlc-only
   - matplotlib
   - non_local_detector
   - numpy<1.24
   - pip>=20.2.*
   - position_tools
-  - pybind11 # req by mountainsort4 -> isosplit5
+  - pybind11  # req by mountainsort4 -> isosplit5
   - pydotplus>=2.0.*
   - pyfftw<=0.12.0  # ghostipy req. install from conda-forge for Mac ARM
   - python>=3.9,<3.10
   - pytorch<1.12.0
-  - replay_trajectory_classification
   - ripple_detection
   - seaborn
   - torchaudio  # dlc-only
   - torchvision  # dlc-only
   - track_linearization>=2.3
-  - trajectory_analysis_tools  # dlc-only
   - pip:
       - datajoint>=0.13.6
       - deeplabcut<2.3.0
-      - figurl-jupyter
       - ghostipy # for common_filter
       - ndx-franklab-novela>=0.1.0
       - mountainsort4

src/spyglass/settings.py

@@ -544,14 +544,20 @@ def dlc_output_dir(self) -> str:
 if sg_config.load_failed:  # Failed to load
     logger.warning("Failed to load SpyglassConfig. Please set up config file.")
     config = {}  # Let __intit__ fetch empty config for first time setup
-    config, prepopulate, test_mode, base_dir, raw_dir, analysis_dir = (
-        {},
-        False,
-        False,
-        None,
-        None,
-        None,
-    )
+    prepopulate = False
+    test_mode = False
+    debug_mode = False
+    base_dir = None
+    raw_dir = None
+    recording_dir = None
+    temp_dir = None
+    analysis_dir = None
+    sorting_dir = None
+    waveform_dir = None
+    video_dir = None
+    dlc_project_dir = None
+    dlc_video_dir = None
+    dlc_output_dir = None
 else:
     config = sg_config.config
     base_dir = sg_config.base_dir