add facemap interace and aligned timestamps

src/higley_lab_to_nwb/benisty_2022/benisty_2022_convert_session.py

@@ -108,7 +108,16 @@ def session_to_nwb(data_dir_path: Union[str, Path], output_dir_path: Union[str,
     video_file_path = data_dir_path / session_id / f"{session_id}.avi"
     source_data.update(dict(Video=dict(file_paths=[video_file_path], verbose=False)))
     conversion_options.update(dict(Video=dict(stub_test=stub_test, external_mode=False)))
-
+
+    # Add Facemap outpt
+    video_file_path = data_dir_path / session_id / f"{session_id}.avi"
+    mat_file_path = data_dir_path / session_id / f"{session_id}_proc.mat"
+    source_data.update(
+        dict(
+            FacemapInterface=dict(mat_file_path=str(mat_file_path), video_file_path=str(video_file_path), verbose=False)
+        )
+    )
+
     converter = Benisty2022NWBConverter(source_data=source_data)
 
     # Add datetime to conversion
@@ -125,7 +134,9 @@ def session_to_nwb(data_dir_path: Union[str, Path], output_dir_path: Union[str,
     metadata = dict_deep_update(metadata, editable_metadata)
 
     # Run conversion
-    converter.run_conversion(metadata=metadata, nwbfile_path=nwbfile_path, conversion_options=conversion_options)
+    converter.run_conversion(
+        metadata=metadata, nwbfile_path=nwbfile_path, conversion_options=conversion_options, overwrite=True
+    )
 
 
 if __name__ == "__main__":

src/higley_lab_to_nwb/benisty_2022/benisty_2022_requirements.txt

@@ -1,3 +1,5 @@
 nwb-conversion-tools==0.11.1   # Example of specific pinned dependecy
 some-extra-package==1.11.3  # Example of another extra package that's necessary for the current conversion
-roiextractors @ git+https://github.com/catalystneuro/roiextractors.git@8db5f9cb3a7ee5efee49b7fd0b694c7a8105519a # Github pinned dependency
+roiextractors
+neuroconv @ git+https://github.com/catalystneuro/neuroconv.git@facemap
+ndx-facemap-motionsvd @ git+https://github.com/catalystneuro/ndx-facemap-motionsvd.git@main

src/higley_lab_to_nwb/benisty_2022/benisty_2022nwbconverter.py

@@ -4,7 +4,7 @@
 from higley_lab_to_nwb.benisty_2022.benisty_2022_spike2signals_interface import Benisty2022Spike2SignalsInterface
 from higley_lab_to_nwb.benisty_2022.benisty_2022_imaginginterface import Benisty2022ImagingInterface
 
-from neuroconv.datainterfaces import VideoInterface
+from neuroconv.datainterfaces import VideoInterface, FacemapInterface
 
 
 class Benisty2022NWBConverter(NWBConverter):
@@ -13,6 +13,7 @@ class Benisty2022NWBConverter(NWBConverter):
     data_interface_classes = dict(
         Spike2Signals=Benisty2022Spike2SignalsInterface, 
         Video=VideoInterface,
+        FacemapInterface=FacemapInterface,
         ImagingBlueExcitationGreenChannel=Benisty2022ImagingInterface,
         ImagingBlueExcitationRedChannel=Benisty2022ImagingInterface,
         ImagingUVExcitationGreenChannel=Benisty2022ImagingInterface,
@@ -24,14 +25,16 @@ class Benisty2022NWBConverter(NWBConverter):
     def temporally_align_data_interfaces(self):
         ttlsignal_interface = self.data_interface_objects["Spike2Signals"]
         video_interface = self.data_interface_objects["Video"]
+        facemap_interface = self.data_interface_objects["FacemapInterface"]
         video_interface._timestamps = video_interface.get_timestamps()
         stream_id = next(
             (
                 stream_id
-                for stream_id, stream_name in ttlsignal_interface.stream_ids_to_names_map.items()
+                for stream_id, stream_name in ttlsignal_interface.ttl_stream_ids_to_names_map.items()
                 if stream_name == "TTLSignalPupilCamera"
             ),
             None,
         )
         ttl_times = ttlsignal_interface.get_event_times_from_ttl(stream_id=stream_id)
         video_interface.set_aligned_starting_time(ttl_times[0])
+        facemap_interface.set_aligned_starting_time(ttl_times[0])