catalystneuro · alessandratrapani · Dec 10, 2024 · Oct 30, 2024 · Dec 8, 2024 · Dec 8, 2024
diff --git a/...ai_lab_to_nwb/zaki_2024/notes/cai-conversion-ouput-conditioning-session-nwb.png b/...ai_lab_to_nwb/zaki_2024/notes/cai-conversion-ouput-conditioning-session-nwb.png
diff --git a/src/cai_lab_to_nwb/zaki_2024/notes/cai-conversion-ouput-offline-session-nwb.png b/src/cai_lab_to_nwb/zaki_2024/notes/cai-conversion-ouput-offline-session-nwb.png
diff --git a/src/cai_lab_to_nwb/zaki_2024/notes/cai-conversion-ouput-week-session-nwb.png b/src/cai_lab_to_nwb/zaki_2024/notes/cai-conversion-ouput-week-session-nwb.png
diff --git a/src/cai_lab_to_nwb/zaki_2024/notes/cell_reg_ouput.png b/src/cai_lab_to_nwb/zaki_2024/notes/cell_reg_ouput.png
diff --git a/...wb/zaki_2024/assets/freeze_data_frame.png → ...nwb/zaki_2024/notes/freeze_data_frame.png b/...wb/zaki_2024/assets/freeze_data_frame.png → ...nwb/zaki_2024/notes/freeze_data_frame.png
diff --git a/...assets/motion_freezing_across_session.png → .../notes/motion_freezing_across_session.png b/...assets/motion_freezing_across_session.png → .../notes/motion_freezing_across_session.png
diff --git a/..._lab_to_nwb/zaki_2024/assets/protocol.png → ...i_lab_to_nwb/zaki_2024/notes/protocol.png b/..._lab_to_nwb/zaki_2024/assets/protocol.png → ...i_lab_to_nwb/zaki_2024/notes/protocol.png
diff --git a/...ts/spatial_temporal_comp_segmentation.png → ...es/spatial_temporal_comp_segmentation.png b/...ts/spatial_temporal_comp_segmentation.png → ...es/spatial_temporal_comp_segmentation.png
diff --git a/...i_lab_to_nwb/zaki_2024/zaki_2024_notes.md → ...to_nwb/zaki_2024/notes/zaki_2024_notes.md b/...i_lab_to_nwb/zaki_2024/zaki_2024_notes.md → ...to_nwb/zaki_2024/notes/zaki_2024_notes.md
diff --git a/...ab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-conditioning-session-nwb.png b/...ab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-conditioning-session-nwb.png
diff --git a/src/cai_lab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-dataset-structure.png b/src/cai_lab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-dataset-structure.png
diff --git a/...cai_lab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-offline-session-nwb.png b/...cai_lab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-offline-session-nwb.png
diff --git a/src/cai_lab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-week-session-nwb.png b/src/cai_lab_to_nwb/zaki_2024/tutorials/cai-conversion-ouput-week-session-nwb.png
diff --git a/src/cai_lab_to_nwb/zaki_2024/tutorials/zaki_2024_tutorial.ipynb b/src/cai_lab_to_nwb/zaki_2024/tutorials/zaki_2024_tutorial.ipynb
diff --git a/src/cai_lab_to_nwb/zaki_2024/zaki_2024_convert_session.py b/src/cai_lab_to_nwb/zaki_2024/zaki_2024_convert_session.py
@@ -184,10 +184,10 @@ def session_to_nwb(
 
 if __name__ == "__main__":
 
-    subject_id = "Ca_EEG2-1"
-    session_type = "FC"  #
+    subject_id = "Ca_EEG3-4"
+    session_type = "OfflineDay1Session16"  #
     session_id = subject_id + "_" + session_type
-    stub_test = True
+    stub_test = False
     verbose = True
     yaml_file_path = Path(__file__).parent / "utils/conversion_parameters.yaml"
     conversion_parameter_dict = load_dict_from_file(yaml_file_path)

diff --git a/src/cai_lab_to_nwb/zaki_2024/zaki_2024_convert_week_session.py b/src/cai_lab_to_nwb/zaki_2024/zaki_2024_convert_week_session.py
@@ -144,6 +144,13 @@ def session_to_nwb(
 
         nwbfile.add_epoch(start_time=start_time, stop_time=stop_time, session_ids=session_id)
 
+    session_description = (
+        "Week long of continuous recording with HD-X02 wireless telemetry probe of EEG, EMG, Temperature and Activity signals. "
+        "Conditioning and Offline sessions, as described in the experiment_description, were performed during the week. "
+        "The output of cell registration across conditioning and offline sessions are reported in this nwb file. "
+    )
+    metadata["NWBFile"]["session_description"] = session_description
+
     # Run conversion
     configure_and_write_nwbfile(nwbfile=nwbfile, backend="hdf5", output_filepath=nwbfile_path)
 
@@ -163,7 +170,7 @@ def session_to_nwb(
     # Parameters for conversion
     data_dir_path = Path("D:/")
     output_dir_path = Path("D:/cai_lab_conversion_nwb/")
-    subject_id = "Ca_EEG2-1"
+    subject_id = "Ca_EEG3-4"
     stub_test = False
     session_to_nwb(
         data_dir_path=data_dir_path,

diff --git a/src/cai_lab_to_nwb/zaki_2024/zaki_2024_metadata.yaml b/src/cai_lab_to_nwb/zaki_2024/zaki_2024_metadata.yaml
@@ -61,7 +61,7 @@ Subject:
   description: Adult C57BL/6J wild-type mice from Jackson Laboratories were used. 
     Mice ordered from Jackson arrived group-housed in cages of 4 mice/cage and were singly housed for the experiment. 
     Mice were ordered to arrive at 8-9 weeks of age and underwent behavioral testing about 4-6 weeks after the arrival date. 
-    All experimental procedures were approved by the Icahn School of Medicine at Mount Sinai’s IACUC.
+    All experimental procedures were approved by the Icahn School of Medicine at Mount Sinai's IACUC.
   age: P12W/P18W
   sex: M
   strain: C57BL/6J
@@ -79,7 +79,7 @@ Ophys:
       location: CA1
       device: Microscope
       optical_channel:
-        - name: OpticalChannel
+        - name: GreenChannel
           description: Green channel of the microscope.
           emission_lambda: 513.0
       indicator: GCaMP6f