Monocular mode support

.gitignore

@@ -158,3 +158,15 @@ cython_debug/
 #  and can be added to the global gitignore or merged into this file.  For a more nuclear
 #  option (not recommended) you can uncomment the following to ignore the entire idea folder.
 #.idea/
+
+
+*.env
+*.vtp
+*.trc
+*.osim
+*.csv
+*.json
+*.xml
+*.yaml
+*.yml
+*.mot

README.md

@@ -1,2 +1,2 @@
 # opencap-analysis
-This repository contains analyses to be deployed on OpenCap web application.
+This repository contains analyses to be deployed on OpenCap web application. 

gait_analysis/function/handler.py

@@ -31,8 +31,24 @@ def handler(event, context):
         To invoke the function do POST request on the following url
         http://localhost:8080/2015-03-31/functions/function/invocations
     """
-    # temporary placeholder
-    kwargs = json.loads(event['body'])
+    try:
+        return _handler(event, context)
+    except Exception as e:
+        return {
+            'statusCode': 500,
+            'headers': {'Content-Type': 'application/json'},
+            'body': {'error': str(e)}
+        }
+
+
+def _handler(event, context):
+    body = event.get('body', None)
+    if isinstance(body, dict):
+        kwargs = body
+    elif isinstance(body, str) and body:
+        kwargs = json.loads(body)
+    else:
+        kwargs = event
 
     for field in ('session_id', 'specific_trial_names'):
         if field not in kwargs:
@@ -79,14 +95,23 @@ def handler(event, context):
 
     # %% Process data.
     # Init gait analysis and get gait events.
+    # Try with end trimming first (removes HRNet artifacts when subject leaves
+    # frame); fall back to no trimming if not enough gait cycles are found.
     legs = ['r']
     gait, gait_events = {}, {}
     for leg in legs:
-        gait[leg] = gait_analysis(
-            sessionDir, trial_name, leg=leg,
-            lowpass_cutoff_frequency_for_coordinate_values=filter_frequency,
-            n_gait_cycles=n_gait_cycles, gait_style='overground',
-            trimming_start=0, trimming_end=0.5)
+        try:
+            gait[leg] = gait_analysis(
+                sessionDir, trial_name, leg=leg,
+                lowpass_cutoff_frequency_for_coordinate_values=filter_frequency,
+                n_gait_cycles=n_gait_cycles, gait_style='overground',
+                trimming_start=0, trimming_end=0.5)
+        except Exception:
+            gait[leg] = gait_analysis(
+                sessionDir, trial_name, leg=leg,
+                lowpass_cutoff_frequency_for_coordinate_values=filter_frequency,
+                n_gait_cycles=n_gait_cycles, gait_style='overground',
+                trimming_start=0, trimming_end=0)
         gait_events[leg] = gait[leg].get_gait_events()
 
     # Select last leg.

gait_analysis/function/marker_name_mapping.py

@@ -0,0 +1,56 @@
+"""
+Marker name mapping dictionary for converting from expected format (with '_study' suffix)
+to actual format (without '_study' suffix, lowercase).
+
+This mapping is used to rename markers in TRC files to match the expected format
+used by the gait_analysis class.
+
+Expected format: markers end with '_study' (e.g., 'r_calc_study', 'r.ASIS_study')
+Actual format: markers without '_study' suffix, lowercase (e.g., 'r_calc', 'r_ASIS')
+"""
+
+MARKER_NAME_MAPPING = {
+    # Pelvis markers
+    'r.ASIS_study': 'r_ASIS',
+    'L.ASIS_study': 'l_ASIS',
+    'r.PSIS_study': 'r_PSIS',
+    'L.PSIS_study': 'l_PSIS',
+
+    # Right leg markers
+    'r_knee_study': 'r_knee',
+    'r_mknee_study': 'r_mknee',
+    'r_ankle_study': 'r_ankle',
+    'r_mankle_study': 'r_mankle',
+    'r_toe_study': 'r_toe',
+    'r_5meta_study': 'r_5meta',
+    'r_calc_study': 'r_calc',
+
+    # Left leg markers
+    'L_knee_study': 'l_knee',
+    'L_mknee_study': 'l_mknee',
+    'L_ankle_study': 'l_ankle',
+    'L_mankle_study': 'l_mankle',
+    'L_toe_study': 'l_toe',
+    'L_calc_study': 'l_calc',
+    'L_5meta_study': 'l_5meta',
+
+    # Shoulder markers
+    'r_shoulder_study': 'r_shoulder',
+    'L_shoulder_study': 'l_shoulder',
+
+    # Spine markers
+    'C7_study': 'C7',
+
+    # Hip joint centers
+    'RHJC_study': 'RHJC',  # Check if exists in actual file
+    'LHJC_study': 'LHJC',  # Check if exists in actual file
+
+    # Elbow markers
+    'r_melbow_study': 'r_melbow',
+    'L_melbow_study': 'l_melbow',
+
+}
+
+# Reverse mapping (actual -> expected) for renaming markers in TRC files
+REVERSE_MARKER_NAME_MAPPING = {v: k for k, v in MARKER_NAME_MAPPING.items()}
+