search recording channels for Open Ephys based on channel names

Author: Thinh Nguyen

element_array_ephys/ephys_no_curation.py

@@ -299,7 +299,7 @@ def make(self, key):
 
                 electrode_group_members = [
                     probe_electrodes[channel_idx]
-                    for channel_idx in probe_data.ap_meta['channels_ids']]
+                    for channel_idx in probe_data.ap_meta['channels_indices']]
             else:
                 raise NotImplementedError(
                     'Processing for neuropixels'
@@ -905,7 +905,7 @@ def get_neuropixels_channel2electrode_map(ephys_recording_key, acq_software):
 
         channel2electrode_map = {
             channel_idx: probe_electrodes[channel_idx]
-            for channel_idx in probe_dataset.ap_meta['channels_ids']}
+            for channel_idx in probe_dataset.ap_meta['channels_indices']}
 
     return channel2electrode_map
 

element_array_ephys/readers/openephys.py

@@ -96,9 +96,13 @@ def load_probe_data(self):
 
                     meta = getattr(probe, continuous_type + '_meta')
                     if not meta:
+                        # channel indices - 0-based indexing
+                        channels_indices = [int(re.search(r'\d+$', chn_name).group()) - 1
+                                            for chn_name in analog_signal.channel_names]
+
                         meta.update(**continuous_info,
-                                    channels_ids=[c['source_processor_index']
-                                                  for c in continuous_info['channels']],
+                                    channels_indices=channels_indices,
+                                    channels_ids=analog_signal.channels_ids,
                                     channels_names=analog_signal.channel_names,
                                     channels_gains=analog_signal.gains)