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Maxwell: skip streams without routing #1579

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Oct 11, 2024
Merged

Maxwell: skip streams without routing #1579

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15 changes: 13 additions & 2 deletions neo/rawio/maxwellrawio.py
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Original file line number Diff line number Diff line change
Expand Up @@ -21,6 +21,7 @@
import os
from pathlib import Path
import platform
import warnings
from urllib.request import urlopen

import numpy as np
Expand Down Expand Up @@ -114,7 +115,8 @@ def _parse_header(self):
max_sig_length = 0
self._signals = {}
sig_channels = []
for stream_id in signal_streams["id"]:
well_indices_to_remove = []
for stream_index, stream_id in enumerate(signal_streams["id"]):
if int(version) == 20160704:
sr = 20000.0
settings = h5file["settings"]
Expand Down Expand Up @@ -145,7 +147,13 @@ def _parse_header(self):
gain = settings["gain"][0]
gain_uV = 3.3 / (1024 * gain) * 1e6
mapping = settings["mapping"]
sigs = h5file["wells"][stream_id][self.rec_name]["groups"]["routed"]["raw"]
if "routed" in h5file["wells"][stream_id][self.rec_name]["groups"]:
sigs = h5file["wells"][stream_id][self.rec_name]["groups"]["routed"]["raw"]
else:
warnings.warn(f"No 'routed' group found for well {stream_id}")
well_indices_to_remove.append(stream_index)
continue


channel_ids = np.array(mapping["channel"])
electrode_ids = np.array(mapping["electrode"])
Expand All @@ -164,6 +172,9 @@ def _parse_header(self):

self._t_stop = max_sig_length / sr

if len(well_indices_to_remove) > 0:
signal_streams = np.delete(signal_streams, np.array(well_indices_to_remove))

sig_channels = np.array(sig_channels, dtype=_signal_channel_dtype)

spike_channels = []
Expand Down
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