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scaling in coreneuron #32

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Merged
cattabiani merged 3 commits into from
Jul 21, 2025
Merged

scaling in coreneuron #32

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0dafdf2
add scaling to report.conf
cattabiani Jul 21, 2025
775315e
docs
cattabiani Jul 21, 2025
6f4c682
fix typo
cattabiani Jul 21, 2025
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14 changes: 10 additions & 4 deletions commonutils.py
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@
import os
from neuron import h
from pathlib import Path
from typing import List
from typing import List, Literal

def mkdir_p(path):
try:
Expand Down Expand Up @@ -169,15 +169,20 @@ def setup_nrnbbcore_register_mapping(rings):

def write_report_config(output_file, report_name, target_name, report_type, report_variable,
unit, report_format, target_type, dt, start_time, end_time, gids,
buffer_size=8):
buffer_size=8, scaling: Literal["none", "area"] = "area"):
"""
Writes the configuration for a report to a file. Check the docs here:

https://sonata-extension.readthedocs.io/en/latest/sonata_simulation.html#reports
"""
import struct
num_gids = len(gids)
report_conf = Path(output_file)
report_conf.parent.mkdir(parents=True, exist_ok=True)
with report_conf.open("wb") as fp:
# Write the formatted string to the file
fp.write(b"1\n")
fp.write(("%s %s %s %s %s %s %d %lf %lf %lf %d %d\n" % (
fp.write(("%s %s %s %s %s %s %d %lf %lf %lf %d %d %s\n" % (
report_name,
target_name,
report_type,
Expand All @@ -189,7 +194,8 @@ def write_report_config(output_file, report_name, target_name, report_type, repo
start_time,
end_time,
num_gids,
buffer_size
buffer_size,
scaling
)).encode())
# Write the array of integers to the file in binary format
fp.write(struct.pack(f'{num_gids}i', *gids))
Expand Down