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ADD: measure time taken to run argnorm on example inputs in integration_tests/run_argnorm.py #91

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Feb 25, 2025
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ADD: measure time taken to run argnorm on example inputs in integration_tests/run_argnorm.py #91

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6 changes: 5 additions & 1 deletion integration_tests/run_argnorm.py
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Original file line number Diff line number Diff line change
@@ -1,6 +1,7 @@
import subprocess
import pandas as pd
import os
import time

os.makedirs('integration_tests/outputs/raw', exist_ok=True)
os.makedirs('integration_tests/outputs/hamronized', exist_ok=True)
Expand All @@ -18,8 +19,11 @@ def run_cli_test(tool, file, folder, db=None):

if tool in ['abricate', 'groot']:
command += ['--db', db]


start = time.time()
subprocess.check_call(command)
end = time.time()
print(f'{tool} {file} {folder} : {end-start:.2f}s')

output = pd.read_csv(f'integration_tests/outputs/{folder}/{file}', sep='\t')
golden_file = pd.read_csv(f'outputs/{folder}/{file}', sep='\t')
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