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common.smk: use update_config to simplify merge_configs

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Fabian Neumann 2024-02-17 20:44:22 +01:00
parent d335275e0f
commit 388ea65847
1 changed files with 2 additions and 6 deletions
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8
rules/common.smk
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@ -10,7 +10,7 @@ import os, sys, glob
path = workflow.source_path("../scripts/_helpers.py") path = workflow.source_path("../scripts/_helpers.py")
sys.path.insert(0, os.path.dirname(path)) sys.path.insert(0, os.path.dirname(path))
from _helpers import validate_checksum from snakemake.utils import update_config
def get_config(config, keys, default=None): def get_config(config, keys, default=None):
@ -29,11 +29,7 @@ def get_config(config, keys, default=None):
def merge_configs(base_config, scenario_config): def merge_configs(base_config, scenario_config):
"""Merge base config with a specific scenario without modifying the original.""" """Merge base config with a specific scenario without modifying the original."""
merged = copy.deepcopy(base_config) merged = copy.deepcopy(base_config)
for key, value in scenario_config.items(): update_config(merged, scenario_config)
if key in merged and isinstance(merged[key], dict):
merged[key] = merge_configs(merged[key], value)
else:
merged[key] = value
return merged return merged