diff --git a/scripts/metametamerge.sm b/scripts/metametamerge.sm index 4473390..aec3e32 100755 --- a/scripts/metametamerge.sm +++ b/scripts/metametamerge.sm @@ -28,4 +28,4 @@ rule metametamerge: detailed = "--detailed" if config["detailed"] else "", verbose = "--verbose" if config["verbose"] else "" conda: srcdir("../envs/metametamerge.yaml") - shell: "python3 {config[tool_alt_path][metametamerge]}MetaMetaMerge.py --input-files {input.tool_profiles} --database-profiles {params.db_profiles} --tool-identifier '{params.tool_identifier}' --tool-method '{params.tool_method}' --names-file {input.names} --nodes-file {input.nodes} --merged-file {input.merged} --bins {config[bins]} --cutoff {config[cutoff]} --mode '{config[mode]}' --ranks '{config[ranks]}' --output-file {output.final_profile} {params.detailed} {params.verbose} --output-parsed-profiles > {log} 2>&1" + shell: "{config[tool_alt_path][metametamerge]}MetaMetaMerge.py --input-files {input.tool_profiles} --database-profiles {params.db_profiles} --tool-identifier '{params.tool_identifier}' --tool-method '{params.tool_method}' --names-file {input.names} --nodes-file {input.nodes} --merged-file {input.merged} --bins {config[bins]} --cutoff {config[cutoff]} --mode '{config[mode]}' --ranks '{config[ranks]}' --output-file {output.final_profile} {params.detailed} {params.verbose} --output-parsed-profiles > {log} 2>&1"