diff options
Diffstat (limited to 'scripts/rqtl2/install_phenos.py')
| -rw-r--r-- | scripts/rqtl2/install_phenos.py | 17 |
1 files changed, 4 insertions, 13 deletions
diff --git a/scripts/rqtl2/install_phenos.py b/scripts/rqtl2/install_phenos.py index b5cab8e..e96742f 100644 --- a/scripts/rqtl2/install_phenos.py +++ b/scripts/rqtl2/install_phenos.py @@ -4,7 +4,7 @@ import traceback from pathlib import Path from zipfile import ZipFile from functools import reduce -from logging import Logger, getLogger, StreamHandler +from logging import Logger, getLogger import MySQLdb as mdb from MySQLdb.cursors import DictCursor @@ -18,6 +18,8 @@ from r_qtl import r_qtl2_qc as rqc from functional_tools import take +__MODULE__ = "scripts.rqtl2.install_phenos" + def insert_probesets(dbconn: mdb.Connection, platformid: int, phenos: tuple[str, ...]) -> int: @@ -155,16 +157,5 @@ if __name__ == "__main__": return parser.parse_args() - thelogger = getLogger("install_phenos") - thelogger.addHandler(StreamHandler(stream=sys.stderr)) - main = build_main( - cli_args(), - lambda dbconn, args: install_pheno_files(dbconn, - args.speciesid, - args.platformid, - args.datasetid, - args.rqtl2bundle, - thelogger), - thelogger, - "DEBUG") + main = build_main(cli_args(), install_pheno_files, __MODULE__) sys.exit(main()) |