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-rw-r--r--scripts/rqtl2/install_phenos.py8
1 files changed, 4 insertions, 4 deletions
diff --git a/scripts/rqtl2/install_phenos.py b/scripts/rqtl2/install_phenos.py
index 5c25866..21b5f00 100644
--- a/scripts/rqtl2/install_phenos.py
+++ b/scripts/rqtl2/install_phenos.py
@@ -10,8 +10,8 @@ import MySQLdb as mdb
from MySQLdb.cursors import DictCursor
from scripts.rqtl2.entry import build_main
-from scripts.cli_parser import init_cli_parser
from scripts.rqtl2.cli_parser import add_common_arguments
+from scripts.cli_parser import init_cli_parser, add_global_data_arguments
from r_qtl import r_qtl2 as rqtl2
@@ -143,9 +143,9 @@ if __name__ == "__main__":
def cli_args():
"""Process command-line arguments for `install_phenos`"""
- parser = init_cli_parser(
+ parser = add_global_data_arguments(init_cli_parser(
"install_genotypes",
- "Parse genotypes from R/qtl2 bundle into the database.")
+ "Parse genotypes from R/qtl2 bundle into the database."))
parser.add_argument(
"platformid",
@@ -156,7 +156,7 @@ if __name__ == "__main__":
return parser.parse_args()
main = build_main(
- cli_args,
+ cli_args(),
lambda dbconn, args: install_pheno_files(dbconn,
args.speciesid,
args.platformid,