From 53b1e7cb181380a24aab4cbc7a9634b2d8dd2d29 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Fri, 19 Jan 2024 08:29:04 +0300
Subject: scripts: Process R/qtl2 bundle

Build script to start the processing of the R/qtl2 bundle.
---
 scripts/rqtl2/install_genotypes.py | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

(limited to 'scripts/rqtl2/install_genotypes.py')

diff --git a/scripts/rqtl2/install_genotypes.py b/scripts/rqtl2/install_genotypes.py
index 77e7163..733ccf9 100644
--- a/scripts/rqtl2/install_genotypes.py
+++ b/scripts/rqtl2/install_genotypes.py
@@ -15,8 +15,8 @@ from r_qtl import r_qtl2 as rqtl2
 from functional_tools import take
 
 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
 
 stderr_handler = logging.StreamHandler(stream=sys.stderr)
 logger = logging.getLogger("install_genotypes")
@@ -217,14 +217,14 @@ if __name__ == "__main__":
 
     def cli_args():
         """Process command-line arguments for install_genotypes"""
-        parser = add_common_arguments(init_cli_parser(
+        parser = add_common_arguments(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.")))
 
         return parser.parse_args()
 
     main = build_main(
-        cli_args,
+        cli_args(),
         lambda dbconn, args: install_genotypes(dbconn,
                                                args.speciesid,
                                                args.populationid,
-- 
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