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Fix sql file name for restore_sql_file.py

pull/98/head
Meng Li 2020-08-18 14:32:26 -04:00
parent 0b2abc692c
commit 75deaf7c26
1 changed files with 1 additions and 1 deletions
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src/data/restore_sql_file.py
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@ -11,7 +11,7 @@ config.read(snakemake.input["db_credentials"])
# bash command to create table and restore tables from sql file # bash command to create table and restore tables from sql file
checkdb_cmd = "mysql -h " + config[group]["host"] + " -u " + config[group]["user"] + " -p" + config[group]["password"] + " -e use " + config[group]["database"] checkdb_cmd = "mysql -h " + config[group]["host"] + " -u " + config[group]["user"] + " -p" + config[group]["password"] + " -e use " + config[group]["database"]
create_cmd = "mysql -h " + config[group]["host"] + " -u " + config[group]["user"] + " -p" + config[group]["password"] + " -e \"CREATE DATABASE IF NOT EXISTS " + config[group]["database"] + ";\"" create_cmd = "mysql -h " + config[group]["host"] + " -u " + config[group]["user"] + " -p" + config[group]["password"] + " -e \"CREATE DATABASE IF NOT EXISTS " + config[group]["database"] + ";\""
restore_cmd = "mysql -h " + config[group]["host"] + " -u " + config[group]["user"] + " -p" + config[group]["password"] + " " + config[group]["database"] + " < data/external/" + config[group]["database"] + ".sql" restore_cmd = "mysql -h " + config[group]["host"] + " -u " + config[group]["user"] + " -p" + config[group]["password"] + " " + config[group]["database"] + " < data/external/rapids_example.sql"
try: try:
subprocess.run(checkdb_cmd.split(), check = True) subprocess.run(checkdb_cmd.split(), check = True)