Fix for tickets #45 & #47

[htsworkflow.git] / scripts / configure_pipeline

diff --git a/scripts/configure_pipeline b/scripts/configure_pipeline
index c70f319beeebb54baef9446e47758b1d57b41fe7..495b1c002ed98f507209067f35702d0adc63df08 100644 (file)
--- a/scripts/configure_pipeline
+++ b/scripts/configure_pipeline
@@ -3,13 +3,13 @@ import os
 import sys
 import re
 from gaworkflow.pipeline.configure_run import *
-from gaworkflow.pipeline import retrieve_config
+from gaworkflow.pipeline import retrieve_config as _rc
 from gaworkflow.pipeline.monitors import startCmdLineStatusMonitor
 
 s_fc = re.compile('FC[0-9]+')
 
 #Turn on built-in command-line parsing.
-retrieve_config.DISABLE_CMDLINE = False
+_rc.DISABLE_CMDLINE = False
 
 GENOME_DIR = '/data-store01/compbio/genomes/'