From a0b12ddb7f253ee4dedf9260eea8738ac3889bc6 Mon Sep 17 00:00:00 2001
From: saraloo <45245630+saraloo@users.noreply.github.com>
Date: Fri, 14 Apr 2023 09:51:57 -0400
Subject: [PATCH] add pull gt option

---
 R/scripts/postprocess/run_sim_processing_SLURM.R | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/R/scripts/postprocess/run_sim_processing_SLURM.R b/R/scripts/postprocess/run_sim_processing_SLURM.R
index 1e678bfce..d6f7b8fe5 100644
--- a/R/scripts/postprocess/run_sim_processing_SLURM.R
+++ b/R/scripts/postprocess/run_sim_processing_SLURM.R
@@ -307,9 +307,9 @@ data_path <- opt$data_path
 
 Sys.setenv(CONFIG_PATH = opt$config)
 Sys.setenv(COVID_PATH = source_loc)
-if (pathogen == "flu"){
+if (pathogen == "flu" & pull_gt){
   source(paste0(source_loc, "/R/scripts/build_flu_data.R"))
-} else if (pathogen == "covid19"){
+} else if (pathogen == "covid19" & pull_gt){
   source(paste0(source_loc, "/R/scripts/build_covid_data.R"))
 }