From dcce5692a9fe6c6fc76cadebbf960c4ea4f81f21 Mon Sep 17 00:00:00 2001
From: HNHalstead <47102761+HNHalstead@users.noreply.github.com>
Date: Fri, 2 Feb 2024 11:43:21 -0800
Subject: [PATCH] Update task_qc_check_phb.wdl

---
 tasks/quality_control/task_qc_check_phb.wdl | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/tasks/quality_control/task_qc_check_phb.wdl b/tasks/quality_control/task_qc_check_phb.wdl
index 66fbb3df9..717deb28f 100644
--- a/tasks/quality_control/task_qc_check_phb.wdl
+++ b/tasks/quality_control/task_qc_check_phb.wdl
@@ -476,7 +476,8 @@ task qc_check_phb_waphl {
     import pandas as pd
     import numpy as np
 
-
+    
+    alert = ""
     qc_check = "no qc check for this taxa"
     if "~{expected_taxon}" and "~{predicted_taxon}":
       if "~{expected_taxon}" != "~{predicted_taxon}":
@@ -505,7 +506,7 @@ task qc_check_phb_waphl {
         if "~{est_coverage_raw}" and qc_check == "PASS":
             if float("~{est_coverage_raw}") < float(qc_check_df.loc["~{predicted_taxon}", "est_coverage_raw"]):
                 qc_check = "FAIL"
-                
+
         if "~{number_N}" and "~{number_Total}" and qc_check == "PASS":
             perc_N = int("~{number_N}")/int("~{number_Total}")
             if perc_N >= float(qc_check_df.loc["~{predicted_taxon}", "perc_N"]):