From 2cc2897fecc5f5f4d1338c33ef8197f7ebba140c Mon Sep 17 00:00:00 2001
From: Alexander Kabui
Date: Thu, 13 Jan 2022 15:23:49 +0300
Subject: read stdout data;handle exceptions

---
 gn3/computations/ctl.py | 11 ++++++++---
 1 file changed, 8 insertions(+), 3 deletions(-)

diff --git a/gn3/computations/ctl.py b/gn3/computations/ctl.py
index c4955a0..8f20b65 100644
--- a/gn3/computations/ctl.py
+++ b/gn3/computations/ctl.py
@@ -1,4 +1,5 @@
 """module contains code to process ctl analysis data"""
+import json
 from gn3.commands import run_cmd
 
 from gn3.computations.wgcna import dump_wgcna_data
@@ -14,7 +15,11 @@ def call_ctl_script(data):
     try:
         cmd_results = run_cmd(cmd)
         print(cmd_results)
-    except Exception as e:
-        raise e
+        with open(temp_file_name,"r") as outputfile:
+            if cmd_results["code"] != 0:
+                return cmd_results
+            return json.load(outputfile)
+
 
-    return "hello"
+    except Exception as e:
+        return str(e)
-- 
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