From 2be4b3a8154c5721bb0ec55b8693cf6ead1d6606 Mon Sep 17 00:00:00 2001
From: roy <rollinforall@gmail.com>
Date: Tue, 6 Aug 2019 14:53:50 -0700
Subject: [PATCH] slurm: add verbose support

---
 TopmedPipeline.py | 4 +++-
 slurm_cfg.json    | 3 ++-
 2 files changed, 5 insertions(+), 2 deletions(-)

diff --git a/TopmedPipeline.py b/TopmedPipeline.py
index fe1d74df..7c15fca1 100755
--- a/TopmedPipeline.py
+++ b/TopmedPipeline.py
@@ -817,7 +817,9 @@ def submitJob(self, **kwargs):
         # -- cost
         dockerOpts["--machine"] = theMachine
         dockerOpts["--cost"] = theCost
-
+        # -- verbose
+        if self.verbose:
+            dockerOpts["--verbose"] = "True"
         suboptStr = dictToString(submitOpts)
         dockeroptStr = dictToString(dockerOpts)
 
diff --git a/slurm_cfg.json b/slurm_cfg.json
index f7204c16..176cd719 100644
--- a/slurm_cfg.json
+++ b/slurm_cfg.json
@@ -83,7 +83,8 @@
             "--mem_limit": null,
             "--working_dir": null,
             "--machine": null,
-            "--cost": null
+            "--cost": null,
+            "--verbose": null
         }
     }
 }