From: Diane Trout <diane@caltech.edu>
Date: Thu, 25 Sep 2008 00:04:19 +0000 (+0000)
Subject: solexa2srf likes to produce output, so my trick of watching the
X-Git-Tag: stanford.caltech-merged-database-2009-jan-15~34
X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=htsworkflow.git;a=commitdiff_plain;h=657b881b83546c8197d57656871976efef90db41

solexa2srf likes to produce output, so my trick of watching the
sockets to block until when the process ends didn't work.

This patch inserts a simple sleep(1) (second) into the code that
waits for the jobs to finish to prevent the queue manager from rapidly
spinning.

It should probably be fixed with a better way of monitoring for when
a process finishes
---

diff --git a/gaworkflow/util/queuecommands.py b/gaworkflow/util/queuecommands.py
index da10193..78728ae 100644
--- a/gaworkflow/util/queuecommands.py
+++ b/gaworkflow/util/queuecommands.py
@@ -7,6 +7,7 @@ from subprocess import PIPE
 import subprocess
 import select
 import sys
+import time
 
 class QueueCommands(object):
     """
@@ -83,4 +84,4 @@ class QueueCommands(object):
                     queue_log.info("Process %d finished [%d]",
                                    pending.pid, pending.returncode)
                     del self.running[pending_fd]
-
+            time.sleep(1)