From: Diane Trout <diane@caltech.edu>
Date: Wed, 16 Jan 2013 00:55:20 +0000 (-0800)
Subject: Thrown an exception if we can't parse base calling directory.
X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=htsworkflow.git;a=commitdiff_plain;h=fc458343b8f4f15b761e9ed58d96430865e34d3a

Thrown an exception if we can't parse base calling directory.

While working on making the alignment parsing optional. I made a mistake
copying some files around, that led to an unparseable base call directory.

I thought I should try to catch and report that error condition.
---

diff --git a/htsworkflow/pipelines/bustard.py b/htsworkflow/pipelines/bustard.py
index b5bf7e1..99f231d 100644
--- a/htsworkflow/pipelines/bustard.py
+++ b/htsworkflow/pipelines/bustard.py
@@ -365,6 +365,9 @@ def bustard(pathname):
     else:
         b = bustard_from_ga1(pathname)
 
+    if not b:
+        raise RuntimeError("Unable to parse base-call directory at %s" % (pathname,))
+
     return b
 
 def bustard_from_ga1(pathname):