From: Diane Trout <diane@caltech.edu>
Date: Wed, 3 Dec 2008 22:21:16 +0000 (+0000)
Subject: Store the bustard pathname when searching for run folders
X-Git-Tag: stanford.caltech-merged-database-2009-jan-15~20
X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=htsworkflow.git;a=commitdiff_plain;h=c0f5b0c043345f32a1e0cbbd3b0daa5f7c1609da

Store the bustard pathname when searching for run folders
This was needed so the srf file can use the same runfolder scanning
code as the --extract-results feature.
---

diff --git a/htsworkflow/pipelines/bustard.py b/htsworkflow/pipelines/bustard.py
index 1658b17..54659b4 100644
--- a/htsworkflow/pipelines/bustard.py
+++ b/htsworkflow/pipelines/bustard.py
@@ -69,6 +69,7 @@ class Bustard(object):
         self.date = date.today()
         self.user = None
         self.phasing = {}
+        self.pathname = None
 
         if xml is not None:
             self.set_elements(xml)
@@ -133,6 +134,7 @@ def bustard(pathname):
     t = time.strptime(groups[1], EUROPEAN_STRPTIME)
     b.date = date(*t[0:3])
     b.user = groups[2]
+    b.pathname = pathname
     paramfiles = glob(os.path.join(pathname, "params?.xml"))
     for paramfile in paramfiles:
         phasing = Phasing(paramfile)