From: Diane Trout <diane@caltech.edu>
Date: Sat, 24 Jan 2009 00:24:18 +0000 (+0000)
Subject: insert code to do ~ home directory expansion
X-Git-Tag: 0.2.0.1~32
X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=htsworkflow.git;a=commitdiff_plain;h=4f022ab1454b97d1cd0113af6f8d793918863464

insert code to do ~ home directory expansion
---

diff --git a/scripts/runfolder b/scripts/runfolder
index bf0bcc4..0abbfe1 100644
--- a/scripts/runfolder
+++ b/scripts/runfolder
@@ -29,6 +29,7 @@ read counts. (The report isn't currently very pretty)
 """
 import logging
 import optparse
+import os
 import sys
 
 from htsworkflow.pipelines import runfolder
@@ -66,6 +67,8 @@ def main(cmdlist=None):
 
     runs = []
     if opt.run_xml:
+        # handle ~ shortcut
+        opt.run_xml = os.path.expanduser(opt.run_xml)
         tree = ElementTree.parse(opt.run_xml).getroot()
         runs.append(runfolder.PipelineRun(xml=tree))
     for run_dir in args: