Test 1.1rc1 style runs, which unfortunately require a hack for parsing

[htsworkflow.git] / htsworkflow / pipelines / summary.py

diff --git a/htsworkflow/pipelines/summary.py b/htsworkflow/pipelines/summary.py
index 8830177f5b7a059dc4d4a877ec2ef9d7cf447a59..ad07d06b3992a07b172766213deeeb279135fb0d 100644 (file)
--- a/htsworkflow/pipelines/summary.py
+++ b/htsworkflow/pipelines/summary.py
@@ -161,7 +161,11 @@ class Summary(object):
         The contents of the h2 tag is considered to the name
         of the table.
         """
-        tree = ElementTree.parse(pathname).getroot()
+        # tree = ElementTree.parse(pathname).getroot()
+        # hack for 1.1rc1, this should be removed when possible.
+        file_body = open(pathname).read()
+        file_body = file_body.replace('CHASTITY<=', 'CHASTITY&lt;=')
+        tree = ElementTree.fromstring(file_body)
         body = tree.find('body')
         tables = {}
         for i in range(len(body)):