- Gzip files now written as 'at', read as 'rt' (was 'w+' and None)

- A fix for problems in Python 3

Author: Alan Christie

src/python/pipelines_utils/utils.py

@@ -35,7 +35,7 @@ def round_sig(x, sig):
 def open_file(filename):
     """Open the file gunzipping it if it ends with .gz"""
     if filename.lower().endswith('.gz'):
-        return gzip.open(filename)
+        return gzip.open(filename, 'rt')
     else:
         return open(filename, 'r')
 
@@ -68,7 +68,7 @@ def open_output(basename, ext, compress):
         fname = basename + '.' + ext
         if compress:
             fname += ".gz"
-            return gzip.open(fname, 'w+')
+            return gzip.open(fname, 'at')
         else:
             return open(fname, 'w+')
     else:

src/python/setup.py

@@ -13,7 +13,7 @@ def get_long_description():
 setup(
 
     name='im-pipelines-utils',
-    version='2.2.1',
+    version='2.2.2',
     author='Alan Christie',
     author_email='achristie@informaticsmatters.com',
     url='https://github.com/InformaticsMatters/pipelines-utils',