Gerald's time-stamp format was inconsistent.

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

diff --git a/htsworkflow/pipelines/gerald.py b/htsworkflow/pipelines/gerald.py
index e0d84cf49fb21d3f31841ae4857e7780365db5c3..75d7d2e514485503b0cca1a612a969ddc6e156e0 100644 (file)
--- a/htsworkflow/pipelines/gerald.py
+++ b/htsworkflow/pipelines/gerald.py
@@ -104,7 +104,7 @@ class Gerald(Alignment):
 
         timestamp = self.tree.findtext('ChipWideRunParameters/TIME_STAMP')
         if timestamp is not None:
-            epochstamp = time.mktime(time.strptime(timestamp, '%c'))
+            epochstamp = time.mktime(time.strptime(timestamp))
             return datetime.fromtimestamp(epochstamp)
         return super(Gerald, self)._get_date()
     date = property(_get_date)
@@ -177,7 +177,7 @@ class CASAVA(Alignment):
         if self.tree is None:
             return
         if len(self.tree.xpath('TIME_STAMP')) == 0:
-            time_stamp = self.date.strftime('%c')
+            time_stamp = self.date.strftime("%a %b %d %H:%M:%S %Y")
             time_element = ElementTree.Element('TIME_STAMP')
             time_element.text = time_stamp
             self.tree.append(time_element)
@@ -187,7 +187,10 @@ class CASAVA(Alignment):
             return None
         time_element = self.tree.xpath('TIME_STAMP')
         if len(time_element) == 1:
-            return datetime.strptime(time_element[0].text, '%c')
+           timetuple = time.strptime(
+               time_element[0].text.strip(),
+               "%a %b %d %H:%M:%S %Y")
+           return datetime(*timetuple[:6])
         return super(CASAVA, self)._get_date()
     date = property(_get_date)