Recent IPAR xml config blocks include the runfolder name

[htsworkflow.git] / htsworkflow / pipelines / test / test_runfolder_rta180.py

diff --git a/htsworkflow/pipelines/test/test_runfolder_rta180.py b/htsworkflow/pipelines/test/test_runfolder_rta180.py
index b803787d81d86b899e71ffbe4d416c0db5fa953c..0db7857399cd8f9c391a8b8c58fb0b5023fef0f5 100644 (file)
--- a/htsworkflow/pipelines/test/test_runfolder_rta180.py
+++ b/htsworkflow/pipelines/test/test_runfolder_rta180.py
@@ -4,7 +4,7 @@ from datetime import datetime, date
 import os
 import tempfile
 import shutil
-import unittest
+from unittest2 import TestCase
 
 from htsworkflow.pipelines import eland
 from htsworkflow.pipelines import ipar
@@ -12,7 +12,7 @@ from htsworkflow.pipelines import bustard
 from htsworkflow.pipelines import gerald
 from htsworkflow.pipelines import runfolder
 from htsworkflow.pipelines.samplekey import SampleKey
-from htsworkflow.pipelines.runfolder import ElementTree
+from htsworkflow.pipelines import ElementTree
 
 from htsworkflow.pipelines.test.simulate_runfolder import *
 
@@ -25,9 +25,8 @@ def make_runfolder(obj=None):
     temp_dir = tempfile.mkdtemp(prefix='tmp_runfolder_')
 
     flowcell_id = '4286GAAXX'
-    runfolder_dir = os.path.join(
-        temp_dir,
-        '090608_HWI-EAS229_0117_{0}'.format(flowcell_id))
+    runfolder = '090608_HWI-EAS229_0117_{0}'.format(flowcell_id)
+    runfolder_dir = os.path.join(temp_dir, runfolder)
     os.mkdir(runfolder_dir)
 
     data_dir = os.path.join(runfolder_dir, 'Data')
@@ -50,6 +49,7 @@ def make_runfolder(obj=None):
     if obj is not None:
         obj.flowcell_id = flowcell_id
         obj.temp_dir = temp_dir
+        obj.runfolder = runfolder
         obj.runfolder_dir = runfolder_dir
         obj.data_dir = data_dir
         obj.image_analysis_dir = intensities_dir
@@ -57,7 +57,7 @@ def make_runfolder(obj=None):
         obj.gerald_dir = gerald_dir
 
 
-class RunfolderTests(unittest.TestCase):
+class RunfolderTests(TestCase):
     """
     Test components of the runfolder processing code
     which includes firecrest, bustard, and gerald
@@ -262,30 +262,36 @@ class RunfolderTests(unittest.TestCase):
 
         # do we get the flowcell id from the filename?
         self.failUnlessEqual(len(runs), 1)
-        name = 'run_4286GAAXX_%s.xml' % ( date.today().strftime('%Y-%m-%d'),)
-        self.failUnlessEqual(runs[0].name, name)
+        name = 'run_4286GAAXX_%s.xml' % ( date.today().strftime('%Y-%m-%d'),)        
+        self.failUnlessEqual(runs[0].serialization_filename, name)
+        self.assertEqual(runs[0].runfolder_name, '090220_HWI-EAS229_0093_30VR0AAXX')
 
         # do we get the flowcell id from the FlowcellId.xml file
         make_flowcell_id(self.runfolder_dir, '207BTAAXY')
         runs = runfolder.get_runs(self.runfolder_dir)
         self.failUnlessEqual(len(runs), 1)
         name = 'run_207BTAAXY_%s.xml' % ( date.today().strftime('%Y-%m-%d'),)
-        self.failUnlessEqual(runs[0].name, name)
+        self.failUnlessEqual(runs[0].serialization_filename, name)
+
 
         r1 = runs[0]
         xml = r1.get_elements()
         xml_str = ElementTree.tostring(xml)
 
         r2 = runfolder.PipelineRun(xml=xml)
-        self.failUnlessEqual(r1.name, r2.name)
+        self.failUnlessEqual(r1.serialization_filename, r2.serialization_filename)
         self.failIfEqual(r2.image_analysis, None)
         self.failIfEqual(r2.bustard, None)
         self.failIfEqual(r2.gerald, None)
 
 
 def suite():
-    return unittest.makeSuite(RunfolderTests,'test')
+    from unittest2 import TestSuite, defaultTestLoader
+    suite = TestSuite()
+    suite.addTests(defaultTestLoader.loadTestsFromTestCase(RunfolderTests))
+    return suite
 
-if __name__ == "__main__":
-    unittest.main(defaultTest="suite")
 
+if __name__ == "__main__":
+    from unittest2 import main
+    main(defaultTest="suite")