import os
import tempfile
import shutil
-from unittest2 import TestCase
+from unittest import TestCase
from htsworkflow.pipelines import firecrest
from htsworkflow.pipelines import bustard
self.failUnlessEqual(b.date, b2.date )
self.failUnlessEqual(b.user, b2.user)
self.failUnlessEqual(len(b.phasing), len(b2.phasing))
- for key in b.phasing.keys():
+ for key in list(b.phasing.keys()):
self.failUnlessEqual(b.phasing[key].lane,
b2.phasing[key].lane)
self.failUnlessEqual(b.phasing[key].phasing,
self.failUnlessEqual(g.software, 'GERALD')
self.failUnlessEqual(g.version, '1.68.2.2')
self.failUnlessEqual(g.date, datetime(2008,4,19,19,8,30))
- self.failUnlessEqual(len(g.lanes), len(g.lanes.keys()))
- self.failUnlessEqual(len(g.lanes), len(g.lanes.items()))
+ self.failUnlessEqual(len(g.lanes), len(list(g.lanes.keys())))
+ self.failUnlessEqual(len(g.lanes), len(list(g.lanes.items())))
# list of genomes, matches what was defined up in
# do it all again after extracting from the xml file
self.failUnlessEqual(g.version, g2.version)
self.failUnlessEqual(g.date, g2.date)
- self.failUnlessEqual(len(g.lanes.keys()), len(g2.lanes.keys()))
- self.failUnlessEqual(len(g.lanes.items()), len(g2.lanes.items()))
+ self.failUnlessEqual(len(list(g.lanes.keys())), len(list(g2.lanes.keys())))
+ self.failUnlessEqual(len(list(g.lanes.items())), len(list(g2.lanes.items())))
# test lane specific parameters from gerald config file
for i in range(1,9):
g2_results.reads)
self.failUnlessEqual(len(g_results.mapped_reads),
len(g2_results.mapped_reads))
- for k in g_results.mapped_reads.keys():
+ for k in list(g_results.mapped_reads.keys()):
self.failUnlessEqual(g_results.mapped_reads[k],
g2_results.mapped_reads[k])
self.failUnlessEqual(len(g_results.match_codes),
len(g2_results.match_codes))
- for k in g_results.match_codes.keys():
+ for k in list(g_results.match_codes.keys()):
self.failUnlessEqual(g_results.match_codes[k],
g2_results.match_codes[k])
self.failUnlessEqual(l1.lane_id, l2.lane_id)
self.failUnlessEqual(len(l1.mapped_reads), len(l2.mapped_reads))
self.failUnlessEqual(len(l1.mapped_reads), 3)
- for k in l1.mapped_reads.keys():
+ for k in list(l1.mapped_reads.keys()):
self.failUnlessEqual(l1.mapped_reads[k],
l2.mapped_reads[k])
self.failUnlessEqual(len(l1.match_codes), 9)
self.failUnlessEqual(len(l1.match_codes), len(l2.match_codes))
- for k in l1.match_codes.keys():
+ for k in list(l1.match_codes.keys()):
self.failUnlessEqual(l1.match_codes[k],
l2.match_codes[k])
def suite():
- from unittest2 import TestSuite, defaultTestLoader
+ from unittest import TestSuite, defaultTestLoader
suite = TestSuite()
suite.addTests(defaultTestLoader.loadTestsFromTestCase(RunfolderTests))
return suite
if __name__ == "__main__":
- from unittest2 import main
+ from unittest import main
main(defaultTest="suite")