def test_addSeqsToAlignment(self):
"""Clustalw addSeqsToAlignment shoudl work as expected"""
res = addSeqsToAlignment('/tmp/ct/align1','/tmp/ct/seq2.txt',\
'alignseqs')
self.assertEqual(cw_vers.sub("", res['Align'].read()),
cw_vers.sub("", self.alignseqs))
self.assertEqual(res['Dendro'].read(),self.treeduringalignseqs)
res.cleanUp()
def test_addSeqsToAlignment(self):
"""Clustalw addSeqsToAlignment shoudl work as expected"""
res = addSeqsToAlignment('/tmp/ct/align1','/tmp/ct/seq2.txt',\
'alignseqs')
self.assertEqual(cw_vers.sub("", res['Align'].read()),
cw_vers.sub("", self.alignseqs))
self.assertEqual(res['Dendro'].read(), self.treeduringalignseqs)
res.cleanUp()
def test_buildTreeFromAlignment(self):
"""Clustalw buildTreeFromAlignment shoudl work as expected"""
pre_res = addSeqsToAlignment('/tmp/ct/align1','/tmp/ct/seq2.txt',\
'alignseqs',WorkingDir='/tmp/ct')
res = buildTreeFromAlignment('/tmp/ct/alignseqs',WorkingDir='/tmp/ct')
self.assertEqual(res['Tree'].read(),self.treefromalignseqs)
res.cleanUp()
pre_res.cleanUp()
def test_buildTreeFromAlignment(self):
"""Clustalw buildTreeFromAlignment shoudl work as expected"""
pre_res = addSeqsToAlignment('/tmp/ct/align1','/tmp/ct/seq2.txt',\
'alignseqs',WorkingDir='/tmp/ct')
res = buildTreeFromAlignment('/tmp/ct/alignseqs', WorkingDir='/tmp/ct')
self.assertEqual(res['Tree'].read(), self.treefromalignseqs)
res.cleanUp()
pre_res.cleanUp()
