def test_changing_working_dir(self):
"""RNAplot: BaseCommand should be ok after changing the working dir"""
#changing in initialization
temp_dir = tempfile.mkdtemp()
r = RNAplot(WorkingDir=temp_dir)
self.assertEqual(r.BaseCommand,\
'cd "%s/"; RNAplot'%(temp_dir))
#changing afterwards
r = RNAplot()
r.WorkingDir = temp_dir
self.assertEqual(r.BaseCommand,\
'cd "%s/"; RNAplot'%(temp_dir))
rmdir(temp_dir)
def test_get_result_paths_working_dir(self):
"""RNAplot: _get_result_paths() should work with diff working dir"""
r = RNAplot(WorkingDir=self.temp_dir)
res = r(self.unnamed_seqs)
self.assertEqualItems(res.keys(),\
['StdOut','StdErr','ExitStatus','SS'])
self.failUnless(res['SS'] is not None)
self.failUnless(isinstance(res['SS'], file))
self.failUnless(res['StdOut'] is not None)
self.failUnless(res['StdErr'] is None)
self.assertEqual(res['ExitStatus'], 0)
res.cleanUp()
def test_get_result_paths_parameter(self):
"""RNAplot: _get_result_paths() should work with diff parameters"""
r = RNAplot()
r.Parameters['-t'].on(0)
res = r(self.unnamed_seqs)
self.assertEqualItems(res.keys(),\
['StdOut','StdErr','ExitStatus','SS'])
self.failUnless(res['SS'] is not None)
self.failUnless(res['StdOut'] is not None)
self.failUnless(res['StdErr'] is None)
self.assertEqual(res['ExitStatus'], 0)
res.cleanUp()
def test_base_command(self):
"""RNAplot: BaseCommand should be ok for different parameter settings"""
r = RNAplot()
working_dir = getcwd()
self.assertEqual(r.BaseCommand,\
''.join(['cd "',getcwd(),'/"; ','RNAplot']))
r.Parameters['-t'].on(0)
self.assertEqual(r.BaseCommand,\
''.join(['cd "',getcwd(),'/"; ','RNAplot -t 0']))
r.Parameters['-o'].on('svg')
self.assertEqual(r.BaseCommand,\
''.join(['cd "',getcwd(),'/"; ','RNAplot -t 0 -o svg']))
r.Parameters['-t'].off()
self.assertEqual(r.BaseCommand,\
''.join(['cd "',getcwd(),'/"; ','RNAplot -o svg']))