def test_set_times(self):
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn, setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
o_times = range(1990, 2000)
# Test running on all available times
ac.set_times((1990, 1999), o_times)
self.assertEquals(ac.times, o_times)
# Test with a single time in range
ac.set_times((1990, 1999), o_times, [1990])
self.assertEquals(ac.times, [1990])
# Test with a single time out of range
self.assertRaises(ValueError, ac.set_times, (1990, 1999), o_times,
[11990])
# Test with a single negative index
ac.set_times((1990, 1999), o_times, [-1])
self.assertEquals(ac.times, [1999])
# Test with time not in original times
del o_times[2] # delete 1992
self.assertRaises(ValueError, ac.set_times, (1990, 1999), o_times,
[1992])
# Test earliest time and not enough past maps to fulfill command line
ac = AnalysisCommand("test %19")
self.assertRaises(NotEnoughHistoryException, ac.set_times,
(1990, 1999), o_times, [-1])
def test_get_output_filename_base(self):
ac = AnalysisCommand("test %1")
mdig_config = config.get_config()
spam = "woooo"
old_base = mdig_config.analysis_filename_base
mdig_config.analysis_filename_base = spam
self.assertTrue(spam in ac.get_output_filename_base())
mdig_config.analysis_filename_base = old_base
def test_constructor(self):
ac = AnalysisCommand("testing %1 %2")
self.assertEqual(ac.get_earliest_time(), 2)
ac2 = AnalysisCommand("testing")
self.assertEqual(ac2.cmd_string, 'testing')
self.assertEqual(ac.start_time, 0)
self.assertEqual(ac.output_fn, None)
def test_get_output_filename_base(self):
ac = AnalysisCommand("test %1")
mdig_config = config.get_config()
spam = "woooo"
old_base = mdig_config.analysis_filename_base
mdig_config.analysis_filename_base = spam
self.assertTrue(spam in ac.get_output_filename_base())
mdig_config.analysis_filename_base = old_base
def test_constructor(self):
ac = AnalysisCommand("testing %1 %2")
self.assertEqual(ac.get_earliest_time(), 2)
ac2 = AnalysisCommand("testing")
self.assertEqual(ac2.cmd_string, 'testing')
self.assertEqual(ac.start_time, 0)
self.assertEqual(ac.output_fn, None)
def test_get_earliest_time(self):
# Test that normal use works
ac = AnalysisCommand("test %1")
self.assertEquals(ac.get_earliest_time(), 1)
# Test that no time in command works == 0
ac = AnalysisCommand("test")
self.assertEquals(ac.get_earliest_time(), 0)
# Test that % can be escaped
ac = AnalysisCommand("test %% %1")
self.assertEquals(ac.get_earliest_time(), 1)
# Test that earliest map is found
ac = AnalysisCommand("test %1 %2 %19 %1")
self.assertEquals(ac.get_earliest_time(), 19)
# Test that future maps don't work
ac = AnalysisCommand("test %-1")
self.assertEquals(ac.get_earliest_time(), 0)
def test_run_command_once(self, po_mock):
# expect return value from function of 0
po_mock.return_value.close.return_value = 0
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn, setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
# test normal
ac.times = [1990, 1991, 1992]
t_strings = [str(x) for x in ac.times]
maps = ['map1', 'map2', 'map3']
maps = dict(zip(t_strings, maps))
return_val = ac.run_command_once(1990, maps, "testcommand")
self.assertEqual(return_val, 0)
# test with map_name replacements, but too early
self.assertRaises(IndexError, ac.run_command_once, 1991, maps,
"testcommand %1 %2")
# test with map_name replacements
return_val = ac.run_command_once(1991, maps, "testcommand %1")
self.assertEqual(po_mock.call_args[0][0], "testcommand map1")
return_val = ac.run_command_once(1990, maps, "testcommand %0")
self.assertEqual(po_mock.call_args[0][0], "testcommand map1")
return_val = ac.run_command_once(1992, maps, "testcommand %0")
self.assertEqual(po_mock.call_args[0][0], "testcommand map3")
mdig_config = config.get_config()
mdig_config.analysis_print_time = True
self.__do_run_command_once(model, ac, maps)
def test_init_output_file(self,rm_mock,isfile_mock):
isfile_mock.return_value = True
mdig_config = config.get_config()
mdig_config.overwrite_flag = False
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn,setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
self.assertRaises(mdig.OutputFileExistsException, ac.init_output_file, i)
mdig_config.overwrite_flag = True
output_file = ac.init_output_file(i)
self.assertEqual(output_file.index("lifestage_test_region_a_i0"), 0)
# test with rep
isfile_mock.return_value = False
output_file = ac.init_output_file(i, i.replicates[0])
print output_file
self.assertEqual(output_file.index("lifestage_test_region_a_i0_rep_0"), 0)
def test_init_output_file(self, rm_mock, isfile_mock):
isfile_mock.return_value = True
mdig_config = config.get_config()
mdig_config.overwrite_flag = False
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn, setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
self.assertRaises(mdig.OutputFileExistsException, ac.init_output_file,
i)
mdig_config.overwrite_flag = True
output_file = ac.init_output_file(i)
self.assertEqual(output_file.index("lifestage_test_region_a_i0"), 0)
# test with rep
isfile_mock.return_value = False
output_file = ac.init_output_file(i, i.replicates[0])
print output_file
self.assertEqual(output_file.index("lifestage_test_region_a_i0_rep_0"),
0)
def test_run_command(self, rc_mock):
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn, setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
# test when there are no times set for when to run command
self.assertRaises(Exception, ac.run_command, maps=[])
# test when the times are empty list
ac.times = []
output_file = ac.init_output_file(i)
ac.run_command([])
self.assertEqual(rc_mock.called, False)
# test when there are times
ac.times = [1990]
rc_mock.called = False
ac.run_command([])
self.assertEqual(rc_mock.called, True)
def test_run_command_once(self,po_mock):
# expect return value from function of 0
po_mock.return_value.close.return_value = 0
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn,setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
# test normal
ac.times=[1990,1991,1992]
t_strings = [str(x) for x in ac.times]
maps = ['map1','map2','map3']
maps = dict(zip(t_strings, maps))
return_val = ac.run_command_once(1990,maps,"testcommand")
self.assertEqual(return_val, 0)
# test with map_name replacements, but too early
self.assertRaises(IndexError,ac.run_command_once, 1991,maps,"testcommand %1 %2")
# test with map_name replacements
return_val = ac.run_command_once(1991,maps,"testcommand %1")
self.assertEqual(po_mock.call_args[0][0], "testcommand map1")
return_val = ac.run_command_once(1990,maps,"testcommand %0")
self.assertEqual(po_mock.call_args[0][0], "testcommand map1")
return_val = ac.run_command_once(1992,maps,"testcommand %0")
self.assertEqual(po_mock.call_args[0][0], "testcommand map3")
mdig_config = config.get_config()
mdig_config.analysis_print_time = True
self.__do_run_command_once(model,ac,maps)
def test_run_command(self, rc_mock):
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn,setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
# test when there are no times set for when to run command
self.assertRaises(Exception, ac.run_command, maps=[])
# test when the times are empty list
ac.times=[]
output_file = ac.init_output_file(i)
ac.run_command([])
self.assertEqual(rc_mock.called,False)
# test when there are times
ac.times=[1990]
rc_mock.called = False
ac.run_command([])
self.assertEqual(rc_mock.called,True)
def test_insert_output_into_cmd(self):
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn, setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
# test exception for when no output file initialised
self.assertRaises(OutputFileNotSetException, ac.insert_output_into_cmd)
# check normal function works
output_file = ac.init_output_file(i)
self.assertEqual(output_file.index("lifestage_test_region_a_"), 0)
output_cmd = ac.insert_output_into_cmd()
self.assertEqual(output_cmd, "test >> " + output_file)
# check that file substitution works
ac.cmd_string = "test %f"
output_cmd = ac.insert_output_into_cmd()
self.assertEqual(output_cmd, "test " + output_file)
# check that it doesn't replaced escaped %
ac.cmd_string = "test %%f"
output_cmd = ac.insert_output_into_cmd()
self.assertEqual(output_cmd, "test %%f >> " + output_file)
def test_set_times(self):
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn,setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
o_times=range(1990,2000)
# Test running on all available times
ac.set_times((1990,1999),o_times)
self.assertEquals(ac.times,o_times)
# Test with a single time in range
ac.set_times((1990,1999),o_times,[1990])
self.assertEquals(ac.times,[1990])
# Test with a single time out of range
self.assertRaises(ValueError,ac.set_times,(1990,1999),o_times,[11990])
# Test with a single negative index
ac.set_times((1990,1999),o_times,[-1])
self.assertEquals(ac.times,[1999])
# Test with time not in original times
del o_times[2] # delete 1992
self.assertRaises(ValueError,ac.set_times,(1990,1999),o_times,[1992])
# Test earliest time and not enough past maps to fulfill command line
ac = AnalysisCommand("test %19")
self.assertRaises(NotEnoughHistoryException,ac.set_times,(1990,1999),o_times,[-1])
def test_insert_output_into_cmd(self):
model_fn = self.repo.get_models()['lifestage_test']
model = DispersalModel(model_fn,setup=False)
i = model.get_instances()[0]
ac = AnalysisCommand("test")
# test exception for when no output file initialised
self.assertRaises(OutputFileNotSetException,ac.insert_output_into_cmd)
# check normal function works
output_file = ac.init_output_file(i)
self.assertEqual(output_file.index("lifestage_test_region_a_"), 0)
output_cmd = ac.insert_output_into_cmd()
self.assertEqual(output_cmd, "test >> " + output_file)
# check that file substitution works
ac.cmd_string = "test %f"
output_cmd = ac.insert_output_into_cmd()
self.assertEqual(output_cmd, "test " + output_file)
# check that it doesn't replaced escaped %
ac.cmd_string = "test %%f"
output_cmd = ac.insert_output_into_cmd()
self.assertEqual(output_cmd, "test %%f >> " + output_file)
def test_get_earliest_time(self):
# Test that normal use works
ac = AnalysisCommand("test %1")
self.assertEquals(ac.get_earliest_time(), 1)
# Test that no time in command works == 0
ac = AnalysisCommand("test")
self.assertEquals(ac.get_earliest_time(), 0)
# Test that % can be escaped
ac = AnalysisCommand("test %% %1")
self.assertEquals(ac.get_earliest_time(), 1)
# Test that earliest map is found
ac = AnalysisCommand("test %1 %2 %19 %1")
self.assertEquals(ac.get_earliest_time(), 19)
# Test that future maps don't work
ac = AnalysisCommand("test %-1")
self.assertEquals(ac.get_earliest_time(), 0)