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- # -*- coding: utf-8 -*-
- """
- Tests of the neo.core.unit.Unit class
- """
- # needed for python 3 compatibility
- from __future__ import absolute_import, division, print_function
- import unittest
- import numpy as np
- try:
- from IPython.lib.pretty import pretty
- except ImportError as err:
- HAVE_IPYTHON = False
- else:
- HAVE_IPYTHON = True
- from neo.core.unit import Unit
- from neo.core.container import filterdata
- from neo.core import SpikeTrain, ChannelIndex
- from neo.test.tools import (assert_neo_object_is_compliant,
- assert_arrays_equal,
- assert_same_sub_schema)
- from neo.test.generate_datasets import (fake_neo, get_fake_value,
- get_fake_values, get_annotations,
- clone_object, TEST_ANNOTATIONS)
- class Test__generate_datasets(unittest.TestCase):
- def setUp(self):
- np.random.seed(0)
- self.annotations = dict([(str(x), TEST_ANNOTATIONS[x]) for x in
- range(len(TEST_ANNOTATIONS))])
- def test__get_fake_values(self):
- self.annotations['seed'] = 0
- name = get_fake_value('name', str, seed=0, obj=Unit)
- description = get_fake_value('description', str, seed=1, obj='Unit')
- file_origin = get_fake_value('file_origin', str)
- attrs1 = {'name': name,
- 'description': description,
- 'file_origin': file_origin}
- attrs2 = attrs1.copy()
- attrs2.update(self.annotations)
- res11 = get_fake_values(Unit, annotate=False, seed=0)
- res12 = get_fake_values('Unit', annotate=False, seed=0)
- res21 = get_fake_values(Unit, annotate=True, seed=0)
- res22 = get_fake_values('Unit', annotate=True, seed=0)
- self.assertEqual(res11, attrs1)
- self.assertEqual(res12, attrs1)
- self.assertEqual(res21, attrs2)
- self.assertEqual(res22, attrs2)
- def test__fake_neo__cascade(self):
- self.annotations['seed'] = None
- obj_type = 'Unit'
- cascade = True
- res = fake_neo(obj_type=obj_type, cascade=cascade)
- self.assertTrue(isinstance(res, Unit))
- assert_neo_object_is_compliant(res)
- self.assertEqual(res.annotations, self.annotations)
- self.assertEqual(len(res.spiketrains), 1)
- for child in res.children_recur:
- del child.annotations['i']
- del child.annotations['j']
- self.assertEqual(res.spiketrains[0].annotations,
- self.annotations)
- def test__fake_neo__nocascade(self):
- self.annotations['seed'] = None
- obj_type = Unit
- cascade = False
- res = fake_neo(obj_type=obj_type, cascade=cascade)
- self.assertTrue(isinstance(res, Unit))
- assert_neo_object_is_compliant(res)
- self.assertEqual(res.annotations, self.annotations)
- self.assertEqual(len(res.spiketrains), 0)
- class TestUnit(unittest.TestCase):
- def setUp(self):
- self.nchildren = 2
- self.seed1 = 0
- self.seed2 = 10000
- self.unit1 = fake_neo(Unit, seed=self.seed1, n=self.nchildren)
- self.unit2 = fake_neo(Unit, seed=self.seed2, n=self.nchildren)
- self.targobj = self.unit1
- self.trains1 = self.unit1.spiketrains
- self.trains2 = self.unit2.spiketrains
- self.trains1a = clone_object(self.trains1)
- def check_creation(self, unit):
- assert_neo_object_is_compliant(unit)
- seed = unit.annotations['seed']
- targ1 = get_fake_value('name', str, seed=seed, obj=Unit)
- self.assertEqual(unit.name, targ1)
- targ2 = get_fake_value('description', str,
- seed=seed+1, obj=Unit)
- self.assertEqual(unit.description, targ2)
- targ3 = get_fake_value('file_origin', str)
- self.assertEqual(unit.file_origin, targ3)
- targ4 = get_annotations()
- targ4['seed'] = seed
- self.assertEqual(unit.annotations, targ4)
- self.assertTrue(hasattr(unit, 'spiketrains'))
- self.assertEqual(len(unit.spiketrains), self.nchildren)
- def test__creation(self):
- self.check_creation(self.unit1)
- self.check_creation(self.unit2)
- def test__merge(self):
- unit1a = fake_neo(Unit, seed=self.seed1, n=self.nchildren)
- assert_same_sub_schema(self.unit1, unit1a)
- unit1a.annotate(seed=self.seed2)
- unit1a.spiketrains.append(self.trains2[0])
- unit1a.merge(self.unit2)
- self.check_creation(self.unit2)
- assert_same_sub_schema(self.trains1a + self.trains2,
- unit1a.spiketrains)
- def test__children(self):
- chx = ChannelIndex(index=np.arange(self.nchildren), name='chx1')
- chx.units = [self.unit1]
- chx.create_many_to_one_relationship()
- assert_neo_object_is_compliant(self.unit1)
- assert_neo_object_is_compliant(chx)
- self.assertEqual(self.unit1._container_child_objects, ())
- self.assertEqual(self.unit1._data_child_objects, ('SpikeTrain',))
- self.assertEqual(self.unit1._single_parent_objects,
- ('ChannelIndex',))
- self.assertEqual(self.unit1._multi_child_objects, ())
- self.assertEqual(self.unit1._multi_parent_objects, ())
- self.assertEqual(self.unit1._child_properties, ())
- self.assertEqual(self.unit1._single_child_objects, ('SpikeTrain',))
- self.assertEqual(self.unit1._container_child_containers, ())
- self.assertEqual(self.unit1._data_child_containers, ('spiketrains',))
- self.assertEqual(self.unit1._single_child_containers, ('spiketrains',))
- self.assertEqual(self.unit1._single_parent_containers,
- ('channel_index',))
- self.assertEqual(self.unit1._multi_child_containers, ())
- self.assertEqual(self.unit1._multi_parent_containers, ())
- self.assertEqual(self.unit1._child_objects, ('SpikeTrain',))
- self.assertEqual(self.unit1._child_containers, ('spiketrains',))
- self.assertEqual(self.unit1._parent_objects,
- ('ChannelIndex',))
- self.assertEqual(self.unit1._parent_containers,
- ('channel_index',))
- self.assertEqual(len(self.unit1._single_children), self.nchildren)
- self.assertEqual(len(self.unit1._multi_children), 0)
- self.assertEqual(len(self.unit1.data_children), self.nchildren)
- self.assertEqual(len(self.unit1.data_children_recur), self.nchildren)
- self.assertEqual(len(self.unit1.container_children), 0)
- self.assertEqual(len(self.unit1.container_children_recur), 0)
- self.assertEqual(len(self.unit1.children), self.nchildren)
- self.assertEqual(len(self.unit1.children_recur), self.nchildren)
- self.assertEqual(self.unit1._multi_children, ())
- self.assertEqual(self.unit1.container_children, ())
- self.assertEqual(self.unit1.container_children_recur, ())
- assert_same_sub_schema(list(self.unit1._single_children),
- self.trains1a)
- assert_same_sub_schema(list(self.unit1.data_children),
- self.trains1a)
- assert_same_sub_schema(list(self.unit1.data_children_recur),
- self.trains1a)
- assert_same_sub_schema(list(self.unit1.children),
- self.trains1a)
- assert_same_sub_schema(list(self.unit1.children_recur),
- self.trains1a)
- self.assertEqual(len(self.unit1.parents), 1)
- self.assertEqual(self.unit1.parents[0].name, 'chx1')
- def test__size(self):
- targ = {'spiketrains': self.nchildren}
- self.assertEqual(self.targobj.size, targ)
- def test__filter_none(self):
- targ = []
- res1 = self.targobj.filter()
- res2 = self.targobj.filter({})
- res3 = self.targobj.filter([])
- res4 = self.targobj.filter([{}])
- res5 = self.targobj.filter([{}, {}])
- res6 = self.targobj.filter([{}, {}])
- res7 = self.targobj.filter(targdict={})
- res8 = self.targobj.filter(targdict=[])
- res9 = self.targobj.filter(targdict=[{}])
- res10 = self.targobj.filter(targdict=[{}, {}])
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- assert_same_sub_schema(res5, targ)
- assert_same_sub_schema(res6, targ)
- assert_same_sub_schema(res7, targ)
- assert_same_sub_schema(res8, targ)
- assert_same_sub_schema(res9, targ)
- assert_same_sub_schema(res10, targ)
- def test__filter_annotation_single(self):
- targ = [self.trains1a[1]]
- res0 = self.targobj.filter(j=1)
- res1 = self.targobj.filter({'j': 1})
- res2 = self.targobj.filter(targdict={'j': 1})
- res3 = self.targobj.filter([{'j': 1}])
- res4 = self.targobj.filter(targdict=[{'j': 1}])
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- def test__filter_single_annotation_nores(self):
- targ = []
- res0 = self.targobj.filter(j=5)
- res1 = self.targobj.filter({'j': 5})
- res2 = self.targobj.filter(targdict={'j': 5})
- res3 = self.targobj.filter([{'j': 5}])
- res4 = self.targobj.filter(targdict=[{'j': 5}])
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- def test__filter_attribute_single(self):
- targ = [self.trains1a[0]]
- name = self.trains1a[0].name
- res0 = self.targobj.filter(name=name)
- res1 = self.targobj.filter({'name': name})
- res2 = self.targobj.filter(targdict={'name': name})
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- def test__filter_attribute_single_nores(self):
- targ = []
- name = self.trains2[0].name
- res0 = self.targobj.filter(name=name)
- res1 = self.targobj.filter({'name': name})
- res2 = self.targobj.filter(targdict={'name': name})
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- def test__filter_multi(self):
- targ = [self.trains1a[1], self.trains1a[0]]
- name = self.trains1a[0].name
- res0 = self.targobj.filter(name=name, j=1)
- res1 = self.targobj.filter({'name': name, 'j': 1})
- res2 = self.targobj.filter(targdict={'name': name, 'j': 1})
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- def test__filter_multi_nores(self):
- targ = []
- name0 = self.trains2[0].name
- res0 = self.targobj.filter([{'j': 5}, {}])
- res1 = self.targobj.filter({}, j=0)
- res2 = self.targobj.filter([{}], i=0)
- res3 = self.targobj.filter({'name': name0}, j=1)
- res4 = self.targobj.filter(targdict={'name': name0}, j=1)
- res5 = self.targobj.filter(name=name0, targdict={'j': 1})
- res6 = self.targobj.filter(name=name0, j=5)
- res7 = self.targobj.filter({'name': name0, 'j': 5})
- res8 = self.targobj.filter(targdict={'name': name0, 'j': 5})
- res9 = self.targobj.filter({'name': name0}, j=5)
- res10 = self.targobj.filter(targdict={'name': name0}, j=5)
- res11 = self.targobj.filter(name=name0, targdict={'j': 5})
- res12 = self.targobj.filter({'name': name0}, j=5)
- res13 = self.targobj.filter(targdict={'name': name0}, j=5)
- res14 = self.targobj.filter(name=name0, targdict={'j': 5})
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- assert_same_sub_schema(res5, targ)
- assert_same_sub_schema(res6, targ)
- assert_same_sub_schema(res7, targ)
- assert_same_sub_schema(res8, targ)
- assert_same_sub_schema(res9, targ)
- assert_same_sub_schema(res10, targ)
- assert_same_sub_schema(res11, targ)
- assert_same_sub_schema(res12, targ)
- assert_same_sub_schema(res13, targ)
- assert_same_sub_schema(res14, targ)
- def test__filter_multi_partres(self):
- targ = [self.trains1a[0]]
- name = self.trains1a[0].name
- res0 = self.targobj.filter(name=name, j=5)
- res1 = self.targobj.filter({'name': name, 'j': 5})
- res2 = self.targobj.filter(targdict={'name': name, 'j': 5})
- res3 = self.targobj.filter([{'j': 0}, {'i': 0}])
- res4 = self.targobj.filter({'j': 0}, i=0)
- res5 = self.targobj.filter([{'j': 0}], i=0)
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- assert_same_sub_schema(res5, targ)
- def test__filter_single_annotation_obj_single(self):
- targ = [self.trains1a[1]]
- res0 = self.targobj.filter(j=1, objects='SpikeTrain')
- res1 = self.targobj.filter(j=1, objects=SpikeTrain)
- res2 = self.targobj.filter(j=1, objects=['SpikeTrain'])
- res3 = self.targobj.filter(j=1, objects=[SpikeTrain])
- res4 = self.targobj.filter(j=1, objects=[SpikeTrain,
- ChannelIndex])
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- def test__filter_single_annotation_obj_none(self):
- targ = []
- res0 = self.targobj.filter(j=1, objects=ChannelIndex)
- res1 = self.targobj.filter(j=1, objects='ChannelIndex')
- res2 = self.targobj.filter(j=1, objects=[])
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- def test__filter_single_annotation_norecur(self):
- targ = [self.trains1a[1]]
- res0 = self.targobj.filter(j=1, recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_norecur(self):
- targ = [self.trains1a[0]]
- res0 = self.targobj.filter(name=self.trains1a[0].name, recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_annotation_nodata(self):
- targ = []
- res0 = self.targobj.filter(j=1, data=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_nodata(self):
- targ = []
- res0 = self.targobj.filter(name=self.trains1a[0].name, data=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_annotation_nodata_norecur(self):
- targ = []
- res0 = self.targobj.filter(j=1,
- data=False, recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_nodata_norecur(self):
- targ = []
- res0 = self.targobj.filter(name=self.trains1a[0].name,
- data=False, recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_annotation_container(self):
- targ = [self.trains1a[1]]
- res0 = self.targobj.filter(j=1, container=True)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_container(self):
- targ = [self.trains1a[0]]
- res0 = self.targobj.filter(name=self.trains1a[0].name, container=True)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_annotation_container_norecur(self):
- targ = [self.trains1a[1]]
- res0 = self.targobj.filter(j=1, container=True, recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_container_norecur(self):
- targ = [self.trains1a[0]]
- res0 = self.targobj.filter(name=self.trains1a[0].name,
- container=True, recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_annotation_nodata_container(self):
- targ = []
- res0 = self.targobj.filter(j=1,
- data=False, container=True)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_nodata_container(self):
- targ = []
- res0 = self.targobj.filter(name=self.trains1a[0].name,
- data=False, container=True)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_annotation_nodata_container_norecur(self):
- targ = []
- res0 = self.targobj.filter(j=1,
- data=False, container=True,
- recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filter_single_attribute_nodata_container_norecur(self):
- targ = []
- res0 = self.targobj.filter(name=self.trains1a[0].name,
- data=False, container=True,
- recursive=False)
- assert_same_sub_schema(res0, targ)
- def test__filterdata_multi(self):
- data = self.targobj.children_recur
- targ = [self.trains1a[1], self.trains1a[0]]
- name = self.trains1a[0].name
- res0 = filterdata(data, name=name, j=1)
- res1 = filterdata(data, {'name': name, 'j': 1})
- res2 = filterdata(data, targdict={'name': name, 'j': 1})
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- def test__filterdata_multi_nores(self):
- data = self.targobj.children_recur
- targ = []
- name1 = self.trains1a[0].name
- name2 = self.trains2[0].name
- res0 = filterdata(data, [{'j': 0}, {}])
- res1 = filterdata(data, {}, i=0)
- res2 = filterdata(data, [{}], i=0)
- res3 = filterdata(data, name=name1, targdict={'j': 1})
- res4 = filterdata(data, {'name': name1}, j=1)
- res5 = filterdata(data, targdict={'name': name1}, j=1)
- res6 = filterdata(data, name=name2, j=5)
- res7 = filterdata(data, {'name': name2, 'j': 5})
- res8 = filterdata(data, targdict={'name': name2, 'j': 5})
- res9 = filterdata(data, {'name': name2}, j=5)
- res10 = filterdata(data, targdict={'name': name2}, j=5)
- res11 = filterdata(data, name=name2, targdict={'j': 5})
- res12 = filterdata(data, {'name': name1}, j=5)
- res13 = filterdata(data, targdict={'name': name1}, j=5)
- res14 = filterdata(data, name=name1, targdict={'j': 5})
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- assert_same_sub_schema(res5, targ)
- assert_same_sub_schema(res6, targ)
- assert_same_sub_schema(res7, targ)
- assert_same_sub_schema(res8, targ)
- assert_same_sub_schema(res9, targ)
- assert_same_sub_schema(res10, targ)
- assert_same_sub_schema(res11, targ)
- assert_same_sub_schema(res12, targ)
- assert_same_sub_schema(res13, targ)
- assert_same_sub_schema(res14, targ)
- def test__filterdata_multi_partres(self):
- data = self.targobj.children_recur
- targ = [self.trains1a[0]]
- name = self.trains1a[0].name
- res0 = filterdata(data, name=name, j=5)
- res1 = filterdata(data, {'name': name, 'j': 5})
- res2 = filterdata(data, targdict={'name': name, 'j': 5})
- res3 = filterdata(data, [{'j': 0}, {'i': 0}])
- res4 = filterdata(data, {'j': 0}, i=0)
- res5 = filterdata(data, [{'j': 0}], i=0)
- assert_same_sub_schema(res0, targ)
- assert_same_sub_schema(res1, targ)
- assert_same_sub_schema(res2, targ)
- assert_same_sub_schema(res3, targ)
- assert_same_sub_schema(res4, targ)
- assert_same_sub_schema(res5, targ)
- # @unittest.skipUnless(HAVE_IPYTHON, "requires IPython")
- # def test__pretty(self):
- # res = pretty(self.unit1)
- # ann = get_annotations()
- # ann['seed'] = self.seed1
- # ann = pretty(ann).replace('\n ', '\n ')
- # targ = ("Unit with " +
- # ("%s spiketrains\n" % len(self.trains1a)) +
- # ("name: '%s'\ndescription: '%s'\n" % (self.unit1.name,
- # self.unit1.description)
- # ) +
- # ("annotations: %s" % ann))
- #
- # self.assertEqual(res, targ)
- if __name__ == "__main__":
- unittest.main()
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