def test_nix_to_odml_empty(self):
file_name = 'tmp'
nix_path = os.path.join(self.test_dir, file_name + '.nix')
odml_path = os.path.join(self.test_dir, file_name + '.xml')
odml.Property(parent=self.odml_doc.sections[0])
convert.nixwrite(self.odml_doc, nix_path, nix.FileMode.Overwrite)
nix_file_r = nix.File.open(nix_path, nix.FileMode.ReadOnly)
convert.odmlwrite(nix_file_r, odml_path)
odml_doc = odml.load(odml_path)
self.assertEqual(len(odml_doc.sections[0].props), 1)
odml_prop = odml_doc.sections[0].props[0]
self.assertGreater(len(getattr(odml_prop, "id")), 0)
self.assertEqual(getattr(odml_prop, "name"), getattr(odml_prop, "id"))
self.assertEqual(getattr(odml_prop, "values"), [])
self.assertEqual(getattr(odml_prop, "dtype"), None)
self.assertEqual(getattr(odml_prop, "definition"), None)
self.assertEqual(getattr(odml_prop, "unit"), None)
self.assertEqual(getattr(odml_prop, "uncertainty"), None)
self.assertEqual(getattr(odml_prop, "reference"), None)
self.assertEqual(getattr(odml_prop, "dependency"), None)
self.assertEqual(getattr(odml_prop, "dependency_value"), None)
self.assertEqual(getattr(odml_prop, "value_origin"), None)
nix_file_r.close()
def test_nix_to_odml_none(self):
file_name = 'tmp'
nix_path = os.path.join(self.test_dir, file_name + '.nix')
odml_path = os.path.join(self.test_dir, file_name + '.xml')
odml.Section(name=None,
oid=None,
definition=None,
parent=self.odml_doc,
type="MustBeSet",
reference=None,
repository=None,
link=None,
include=None)
convert.nixwrite(self.odml_doc, nix_path, nix.FileMode.Overwrite)
nix_file_r = nix.File.open(nix_path, nix.FileMode.ReadOnly)
convert.odmlwrite(nix_file_r, odml_path)
odml_doc = odml.load(odml_path)
self.assertEqual(len(odml_doc.sections), 1)
odml_sec = odml_doc.sections[0]
self.assertGreater(len(getattr(odml_sec, "id")), 0)
self.assertEqual(getattr(odml_sec, "name"), getattr(odml_sec, "id"))
self.assertEqual(getattr(odml_sec, "type"), "MustBeSet")
self.assertEqual(getattr(odml_sec, "definition"), None)
self.assertEqual(getattr(odml_sec, "reference"), None)
self.assertEqual(getattr(odml_sec, "repository"), None)
self.assertEqual(getattr(odml_sec, "link"), None)
self.assertEqual(getattr(odml_sec, "include"), None)
nix_file_r.close()
def test_nix_to_odml_datetime(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="datetime property",
values_or_dtype="datetime")
prop_1.values = [
'2011-11-01 11:11:11', '2012-12-02 02:02:02', '2012-12-03T03:03:03'
]
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.datetime)
self.assertEqual(len(vals_1), 3)
self.assertEqual(vals_1, [
datetime.datetime(2011, 11, 1, 11, 11, 11),
datetime.datetime(2012, 12, 2, 2, 2, 2),
datetime.datetime(2012, 12, 3, 3, 3, 3)
])
nix_file_1.close()
file_name_2 = 'tmp' + str(uuid.uuid4())
nix_path_2 = os.path.join(self.test_dir, file_name_2 + '.nix')
nix_file_2 = nix.File.open(nix_path_2, nix.FileMode.Overwrite)
odml_path_2 = os.path.join(self.test_dir, file_name_2 + '.xml')
sec_2 = nix_file_2.create_section(name="section")
prop_2 = sec_2.create_property(name="datetime property 2",
values_or_dtype=np.str_)
prop_2.values = [
'2012-12-02 12:12:12', '2013-01-01 01:01:01', '2013-01-02T02:02:02'
]
setattr(prop_2, "odml_type", nix.OdmlType("datetime"))
convert.odmlwrite(nix_file_2, odml_path_2)
odml_doc_2 = odml.load(odml_path_2)
odml_prop_2 = odml_doc_2.sections[0].props[0]
vals = odml_prop_2.values
self.assertEqual(getattr(odml_prop_2, "dtype"), odml.DType.datetime)
self.assertEqual(len(vals), 3)
self.assertEqual(vals, [
datetime.datetime(2012, 12, 2, 12, 12, 12),
datetime.datetime(2013, 1, 1, 1, 1, 1),
datetime.datetime(2013, 1, 2, 2, 2, 2)
])
nix_file_2.close()
def test_nix_to_odml_float(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="float property",
values_or_dtype=np.float_)
prop_1.values = [1.1, 2.2, 3.3]
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.float)
self.assertEqual(len(vals_1), 3)
self.assertEqual(vals_1, [1.1, 2.2, 3.3])
nix_file_1.close()
file_name_2 = 'tmp' + str(uuid.uuid4())
nix_path_2 = os.path.join(self.test_dir, file_name_2 + '.nix')
nix_file_2 = nix.File.open(nix_path_2, nix.FileMode.Overwrite)
odml_path_2 = os.path.join(self.test_dir, file_name_2 + '.xml')
sec_2 = nix_file_2.create_section(name="section")
prop_2 = sec_2.create_property(name="string float property",
values_or_dtype=np.str_)
prop_2.values = ["4.4", "5.5", "6.6"]
convert.odmlwrite(nix_file_2, odml_path_2)
odml_doc_2 = odml.load(odml_path_2)
odml_prop_2 = odml_doc_2.sections[0].props[0]
vals = odml_prop_2.values
self.assertEqual(getattr(odml_prop_2, "dtype"), odml.DType.float)
self.assertEqual(len(vals), 3)
self.assertEqual(vals, [4.4, 5.5, 6.6])
nix_file_2.close()
'''
def test_nix_to_odml_string(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="string property",
values_or_dtype=np.str_)
prop_1.values = ['a', 'b', 'c']
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.string)
self.assertEqual(len(vals_1), 3)
self.assertEqual(vals_1, ['a', 'b', 'c'])
nix_file_1.close()
file_name_2 = 'tmp' + str(uuid.uuid4())
nix_path_2 = os.path.join(self.test_dir, file_name_2 + '.nix')
nix_file_2 = nix.File.open(nix_path_2, nix.FileMode.Overwrite)
odml_path_2 = os.path.join(self.test_dir, file_name_2 + '.xml')
sec_2 = nix_file_2.create_section(name="section")
prop_2 = sec_2.create_property(name="string property 2",
values_or_dtype=np.str_)
prop_2.values = ['d', 'e', 'f']
setattr(prop_2, "odml_type", nix.OdmlType("string"))
convert.odmlwrite(nix_file_2, odml_path_2)
odml_doc_2 = odml.load(odml_path_2)
odml_prop_2 = odml_doc_2.sections[0].props[0]
vals = odml_prop_2.values
self.assertEqual(getattr(odml_prop_2, "dtype"), odml.DType.string)
self.assertEqual(len(vals), 3)
self.assertEqual(vals, ["d", "e", "f"])
nix_file_2.close()
def test_nix_to_odml_tuple(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="2-tuple property",
values_or_dtype=np.str_)
prop_1.values = ["(1; 2)", "(3; 4)"]
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), "2-tuple")
self.assertEqual(len(vals_1), 2)
self.assertEqual(vals_1, [["1", "2"], ["3", "4"]])
nix_file_1.close()
file_name_2 = 'tmp' + str(uuid.uuid4())
nix_path_2 = os.path.join(self.test_dir, file_name_2 + '.nix')
nix_file_2 = nix.File.open(nix_path_2, nix.FileMode.Overwrite)
odml_path_2 = os.path.join(self.test_dir, file_name_2 + '.xml')
sec_2 = nix_file_2.create_section(name="section")
prop_2 = sec_2.create_property(name="3-tuple property",
values_or_dtype=np.str_)
prop_2.values = ["(1; 2; 3)", "(4; 5; 6)"]
convert.odmlwrite(nix_file_2, odml_path_2)
odml_doc_2 = odml.load(odml_path_2)
odml_prop_2 = odml_doc_2.sections[0].props[0]
vals = odml_prop_2.values
self.assertEqual(getattr(odml_prop_2, "dtype"), "3-tuple")
self.assertEqual(len(vals), 2)
self.assertEqual(vals, [["1", "2", "3"], ["4", "5", "6"]])
nix_file_2.close()
def test_nix_to_odml_double(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="double property",
values_or_dtype=np.double)
prop_1.values = [1.1, 2.2, 3.3]
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.float)
self.assertEqual(len(vals_1), 3)
self.assertEqual(vals_1, [1.1, 2.2, 3.3])
nix_file_1.close()
'''
def test_nix_to_odml_text(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="text property",
values_or_dtype=np.str_)
prop_1.values = ['a\nb', 'c d', 'e\nix_path']
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.text)
# this does currently not work as there seems to be a problem
# in the odML core lib reading the file including a line break.
# self.assertEqual(len(vals), 3)
# self.assertEqual(vals, ['a\nb', 'c d', 'e\nix_path'])
nix_file_1.close()
def test_double_conversion(self):
nf = os.path.join(self.test_dir, 'tmp.nix')
of = os.path.join(self.test_dir, 'tmp.odml')
convert.nixwrite(self.odml_doc, nf, 'overwrite')
nix_file = nix.File(nf)
convert.odmlwrite(nix_file, of)
odml_doc = odml.load(of)
for attr in document_attributes:
self.assertEqual(getattr(self.odml_doc, attr), getattr(odml_doc, attr))
for sec in self.odml_doc.sections:
sec2 = odml_doc.sections[sec.name]
for attr in section_attributes:
self.assertEqual(getattr(sec, attr), getattr(sec2, attr))
for prop in sec.properties:
prop2 = sec2.properties[prop.name]
for attr in property_attributes:
self.assertEqual(getattr(prop, attr), getattr(prop2, attr))
nix_file.close()
def test_nix_to_odml_boolean(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="boolean property",
values_or_dtype=np.bool_)
prop_1.values = [True, False, True]
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.boolean)
self.assertEqual(len(vals_1), 3)
self.assertEqual(vals_1, [True, False, True])
nix_file_1.close()
file_name_2 = 'tmp' + str(uuid.uuid4())
nix_path_2 = os.path.join(self.test_dir, file_name_2 + '.nix')
nix_file_2 = nix.File.open(nix_path_2, nix.FileMode.Overwrite)
odml_path_2 = os.path.join(self.test_dir, file_name_2 + '.xml')
sec_2 = nix_file_2.create_section(name="section")
prop_2 = sec_2.create_property(name="string boolean property",
values_or_dtype=np.str_)
prop_2.values = ["True", "False", "TRUE", "FALSE"]
convert.odmlwrite(nix_file_2, odml_path_2)
odml_doc_2 = odml.load(odml_path_2)
odml_prop_2 = odml_doc_2.sections[0].props[0]
vals = odml_prop_2.values
self.assertEqual(getattr(odml_prop_2, "dtype"), odml.DType.boolean)
self.assertEqual(len(vals), 4)
self.assertEqual(vals, [True, False, True, False])
nix_file_2.close()
file_name_3 = 'tmp' + str(uuid.uuid4())
nix_path_3 = os.path.join(self.test_dir, file_name_3 + '.nix')
nix_file_3 = nix.File.open(nix_path_3, nix.FileMode.Overwrite)
odml_path_3 = os.path.join(self.test_dir, file_name_3 + '.xml')
sec_3 = nix_file_3.create_section(name="section")
prop_3 = sec_3.create_property(name="boolean property 3",
values_or_dtype=np.bool_)
prop_3.values = [False, True, False]
setattr(prop_3, "odml_type", nix.OdmlType("boolean"))
convert.odmlwrite(nix_file_3, odml_path_3)
odml_doc_3 = odml.load(odml_path_3)
odml_prop_3 = odml_doc_3.sections[0].props[0]
vals = odml_prop_3.values
self.assertEqual(getattr(odml_prop_3, "dtype"), odml.DType.boolean)
self.assertEqual(len(vals), 3)
self.assertEqual(vals, [False, True, False])
nix_file_3.close()
def test_nix_to_odml_int(self):
file_name_1 = 'tmp' + str(uuid.uuid4())
nix_path_1 = os.path.join(self.test_dir, file_name_1 + '.nix')
nix_file_1 = nix.File.open(nix_path_1, nix.FileMode.Overwrite)
odml_path_1 = os.path.join(self.test_dir, file_name_1 + '.xml')
sec_1 = nix_file_1.create_section(name="section")
prop_1 = sec_1.create_property(name="int property",
values_or_dtype=np.int64)
prop_1.values = [1, 2, 3]
convert.odmlwrite(nix_file_1, odml_path_1)
odml_doc_1 = odml.load(odml_path_1)
odml_prop_1 = odml_doc_1.sections[0].props[0]
vals_1 = odml_prop_1.values
self.assertEqual(getattr(odml_prop_1, "dtype"), odml.DType.int)
self.assertEqual(len(vals_1), 3)
self.assertEqual(vals_1, [1, 2, 3])
nix_file_1.close()
file_name_2 = 'tmp' + str(uuid.uuid4())
nix_path_2 = os.path.join(self.test_dir, file_name_2 + '.nix')
nix_file_2 = nix.File.open(nix_path_2, nix.FileMode.Overwrite)
odml_path_2 = os.path.join(self.test_dir, file_name_2 + '.xml')
sec_2 = nix_file_2.create_section(name="section")
prop_2 = sec_2.create_property(name="string int property",
values_or_dtype=np.str_)
prop_2.values = ["4", "5", "6"]
convert.odmlwrite(nix_file_2, odml_path_2)
odml_doc_2 = odml.load(odml_path_2)
odml_prop_2 = odml_doc_2.sections[0].props[0]
vals = odml_prop_2.values
self.assertEqual(getattr(odml_prop_2, "dtype"), odml.DType.int)
self.assertEqual(len(vals), 3)
self.assertEqual(vals, [4, 5, 6])
nix_file_2.close()
file_name_3 = 'tmp' + str(uuid.uuid4())
nix_path_3 = os.path.join(self.test_dir, file_name_3 + '.nix')
nix_file_3 = nix.File.open(nix_path_3, nix.FileMode.Overwrite)
odml_path_3 = os.path.join(self.test_dir, file_name_3 + '.xml')
sec_3 = nix_file_3.create_section(name="section")
prop_3 = sec_3.create_property(name="int property 3",
values_or_dtype=np.int64)
prop_3.values = [7, 8, 9]
setattr(prop_3, "odml_type", nix.OdmlType("int"))
convert.odmlwrite(nix_file_3, odml_path_3)
odml_doc_3 = odml.load(odml_path_3)
odml_prop_3 = odml_doc_3.sections[0].props[0]
vals = odml_prop_3.values
self.assertEqual(getattr(odml_prop_3, "dtype"), odml.DType.int)
self.assertEqual(len(vals), 3)
self.assertEqual(vals, [7, 8, 9])
nix_file_3.close()
def test_example_nix_file(self):
file_path = os.path.join(os.path.dirname(os.path.realpath(__file__)),
'../odmlfiles/test')
nix_file = nix.File.open(file_path + '.nix', nix.FileMode.ReadOnly)
convert.odmlwrite(nix_file, file_path + '.xml')
nix_file.close()
