def test_add_segment_to_message_mix(self):
a = Message('OML_O33', validation_level=VALIDATION_LEVEL.QUIET)
msh = Segment('MSH', validation_level=VALIDATION_LEVEL.QUIET)
pid = Segment('PID', validation_level=VALIDATION_LEVEL.QUIET)
g = Group('OML_O33_PATIENT')
g.add(pid)
a.add(msh)
a.add(g)
def _find_group(segment, search_data, validation_level=None):
"""
Recursively find the group the segment belongs to
:param segment: a :class:`hl7apy.core.Segment` instance
:param search_data: a dictionary containing current chain of parent, current indexes and element
structures
:param validation_level: the validation level. Possible values are those defined in
:class:`VALIDATION_LEVEL <hl7apy.consts.VALIDATION_LEVEL>` class or ``None`` to use the default
validation level (see :func:`set_default_validation_level <hl7apy.set_default_validation_level>`)
:return: the index of the parent children list where the segment has been found
"""
search_index = -1
current_index = search_data['indexes'][-1]
structure = search_data['structures'][-1]
try:
search_index = structure['ordered_children'].index(segment.name)
except ValueError:
# groups of the current parent
groups = [k for k in structure['ordered_children']
if structure['structure_by_name'][k]['cls'] == Group]
# for any group found, create the group and check if the segment is one of its children
for g in groups:
group = Group(g, version=segment.version, reference=structure['structure_by_name'][g]['ref'],
validation_level=validation_level)
p_structure = {'structure_by_name': group.structure_by_name,
'ordered_children': group.ordered_children,
'repetitions': group.repetitions}
search_data['structures'].append(p_structure)
search_data['parents'].append(group)
search_data['indexes'].append(-1)
found_index = _find_group(segment, search_data, validation_level)
# the segment is a child of the current group
if found_index > -1:
find_parent = search_data['parents'].index(group) - 1
group.parent = search_data['parents'][find_parent]
search_index = structure['ordered_children'].index(g)
search_data['indexes'][find_parent] = search_index
break
else: # the segment is not a child of the current group, continue the search
_go_back(search_data)
else:
if search_index <= current_index and structure['repetitions'][segment.name][1] == 1:
# if more than one instance of the segment has been found and only one instance is allowed,
# go up of one level to create another instance of the group the segment belongs to
_go_back(search_data)
return _find_group(segment, search_data, validation_level)
search_data['indexes'][-1] = search_index
parent = search_data['parents'][-1]
parent.add(segment)
return search_index
def test_wrong_group(self):
"""
Tests that if there is an unexpected segment the message in not validated
The message used has an unexpected OML_O33_PATIENT
"""
msg = self._create_message(self.adt_a01)
oml_o33_patient = Group('OML_O33_PATIENT')
segments = parse_segments('PID|||1010110909194822^^^GATEWAY_IL&1.3.6.1.4.1.21367.2011.2.5.17&ISO^PK||PIPPO^PLUTO^^^^^L||19790515|M|||VIA DI TOPOLINO^CAGLIARI^CAGLIARI^^09100^100^H^^092009~^^^^^^L|||||||PPPPPP79E15B354I^^^CF|||||CAGLIARI|||100\rPV1||O|||||||||||||||||1107080001^^^LIS')
oml_o33_patient.children = segments
msg.add(oml_o33_patient)
self.assertFalse(msg.validate())
def test_having_more_groups(self):
"""
Tests that when a group occurs more than the allowed times the message is not validated
The message used has 2 occurrence of oml_o33_group
"""
msg = self._create_message(self.oml_o33)
oml_o33_patient = Group('OML_O33_PATIENT')
segments = parse_segments('PID|||1010110909194822^^^GATEWAY_IL&1.3.6.1.4.1.21367.2011.2.5.17&ISO^PK||PIPPO^PLUTO^^^^^L||19790515|M|||VIA DI TOPOLINO^CAGLIARI^CAGLIARI^^09100^100^H^^092009~^^^^^^L|||||||PPPPPP79E15B354I^^^CF|||||CAGLIARI|||100\rPV1||O|||||||||||||||||1107080001^^^LIS')
oml_o33_patient.children = segments
msg.add(oml_o33_patient)
self.assertFalse(msg.validate())
def _find_group(segment, search_data, validation_level=None):
"""
Recursively find the group the segment belongs to
:param segment: a :class:`hl7apy.core.Segment` instance
:param search_data: a dictionary containing current chain of parent, current indexes and element
structures
:param validation_level: the validation level. Possible values are those defined in
:class:`VALIDATION_LEVEL <hl7apy.consts.VALIDATION_LEVEL>` class or ``None`` to use the default
validation level (see :func:`set_default_validation_level <hl7apy.set_default_validation_level>`)
:return: the index of the parent children list where the segment has been found
"""
search_index = -1
current_index = search_data['indexes'][-1]
structure = search_data['structures'][-1]
try:
search_index = structure['ordered_children'].index(segment.name)
except ValueError:
# groups of the current parent
groups = [k for k in structure['ordered_children']
if structure['structure_by_name'][k]['cls'] == Group]
# for any group found, create the group and check if the segment is one of its children
for g in groups:
group = Group(g, version=segment.version, reference=structure['structure_by_name'][g]['ref'],
validation_level=validation_level)
p_structure = {'structure_by_name': group.structure_by_name,
'ordered_children': group.ordered_children,
'repetitions': group.repetitions}
search_data['structures'].append(p_structure)
search_data['parents'].append(group)
search_data['indexes'].append(-1)
found_index = _find_group(segment, search_data, validation_level)
# the segment is a child of the current group
if found_index > -1:
find_parent = search_data['parents'].index(group) - 1
group.parent = search_data['parents'][find_parent]
search_index = structure['ordered_children'].index(g)
search_data['indexes'][find_parent] = search_index
break
else: # the segment is not a child of the current group, continue the search
_go_back(search_data)
else:
if search_index <= current_index and structure['repetitions'][segment.name][1] == 1:
# if more than one instance of the segment has been found and only one instance is allowed,
# go up of one level to create another instance of the group the segment belongs to
_go_back(search_data)
return _find_group(segment, search_data, validation_level)
search_data['indexes'][-1] = search_index
parent = search_data['parents'][-1]
parent.add(segment)
return search_index
def test_wrong_group(self):
"""
Tests that if there is an unexpected segment the message in not validated
The message used has an unexpected OML_O33_PATIENT
"""
msg = self._create_message(self.rsp_k21)
oml_o33_patient = Group('OML_O33_PATIENT')
segments = parse_segments('PID|||1010110909194822^^^GATEWAY_IL&1.3.6.1.4.1.21367.2011.2.5.17&ISO^PK||PIPPO^PLUTO^^^^^L||19790515|M|||VIA DI TOPOLINO^CAGLIARI^CAGLIARI^^09100^100^H^^092009~^^^^^^L|||||||PPPPPP79E15B354I^^^CF|||||CAGLIARI|||100\rPV1||O|||||||||||||||||1107080001^^^LIS')
oml_o33_patient.children = segments
msg.add(oml_o33_patient)
self.assertRaises(ValidationError, msg.validate, report_file=self.report_file)
self._test_report_file('ERROR')
def test_having_more_groups(self):
"""
Tests that when a group occurs more than the allowed times the message is not validated
The message used has 2 occurrence of oml_o33_group
"""
msg = self._create_message(self.oml_o33)
oml_o33_patient = Group('OML_O33_PATIENT')
segments = parse_segments('PID|||1010110909194822^^^GATEWAY_IL&1.3.6.1.4.1.21367.2011.2.5.17&ISO^PK||PIPPO^PLUTO^^^^^L||19790515|M|||VIA DI TOPOLINO^CAGLIARI^CAGLIARI^^09100^100^H^^092009~^^^^^^L|||||||PPPPPP79E15B354I^^^CF|||||CAGLIARI|||100\rPV1||O|||||||||||||||||1107080001^^^LIS')
oml_o33_patient.children = segments
msg.add(oml_o33_patient)
self.assertRaises(ValidationError, msg.validate, report_file=self.report_file)
self._test_report_file('ERROR')
def test_to_string_message_with_z_segment(self):
msg = self._create_test_message(self.msh_values_standard)
msg.zin = 'ZIN||abc||cba^www~abc^yyy'
self.assertEqual(msg.to_er7(), self.msh_standard + '\rZIN||abc||cba^www~abc^yyy')
msg.zbe = 'ZBE|yyy|ww||||||yyy'
self.assertEqual(msg.to_er7(), self.msh_standard + '\rZIN||abc||cba^www~abc^yyy\rZBE|yyy|ww||||||yyy')
g = Group('OML_O33_PATIENT', validation_level=VALIDATION_LEVEL.TOLERANT)
g.pid = 'PID|1'
g.zbe = 'ZBE||ab|ab'
msg.add(g)
self.assertEqual(msg.to_er7(), self.msh_standard + '\rZIN||abc||cba^www~abc^yyy\rZBE|yyy|ww||||||yyy\rPID|1\rZBE||ab|ab')
def parse_segments(text, version=None, encoding_chars=None, validation_level=None, references=None, find_groups=False):
"""
Parse the given ER7-encoded segments and return a list of :class:`hl7apy.core.Segment` instances.
:type text: ``str``
:param text: the ER7-encoded string containing the segments to be parsed
:type version: ``str``
:param version: the HL7 version (e.g. "2.5"), or ``None`` to use the default
(see :func:`set_default_version <hl7apy.set_default_version>`)
:type encoding_chars: ``dict``
:param encoding_chars: a dictionary containing the encoding chars or None to use the default
(see :func:`set_default_encoding_chars <hl7apy.set_default_encoding_chars>`)
:type validation_level: ``int``
:param validation_level: the validation level. Possible values are those defined in
:class:`VALIDATION_LEVEL <hl7apy.consts.VALIDATION_LEVEL>` class or ``None`` to use the default
validation level (see :func:`validation_level <hl7apy.set_default_validation_level>`)
:type references: ``list``
:param references: A list of the references of the :class:`Segment <hl7apy.core.Segment>`'s children
:type find_groups: ``bool``
:param find_groups: if ``True``, automatically assign the segments found to the appropriate
:class:`Groups <hl7apy.core.Group>` instances. If ``False``, the segments found are assigned as
children of the :class:`Message <hl7apy.core.Message>` instance
:return: a list of :class:`Segment <hl7apy.core.Segment>` instances
>>> segments = "EVN||20080115153000||||20080114003000\\rPID|1||566-554-3423^^^GHH^MR||EVERYMAN^ADAM^A|||M|||" \
"2222 HOME STREET^^ANN ARBOR^MI^^USA||555-555-2004|||M\\r"
>>> print(parse_segments(segments))
[<Segment EVN>, <Segment PID>]
"""
version = _get_version(version)
encoding_chars = _get_encoding_chars(encoding_chars, version)
validation_level = _get_validation_level(validation_level)
segment_sep = encoding_chars['SEGMENT']
segments = []
parents_refs = [(None, references)]
current_parent = None
for s in text.split(segment_sep):
if len(s) > 0:
segment_name = s[:3]
for x in xrange(len(parents_refs)):
if not find_groups:
segment = parse_segment(s.strip(), version, encoding_chars, validation_level)
segments.append(segment)
else:
ref, parents_refs = _get_segment_reference(segment_name, parents_refs)
if ref is None:
# group not found at the current level, go back to the previous level
if current_parent is not None:
parents_refs.pop()
current_parent = current_parent.parent
else:
if current_parent is None and parents_refs[-1][0] is not None or \
current_parent is not None and parents_refs[-1][0] != current_parent.name:
# create the parents group of the segment
if current_parent is not None:
cur_idx = parents_refs.index((current_parent.name, current_parent.reference))
else:
cur_idx = parents_refs.index((None, references))
for p_ref in parents_refs[cur_idx + 1:]:
group = Group(p_ref[0], version=version, reference=p_ref[1],
validation_level=validation_level)
if current_parent is None:
segments.append(group)
else:
current_parent.add(group)
current_parent = group
elif current_parent is not None and segment_name in [c.name for c in current_parent.children] \
and current_parent.repetitions[segment_name][1] == 1:
# The number of instances allowed is reached so we create another instance of the same
group = Group(current_parent.name, version=version, reference=current_parent.reference,
validation_level=validation_level)
if current_parent.parent is None:
segments.append(group)
else:
current_parent.parent.add(group)
current_parent = group
segment = parse_segment(s.strip(), version, encoding_chars, validation_level, ref)
if current_parent is None:
segments.append(segment)
else:
current_parent.add(segment)
break
return segments
def test_assign_value_unknown_group(self):
g = Group()
g.value = self.oml_o33_specimen
def test_assign_value(self):
g = Group('OML_O33_SPECIMEN')
g.value = self.oml_o33_specimen
g = Group('OML_O33_SPECIMEN', validation_level=VALIDATION_LEVEL.STRICT)
g.value = self.oml_o33_specimen