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tests.py
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tests.py
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import json
import os
import uuid
from json import JSONDecodeError
from zipfile import ZipFile
from celery_once import AlreadyQueued
from django.core.files.uploadedfile import SimpleUploadedFile
from django.core.management import call_command
from django.db.models import F
from mock import patch, Mock, ANY, PropertyMock
from ocldev.oclcsvtojsonconverter import OclStandardCsvToJsonConverter
from core.collections.models import Collection
from core.common.constants import OPENMRS_VALIDATION_SCHEMA, DEPRECATED_API_HEADER
from core.common.tasks import post_import_update_resource_counts, bulk_import_parts_inline, bulk_import_inline, \
bulk_import
from core.common.tests import OCLAPITestCase, OCLTestCase
from core.concepts.models import Concept
from core.concepts.tests.factories import ConceptFactory
from core.importers.input_parsers import ImportContentParser
from core.importers.models import BulkImport, BulkImportInline, BulkImportParallelRunner
from core.importers.views import csv_file_data_to_input_list
from core.mappings.models import Mapping
from core.mappings.tests.factories import MappingFactory
from core.orgs.models import Organization
from core.orgs.tests.factories import OrganizationFactory
from core.sources.constants import AUTO_ID_UUID
from core.sources.models import Source
from core.sources.tests.factories import OrganizationSourceFactory
from core.tasks.models import Task
from core.users.models import UserProfile
from core.users.tests.factories import UserProfileFactory
class BulkImportTest(OCLTestCase):
@patch('core.importers.models.OclFlexImporter')
def test_run(self, flex_importer_mock):
user = UserProfile.objects.get(username='ocladmin')
import_results = Mock(
to_json=Mock(return_value='{"all": "200"}'),
get_detailed_summary=Mock(return_value='summary'),
display_report=Mock(return_value='report')
)
flex_importer_instance_mock = Mock(process=Mock(return_value=None), import_results=import_results)
flex_importer_mock.return_value = flex_importer_instance_mock
content = '{"foo": "bar"}\n{"foobar": "foo"}'
bulk_import_instance = BulkImport(content=content, username='ocladmin', update_if_exists=True)
bulk_import_instance.run()
self.assertEqual(bulk_import_instance.result.json, {"all": "200"})
self.assertEqual(bulk_import_instance.result.detailed_summary, 'summary')
self.assertEqual(bulk_import_instance.result.report, 'report')
flex_importer_mock.assert_called_once_with(
input_list=[{"foo": "bar"}, {"foobar": "foo"}],
api_url_root=ANY,
api_token=user.get_token(),
do_update_if_exists=True
)
flex_importer_instance_mock.process.assert_called_once()
class BulkImportInlineTest(OCLTestCase):
def test_org_import(self):
self.assertFalse(Organization.objects.filter(mnemonic='DATIM-MOH-BI-FY19').exists())
OrganizationFactory(mnemonic='DATIM-MOH-BI-FY19', location='blah')
self.assertTrue(Organization.objects.filter(mnemonic='DATIM-MOH-BI-FY19').exists())
data = '{"type": "Organization", "__action": "DELETE", "id": "DATIM-MOH-BI-FY19"}\n' \
'{"name": "DATIM MOH Burundi", "extras": {"datim_moh_country_code": "BI", "datim_moh_period": "FY19",' \
' "datim_moh_object": true}, "location": "Burundi", "public_access": "None", "type": "Organization",' \
' "id": "DATIM-MOH-BI-FY19"}'
importer = BulkImportInline(data, 'ocladmin', True)
importer.run()
self.assertTrue(Organization.objects.filter(mnemonic='DATIM-MOH-BI-FY19').exists())
self.assertEqual(importer.processed, 2)
self.assertEqual(len(importer.created), 1)
self.assertEqual(len(importer.deleted), 1)
self.assertTrue(importer.elapsed_seconds > 0)
data = {
"name": "DATIM MOH Burundi", "extras": {
"datim_moh_country_code": "BI", "datim_moh_period": "FY19", "datim_moh_object": True
}, "location": "Burundi", "public_access": "None", "type": "Organization", "id": "DATIM-MOH-BI-FY19"
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.deleted), 0)
self.assertEqual(len(importer.exists), 1)
self.assertEqual(importer.exists[0], data)
self.assertTrue(importer.elapsed_seconds > 0)
data = {"type": "Organization", "__action": "DELETE", "id": "FOOBAR"}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.deleted), 0)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.not_found), 1)
self.assertEqual(importer.not_found[0], data)
self.assertTrue(importer.elapsed_seconds > 0)
def test_source_import_success(self):
OrganizationFactory(mnemonic='DemoOrg')
self.assertFalse(Source.objects.filter(mnemonic='DemoSource').exists())
data = {
"type": "Source", "id": "DemoSource", "short_code": "DemoSource", "name": "OCL Demo Source",
"full_name": "OCL Demo Source", "owner_type": "Organization", "owner": "DemoOrg",
"description": "Source used for demo purposes", "default_locale": "en", "source_type": "Dictionary",
"public_access": "View", "supported_locales": "en", "custom_validation_schema": "None"
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertTrue(Source.objects.filter(mnemonic='DemoSource', version='HEAD').exists())
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 1)
self.assertEqual(importer.created[0], data)
self.assertTrue(importer.elapsed_seconds > 0)
def test_source_import_failed(self):
self.assertFalse(Source.objects.filter(mnemonic='DemoSource').exists())
data = {
"type": "Source", "id": "DemoSource", "short_code": "DemoSource", "name": "OCL Demo Source",
"full_name": "OCL Demo Source", "owner_type": "Organization", "owner": "DemoOrg",
"description": "Source used for demo purposes", "default_locale": "en", "source_type": "Dictionary",
"public_access": "View", "supported_locales": "en", "custom_validation_schema": "None"
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertFalse(Source.objects.filter(mnemonic='DemoSource').exists())
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.failed), 1)
self.assertEqual(importer.failed[0], {**data, 'errors': {'parent': 'Parent resource cannot be None.'}})
self.assertTrue(importer.elapsed_seconds > 0)
@patch('core.sources.models.index_source_mappings', Mock())
@patch('core.sources.models.index_source_concepts', Mock())
def test_source_and_version_import(self):
OrganizationFactory(mnemonic='DemoOrg')
self.assertFalse(Source.objects.filter(mnemonic='DemoSource').exists())
data = '{"type": "Source", "id": "DemoSource", "short_code": "DemoSource", "name": "OCL Demo Source", ' \
'"full_name": "OCL Demo Source", "owner_type": "Organization", "owner": "DemoOrg", "description": ' \
'"Source used for demo purposes", "default_locale": "en", "source_type": "Dictionary", ' \
'"public_access": "View", "supported_locales": "en", "custom_validation_schema": "None"}\n' \
'{"type": "Source Version", "id": "initial", "source": "DemoSource", "description": "Initial empty ' \
'repository version", "released": true, "owner": "DemoOrg", "owner_type": "Organization"} '
importer = BulkImportInline(data, 'ocladmin', True)
importer.run()
self.assertTrue(Source.objects.filter(mnemonic='DemoSource', version='HEAD').exists())
self.assertTrue(Source.objects.filter(mnemonic='DemoSource', version='initial').exists())
self.assertEqual(importer.processed, 2)
self.assertEqual(len(importer.created), 2)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
def test_collection_import_success(self):
OrganizationFactory(mnemonic='PEPFAR')
self.assertFalse(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19').exists())
data = {
"type": "Collection", "id": "MER-R-MOH-Facility-FY19", "name": "MER R: MOH Facility Based FY19",
"default_locale": "en", "short_code": "MER-R-MOH-Facility-FY19", "external_id": "OBhi1PUW3OL",
"extras": {
"Period": "FY19", "Period Description": "COP18 (FY19Q1)",
"datim_sync_moh_fy19": True, "DHIS2-Dataset-Code": "MER_R_MOH"
},
"collection_type": "Code List", "full_name": "MER Results: MOH Facility Based FY19", "owner": "PEPFAR",
"public_access": "View", "owner_type": "Organization", "supported_locales": "en"
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertTrue(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19', version='HEAD').exists())
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 1)
self.assertEqual(importer.created[0], data)
self.assertTrue(importer.elapsed_seconds > 0)
def test_collection_import_failed(self):
self.assertFalse(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19').exists())
data = {
"type": "Collection", "id": "MER-R-MOH-Facility-FY19", "name": "MER R: MOH Facility Based FY19",
"default_locale": "en", "short_code": "MER-R-MOH-Facility-FY19", "external_id": "OBhi1PUW3OL",
"extras": {
"Period": "FY19", "Period Description": "COP18 (FY19Q1)",
"datim_sync_moh_fy19": True, "DHIS2-Dataset-Code": "MER_R_MOH"
},
"collection_type": "Code List", "full_name": "MER Results: MOH Facility Based FY19", "owner": "PEPFAR",
"public_access": "View", "owner_type": "Organization", "supported_locales": "en"
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertFalse(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19').exists())
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.failed), 1)
self.assertEqual(importer.failed[0], {**data, 'errors': {'parent': 'Parent resource cannot be None.'}})
self.assertTrue(importer.elapsed_seconds > 0)
def test_collection_and_version_import(self):
OrganizationFactory(mnemonic='PEPFAR')
self.assertFalse(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19').exists())
data = '{"type": "Collection", "id": "MER-R-MOH-Facility-FY19", "name": "MER R: MOH Facility Based FY19", ' \
'"default_locale": "en", "short_code": "MER-R-MOH-Facility-FY19", "external_id": "OBhi1PUW3OL", ' \
'"extras": {"Period": "FY19", "Period Description": "COP18 (FY19Q1)", "datim_sync_moh_fy19": true, ' \
'"DHIS2-Dataset-Code": "MER_R_MOH"}, "collection_type": "Code List", "full_name": ' \
'"MER Results: MOH Facility Based FY19", "owner": "PEPFAR", "public_access": "View", ' \
'"owner_type": "Organization", "supported_locales": "en"}\n' \
'{"type": "Collection Version", "id": "FY19.v0", ' \
'"description": "Initial release of FY19 DATIM-MOH definitions", ' \
'"collection": "MER-R-MOH-Facility-FY19", "released": true, "owner": "PEPFAR", ' \
'"owner_type": "Organization"}'
importer = BulkImportInline(data, 'ocladmin', True)
importer.run()
self.assertTrue(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19', version='HEAD').exists())
self.assertTrue(Collection.objects.filter(mnemonic='MER-R-MOH-Facility-FY19', version='FY19.v0').exists())
self.assertEqual(importer.processed, 2)
self.assertEqual(len(importer.created), 2)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
@patch('core.importers.models.batch_index_resources')
def test_concept_import(self, batch_index_resources_mock):
batch_index_resources_mock.__name__ = 'batch_index_resources'
self.assertFalse(Concept.objects.filter(mnemonic='Food').exists())
source = OrganizationSourceFactory(
organization=(OrganizationFactory(mnemonic='DemoOrg')), mnemonic='DemoSource', version='HEAD'
)
data = {
"type": "Concept", "id": "Food", "concept_class": "Root",
"datatype": "None", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [],
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
self.assertEqual(source.concepts_set.count(), 2)
self.assertEqual(Concept.objects.filter(mnemonic='Food').count(), 2)
concept = Concept.objects.filter(mnemonic='Food', id=F('versioned_object_id')).first()
self.assertEqual(concept.versions.count(), 1)
self.assertTrue(Concept.objects.filter(mnemonic='Food', is_latest_version=True).exists())
batch_index_resources_mock.apply_async.assert_called_with(
('concept', {'id__in': ANY}, True), queue='indexing', permanent=False)
self.assertEqual(
Concept.objects.filter(mnemonic='Food', id=F('versioned_object_id')).first().versions.count(), 1
)
self.assertTrue(Concept.objects.filter(mnemonic='Food', is_latest_version=True).exists())
batch_index_resources_mock.apply_async.assert_called_with(('concept', {'id__in': ANY}, True), queue='indexing')
self.assertEqual(
sorted(batch_index_resources_mock.apply_async.mock_calls[0][1][0][1]['id__in']),
sorted([concept.id, concept.get_latest_version().id])
)
data = {
"type": "Concept", "id": "Food", "concept_class": "Root",
"datatype": "Rule", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [],
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.updated), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
self.assertEqual(source.concepts_set.count(), 3)
concept = Concept.objects.filter(mnemonic='Food', id=F('versioned_object_id')).first()
self.assertEqual(concept.versions.count(), 2)
self.assertTrue(Concept.objects.filter(mnemonic='Food', is_latest_version=True, datatype='Rule').exists())
batch_index_resources_mock.apply_async.assert_called_with(
('concept', {'id__in': ANY}, True), queue='indexing', permanent=False)
self.assertEqual(
sorted(batch_index_resources_mock.apply_async.mock_calls[1][1][0][1]['id__in']),
sorted([concept.id, concept.get_latest_version().prev_version.id, concept.get_latest_version().id])
)
data = {
"type": "Concept", "id": "Food", "concept_class": "Root",
"datatype": "Foo", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [],
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.updated), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
self.assertEqual(source.concepts_set.count(), 4)
concept = Concept.objects.filter(mnemonic='Food', id=F('versioned_object_id')).first()
self.assertEqual(concept.versions.count(), 3)
self.assertTrue(Concept.objects.filter(mnemonic='Food', is_latest_version=True, datatype='Foo').exists())
batch_index_resources_mock.apply_async.assert_called_with(
('concept', {'id__in': ANY}, True), queue='indexing', permanent=False)
self.assertEqual(
sorted(batch_index_resources_mock.apply_async.mock_calls[2][1][0][1]['id__in']),
sorted([concept.id, concept.get_latest_version().prev_version.id, concept.get_latest_version().id])
)
@patch('core.importers.models.batch_index_resources')
def test_concept_import_with_auto_assignment_mnemonic(self, batch_index_resources_mock):
self.assertFalse(Concept.objects.filter(mnemonic='Food').exists())
source = OrganizationSourceFactory(
organization=(OrganizationFactory(mnemonic='DemoOrg')), mnemonic='DemoSource', version='HEAD',
autoid_concept_mnemonic=AUTO_ID_UUID
)
data = {
"type": "Concept", "concept_class": "Root",
"datatype": "None", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [],
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
self.assertEqual(source.concepts_set.count(), 2)
concept = source.concepts_set.filter(id=F('versioned_object_id')).first()
self.assertEqual(len(concept.mnemonic), 36)
self.assertEqual(
concept.versions.count(), 1
)
self.assertTrue(Concept.objects.filter(mnemonic=concept.mnemonic, is_latest_version=True).exists())
data = {
"type": "Concept", "id": concept.mnemonic, "concept_class": "Root",
"datatype": "Rule", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [],
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.updated), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
self.assertEqual(
Concept.objects.filter(mnemonic=concept.mnemonic, id=F('versioned_object_id')).first().versions.count(), 2
)
self.assertTrue(
Concept.objects.filter(mnemonic=concept.mnemonic, is_latest_version=True, datatype='Rule').exists())
batch_index_resources_mock.apply_async.assert_called()
def test_concept_import_permission_denied(self):
self.assertFalse(Concept.objects.filter(mnemonic='Food').exists())
org = OrganizationFactory(mnemonic='DemoOrg')
source = OrganizationSourceFactory(
organization=org, mnemonic='DemoSource', version='HEAD', public_access='None')
self.assertFalse(source.public_can_view)
data = {
"type": "Concept", "id": "Food", "concept_class": "Root",
"datatype": "None", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [],
}
random_user = UserProfileFactory(username='random-user')
self.assertFalse(org.is_member(random_user))
importer = BulkImportInline(json.dumps(data), 'random-user', True)
importer.run()
self.assertEqual(Concept.objects.filter(mnemonic='Food').count(), 0)
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.permission_denied), 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(importer.permission_denied, [data])
@patch('core.importers.models.batch_index_resources')
def test_mapping_import(self, batch_index_resources_mock):
batch_index_resources_mock.__name__ = 'batch_index_resources'
self.assertEqual(Mapping.objects.count(), 0)
source = OrganizationSourceFactory(
organization=(OrganizationFactory(mnemonic='DemoOrg')), mnemonic='DemoSource', version='HEAD'
)
ConceptFactory(parent=source, mnemonic='Corn')
ConceptFactory(parent=source, mnemonic='Vegetable')
data = {
"to_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Corn/",
"from_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Vegetable/",
"type": "Mapping", "source": "DemoSource",
"extras": None, "owner": "DemoOrg", "map_type": "Has Child", "owner_type": "Organization",
"external_id": None
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(Mapping.objects.filter(map_type='Has Child').count(), 2)
mapping = Mapping.objects.filter(map_type='Has Child', id=F('versioned_object_id')).first()
self.assertEqual(mapping.versions.count(), 1)
self.assertTrue(Mapping.objects.filter(map_type='Has Child', is_latest_version=True).exists())
batch_index_resources_mock.apply_async.assert_called_with(
('mapping', {'id__in': ANY}, True), queue='indexing', permanent=False)
self.assertEqual(
Mapping.objects.filter(map_type='Has Child', id=F('versioned_object_id')).first().versions.count(), 1
)
self.assertTrue(Mapping.objects.filter(map_type='Has Child', is_latest_version=True).exists())
batch_index_resources_mock.apply_async.assert_called_with(('mapping', {'id__in': ANY}, True), queue='indexing')
self.assertEqual(
sorted(batch_index_resources_mock.apply_async.mock_calls[0][1][0][1]['id__in']),
sorted([mapping.id, mapping.get_latest_version().id])
)
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
data = {
"to_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Corn/",
"from_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Vegetable/",
"type": "Mapping", "source": "DemoSource",
"extras": {"foo": "bar"}, "owner": "DemoOrg", "map_type": "Has Child", "owner_type": "Organization",
"external_id": None
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
mapping = Mapping.objects.filter(map_type='Has Child', id=F('versioned_object_id')).first()
self.assertEqual(mapping.versions.count(), 2)
batch_index_resources_mock.apply_async.assert_called_with(
('mapping', {'id__in': ANY}, True), queue='indexing', permanent=False)
self.assertEqual(
sorted(batch_index_resources_mock.apply_async.mock_calls[1][1][0][1]['id__in']),
sorted([mapping.id, mapping.get_latest_version().prev_version.id, mapping.get_latest_version().id])
)
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.updated), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
@patch('core.importers.models.batch_index_resources')
def test_mapping_import_with_autoid_assignment(self, batch_index_resources_mock):
self.assertEqual(Mapping.objects.count(), 0)
source = OrganizationSourceFactory(
organization=(OrganizationFactory(mnemonic='DemoOrg')), mnemonic='DemoSource', version='HEAD',
autoid_mapping_mnemonic=AUTO_ID_UUID
)
ConceptFactory(parent=source, mnemonic='Corn')
ConceptFactory(parent=source, mnemonic='Vegetable')
data = {
"to_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Corn/",
"from_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Vegetable/",
"type": "Mapping", "source": "DemoSource",
"extras": None, "owner": "DemoOrg", "map_type": "Has Child", "owner_type": "Organization",
"external_id": None
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(Mapping.objects.filter(map_type='Has Child').count(), 2)
self.assertEqual(
Mapping.objects.filter(map_type='Has Child', id=F('versioned_object_id')).first().versions.count(), 1
)
self.assertEqual(
len(Mapping.objects.filter(map_type='Has Child', id=F('versioned_object_id')).first().mnemonic), 36
)
self.assertTrue(Mapping.objects.filter(map_type='Has Child', is_latest_version=True).exists())
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 1)
self.assertEqual(importer.failed, [])
self.assertTrue(importer.elapsed_seconds > 0)
batch_index_resources_mock.apply_async.assert_called()
@patch('core.importers.models.batch_index_resources')
def test_reference_import(self, batch_index_resources_mock):
importer = BulkImportInline(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_collection_references.json'), 'r'
).read(),
'ocladmin', True
)
importer.run()
self.assertEqual(importer.processed, 9)
self.assertEqual(len(importer.created), 9)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
collection = Collection.objects.filter(uri='/orgs/PEPFAR/collections/MER-R-MOH-Facility-FY19/').first()
self.assertEqual(collection.expansions.count(), 1)
self.assertEqual(collection.expansion.concepts.count(), 4)
self.assertEqual(collection.expansion.mappings.count(), 0)
self.assertEqual(collection.references.count(), 4)
# duplicate run
importer = BulkImportInline(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_collection_references.json'), 'r'
).read(),
'ocladmin', True
)
importer.run()
self.assertEqual(importer.processed, 9)
self.assertEqual(len(importer.created), 2)
self.assertEqual(len(importer.exists), 3)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.failed), 4) # due to same concept checksum
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
collection = Collection.objects.filter(uri='/orgs/PEPFAR/collections/MER-R-MOH-Facility-FY19/').first()
self.assertEqual(collection.expansions.count(), 1)
self.assertEqual(collection.expansion.concepts.count(), 4)
self.assertEqual(collection.expansion.mappings.count(), 0)
self.assertEqual(collection.references.count(), 4)
batch_index_resources_mock.apply_async.assert_called()
@patch('core.sources.models.index_source_mappings', Mock())
@patch('core.sources.models.index_source_concepts', Mock())
@patch('core.importers.models.batch_index_resources')
def test_sample_import(self, batch_index_resources_mock):
importer = BulkImportInline(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_ocldev.json'), 'r'
).read(),
'ocladmin', True
)
importer.run()
self.assertEqual(importer.processed, 64)
self.assertEqual(len(importer.created), 49)
self.assertEqual(len(importer.exists), 3)
self.assertEqual(len(importer.updated), 1) # last 11 rows are duplicate rows
self.assertEqual(len(importer.failed), 11)
self.assertEqual(len(importer.deleted), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
self.assertEqual(batch_index_resources_mock.apply_async.call_count, 2)
data = {
"type": "Concept", "id": "Corn", "concept_class": "Root",
"datatype": "None", "source": "DemoSource", "owner": "DemoOrg", "owner_type": "Organization",
"names": [{"name": "Food", "locale": "en", "locale_preferred": "True", "name_type": "Fully Specified"}],
"descriptions": [], '__action': 'delete'
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.deleted), 1)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
self.assertEqual(batch_index_resources_mock.apply_async.call_count, 2) # no new indexing call
concept = Concept.objects.filter(mnemonic='Corn').first()
self.assertTrue(concept.get_latest_version().retired)
self.assertTrue(concept.versioned_object.retired)
self.assertFalse(concept.get_latest_version().prev_version.retired)
data = {
"to_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Corn/",
"from_concept_url": "/orgs/DemoOrg/sources/DemoSource/concepts/Vegetable/",
"type": "Mapping", "source": "DemoSource",
"extras": None, "owner": "DemoOrg", "map_type": "Has Child", "owner_type": "Organization",
"external_id": None, '__action': 'delete'
}
importer = BulkImportInline(json.dumps(data), 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 1)
self.assertEqual(len(importer.created), 0)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.deleted), 1)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
self.assertEqual(batch_index_resources_mock.apply_async.call_count, 2) # no new indexing call
mapping = Mapping.objects.filter(
to_concept__uri="/orgs/DemoOrg/sources/DemoSource/concepts/Corn/",
from_concept__uri="/orgs/DemoOrg/sources/DemoSource/concepts/Vegetable/",
).first()
self.assertTrue(mapping.get_latest_version().retired)
self.assertTrue(mapping.versioned_object.retired)
self.assertFalse(mapping.get_latest_version().prev_version.retired)
@patch('core.importers.models.batch_index_resources')
def test_csv_import_with_retired_concepts(self, batch_index_resources_mock):
file_content = open(
os.path.join(os.path.dirname(__file__), '..', 'samples/ocl_csv_with_retired_concepts.csv'), 'r').read()
data = OclStandardCsvToJsonConverter(
input_list=csv_file_data_to_input_list(file_content), allow_special_characters=True).process()
importer = BulkImportInline(data, 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 11)
self.assertEqual(len(importer.created), 11)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
batch_index_resources_mock.apply_async.assert_called()
self.assertEqual(Concept.objects.filter(parent__mnemonic='MyDemoSource', is_latest_version=True).count(), 4)
self.assertEqual(
Concept.objects.filter(parent__mnemonic='MyDemoSource', is_latest_version=True, retired=True).count(), 1)
self.assertEqual(
Concept.objects.filter(parent__mnemonic='MyDemoSource', is_latest_version=True, retired=False).count(), 3)
self.assertEqual(
Mapping.objects.filter(
map_type="Parent-child", parent__mnemonic='MyDemoSource', is_latest_version=True, retired=False
).count(), 1)
self.assertEqual(
Mapping.objects.filter(
map_type="Parent-child-retired", parent__mnemonic='MyDemoSource', is_latest_version=True, retired=True
).count(), 1)
@patch('core.importers.models.batch_index_resources')
def test_csv_import_with_retired_concepts_and_mappings(self, batch_index_resources_mock):
file_content = open(
os.path.join(os.path.dirname(__file__), '..', 'samples/ocl_csv_import_example_test_retired.csv'), 'r'
).read()
data = OclStandardCsvToJsonConverter(
input_list=csv_file_data_to_input_list(file_content), allow_special_characters=True).process()
importer = BulkImportInline(data, 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 12)
self.assertEqual(len(importer.created), 12)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
batch_index_resources_mock.apply_async.assert_called()
self.assertTrue(
Concept.objects.filter(mnemonic='Act', is_latest_version=True, retired=False).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Child', is_latest_version=True, retired=False).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Child_of_child', is_latest_version=True, retired=False).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Ret', is_latest_version=True, retired=True).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Ret-with-mappings', is_latest_version=True, retired=True).exists())
self.assertTrue(
Mapping.objects.filter(map_type='Child-Parent', is_latest_version=True, retired=False).exists())
self.assertTrue(
Mapping.objects.filter(map_type='SAME-AS', is_latest_version=True, retired=True).exists())
self.assertTrue(
Mapping.objects.filter(map_type='Parent-child', is_latest_version=True, retired=False).exists())
@patch('core.importers.models.batch_index_resources')
def test_csv_import_mappings_with_sort_weight(self, batch_index_resources_mock):
file_content = open(
os.path.join(os.path.dirname(__file__), '..', 'samples/mappings_with_sort_weight.csv'), 'r'
).read()
data = OclStandardCsvToJsonConverter(
input_list=csv_file_data_to_input_list(file_content), allow_special_characters=True).process()
importer = BulkImportInline(data, 'ocladmin', True)
self.assertEqual(len(data), 12)
importer.run()
self.assertEqual(importer.processed, 12)
self.assertEqual(len(importer.created), 12)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
batch_index_resources_mock.apply_async.assert_called()
self.assertTrue(
Concept.objects.filter(mnemonic='Act', is_latest_version=True, retired=False).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Child', is_latest_version=True, retired=False).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Child_of_child', is_latest_version=True, retired=False).exists())
self.assertTrue(
Concept.objects.filter(mnemonic='Ret', is_latest_version=True, retired=True).exists())
self.assertTrue(
Mapping.objects.filter(map_type='Child-Parent', is_latest_version=True, retired=False).exists())
self.assertEqual(
Mapping.objects.filter(map_type='Child-Parent', is_latest_version=True, retired=False).first().sort_weight,
None
)
self.assertEqual(
Mapping.objects.filter(
to_concept__uri='/orgs/DemoOrg/sources/MyDemoSource/concepts/Child/', is_latest_version=True
).first().sort_weight,
2.2
)
self.assertEqual(
Mapping.objects.filter(
to_concept__uri='/orgs/DemoOrg/sources/MyDemoSource/concepts/Child_of_child/', is_latest_version=True
).first().sort_weight,
3.0
)
self.assertEqual(
Mapping.objects.filter(
to_concept_code='non-existant', is_latest_version=True
).first().sort_weight,
1.0
)
@patch('core.importers.models.batch_index_resources')
def test_openmrs_schema_csv_import(self, batch_index_resources_mock):
call_command('import_lookup_values')
org = OrganizationFactory(mnemonic='MSFOCP')
OrganizationSourceFactory(
mnemonic='Implementationtest', organization=org, custom_validation_schema=OPENMRS_VALIDATION_SCHEMA)
file_content = open(
os.path.join(os.path.dirname(__file__), '..', 'samples/msfocp_concepts.csv'), 'r').read()
data = OclStandardCsvToJsonConverter(
input_list=csv_file_data_to_input_list(file_content),
allow_special_characters=True
).process()
importer = BulkImportInline(data, 'ocladmin', True)
importer.run()
self.assertEqual(importer.processed, 31)
self.assertEqual(len(importer.created), 21)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.failed), 10)
self.assertEqual(len(importer.permission_denied), 0)
batch_index_resources_mock.apply_async.assert_called()
@patch('core.sources.models.index_source_mappings', Mock())
@patch('core.sources.models.index_source_concepts', Mock())
@patch('core.importers.models.batch_index_resources')
def test_pepfar_import(self, batch_index_resources_mock):
importer = BulkImportInline(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/pepfar_datim_moh_fy19.json'), 'r').read(),
'ocladmin', True
)
importer.run()
self.assertEqual(importer.processed, 413)
self.assertEqual(len(importer.created), 413)
self.assertEqual(len(importer.exists), 0)
self.assertEqual(len(importer.updated), 0)
self.assertEqual(len(importer.failed), 0)
self.assertEqual(len(importer.invalid), 0)
self.assertEqual(len(importer.others), 0)
self.assertEqual(len(importer.permission_denied), 0)
batch_index_resources_mock.apply_async.assert_called()
class BulkImportParallelRunnerTest(OCLTestCase):
def test_invalid_json(self):
with self.assertRaises(JSONDecodeError) as ex:
BulkImportParallelRunner(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/invalid_import_json.json'), 'r'
).read(),
'ocladmin', True
)
self.assertEqual(ex.exception.msg, 'Expecting property name enclosed in double quotes')
def test_make_parts(self):
importer = BulkImportParallelRunner(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_ocldev.json'), 'r'
).read(),
'ocladmin', True
)
self.assertEqual(len(importer.parts), 7)
self.assertEqual(len(importer.parts[0]), 2)
self.assertEqual(len(importer.parts[1]), 2)
self.assertEqual(len(importer.parts[2]), 1)
self.assertEqual(len(importer.parts[3]), 23)
self.assertEqual(len(importer.parts[4]), 22)
self.assertEqual(len(importer.parts[5]), 2)
self.assertEqual(len(importer.parts[6]), 12)
self.assertEqual([part['type'] for part in importer.parts[0]], ['Organization', 'Organization'])
self.assertEqual([part['type'] for part in importer.parts[1]], ['Source', 'Source'])
self.assertEqual([part['type'] for part in importer.parts[2]], ['Source Version'])
self.assertEqual(list({part['type'] for part in importer.parts[3]}), ['Concept'])
self.assertEqual(list({part['type'] for part in importer.parts[4]}), ['Mapping'])
self.assertEqual([part['type'] for part in importer.parts[5]], ['Source Version', 'Source Version'])
self.assertEqual(list({part['type'] for part in importer.parts[6]}), ['Concept'])
@patch('core.importers.models.app.control')
def test_is_any_process_alive(self, celery_app_mock):
importer = BulkImportParallelRunner(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_ocldev.json'), 'r'
).read(),
'ocladmin', True
)
self.assertFalse(importer.is_any_process_alive())
importer.groups = [
Mock(ready=Mock(return_value=True)),
Mock(ready=Mock(return_value=True)),
]
self.assertFalse(importer.is_any_process_alive())
# worker1 and worker2 failed after processing some jobs and/or part of started jobs
# worker3 finished everything
importer.tasks = [
Mock(task_id='task1', worker='worker1', status='SUCCESS'),
Mock(task_id='task2', worker='worker1', status='FAILED'),
Mock(task_id='task3', worker='worker1', status='STARTED'),
Mock(task_id='task4', worker='worker1', status='STARTED'),
Mock(task_id='task5', worker='worker2', status='PENDING'),
Mock(task_id='task6', worker='worker2', status='STARTED'),
Mock(task_id='task7', worker='worker3', status='SUCCESS'),
]
celery_app_mock.ping = Mock(return_value=[])
importer.groups = [
Mock(ready=Mock(return_value=True)),
Mock(ready=Mock(return_value=False)),
]
self.assertFalse(importer.is_any_process_alive())
self.assertCountEqual(celery_app_mock.ping.call_args[1]['destination'], ['worker1', 'worker2'])
# worker1 is up
celery_app_mock.ping = Mock(return_value=[{'worker1': {'ping': 'ok'}}])
self.assertTrue(importer.is_any_process_alive())
self.assertCountEqual(celery_app_mock.ping.call_args[1]['destination'], ['worker1', 'worker2'])
# worker1 and worker2 both are up
celery_app_mock.ping = Mock(return_value=[{'worker1': {'ping': 'ok'}}, {'worker2': {'ping': 'ok'}}])
self.assertTrue(importer.is_any_process_alive())
self.assertCountEqual(celery_app_mock.ping.call_args[1]['destination'], ['worker1', 'worker2'])
def test_get_overall_tasks_progress(self):
Task(id='task1', name='sub_task', summary={'processed': 100, 'total': 200}).save()
Task(id='task2', name='sub_task', summary={'processed': 50, 'total': 100}).save()
importer = BulkImportParallelRunner(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_ocldev.json'), 'r'
).read(),
'ocladmin', True
)
self.assertEqual(importer.get_overall_tasks_progress(), 0)
importer.tasks = [Mock(task_id='task1'), Mock(task_id='task2')]
self.assertEqual(importer.get_overall_tasks_progress(), 150)
def test_update_elapsed_seconds(self):
importer = BulkImportParallelRunner(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_ocldev.json'), 'r'
).read(),
'ocladmin', True
)
self.assertIsNotNone(importer.start_time)
self.assertEqual(importer.elapsed_seconds, 0)
importer.update_elapsed_seconds()
self.assertTrue(importer.elapsed_seconds > 0)
def test_notify_progress(self):
task = Task(id='task-id', name='bulk_import')
task.save()
Task(id='task-1', name='sub_task', summary={'processed': 100, 'total': 200}).save()
Task(id='task-2', name='sub_task', summary={'processed': 50, 'total': 100}).save()
importer = BulkImportParallelRunner(
open(
os.path.join(os.path.dirname(__file__), '..', 'samples/sample_ocldev.json'), 'r'
).read(),
'ocladmin', True, None, 'task-id'
)
importer.tasks = [Mock(task_id='task-1'), Mock(task_id='task-2')]
now = 1607346541.793877 # datetime.datetime(2020, 12, 7, 13, 09, 1, 793877) UTC
importer.start_time = now
importer.elapsed_seconds = 10.45
importer.notify_progress()
task.refresh_from_db()
self.assertEqual(task.summary, {'processed': 150, 'total': 64})
def test_chunker_list(self):
self.assertEqual(
list(BulkImportParallelRunner.chunker_list([1, 2, 3], 3, False)), [[1], [2], [3]]
)
self.assertEqual(
list(BulkImportParallelRunner.chunker_list([1, 2, 3], 2, False)), [[1, 2], [3]]
)
self.assertEqual(
list(BulkImportParallelRunner.chunker_list([1, 2, 3], 1, False)), [[1, 2, 3]]
)
concepts = [
{"type": "Concept", "id": "A", "update_comment": "A.1"},
{"type": "Concept", "id": "B", "update_comment": "B.1"},
{"type": "Concept", "id": "A", "update_comment": "A.2"},
{"type": "Concept", "id": "C", "update_comment": "C.1"},
{"type": "Concept", "id": "B", "update_comment": "B.2"},
{"type": "Concept", "id": "B", "update_comment": "B.3"},
{"type": "Concept", "id": "A", "update_comment": "A.3"}
]
self.assertEqual(
list(BulkImportParallelRunner.chunker_list(concepts, 1, True)),
[
[
{"type": "Concept", "id": "A", "update_comment": "A.1"},
{"type": "Concept", "id": "A", "update_comment": "A.2"},
{"type": "Concept", "id": "A", "update_comment": "A.3"},
{"type": "Concept", "id": "B", "update_comment": "B.1"},
{"type": "Concept", "id": "B", "update_comment": "B.2"},
{"type": "Concept", "id": "B", "update_comment": "B.3"},
{"type": "Concept", "id": "C", "update_comment": "C.1"},
],
]
)
self.assertEqual(
list(BulkImportParallelRunner.chunker_list(concepts, 2, True)),
[
[
{"type": "Concept", "id": "A", "update_comment": "A.1"},
{"type": "Concept", "id": "A", "update_comment": "A.2"},
{"type": "Concept", "id": "A", "update_comment": "A.3"},
{"type": "Concept", "id": "B", "update_comment": "B.1"},
{"type": "Concept", "id": "B", "update_comment": "B.2"},
{"type": "Concept", "id": "B", "update_comment": "B.3"},
],
[
{"type": "Concept", "id": "C", "update_comment": "C.1"},
]