meta-edc 0.2.24__py3-none-any.whl → 1.4.0__py3-none-any.whl

meta_subject/tests/tests/test_study_medication.py

@@ -1,230 +0,0 @@
-from dateutil.relativedelta import relativedelta
-from django.core.exceptions import ObjectDoesNotExist
-from django.test import TestCase
-from edc_constants.constants import YES
-from edc_pharmacy.exceptions import PrescriptionAlreadyExists, StudyMedicationError
-from edc_pharmacy.models import DosageGuideline, Formulation, Medication, RxRefill
-from edc_pharmacy.prescribe import create_prescription
-from edc_registration.models import RegisteredSubject
-
-from meta_pharmacy.constants import METFORMIN
-from meta_screening.tests.meta_test_case_mixin import MetaTestCaseMixin
-from meta_subject.models import StudyMedication
-
-
-class TestStudyMedication(MetaTestCaseMixin, TestCase):
-    def setUp(self):
-        super().setUp()
-        self.subject_visit = self.get_subject_visit()
-        self.registered_subject = RegisteredSubject.objects.get(
-            subject_identifier=self.subject_visit.subject_identifier
-        )
-
-    def test_rx_exists(self):
-        medication = Medication.objects.get(name=METFORMIN)
-        self.assertRaises(
-            PrescriptionAlreadyExists,
-            create_prescription,
-            subject_identifier=self.registered_subject.subject_identifier,
-            report_datetime=self.registered_subject.registration_datetime,
-            medications=[medication],
-            site=self.registered_subject.site,
-        )
-
-    def test_missing_formulation(self):
-        obj = StudyMedication(subject_visit=self.subject_visit)
-        with self.assertRaises(StudyMedicationError) as cm:
-            obj.save()
-        self.assertIn("Formulation", str(cm.exception))
-
-    def test_missing_dosage_guideline(self):
-        medication = Medication.objects.get(name=METFORMIN)
-        formulation = Formulation.objects.filter(medication=medication)[0]
-        obj = StudyMedication(
-            subject_visit=self.subject_visit,
-            refill_start_datetime=self.subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-            formulation=formulation,
-        )
-        with self.assertRaises(StudyMedicationError) as cm:
-            obj.save()
-        self.assertIn("Dosage guideline", str(cm.exception))
-
-    def test_study_med_longitudinal_and_one_rx_refill_created(self):
-        medication = Medication.objects.get(name=METFORMIN)
-        formulation = Formulation.objects.filter(medication=medication)[0]
-        dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
-        obj = StudyMedication(
-            subject_visit=self.subject_visit,
-            refill_start_datetime=self.subject_visit.report_datetime,
-            formulation=formulation,
-            dosage_guideline=dosage_guideline,
-            refill_to_next_visit=YES,
-        )
-        obj.save()
-        try:
-            RxRefill.objects.get(
-                rx=obj.rx,
-                rx__subject_identifier=self.subject_visit.subject_identifier,
-                refill_start_datetime=obj.refill_start_datetime,
-            )
-        except ObjectDoesNotExist:
-            self.fail("ObjectDoesNotExist unexpectedly raised")
-
-        self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
-
-    def test_study_med_longitudinal_updated_and_same_rx_refill_updated(self):
-        """Assert study med update operates on same rx_refill when updated"""
-        medication = Medication.objects.get(name=METFORMIN)
-        formulation = Formulation.objects.filter(medication=medication)[0]
-        dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
-        obj = StudyMedication(
-            subject_visit=self.subject_visit,
-            refill_start_datetime=self.subject_visit.report_datetime,
-            formulation=formulation,
-            dosage_guideline=dosage_guideline,
-            refill_to_next_visit=YES,
-        )
-        obj.save()
-        obj.save()
-        self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
-        changed_dosage_guideline = DosageGuideline.objects.filter(medication=medication)[1]
-        obj.dosage_guideline = changed_dosage_guideline
-        obj.save()
-        self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
-        rx = RxRefill.objects.get(rx=obj.rx)
-        self.assertEqual(rx.dosage_guideline, obj.dosage_guideline)
-
-    def test_study_med_longitudinal_update_start_datetime_and_same_rx_refill_updated(self):
-        """Assert study med update operates on same rx_refill when updated"""
-        medication = Medication.objects.get(name=METFORMIN)
-        formulation = Formulation.objects.filter(medication=medication)[0]
-        dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
-        obj = StudyMedication(
-            subject_visit=self.subject_visit,
-            refill_start_datetime=self.subject_visit.report_datetime,
-            formulation=formulation,
-            dosage_guideline=dosage_guideline,
-            refill_to_next_visit=YES,
-        )
-        obj.save()
-        obj.save()
-        self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
-        obj.refill_start_datetime = obj.refill_start_datetime + relativedelta(hours=1)
-        obj.save()
-        self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
-        rx = RxRefill.objects.get(rx=obj.rx)
-        self.assertEqual(rx.refill_start_datetime, obj.refill_start_datetime)
-
-    def test_study_med_longitudinal_and_one_rx_refill_created2(self):
-        medication = Medication.objects.get(name=METFORMIN)
-        formulation = Formulation.objects.filter(medication=medication)[0]
-        dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
-        obj = StudyMedication(
-            subject_visit=self.subject_visit,
-            refill_start_datetime=self.subject_visit.report_datetime,
-            formulation=formulation,
-            dosage_guideline=dosage_guideline,
-            refill_to_next_visit=YES,
-        )
-        obj.save()
-        try:
-            RxRefill.objects.get(
-                rx=obj.rx,
-                rx__subject_identifier=self.subject_visit.subject_identifier,
-                refill_start_datetime=obj.refill_start_datetime,
-            )
-        except ObjectDoesNotExist:
-            self.fail("ObjectDoesNotExist unexpectedly raised")
-
-        self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
-
-        try:
-            RxRefill.objects.get(refill_identifier=obj.refill_identifier)
-        except ObjectDoesNotExist:
-            self.fail("ObjectDoesNotExist unexpectedly raised")
-
-    def test_study_med_longitudinal_and_two_rx_refill_created(self):
-        date_sequence = []
-        medication = Medication.objects.get(name=METFORMIN)
-        formulation = Formulation.objects.filter(medication=medication)[0]
-        dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
-        subject_visits = [self.subject_visit, self.get_next_subject_visit(self.subject_visit)]
-        for i in [1, 2]:
-            subject_visit = subject_visits[i - 1]
-            obj = StudyMedication(
-                subject_visit=subject_visit,
-                refill_start_datetime=subject_visit.report_datetime,
-                formulation=formulation,
-                dosage_guideline=dosage_guideline,
-                refill_to_next_visit=YES,
-            )
-            obj.save()
-            date_sequence.append(obj.refill_start_datetime)
-            try:
-                RxRefill.objects.get(
-                    rx=obj.rx,
-                    rx__subject_identifier=subject_visit.subject_identifier,
-                    refill_start_datetime=obj.refill_start_datetime,
-                )
-            except ObjectDoesNotExist:
-                self.fail("ObjectDoesNotExist unexpectedly raised")
-
-            self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), i)
-
-            try:
-                rx_refill = RxRefill.objects.get(refill_identifier=obj.refill_identifier)
-            except ObjectDoesNotExist:
-                self.fail("ObjectDoesNotExist unexpectedly raised")
-            date_sequence.append(rx_refill.refill_end_datetime)
-        dte1, dte2, dte3, dte4 = date_sequence
-        self.assertTrue(dte1 <= dte2 <= dte3 <= dte4)
-
-    def test_study_med_longitudinal(self):
-        StudyMedication(
-            subject_visit=self.subject_visit,
-            refill_start_datetime=self.subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(self.subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )
-        subject_visit = self.get_next_subject_visit(subject_visit)
-        StudyMedication(
-            subject_visit=subject_visit,
-            refill_start_datetime=subject_visit.report_datetime,
-            refill_to_next_visit=YES,
-        )

meta_subject/tests/urls.py

@@ -1,25 +0,0 @@
-from django.contrib.auth import admin
-from django.urls.conf import include, path
-from django.views.generic.base import RedirectView
-
-from meta_ae.admin_site import meta_ae_admin
-
-urlpatterns = [
-    path("admin/", meta_ae_admin.urls),
-    path("admin/", admin.site.urls),
-    path("accounts/", include("edc_auth.urls")),
-    path("edc_adverse_event/", include("edc_adverse_event.urls")),
-    path("edc_auth/", include("edc_auth.urls")),
-    path("edc_consent/", include("edc_consent.urls")),
-    path("edc_dashboard/", include("edc_dashboard.urls")),
-    path("edc_device/", include("edc_device.urls")),
-    path("edc_export/", include("edc_export.urls")),
-    path("edc_protocol/", include("edc_protocol.urls")),
-    path("edc_randomization/", include("edc_randomization.urls")),
-    path("edc_reference/", include("edc_reference.urls")),
-    path("edc_visit_schedule/", include("edc_visit_schedule.urls")),
-    path("ae/", include("meta_ae.urls")),
-    path("meta_consent/", include("meta_consent.urls")),
-    path("administration", RedirectView.as_view(url="admin/"), name="administration_url"),
-    path("", RedirectView.as_view(url="admin/"), name="home_url"),
-]

meta_visit_schedule/tests/tests/test_schedule.py

@@ -1,177 +0,0 @@
-from django.test import TestCase
-
-from meta_edc.meta_version import PHASE_THREE, PHASE_TWO, get_meta_version
-from meta_visit_schedule.visit_schedules import schedule
-from meta_visit_schedule.visit_schedules.phase_three import visit_schedule
-
-
-class TestVisitSchedule(TestCase):
-    def test_visit_schedule_models(self):
-
-        self.assertEqual(visit_schedule.death_report_model, "meta_ae.deathreport")
-        self.assertEqual(visit_schedule.offstudy_model, "meta_prn.endofstudy")
-        self.assertEqual(visit_schedule.locator_model, "edc_locator.subjectlocator")
-
-    def test_schedule_models(self):
-        self.assertEqual(schedule.onschedule_model, "meta_prn.onschedule")
-        self.assertEqual(schedule.offschedule_model, "meta_prn.offschedule")
-        self.assertEqual(schedule.consent_model, "meta_consent.subjectconsent")
-        self.assertEqual(schedule.appointment_model, "edc_appointment.appointment")
-
-    def test_visit_codes_phase_two(self):
-        if get_meta_version() == PHASE_TWO:
-            self.assertEqual(
-                [
-                    "1000",
-                    "1005",
-                    "1010",
-                    "1030",
-                    "1060",
-                    "1090",
-                    "1120",
-                ],
-                [visit for visit in schedule.visits],
-            )
-
-    def test_visit_codes_phase_three(self):
-        if get_meta_version() == PHASE_THREE:
-            self.assertEqual(
-                [
-                    "1000",
-                    "1005",
-                    "1010",
-                    "1030",
-                    "1060",
-                    "1090",
-                    "1120",
-                    "1150",
-                    "1180",
-                    "1210",
-                    "1240",
-                    "1270",
-                    "1300",
-                    "1330",
-                    "1360",
-                ],
-                [visit for visit in schedule.visits],
-            )
-
-    def test_requisitions(self):
-        if get_meta_version() == PHASE_TWO:
-            prn = [
-                "blood_glucose_poc",
-                "chemistry",
-                "fbc",
-                "hba1c_poc",
-            ]
-            expected = {
-                "1000": ["chemistry", "fbc", "hba1c_poc"],
-                "1005": [],
-                "1010": [],
-                "1030": ["chemistry"],
-                "1060": ["chemistry", "hba1c_poc"],
-                "1090": ["chemistry"],
-                "1120": ["blood_glucose_poc", "chemistry", "fbc", "hba1c_poc"],
-            }
-            for visit_code, visit in schedule.visits.items():
-                with self.subTest(visit_code=visit_code, visit=visit):
-                    actual = [requisition.name for requisition in visit.requisitions]
-                    actual.sort()
-                    self.assertEqual(
-                        expected.get(visit_code),
-                        actual,
-                        msg=f"see requisitions for visit {visit_code}",
-                    )
-                    actual = [requisition.name for requisition in visit.requisitions_prn]
-                    actual.sort()
-                    self.assertEqual(
-                        prn, actual, msg=f"see PRN requisitions for visit {visit_code}"
-                    )
-
-    def test_crfs_phase_two(self):
-        if get_meta_version() == PHASE_TWO:
-            prn = [
-                "meta_subject.bloodresultsfbc",
-                "meta_subject.bloodresultsglu",
-                "meta_subject.bloodresultshba1c",
-                "meta_subject.bloodresultslft",
-                "meta_subject.bloodresultslipid",
-                "meta_subject.bloodresultsrft",
-                "meta_subject.glucose",
-                "meta_subject.healtheconomics",
-                "meta_subject.malariatest",
-                "meta_subject.urinedipsticktest",
-            ]
-            expected = {
-                "1000": [
-                    "meta_subject.physicalexam",
-                    "meta_subject.patienthistory",
-                    "meta_subject.bloodresultsfbc",
-                    "meta_subject.bloodresultshba1c",
-                    "meta_subject.bloodresultslft",
-                    "meta_subject.bloodresultslipid",
-                    "meta_subject.bloodresultsrft",
-                    "meta_subject.malariatest",
-                    "meta_subject.urinedipsticktest",
-                ],
-                "1005": [
-                    "meta_subject.followupvitals",
-                    "meta_subject.followupexamination",
-                    "meta_subject.healtheconomics",
-                    "meta_subject.medicationadherence",
-                ],
-                "1010": [
-                    "meta_subject.followupvitals",
-                    "meta_subject.followupexamination",
-                    "meta_subject.medicationadherence",
-                ],
-                "1030": [
-                    "meta_subject.bloodresultslft",
-                    "meta_subject.bloodresultsrft",
-                    "meta_subject.followupvitals",
-                    "meta_subject.followupexamination",
-                    "meta_subject.medicationadherence",
-                ],
-                "1060": [
-                    "meta_subject.followupvitals",
-                    "meta_subject.followupexamination",
-                    "meta_subject.medicationadherence",
-                    "meta_subject.glucose",
-                    "meta_subject.bloodresultshba1c",
-                    "meta_subject.bloodresultslft",
-                    "meta_subject.bloodresultsrft",
-                ],
-                "1090": [
-                    "meta_subject.bloodresultslft",
-                    "meta_subject.bloodresultsrft",
-                    "meta_subject.followupvitals",
-                    "meta_subject.followupexamination",
-                    "meta_subject.medicationadherence",
-                ],
-                "1120": [
-                    "meta_subject.followupvitals",
-                    "meta_subject.followupexamination",
-                    "meta_subject.medicationadherence",
-                    "meta_subject.glucose",
-                    "meta_subject.bloodresultshba1c",
-                    "meta_subject.bloodresultsfbc",
-                    "meta_subject.bloodresultslipid",
-                    "meta_subject.bloodresultslft",
-                    "meta_subject.bloodresultsrft",
-                    "meta_subject.malariatest",
-                ],
-            }
-            for visit_code, visit in schedule.visits.items():
-                with self.subTest(visit_code=visit_code, visit=visit):
-                    actual = [crf.model for crf in visit.crfs]
-                    actual.sort()
-                    expected.get(visit_code).sort()
-                    self.assertEqual(
-                        expected.get(visit_code),
-                        actual,
-                        msg=f"see CRFs for visit {visit_code}",
-                    )
-
-                    actual = [crf.model for crf in visit.crfs_prn]
-                    actual.sort()
-                    self.assertEqual(prn, actual, msg=f"see PRN CRFs for visit {visit_code}")

meta_visit_schedule/tests/urls.py

@@ -1,4 +0,0 @@
-from django.contrib import admin
-from django.urls import path
-
-urlpatterns = [path("admin/", admin.site.urls)]

tests/etc/randomization_list.csv

@@ -1,241 +0,0 @@
-sid,assignment,site_name
-1001,active,hindu_mandal
-1002,placebo,hindu_mandal
-1003,active,hindu_mandal
-1004,placebo,hindu_mandal
-1005,placebo,hindu_mandal
-1006,active,hindu_mandal
-1007,placebo,hindu_mandal
-1008,active,hindu_mandal
-1009,placebo,hindu_mandal
-1010,active,hindu_mandal
-1011,placebo, hindu_mandal
-1012,active,hindu_mandal
-1013,active,hindu_mandal
-1014,placebo,hindu_mandal
-1015,placebo,hindu_mandal
-1016,active,hindu_mandal
-1017,placebo,hindu_mandal
-1018,active,hindu_mandal
-1019,active,hindu_mandal
-1020,placebo,hindu_mandal
-1021,active,hindu_mandal
-1022,placebo,hindu_mandal
-1023,active,hindu_mandal
-1024,placebo,hindu_mandal
-1025,placebo,hindu_mandal
-1026,active,hindu_mandal
-1027,placebo,hindu_mandal
-1028,active,hindu_mandal
-1029,placebo,hindu_mandal
-1030,active,hindu_mandal
-1031,placebo,hindu_mandal
-1032,active,hindu_mandal
-1033,active,hindu_mandal
-1034,placebo,hindu_mandal
-1035,placebo,hindu_mandal
-1036,active,hindu_mandal
-1037,placebo,hindu_mandal
-1038,active,hindu_mandal
-1039,active,hindu_mandal
-1040,placebo,hindu_mandal
-1041,active,hindu_mandal
-1042,placebo,hindu_mandal
-1043,active,hindu_mandal
-1044,placebo,hindu_mandal
-1045,placebo,hindu_mandal
-1046,active,hindu_mandal
-1047,placebo,hindu_mandal
-1048,active,hindu_mandal
-1049,placebo,hindu_mandal
-1050,active,hindu_mandal
-1051,placebo, hindu_mandal
-1052,active,hindu_mandal
-1053,active,hindu_mandal
-1054,placebo,hindu_mandal
-1055,placebo,hindu_mandal
-1056,active,hindu_mandal
-1057,placebo,hindu_mandal
-1058,active,hindu_mandal
-1059,active,hindu_mandal
-1060,placebo,hindu_mandal
-1061,active,hindu_mandal
-1062,placebo,hindu_mandal
-1063,active,hindu_mandal
-1064,placebo,hindu_mandal
-1065,placebo,hindu_mandal
-1066,active,hindu_mandal
-1067,placebo,hindu_mandal
-1068,active,hindu_mandal
-1069,placebo,hindu_mandal
-1070,active,hindu_mandal
-1071,placebo,hindu_mandal
-1072,active,hindu_mandal
-1073,active,hindu_mandal
-1074,placebo,hindu_mandal
-1075,placebo,hindu_mandal
-1076,active,hindu_mandal
-1077,placebo,hindu_mandal
-1078,active,hindu_mandal
-1079,active,hindu_mandal
-1080,placebo,hindu_mandal
-1081,active,hindu_mandal
-1082,placebo,hindu_mandal
-1083,active,hindu_mandal
-1084,placebo,hindu_mandal
-1085,placebo,hindu_mandal
-1086,active,hindu_mandal
-1087,placebo,hindu_mandal
-1088,active,hindu_mandal
-1089,placebo,hindu_mandal
-1090,active,hindu_mandal
-1091,placebo, hindu_mandal
-1092,active,hindu_mandal
-1093,active,hindu_mandal
-1094,placebo,hindu_mandal
-1095,placebo,hindu_mandal
-1096,active,hindu_mandal
-1097,placebo,hindu_mandal
-1098,active,hindu_mandal
-1099,active,hindu_mandal
-1100,placebo,hindu_mandal
-1101,active,hindu_mandal
-1102,placebo,hindu_mandal
-1103,active,hindu_mandal
-1104,placebo,hindu_mandal
-1105,placebo,hindu_mandal
-1106,active,hindu_mandal
-1107,placebo,hindu_mandal
-1108,active,hindu_mandal
-1109,placebo,hindu_mandal
-1110,active,hindu_mandal
-1111,placebo,hindu_mandal
-1112,active,hindu_mandal
-1113,active,hindu_mandal
-1114,placebo,hindu_mandal
-1115,placebo,hindu_mandal
-1116,active,hindu_mandal
-1117,placebo,hindu_mandal
-1118,active,hindu_mandal
-1119,active,hindu_mandal
-1120,placebo,hindu_mandal
-1121,active,amana
-1122,placebo,amana
-1123,active,amana
-1124,placebo,amana
-1125,placebo,amana
-1126,active,amana
-1127,placebo,amana
-1128,active,amana
-1129,placebo,amana
-1130,active,amana
-1131,placebo,amana
-1132,active,amana
-1133,active,amana
-1134,placebo,amana
-1135,placebo,amana
-1136,active,amana
-1137,placebo,amana
-1138,active,amana
-1139,active,amana
-1140,placebo,amana
-1141,active,amana
-1142,placebo,amana
-1143,active,amana
-1144,placebo,amana
-1145,placebo,amana
-1146,active,amana
-1147,placebo,amana
-1148,active,amana
-1149,placebo,amana
-1150,active,amana
-1151,placebo,amana
-1152,active,amana
-1153,active,amana
-1154,placebo,amana
-1155,placebo,amana
-1156,active,amana
-1157,placebo,amana
-1158,active,amana
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tests/etc/user-aes-restricted.key

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