meta-edc 1.1.8__py3-none-any.whl → 1.1.12__py3-none-any.whl
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- meta_ae/action_items.py +2 -1
- meta_ae/admin/__init__.py +11 -0
- meta_ae/admin/ae_susar_admin.py +1 -1
- meta_ae/admin/death_report_admin.py +1 -1
- meta_ae/admin/modeladmin_mixins.py +10 -12
- meta_ae/baker_recipes.py +3 -3
- meta_ae/forms/__init__.py +13 -0
- meta_ae/forms/modelform_mixins.py +2 -2
- meta_ae/migrations/0001_initial.py +27 -27
- meta_ae/migrations/0006_aelocalreview_aesponsorreview.py +5 -5
- meta_ae/migrations/0022_historicalhospitalization_hospitalization.py +5 -13
- meta_ae/migrations/0023_alter_aefollowup_action_identifier_and_more.py +2017 -0
- meta_ae/model_mixins/__init__.py +2 -0
- meta_ae/model_mixins/ae_review_model_mixin.py +6 -6
- meta_ae/model_mixins/death_report_model_mixin.py +3 -3
- meta_ae/models/__init__.py +13 -0
- meta_ae/models/hospitalization.py +3 -3
- meta_ae/pdf_reports/__init__.py +2 -0
- meta_analytics/.DS_Store +0 -0
- meta_analytics/dataframes/__init__.py +24 -0
- meta_analytics/dataframes/get_eos_df.py +1 -2
- meta_analytics/dataframes/get_glucose_df.py +6 -7
- meta_analytics/dataframes/get_glucose_fbg_df.py +2 -3
- meta_analytics/dataframes/get_glucose_fbg_ogtt_df.py +1 -2
- meta_analytics/dataframes/get_last_imp_visits_df.py +5 -6
- meta_analytics/dataframes/glucose_endpoints/__init__.py +2 -0
- meta_analytics/dataframes/glucose_endpoints/endpoint_by_date.py +13 -20
- meta_analytics/dataframes/glucose_endpoints/glucose_endpoints_by_date.py +9 -10
- meta_analytics/dataframes/screening/__init__.py +2 -0
- meta_analytics/dataframes/screening/get_glucose_tested_only_df.py +1 -2
- meta_analytics/dataframes/screening/get_screening_df.py +6 -10
- meta_analytics/dataframes/utils.py +3 -8
- meta_analytics/get_tables.py +1 -2
- meta_analytics/tables/__init__.py +2 -0
- meta_consent/action_items.py +2 -1
- meta_consent/admin/__init__.py +6 -0
- meta_consent/admin/actions/__init__.py +2 -0
- meta_consent/admin/actions/create_missing_prescriptions.py +1 -1
- meta_consent/admin/list_filters.py +2 -2
- meta_consent/admin/modeladmin_mixins.py +3 -4
- meta_consent/admin/subject_consent_v1_ext_admin.py +2 -2
- meta_consent/baker_recipes.py +7 -8
- meta_consent/form_validators/__init__.py +2 -0
- meta_consent/forms/__init__.py +7 -0
- meta_consent/forms/subject_consent_v1_ext_form.py +2 -3
- meta_consent/forms/subject_reconsent_form.py +4 -4
- meta_consent/management/commands/create_missing_prescriptions.py +4 -2
- meta_consent/migrations/0001_initial.py +9 -9
- meta_consent/migrations/0024_historicalsubjectconsentv1.py +3 -8
- meta_consent/migrations/0026_historicalsubjectconsentv1ext_subjectconsentv1ext.py +5 -14
- meta_consent/migrations/0032_alter_historicalsubjectconsent_device_created_and_more.py +678 -0
- meta_consent/models/__init__.py +9 -0
- meta_consent/models/model_mixins.py +1 -2
- meta_consent/models/signals.py +9 -10
- meta_consent/models/subject_consent.py +1 -1
- meta_consent/models/subject_reconsent.py +3 -3
- meta_dashboard/patterns.py +1 -1
- meta_dashboard/templatetags/meta_dashboard_extras.py +1 -1
- meta_dashboard/view_utils/__init__.py +7 -0
- meta_dashboard/view_utils/subject_screening_button.py +9 -16
- meta_dashboard/views/__init__.py +8 -0
- meta_dashboard/views/ae/__init__.py +2 -0
- meta_dashboard/views/ae/ae_listboard_view.py +1 -1
- meta_dashboard/views/ae/death_report_listboard_view.py +1 -1
- meta_dashboard/views/screening/__init__.py +2 -0
- meta_dashboard/views/subject/__init__.py +2 -0
- meta_dashboard/views/subject/dashboard/__init__.py +2 -0
- meta_dashboard/views/subject/dashboard/dashboard_view.py +1 -1
- meta_dashboard/views/subject/listboard/__init__.py +2 -0
- meta_edc/__init__.py +5 -9
- meta_edc/celery.py +1 -1
- meta_edc/celery_live.py +1 -1
- meta_edc/celery_uat.py +1 -1
- meta_edc/management/commands/update_forms_reference.py +10 -12
- meta_edc/settings/debug.py +5 -4
- meta_edc/settings/defaults.py +18 -3
- meta_edc/settings/live.py +3 -1
- meta_edc/settings/logging.py +9 -4
- meta_edc/settings/minimal.py +4 -5
- meta_edc/settings/uat.py +3 -1
- meta_edc/views/__init__.py +2 -0
- meta_edc-1.1.12.dist-info/METADATA +174 -0
- {meta_edc-1.1.8.dist-info → meta_edc-1.1.12.dist-info}/RECORD +413 -526
- meta_edc-1.1.12.dist-info/WHEEL +4 -0
- meta_lists/migrations/0020_alter_abnormalfootappearanceobservations_extra_value_and_more.py +404 -0
- meta_pharmacy/admin/__init__.py +5 -0
- meta_pharmacy/admin/substitutions_admin.py +2 -2
- meta_pharmacy/forms/__init__.py +2 -0
- meta_pharmacy/forms/substitutions_form.py +6 -4
- meta_pharmacy/labels/__init__.py +4 -2
- meta_pharmacy/labels/draw_label_for_subject_with_barcode.py +1 -2
- meta_pharmacy/labels/draw_label_with_test_data.py +2 -2
- meta_pharmacy/labels/label_data.py +1 -2
- meta_pharmacy/labels/print_sheets.py +4 -6
- meta_pharmacy/migrations/0002_initial.py +7 -20
- meta_pharmacy/migrations/0003_auto_20240909_2335.py +3 -2
- meta_pharmacy/migrations/0006_lotnumber_label.py +5 -14
- meta_pharmacy/migrations/0008_remove_lotnumber_medication_and_more.py +5 -6
- meta_pharmacy/migrations/0010_alter_historicallabeldata_device_created_and_more.py +382 -0
- meta_pharmacy/models/__init__.py +7 -0
- meta_pharmacy/models/label_data.py +4 -5
- meta_pharmacy/models/substitutions.py +3 -3
- meta_pharmacy/prepare_meta_pharmacy.py +1 -1
- meta_pharmacy/utils/__init__.py +2 -0
- meta_pharmacy/utils/update_initial_pharmacy_data.py +1 -1
- meta_prn/admin/__init__.py +16 -0
- meta_prn/admin/dm_referral_admin.py +2 -1
- meta_prn/admin/end_of_study_admin.py +6 -7
- meta_prn/admin/loss_to_followup_admin.py +3 -2
- meta_prn/admin/off_study_medication_admin.py +5 -6
- meta_prn/admin/offschedule_admin.py +5 -6
- meta_prn/admin/offschedule_dm_referral_admin.py +6 -6
- meta_prn/admin/offschedule_postnatal_admin.py +7 -7
- meta_prn/admin/offschedule_pregnancy_admin.py +8 -7
- meta_prn/admin/onschedule_admin.py +7 -8
- meta_prn/admin/onschedule_dm_referral_admin.py +6 -7
- meta_prn/admin/pregnancy_notification_admin.py +5 -6
- meta_prn/admin/protocol_incident_admin.py +1 -1
- meta_prn/admin/subject_transfer_admin.py +1 -1
- meta_prn/baker_recipes.py +4 -4
- meta_prn/form_validators/__init__.py +5 -0
- meta_prn/form_validators/end_of_study.py +2 -2
- meta_prn/forms/__init__.py +13 -0
- meta_prn/migrations/0001_initial.py +25 -25
- meta_prn/migrations/0017_auto_20220307_1929.py +5 -5
- meta_prn/migrations/0018_auto_20220309_2106.py +9 -9
- meta_prn/migrations/0021_auto_20220316_2147.py +13 -13
- meta_prn/migrations/0022_auto_20220318_0133.py +9 -9
- meta_prn/migrations/0032_historicalegfrnotification_egfrnotification.py +5 -13
- meta_prn/migrations/0038_alter_endofstudy_delivery_date_and_more.py +5 -13
- meta_prn/migrations/0041_endofstudy_transfer_date_and_more.py +5 -13
- meta_prn/migrations/0057_historicalonscheduledmreferral_and_more.py +13 -38
- meta_prn/migrations/0067_alter_offschedule_managers_and_more.py +2557 -0
- meta_prn/models/__init__.py +20 -0
- meta_prn/models/offschedule.py +4 -4
- meta_prn/models/protocol_incident.py +1 -1
- meta_prn/models/subject_transfer.py +8 -0
- meta_rando/migrations/0001_initial.py +5 -5
- meta_rando/migrations/0006_alter_historicalrandomizationlist_allocated_user_and_more.py +130 -0
- meta_reports/__init__.py +2 -0
- meta_reports/admin/__init__.py +16 -0
- meta_reports/admin/dbviews/__init__.py +13 -0
- meta_reports/admin/dbviews/glucose_summary_admin.py +6 -6
- meta_reports/admin/dbviews/imp_substitutions_admin.py +12 -11
- meta_reports/admin/dbviews/missing_screening_ogtt_admin/__init__.py +5 -0
- meta_reports/admin/dbviews/missing_screening_ogtt_admin/note_model_admin.py +27 -3
- meta_reports/admin/dbviews/missing_screening_ogtt_admin/unmanaged_model_admin.py +6 -6
- meta_reports/admin/dbviews/on_study_missing_lab_values_admin/__init__.py +2 -0
- meta_reports/admin/dbviews/on_study_missing_lab_values_admin/unmanaged_model_admin.py +0 -3
- meta_reports/admin/dbviews/on_study_missing_values_admin/__init__.py +2 -0
- meta_reports/admin/dbviews/patient_history_missing_baseline_cd4_admin.py +8 -8
- meta_reports/admin/dbviews/unattended_three_in_row2_admin.py +6 -6
- meta_reports/admin/dbviews/unattended_three_in_row_admin.py +5 -5
- meta_reports/admin/dbviews/unattended_two_in_row_admin.py +5 -5
- meta_reports/admin/endpoints_admin.py +1 -1
- meta_reports/admin/last_imp_refill_admin.py +9 -9
- meta_reports/admin/list_filters.py +2 -2
- meta_reports/admin/modeladmin_mixins.py +9 -16
- meta_reports/death_report.py +1 -1
- meta_reports/forms/__init__.py +2 -0
- meta_reports/forms/missing_ogtt_note_form.py +2 -3
- meta_reports/management/commands/generate_endpoints.py +5 -4
- meta_reports/migrations/0035_historicalmissingogttnote_missingogttnote.py +5 -14
- meta_reports/migrations/0059_alter_endpoints_created_and_more.py +161 -0
- meta_reports/models/__init__.py +17 -0
- meta_reports/models/dbviews/__init__.py +14 -0
- meta_reports/models/dbviews/glucose_summary/__init__.py +2 -0
- meta_reports/models/dbviews/glucose_summary/unmanaged_model.py +4 -5
- meta_reports/models/dbviews/imp_substitutions/__init__.py +2 -0
- meta_reports/models/dbviews/imp_substitutions/view_definition.py +1 -1
- meta_reports/models/dbviews/missing_screening_ogtt/__init__.py +2 -0
- meta_reports/models/dbviews/missing_screening_ogtt/note_model.py +1 -1
- meta_reports/models/dbviews/missing_screening_ogtt/unmanaged_model.py +4 -3
- meta_reports/models/dbviews/on_study_missing_lab_values/__init__.py +2 -0
- meta_reports/models/dbviews/on_study_missing_lab_values/qa_cases.py +13 -11
- meta_reports/models/dbviews/on_study_missing_values/__init__.py +2 -0
- meta_reports/models/dbviews/on_study_missing_values/qa_cases.py +18 -0
- meta_reports/models/dbviews/patient_history_missing_baseline_cd4/__init__.py +2 -0
- meta_reports/models/dbviews/unattended_three_in_row/__init__.py +2 -0
- meta_reports/models/dbviews/unattended_three_in_row2/__init__.py +2 -0
- meta_reports/models/dbviews/unattended_two_in_row/__init__.py +2 -0
- meta_reports/models/endpoints.py +4 -4
- meta_reports/models/last_imp_refill.py +2 -3
- meta_reports/pdf_report.py +2 -2
- meta_reports/tasks.py +1 -1
- meta_screening/admin/__init__.py +8 -0
- meta_screening/admin/fieldsets.py +13 -14
- meta_screening/admin/list_filters.py +6 -4
- meta_screening/admin/screening_part_one_admin.py +1 -2
- meta_screening/admin/screening_part_three_admin.py +2 -3
- meta_screening/admin/screening_part_two_admin.py +7 -10
- meta_screening/admin/subject_refusal_admin.py +5 -3
- meta_screening/admin/subject_screening_admin.py +4 -4
- meta_screening/baker_recipes.py +9 -9
- meta_screening/eligibility/__init__.py +9 -0
- meta_screening/eligibility/eligibility.py +7 -7
- meta_screening/eligibility/eligibility_part_three/__init__.py +2 -0
- meta_screening/eligibility/eligibility_part_three/base_eligibility_part_three.py +8 -8
- meta_screening/eligibility/eligibility_part_three/eligibility_part_three_phase_three.py +13 -14
- meta_screening/form_validators/__init__.py +8 -0
- meta_screening/forms/__init__.py +20 -0
- meta_screening/forms/field_lists.py +16 -17
- meta_screening/forms/screening_part_one_form.py +2 -2
- meta_screening/forms/screening_part_three_form.py +5 -3
- meta_screening/forms/screening_part_two_form.py +1 -5
- meta_screening/forms/subject_refusal_form.py +0 -4
- meta_screening/forms/subject_screening_form.py +0 -4
- meta_screening/migrations/0001_initial.py +15 -15
- meta_screening/migrations/0010_auto_20191106_0828.py +5 -5
- meta_screening/migrations/0068_alter_historicalscreeningpartone_acute_condition_and_more.py +1579 -0
- meta_screening/model_mixins/__init__.py +8 -0
- meta_screening/model_mixins/eligibility_model_mixin.py +5 -3
- meta_screening/model_mixins/part_one_fields_model_mixin.py +5 -9
- meta_screening/model_mixins/part_three_fields_model_mixin.py +5 -6
- meta_screening/model_mixins/part_two_fields_model_mixin.py +18 -16
- meta_screening/models/__init__.py +9 -0
- meta_screening/models/icp_referral.py +5 -5
- meta_screening/models/signals.py +10 -11
- meta_screening/models/subject_refusal.py +1 -1
- meta_screening/models/subject_screening.py +1 -3
- meta_subject/action_items.py +13 -15
- meta_subject/admin/__init__.py +39 -0
- meta_subject/admin/birth_outcome_admin.py +4 -8
- meta_subject/admin/blood_results/__init__.py +9 -0
- meta_subject/admin/blood_results/blood_results_fbc_admin.py +1 -1
- meta_subject/admin/blood_results/blood_results_hba1c_admin.py +1 -1
- meta_subject/admin/blood_results/blood_results_ins_admin.py +1 -1
- meta_subject/admin/blood_results/blood_results_lft_admin.py +1 -1
- meta_subject/admin/blood_results/blood_results_lipids_admin.py +1 -1
- meta_subject/admin/blood_results/blood_results_rft_admin.py +3 -5
- meta_subject/admin/complications_glycemia_admin.py +1 -1
- meta_subject/admin/delivery_admin.py +7 -10
- meta_subject/admin/diabetes/__init__.py +2 -0
- meta_subject/admin/diabetes/dm_endpoint_admin.py +2 -2
- meta_subject/admin/diabetes/dm_followup_admin.py +3 -2
- meta_subject/admin/egfr_drop_notification_admin.py +1 -1
- meta_subject/admin/followup_examination_admin.py +10 -9
- meta_subject/admin/followup_vitals_admin.py +4 -5
- meta_subject/admin/glucose_admin.py +2 -4
- meta_subject/admin/glucose_fbg_admin.py +1 -3
- meta_subject/admin/health_economics/__init__.py +2 -0
- meta_subject/admin/health_economics/health_economics_simple_admin.py +1 -1
- meta_subject/admin/health_economics/health_economics_update_admin.py +1 -1
- meta_subject/admin/hepatitis_test_admin.py +1 -1
- meta_subject/admin/list_filters.py +1 -1
- meta_subject/admin/mnsi_admin.py +7 -5
- meta_subject/admin/other_arv_regimens_admin.py +3 -3
- meta_subject/admin/patient_history_admin.py +4 -4
- meta_subject/admin/physical_exam_admin.py +1 -1
- meta_subject/admin/pregnancy_update_admin.py +1 -1
- meta_subject/admin/study_medication_admin.py +8 -15
- meta_subject/admin/subject_requisition_admin.py +1 -1
- meta_subject/admin/subject_visit_admin.py +1 -1
- meta_subject/admin/subject_visit_missed_admin.py +1 -1
- meta_subject/admin/urine_dipstick_test_admin.py +1 -1
- meta_subject/admin/urine_pregnancy_admin.py +1 -1
- meta_subject/baker_recipes.py +15 -15
- meta_subject/form_validators/__init__.py +11 -0
- meta_subject/form_validators/delivery_form_validator.py +2 -3
- meta_subject/form_validators/dm_endpoint_form_validator.py +1 -1
- meta_subject/form_validators/dm_followup_form_validator.py +7 -6
- meta_subject/form_validators/glucose_form_validator.py +3 -5
- meta_subject/forms/__init__.py +41 -0
- meta_subject/forms/blood_results/__init__.py +9 -0
- meta_subject/forms/blood_results/blood_results_rft_form.py +1 -2
- meta_subject/forms/diabetes/__init__.py +2 -0
- meta_subject/forms/diabetes/dm_followup_form.py +2 -2
- meta_subject/forms/followup_vitals_form.py +3 -8
- meta_subject/forms/health_economics/__init__.py +2 -0
- meta_subject/forms/next_appointment_form.py +2 -3
- meta_subject/forms/slider_widget.py +1 -1
- meta_subject/forms/study_medication_form.py +11 -8
- meta_subject/management/commands/create_missing_refills.py +3 -3
- meta_subject/management/commands/create_missing_rx.py +1 -1
- meta_subject/management/commands/missed.py +20 -23
- meta_subject/metadata_rules/__init__.py +2 -0
- meta_subject/metadata_rules/predicates.py +25 -32
- meta_subject/migrations/0001_initial.py +61 -61
- meta_subject/migrations/0002_auto_20191021_0353.py +5 -5
- meta_subject/migrations/0012_auto_20200118_2334.py +5 -5
- meta_subject/migrations/0014_auto_20200120_1622.py +5 -5
- meta_subject/migrations/0018_coronakap_historicalcoronakap.py +5 -5
- meta_subject/migrations/0033_auto_20200516_2356.py +5 -5
- meta_subject/migrations/0038_auto_20200520_0020.py +5 -5
- meta_subject/migrations/0040_auto_20200527_2155.py +1 -1
- meta_subject/migrations/0045_auto_20200530_1801.py +1 -1
- meta_subject/migrations/0051_auto_20200617_2117.py +5 -5
- meta_subject/migrations/0063_auto_20210715_0337.py +5 -5
- meta_subject/migrations/0066_auto_20210721_0335.py +9 -9
- meta_subject/migrations/0067_auto_20210726_0340.py +5 -5
- meta_subject/migrations/0068_auto_20210728_1809.py +5 -5
- meta_subject/migrations/0072_auto_20210805_1545.py +7 -7
- meta_subject/migrations/0073_auto_20210809_0055.py +5 -5
- meta_subject/migrations/0077_auto_20210809_2323.py +3 -3
- meta_subject/migrations/0082_auto_20210823_1612.py +3 -3
- meta_subject/migrations/0083_auto_20210823_1620.py +3 -3
- meta_subject/migrations/0088_auto_20210924_0027.py +5 -5
- meta_subject/migrations/0090_auto_20210924_0424.py +5 -5
- meta_subject/migrations/0093_auto_20211117_0352.py +5 -5
- meta_subject/migrations/0095_auto_20220128_1719.py +5 -5
- meta_subject/migrations/0098_auto_20220309_2106.py +5 -5
- meta_subject/migrations/0101_auto_20220316_2147.py +13 -13
- meta_subject/migrations/0115_historicalegfrnotification_egfrnotification.py +5 -13
- meta_subject/migrations/0164_dmreferralfollowup_historicaldmreferralfollowup.py +5 -5
- meta_subject/migrations/0172_remove_historicalbloodresultsglu_action_item_and_more.py +1 -2
- meta_subject/migrations/0177_alter_bloodresultslft_alp_value_and_more.py +1 -2
- meta_subject/migrations/0178_historicalhealtheconomicsupdate_and_more.py +5 -14
- meta_subject/migrations/0186_healtheconomicsupdate_singleton_field_and_more.py +1 -2
- meta_subject/migrations/0187_dmdiagnosis_historicaldmdiagnosis_dmdxresult_and_more.py +5 -14
- meta_subject/migrations/0188_historicaldmdxresult_dmdxresult.py +5 -14
- meta_subject/migrations/0209_remove_historicaldmdxresult_dm_diagnosis_and_more.py +1 -2
- meta_subject/migrations/0216_historicalnextappointment_nextappointment.py +5 -6
- meta_subject/migrations/0220_historicalbloodresultsgludummy_bloodresultsgludummy.py +5 -14
- meta_subject/migrations/0227_alter_followupvitals_waist_circumference_comment_and_more.py +97 -0
- meta_subject/migrations/0228_bloodresultshba1c_hba1c_datetime_and_more.py +9297 -0
- meta_subject/model_mixins/__init__.py +8 -0
- meta_subject/model_mixins/search_slug_model_mixin.py +1 -2
- meta_subject/model_mixins/vitals_fields_model_mixin.py +1 -1
- meta_subject/models/__init__.py +48 -0
- meta_subject/models/birth_outcomes.py +3 -3
- meta_subject/models/blood_results/__init__.py +11 -0
- meta_subject/models/delivery.py +3 -3
- meta_subject/models/diabetes/__init__.py +2 -0
- meta_subject/models/diabetes/dm_endpoint.py +4 -4
- meta_subject/models/diabetes/dm_followup.py +3 -4
- meta_subject/models/diet_and_lifestyle.py +2 -2
- meta_subject/models/followup_examination.py +11 -11
- meta_subject/models/glucose.py +4 -4
- meta_subject/models/glucose_fbg.py +2 -3
- meta_subject/models/health_economics/__init__.py +2 -0
- meta_subject/models/health_economics/health_economics.py +7 -7
- meta_subject/models/health_economics/health_economics_update.py +2 -1
- meta_subject/models/hepatitis_test.py +2 -2
- meta_subject/models/other_arv_regimens_detail.py +1 -1
- meta_subject/models/patient_history.py +5 -6
- meta_subject/models/physical_exam.py +2 -2
- meta_subject/models/pregnancy_update.py +1 -1
- meta_subject/models/signals.py +14 -12
- meta_subject/models/subject_visit.py +1 -1
- meta_subject/models/urine_dipstick_test.py +1 -1
- meta_subject/models/urine_pregnancy.py +1 -1
- meta_visit_schedule/visit_schedules/__init__.py +2 -0
- meta_visit_schedule/visit_schedules/phase_three/__init__.py +2 -0
- meta_visit_schedule/visit_schedules/phase_three/schedule.py +2 -2
- meta_visit_schedule/visit_schedules/phase_three/schedule_dm_referral.py +1 -2
- meta_visit_schedule/visit_schedules/phase_three/schedule_pregnancy.py +1 -2
- meta_ae/tests/holidays.csv +0 -15
- meta_ae/tests/tests/test_actions.py +0 -126
- meta_ae/tests/urls.py +0 -10
- meta_analytics/dataframes/glucose_endpoints/utils.py +0 -0
- meta_analytics/notebooks/anu.ipynb +0 -95
- meta_analytics/notebooks/appointment_planning.ipynb +0 -329
- meta_analytics/notebooks/arvs.ipynb +0 -103
- meta_analytics/notebooks/cleaning/__init__.py +0 -0
- meta_analytics/notebooks/cleaning/consent_v1_ext.ipynb +0 -227
- meta_analytics/notebooks/cleaning/offschedule_eos.ipynb +0 -353
- meta_analytics/notebooks/dsmc/renal_dysfunction.ipynb +0 -435
- meta_analytics/notebooks/endpoints/meta_endpoints_by_date.ipynb +0 -656
- meta_analytics/notebooks/followup_examination.ipynb +0 -141
- meta_analytics/notebooks/hba1c.ipynb +0 -136
- meta_analytics/notebooks/hiv_regimens.ipynb +0 -429
- meta_analytics/notebooks/incidence.ipynb +0 -232
- meta_analytics/notebooks/liver.ipynb +0 -389
- meta_analytics/notebooks/magreth.ipynb +0 -645
- meta_analytics/notebooks/monitoring_report.ipynb +0 -1834
- meta_analytics/notebooks/pharmacy.ipynb +0 -1061
- meta_analytics/notebooks/pharmacy_stock_202410.ipynb +0 -306
- meta_analytics/notebooks/qa.ipynb +0 -273
- meta_analytics/notebooks/steering.ipynb +0 -61
- meta_analytics/notebooks/undiagnosed/meta3_screening_consort_chart.ipynb +0 -1176
- meta_analytics/notebooks/undiagnosed/meta3_screening_undiagnosed.ipynb +0 -519
- meta_analytics/notebooks/undiagnosed/meta_screening_table2.ipynb +0 -964
- meta_analytics/notebooks/undiagnosed/screen_undiagnosed_or.ipynb +0 -296
- meta_analytics/notebooks/undiagnosed/screening.ipynb +0 -273
- meta_analytics/notebooks/undiagnosed/screening2.ipynb +0 -958
- meta_analytics/notebooks/undiagnosed/screening_undiagnosed_20241002.ipynb +0 -958
- meta_analytics/notebooks/ven.ipynb +0 -191
- meta_analytics/notebooks/vitals.ipynb +0 -263
- meta_analytics/tests/__init__.py +0 -0
- meta_analytics/tests/test_endpoints_by_date.py +0 -94
- meta_consent/tests/__init__.py +0 -0
- meta_consent/tests/holidays.csv +0 -15
- meta_consent/tests/tests/__init__.py +0 -0
- meta_consent/tests/tests/test_form_validators.py +0 -110
- meta_consent/tests/tests/test_subject_consent.py +0 -10
- meta_consent/tests/urls.py +0 -17
- meta_dashboard/tests/__init__.py +0 -0
- meta_dashboard/tests/admin.py +0 -22
- meta_dashboard/tests/holidays.csv +0 -15
- meta_dashboard/tests/tests/__init__.py +0 -0
- meta_dashboard/tests/urls.py +0 -55
- meta_edc/tests/__init__.py +0 -0
- meta_edc/tests/tests/__init__.py +0 -0
- meta_edc/tests/tests/test_endpoints.py +0 -555
- meta_edc-1.1.8.dist-info/METADATA +0 -767
- meta_edc-1.1.8.dist-info/WHEEL +0 -5
- meta_edc-1.1.8.dist-info/licenses/AUTHORS.rst +0 -8
- meta_edc-1.1.8.dist-info/top_level.txt +0 -20
- meta_labs/tests/__init__.py +0 -0
- meta_labs/tests/test_labs.py +0 -27
- meta_labs/tests/test_reportables.py +0 -70
- meta_labs/tests/urls.py +0 -4
- meta_lists/tests/__init__.py +0 -0
- meta_lists/tests/test_lists.py +0 -8
- meta_pharmacy/notebooks/pharmacy.ipynb +0 -41
- meta_prn/tests/__init__.py +0 -0
- meta_prn/tests/tests/__init__.py +0 -0
- meta_prn/tests/tests/test_actions.py +0 -97
- meta_prn/tests/tests/test_dm_referral.py +0 -203
- meta_prn/tests/tests/test_eos_events.py +0 -134
- meta_prn/tests/tests/test_manager_order.py +0 -14
- meta_prn/tests/tests/test_pregnancy_notification.py +0 -93
- meta_prn/tests/urls.py +0 -10
- meta_rando/tests/__init__.py +0 -0
- meta_rando/tests/tests/__init__.py +0 -0
- meta_rando/tests/tests/test_randomizers.py +0 -57
- meta_reports/tests/__init__.py +0 -0
- meta_reports/tests/test_reports.py +0 -35
- meta_reports/tests/test_sql_gen.py +0 -5
- meta_reports/tests/urls.py +0 -4
- meta_screening/offline_models.py +0 -3
- meta_screening/tests/__init__.py +0 -0
- meta_screening/tests/holidays.csv +0 -15
- meta_screening/tests/meta_test_case_mixin.py +0 -234
- meta_screening/tests/options.py +0 -127
- meta_screening/tests/tests/__init__.py +0 -0
- meta_screening/tests/tests/test_forms.py +0 -404
- meta_screening/tests/tests/test_screening_part_one.py +0 -108
- meta_screening/tests/tests/test_screening_part_three.py +0 -433
- meta_screening/tests/tests/test_screening_part_two.py +0 -84
- meta_sites/tests/__init__.py +0 -0
- meta_sites/tests/test_sites.py +0 -12
- meta_sites/tests/urls.py +0 -4
- meta_stats/__init__.py +0 -0
- meta_stats/incidence.py +0 -16
- meta_stats/models.py +0 -0
- meta_stats/tests/__init__.py +0 -0
- meta_stats/tests/tests/__init__.py +0 -0
- meta_stats/tests/tests/test_incidence.py +0 -10
- meta_subject/tests/__init__.py +0 -0
- meta_subject/tests/holidays.csv +0 -15
- meta_subject/tests/tests/__init__.py +0 -0
- meta_subject/tests/tests/test_egfr.py +0 -234
- meta_subject/tests/tests/test_fixes.py +0 -64
- meta_subject/tests/tests/test_followup.py +0 -52
- meta_subject/tests/tests/test_manager_order.py +0 -11
- meta_subject/tests/tests/test_medication_adherence.py +0 -79
- meta_subject/tests/tests/test_metadata_rules.py +0 -135
- meta_subject/tests/tests/test_mnsi.py +0 -341
- meta_subject/tests/tests/test_next_appointment.py +0 -231
- meta_subject/tests/tests/test_patient_history_form.py +0 -74
- meta_subject/tests/tests/test_physical_exam.py +0 -84
- meta_subject/tests/tests/test_sf12.py +0 -161
- meta_subject/tests/tests/test_study_medication.py +0 -229
- meta_subject/tests/urls.py +0 -24
- meta_visit_schedule/tests/__init__.py +0 -0
- meta_visit_schedule/tests/tests/__init__.py +0 -0
- meta_visit_schedule/tests/tests/test_schedule.py +0 -181
- meta_visit_schedule/tests/urls.py +0 -4
- tests/__init__.py +0 -0
- tests/etc/randomization_list.csv +0 -241
- tests/etc/randomization_list_phase_three.csv +0 -241
- tests/etc/user-aes-local.key +0 -0
- tests/etc/user-aes-restricted.key +0 -1
- tests/etc/user-rsa-local-private.pem +0 -27
- tests/etc/user-rsa-local-public.pem +0 -9
- tests/etc/user-rsa-restricted-private.pem +0 -27
- tests/etc/user-rsa-restricted-public.pem +0 -9
- tests/etc/user-salt-local.key +0 -0
- tests/etc/user-salt-restricted.key +0 -0
- tests/holidays.csv +0 -15
- tests/test_settings.py +0 -185
- {meta_edc-1.1.8.dist-info → meta_edc-1.1.12.dist-info}/licenses/LICENSE +0 -0
- /meta_ae/tests/__init__.py → /meta_subject/management/__init__py.py +0 -0
- /meta_ae/tests/tests/__init__.py → /meta_subject/management/commands/__init__py.py +0 -0
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@@ -1,84 +0,0 @@
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from copy import deepcopy
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from django.conf import settings
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from django.contrib.sites.models import Site
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from django.test import TestCase
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from edc_constants.constants import COMPLETE, NO, YES
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from meta_screening.tests.meta_test_case_mixin import MetaTestCaseMixin
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from meta_subject.forms import PhysicalExamForm
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class TestPhysicalExam(MetaTestCaseMixin, TestCase):
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def setUp(self):
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super().setUp()
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self.data = {
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"abdominal_tenderness": NO,
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"dia_blood_pressure": 100,
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"abdominal_tenderness_description": None,
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"enlarged_liver": YES,
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"heart_rate": 40,
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"irregular_heartbeat": NO,
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"irregular_heartbeat_description": None,
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"jaundice": YES,
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"oxygen_saturation": 10,
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"peripheral_oedema": NO,
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"report_datetime": now,
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"respiratory_rate": 30,
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"sys_blood_pressure": 80,
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"temperature": 37,
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"waist_circumference": 100,
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"weight": 65,
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"crf_status": COMPLETE,
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"site": Site.objects.get(id=settings.SITE_ID),
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}
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self.subject_visit = self.get_subject_visit(appt_datetime=now)
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self.data.update(
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subject_visit=self.subject_visit.pk,
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report_datetime=self.subject_visit.report_datetime,
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)
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def test_ok(self):
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form = PhysicalExamForm(data=self.data)
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form.is_valid()
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self.assertEqual(form._errors, {})
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def test_irregular_heartbeat(self):
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data = deepcopy(self.data)
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data.update(irregular_heartbeat=YES, irregular_heartbeat_description="blah blah blah")
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form = PhysicalExamForm(data=data)
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form.is_valid()
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self.assertEqual(form._errors, {})
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data.update(irregular_heartbeat=NO, irregular_heartbeat_description="blah blah blah")
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form = PhysicalExamForm(data=data)
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form.is_valid()
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self.assertEqual(
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form._errors.get("irregular_heartbeat_description"),
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["This field is not required."],
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)
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def test_abdominal_tenderness(self):
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data = deepcopy(self.data)
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data.update(abdominal_tenderness=NO, abdominal_tenderness_description=None)
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form = PhysicalExamForm(data=data)
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form.is_valid()
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self.assertEqual(form._errors, {})
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data.update(
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abdominal_tenderness=YES, abdominal_tenderness_description="blah blah blah"
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)
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form = PhysicalExamForm(data=data)
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form.is_valid()
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self.assertEqual(form._errors, {})
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data.update(abdominal_tenderness=NO, abdominal_tenderness_description="blah blah blah")
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form = PhysicalExamForm(data=data)
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form.is_valid()
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self.assertEqual(
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form._errors.get("abdominal_tenderness_description"),
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["This field is not required."],
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)
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@@ -1,161 +0,0 @@
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from copy import deepcopy
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from datetime import datetime
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from zoneinfo import ZoneInfo
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import time_machine
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from django.conf import settings
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from django.contrib.sites.models import Site
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from django.test import TestCase
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from edc_constants.constants import COMPLETE, YES
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from edc_metadata import KEYED, NOT_REQUIRED, REQUIRED
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from edc_metadata.metadata import CrfMetadataGetter
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from edc_qol.constants import ALL_OF_THE_TIME, NONE_OF_THE_TIME, SOME_OF_THE_TIME
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from edc_visit_schedule.constants import MONTH1, MONTH3, WEEK2
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from meta_screening.tests.meta_test_case_mixin import MetaTestCaseMixin
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from meta_screening.tests.options import now
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from meta_subject.forms import Sf12Form
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@time_machine.travel(datetime(2019, 6, 11, 8, 00, tzinfo=ZoneInfo("UTC")))
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class TestSf12(MetaTestCaseMixin, TestCase):
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def setUp(self):
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super().setUp()
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self.subject_visit = self.get_subject_visit(appt_datetime=now)
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self.data = dict(
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subject_visit=self.subject_visit,
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report_datetime=self.subject_visit.report_datetime,
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general_health="excellent",
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moderate_activities_now_limited="limited_a_lot",
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climbing_stairs_now_limited="limited_a_lot",
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accomplished_less_physical_health=YES,
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work_limited_physical_health=YES,
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accomplished_less_emotional=YES,
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work_less_carefully_emotional=YES,
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pain_interfere_work="not_at_all",
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felt_calm_peaceful=ALL_OF_THE_TIME,
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felt_lot_energy=ALL_OF_THE_TIME,
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felt_down=NONE_OF_THE_TIME,
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social_activities_interfered=SOME_OF_THE_TIME,
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crf_status=COMPLETE,
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site=Site.objects.get(id=settings.SITE_ID),
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)
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def test_1005_required(self):
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subject_visit = self.get_next_subject_visit(self.subject_visit)
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self.assertEqual(subject_visit.visit_code, WEEK2)
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crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit.appointment)
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(model="meta_subject.sf12").exists()
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)
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self.assertEqual(
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crf_metadata_getter.metadata_objects.get(
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model="meta_subject.sf12", visit_code=WEEK2
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).entry_status,
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REQUIRED,
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)
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data = deepcopy(self.data)
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data.update(subject_visit=subject_visit, report_datetime=subject_visit.report_datetime)
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form = Sf12Form(data=data)
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form.is_valid()
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self.assertEqual({}, form._errors)
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form.save()
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(
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model="meta_subject.sf12", entry_status=KEYED
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).exists()
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)
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def test_1010_required_if_not_submitted(self):
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subject_visit = self.get_next_subject_visit(self.subject_visit)
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subject_visit = self.get_next_subject_visit(subject_visit)
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self.assertEqual(subject_visit.visit_code, MONTH1)
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crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit.appointment)
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(model="meta_subject.sf12").exists()
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)
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self.assertEqual(
|
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crf_metadata_getter.metadata_objects.get(
|
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79
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model="meta_subject.sf12", visit_code=MONTH1
|
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80
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).entry_status,
|
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REQUIRED,
|
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|
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)
|
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83
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data = deepcopy(self.data)
|
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|
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data.update(subject_visit=subject_visit, report_datetime=subject_visit.report_datetime)
|
|
85
|
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form = Sf12Form(data=data)
|
|
86
|
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form.is_valid()
|
|
87
|
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self.assertEqual({}, form._errors)
|
|
88
|
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form.save()
|
|
89
|
-
self.assertTrue(
|
|
90
|
-
crf_metadata_getter.metadata_objects.filter(
|
|
91
|
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model="meta_subject.sf12", entry_status=KEYED
|
|
92
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-
).exists()
|
|
93
|
-
)
|
|
94
|
-
|
|
95
|
-
def test_1030_required_if_not_submitted(self):
|
|
96
|
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subject_visit = self.get_next_subject_visit(self.subject_visit)
|
|
97
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
98
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
99
|
-
traveller = time_machine.travel(subject_visit.report_datetime)
|
|
100
|
-
traveller.start()
|
|
101
|
-
self.assertEqual(subject_visit.visit_code, MONTH3)
|
|
102
|
-
crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit.appointment)
|
|
103
|
-
self.assertTrue(
|
|
104
|
-
crf_metadata_getter.metadata_objects.filter(model="meta_subject.sf12").exists()
|
|
105
|
-
)
|
|
106
|
-
self.assertEqual(
|
|
107
|
-
crf_metadata_getter.metadata_objects.get(
|
|
108
|
-
model="meta_subject.sf12", visit_code=MONTH3
|
|
109
|
-
).entry_status,
|
|
110
|
-
REQUIRED,
|
|
111
|
-
)
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data = deepcopy(self.data)
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data.update(subject_visit=subject_visit, report_datetime=subject_visit.report_datetime)
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form = Sf12Form(data=data)
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form.is_valid()
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self.assertEqual({}, form._errors)
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form.save()
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(
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model="meta_subject.sf12", entry_status=KEYED
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).exists()
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)
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def test_1030_not_required_if_submitted(self):
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subject_visit_1005 = self.get_next_subject_visit(self.subject_visit)
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subject_visit_1010 = self.get_next_subject_visit(subject_visit_1005)
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subject_visit_1030 = self.get_next_subject_visit(subject_visit_1010)
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self.assertEqual(subject_visit_1030.visit_code, MONTH3)
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crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit_1030.appointment)
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(
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model="meta_subject.sf12", entry_status=REQUIRED
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).exists()
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data = deepcopy(self.data)
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data.update(
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subject_visit=subject_visit_1010,
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report_datetime=subject_visit_1010.report_datetime,
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)
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form = Sf12Form(data=data)
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form.is_valid()
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self.assertEqual({}, form._errors)
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form.save()
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crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit_1005.appointment)
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(
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model="meta_subject.sf12", entry_status=NOT_REQUIRED
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).exists()
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)
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crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit_1010.appointment)
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(
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model="meta_subject.sf12", entry_status=KEYED
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).exists()
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)
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crf_metadata_getter = CrfMetadataGetter(appointment=subject_visit_1030.appointment)
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self.assertTrue(
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crf_metadata_getter.metadata_objects.filter(
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model="meta_subject.sf12", entry_status=NOT_REQUIRED
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).exists()
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|
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)
|
|
@@ -1,229 +0,0 @@
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1
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from dateutil.relativedelta import relativedelta
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2
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from django.core.exceptions import ObjectDoesNotExist
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from django.test import TestCase
|
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4
|
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from edc_constants.constants import YES
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5
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from edc_pharmacy.exceptions import PrescriptionAlreadyExists, StudyMedicationError
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6
|
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from edc_pharmacy.models import DosageGuideline, Formulation, Medication, RxRefill
|
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7
|
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from edc_pharmacy.prescribe import create_prescription
|
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8
|
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from edc_registration.models import RegisteredSubject
|
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9
|
-
|
|
10
|
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from meta_pharmacy.constants import METFORMIN
|
|
11
|
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from meta_screening.tests.meta_test_case_mixin import MetaTestCaseMixin
|
|
12
|
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from meta_subject.models import StudyMedication
|
|
13
|
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|
|
14
|
-
|
|
15
|
-
class TestStudyMedication(MetaTestCaseMixin, TestCase):
|
|
16
|
-
def setUp(self):
|
|
17
|
-
super().setUp()
|
|
18
|
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self.subject_visit = self.get_subject_visit()
|
|
19
|
-
self.registered_subject = RegisteredSubject.objects.get(
|
|
20
|
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subject_identifier=self.subject_visit.subject_identifier
|
|
21
|
-
)
|
|
22
|
-
|
|
23
|
-
def test_rx_exists(self):
|
|
24
|
-
self.assertRaises(
|
|
25
|
-
PrescriptionAlreadyExists,
|
|
26
|
-
create_prescription,
|
|
27
|
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subject_identifier=self.registered_subject.subject_identifier,
|
|
28
|
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report_datetime=self.registered_subject.registration_datetime,
|
|
29
|
-
medication_names=[METFORMIN],
|
|
30
|
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site=self.registered_subject.site,
|
|
31
|
-
)
|
|
32
|
-
|
|
33
|
-
def test_missing_formulation(self):
|
|
34
|
-
obj = StudyMedication(subject_visit=self.subject_visit)
|
|
35
|
-
with self.assertRaises(StudyMedicationError) as cm:
|
|
36
|
-
obj.save()
|
|
37
|
-
self.assertIn("Formulation", str(cm.exception))
|
|
38
|
-
|
|
39
|
-
def test_missing_dosage_guideline(self):
|
|
40
|
-
medication = Medication.objects.get(name=METFORMIN)
|
|
41
|
-
formulation = Formulation.objects.filter(medication=medication)[0]
|
|
42
|
-
obj = StudyMedication(
|
|
43
|
-
subject_visit=self.subject_visit,
|
|
44
|
-
refill_start_datetime=self.subject_visit.report_datetime,
|
|
45
|
-
refill_to_next_visit=YES,
|
|
46
|
-
formulation=formulation,
|
|
47
|
-
)
|
|
48
|
-
with self.assertRaises(StudyMedicationError) as cm:
|
|
49
|
-
obj.save()
|
|
50
|
-
self.assertIn("Dosage guideline", str(cm.exception))
|
|
51
|
-
|
|
52
|
-
def test_study_med_longitudinal_and_one_rx_refill_created(self):
|
|
53
|
-
medication = Medication.objects.get(name=METFORMIN)
|
|
54
|
-
formulation = Formulation.objects.filter(medication=medication)[0]
|
|
55
|
-
dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
|
|
56
|
-
obj = StudyMedication(
|
|
57
|
-
subject_visit=self.subject_visit,
|
|
58
|
-
refill_start_datetime=self.subject_visit.report_datetime,
|
|
59
|
-
formulation=formulation,
|
|
60
|
-
dosage_guideline=dosage_guideline,
|
|
61
|
-
refill_to_next_visit=YES,
|
|
62
|
-
)
|
|
63
|
-
obj.save()
|
|
64
|
-
try:
|
|
65
|
-
RxRefill.objects.get(
|
|
66
|
-
rx=obj.rx,
|
|
67
|
-
rx__subject_identifier=self.subject_visit.subject_identifier,
|
|
68
|
-
refill_start_datetime=obj.refill_start_datetime,
|
|
69
|
-
)
|
|
70
|
-
except ObjectDoesNotExist:
|
|
71
|
-
self.fail("ObjectDoesNotExist unexpectedly raised")
|
|
72
|
-
|
|
73
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
|
|
74
|
-
|
|
75
|
-
def test_study_med_longitudinal_updated_and_same_rx_refill_updated(self):
|
|
76
|
-
"""Assert study med update operates on same rx_refill when updated"""
|
|
77
|
-
medication = Medication.objects.get(name=METFORMIN)
|
|
78
|
-
formulation = Formulation.objects.filter(medication=medication)[0]
|
|
79
|
-
dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
|
|
80
|
-
obj = StudyMedication(
|
|
81
|
-
subject_visit=self.subject_visit,
|
|
82
|
-
refill_start_datetime=self.subject_visit.report_datetime,
|
|
83
|
-
formulation=formulation,
|
|
84
|
-
dosage_guideline=dosage_guideline,
|
|
85
|
-
refill_to_next_visit=YES,
|
|
86
|
-
)
|
|
87
|
-
obj.save()
|
|
88
|
-
obj.save()
|
|
89
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
|
|
90
|
-
changed_dosage_guideline = DosageGuideline.objects.filter(medication=medication)[1]
|
|
91
|
-
obj.dosage_guideline = changed_dosage_guideline
|
|
92
|
-
obj.save()
|
|
93
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
|
|
94
|
-
rx = RxRefill.objects.get(rx=obj.rx)
|
|
95
|
-
self.assertEqual(rx.dosage_guideline, obj.dosage_guideline)
|
|
96
|
-
|
|
97
|
-
def test_study_med_longitudinal_update_start_datetime_and_same_rx_refill_updated(self):
|
|
98
|
-
"""Assert study med update operates on same rx_refill when updated"""
|
|
99
|
-
medication = Medication.objects.get(name=METFORMIN)
|
|
100
|
-
formulation = Formulation.objects.filter(medication=medication)[0]
|
|
101
|
-
dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
|
|
102
|
-
obj = StudyMedication(
|
|
103
|
-
subject_visit=self.subject_visit,
|
|
104
|
-
refill_start_datetime=self.subject_visit.report_datetime,
|
|
105
|
-
formulation=formulation,
|
|
106
|
-
dosage_guideline=dosage_guideline,
|
|
107
|
-
refill_to_next_visit=YES,
|
|
108
|
-
)
|
|
109
|
-
obj.save()
|
|
110
|
-
obj.save()
|
|
111
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
|
|
112
|
-
obj.refill_start_datetime = obj.refill_start_datetime + relativedelta(hours=1)
|
|
113
|
-
obj.save()
|
|
114
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
|
|
115
|
-
rx = RxRefill.objects.get(rx=obj.rx)
|
|
116
|
-
self.assertEqual(rx.refill_start_datetime, obj.refill_start_datetime)
|
|
117
|
-
|
|
118
|
-
def test_study_med_longitudinal_and_one_rx_refill_created2(self):
|
|
119
|
-
medication = Medication.objects.get(name=METFORMIN)
|
|
120
|
-
formulation = Formulation.objects.filter(medication=medication)[0]
|
|
121
|
-
dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
|
|
122
|
-
obj = StudyMedication(
|
|
123
|
-
subject_visit=self.subject_visit,
|
|
124
|
-
refill_start_datetime=self.subject_visit.report_datetime,
|
|
125
|
-
formulation=formulation,
|
|
126
|
-
dosage_guideline=dosage_guideline,
|
|
127
|
-
refill_to_next_visit=YES,
|
|
128
|
-
)
|
|
129
|
-
obj.save()
|
|
130
|
-
try:
|
|
131
|
-
RxRefill.objects.get(
|
|
132
|
-
rx=obj.rx,
|
|
133
|
-
rx__subject_identifier=self.subject_visit.subject_identifier,
|
|
134
|
-
refill_start_datetime=obj.refill_start_datetime,
|
|
135
|
-
)
|
|
136
|
-
except ObjectDoesNotExist:
|
|
137
|
-
self.fail("ObjectDoesNotExist unexpectedly raised")
|
|
138
|
-
|
|
139
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), 1)
|
|
140
|
-
|
|
141
|
-
try:
|
|
142
|
-
RxRefill.objects.get(refill_identifier=obj.refill_identifier)
|
|
143
|
-
except ObjectDoesNotExist:
|
|
144
|
-
self.fail("ObjectDoesNotExist unexpectedly raised")
|
|
145
|
-
|
|
146
|
-
def test_study_med_longitudinal_and_two_rx_refill_created(self):
|
|
147
|
-
date_sequence = []
|
|
148
|
-
medication = Medication.objects.get(name=METFORMIN)
|
|
149
|
-
formulation = Formulation.objects.filter(medication=medication)[0]
|
|
150
|
-
dosage_guideline = DosageGuideline.objects.filter(medication=medication)[0]
|
|
151
|
-
subject_visits = [self.subject_visit, self.get_next_subject_visit(self.subject_visit)]
|
|
152
|
-
for i in [1, 2]:
|
|
153
|
-
subject_visit = subject_visits[i - 1]
|
|
154
|
-
obj = StudyMedication(
|
|
155
|
-
subject_visit=subject_visit,
|
|
156
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
157
|
-
formulation=formulation,
|
|
158
|
-
dosage_guideline=dosage_guideline,
|
|
159
|
-
refill_to_next_visit=YES,
|
|
160
|
-
)
|
|
161
|
-
obj.save()
|
|
162
|
-
date_sequence.append(obj.refill_start_datetime)
|
|
163
|
-
try:
|
|
164
|
-
RxRefill.objects.get(
|
|
165
|
-
rx=obj.rx,
|
|
166
|
-
rx__subject_identifier=subject_visit.subject_identifier,
|
|
167
|
-
refill_start_datetime=obj.refill_start_datetime,
|
|
168
|
-
)
|
|
169
|
-
except ObjectDoesNotExist:
|
|
170
|
-
self.fail("ObjectDoesNotExist unexpectedly raised")
|
|
171
|
-
|
|
172
|
-
self.assertEqual(RxRefill.objects.filter(rx=obj.rx).count(), i)
|
|
173
|
-
|
|
174
|
-
try:
|
|
175
|
-
rx_refill = RxRefill.objects.get(refill_identifier=obj.refill_identifier)
|
|
176
|
-
except ObjectDoesNotExist:
|
|
177
|
-
self.fail("ObjectDoesNotExist unexpectedly raised")
|
|
178
|
-
date_sequence.append(rx_refill.refill_end_datetime)
|
|
179
|
-
dte1, dte2, dte3, dte4 = date_sequence
|
|
180
|
-
self.assertTrue(dte1 <= dte2 <= dte3 <= dte4)
|
|
181
|
-
|
|
182
|
-
def test_study_med_longitudinal(self):
|
|
183
|
-
StudyMedication(
|
|
184
|
-
subject_visit=self.subject_visit,
|
|
185
|
-
refill_start_datetime=self.subject_visit.report_datetime,
|
|
186
|
-
refill_to_next_visit=YES,
|
|
187
|
-
)
|
|
188
|
-
subject_visit = self.get_next_subject_visit(self.subject_visit)
|
|
189
|
-
StudyMedication(
|
|
190
|
-
subject_visit=subject_visit,
|
|
191
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
192
|
-
refill_to_next_visit=YES,
|
|
193
|
-
)
|
|
194
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
195
|
-
StudyMedication(
|
|
196
|
-
subject_visit=subject_visit,
|
|
197
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
198
|
-
refill_to_next_visit=YES,
|
|
199
|
-
)
|
|
200
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
201
|
-
StudyMedication(
|
|
202
|
-
subject_visit=subject_visit,
|
|
203
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
204
|
-
refill_to_next_visit=YES,
|
|
205
|
-
)
|
|
206
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
207
|
-
StudyMedication(
|
|
208
|
-
subject_visit=subject_visit,
|
|
209
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
210
|
-
refill_to_next_visit=YES,
|
|
211
|
-
)
|
|
212
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
213
|
-
StudyMedication(
|
|
214
|
-
subject_visit=subject_visit,
|
|
215
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
216
|
-
refill_to_next_visit=YES,
|
|
217
|
-
)
|
|
218
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
219
|
-
StudyMedication(
|
|
220
|
-
subject_visit=subject_visit,
|
|
221
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
222
|
-
refill_to_next_visit=YES,
|
|
223
|
-
)
|
|
224
|
-
subject_visit = self.get_next_subject_visit(subject_visit)
|
|
225
|
-
StudyMedication(
|
|
226
|
-
subject_visit=subject_visit,
|
|
227
|
-
refill_start_datetime=subject_visit.report_datetime,
|
|
228
|
-
refill_to_next_visit=YES,
|
|
229
|
-
)
|
meta_subject/tests/urls.py
DELETED
|
@@ -1,24 +0,0 @@
|
|
|
1
|
-
from django.contrib.auth import admin
|
|
2
|
-
from django.urls.conf import include, path
|
|
3
|
-
from django.views.generic.base import RedirectView
|
|
4
|
-
|
|
5
|
-
from meta_ae.admin_site import meta_ae_admin
|
|
6
|
-
|
|
7
|
-
urlpatterns = [
|
|
8
|
-
path("admin/", meta_ae_admin.urls),
|
|
9
|
-
path("admin/", admin.site.urls),
|
|
10
|
-
path("accounts/", include("edc_auth.urls")),
|
|
11
|
-
path("edc_adverse_event/", include("edc_adverse_event.urls")),
|
|
12
|
-
path("edc_auth/", include("edc_auth.urls")),
|
|
13
|
-
path("edc_consent/", include("edc_consent.urls")),
|
|
14
|
-
path("edc_dashboard/", include("edc_dashboard.urls")),
|
|
15
|
-
path("edc_device/", include("edc_device.urls")),
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16
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path("edc_export/", include("edc_export.urls")),
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17
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path("edc_protocol/", include("edc_protocol.urls")),
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18
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path("edc_randomization/", include("edc_randomization.urls")),
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19
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path("edc_visit_schedule/", include("edc_visit_schedule.urls")),
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20
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path("ae/", include("meta_ae.urls")),
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21
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path("meta_consent/", include("meta_consent.urls")),
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22
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path("administration", RedirectView.as_view(url="admin/"), name="administration_url"),
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23
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path("", RedirectView.as_view(url="admin/"), name="home_url"),
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24
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]
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File without changes
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File without changes
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@@ -1,181 +0,0 @@
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1
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-
from django.test import TestCase
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2
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3
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from meta_consent.consents import consent_v1
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from meta_edc.meta_version import PHASE_THREE, PHASE_TWO, get_meta_version
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from meta_visit_schedule.visit_schedules import schedule
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from meta_visit_schedule.visit_schedules.phase_three import visit_schedule
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7
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-
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8
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9
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class TestVisitSchedule(TestCase):
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def test_visit_schedule_models(self):
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11
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self.assertEqual(visit_schedule.death_report_model, "meta_ae.deathreport")
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12
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self.assertEqual(visit_schedule.offstudy_model, "meta_prn.endofstudy")
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self.assertEqual(visit_schedule.locator_model, "edc_locator.subjectlocator")
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def test_schedule_models(self):
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self.assertEqual(schedule.onschedule_model, "meta_prn.onschedule")
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self.assertEqual(schedule.offschedule_model, "meta_prn.offschedule")
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self.assertEqual(schedule.consent_definitions, [consent_v1])
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self.assertEqual(schedule.appointment_model, "edc_appointment.appointment")
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def test_visit_codes_phase_two(self):
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if get_meta_version() == PHASE_TWO:
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self.assertEqual(
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[
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25
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"1000",
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"1005",
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"1010",
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28
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"1030",
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29
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"1060",
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30
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"1090",
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31
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"1120",
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],
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[visit for visit in schedule.visits],
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34
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)
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35
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36
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def test_visit_codes_phase_three(self):
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37
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if get_meta_version() == PHASE_THREE:
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38
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self.assertEqual(
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39
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[
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40
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"1000",
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41
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"1005",
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42
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"1010",
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43
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"1030",
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44
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"1060",
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45
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"1090",
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46
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"1120",
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47
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"1150",
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48
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"1180",
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49
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"1210",
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50
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"1240",
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51
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"1270",
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52
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"1300",
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53
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"1330",
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54
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"1360",
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55
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"1390",
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56
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"1420",
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57
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"1450",
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58
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"1480",
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59
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],
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60
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[visit for visit in schedule.visits],
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61
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)
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62
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63
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def test_requisitions(self):
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64
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if get_meta_version() == PHASE_TWO:
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65
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prn = [
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66
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"blood_glucose_poc",
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67
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"chemistry",
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68
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"fbc",
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69
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"hba1c_poc",
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70
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]
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71
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expected = {
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72
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"1000": ["chemistry", "fbc", "hba1c_poc"],
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73
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"1005": [],
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74
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"1010": [],
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75
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"1030": ["chemistry"],
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76
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"1060": ["chemistry", "hba1c_poc"],
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77
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"1090": ["chemistry"],
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78
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"1120": ["blood_glucose_poc", "chemistry", "fbc", "hba1c_poc"],
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79
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}
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80
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for visit_code, visit in schedule.visits.items():
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81
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with self.subTest(visit_code=visit_code, visit=visit):
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82
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actual = [requisition.name for requisition in visit.requisitions]
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83
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actual.sort()
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84
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self.assertEqual(
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85
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expected.get(visit_code),
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86
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actual,
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87
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msg=f"see requisitions for visit {visit_code}",
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88
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)
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89
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actual = [requisition.name for requisition in visit.requisitions_prn]
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90
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actual.sort()
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91
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self.assertEqual(
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92
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prn, actual, msg=f"see PRN requisitions for visit {visit_code}"
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93
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)
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94
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-
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|
95
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def test_crfs_phase_two(self):
|
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96
|
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if get_meta_version() == PHASE_TWO:
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97
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prn = [
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98
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"meta_subject.bloodresultsfbc",
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99
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"meta_subject.bloodresultsglu",
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100
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"meta_subject.bloodresultshba1c",
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101
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"meta_subject.bloodresultslft",
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102
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"meta_subject.bloodresultslipid",
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103
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"meta_subject.bloodresultsrft",
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104
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"meta_subject.glucose",
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105
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"meta_subject.healtheconomics",
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106
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"meta_subject.malariatest",
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107
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"meta_subject.urinedipsticktest",
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108
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]
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109
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expected = {
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110
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"1000": [
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111
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"meta_subject.physicalexam",
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112
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"meta_subject.patienthistory",
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113
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"meta_subject.bloodresultsfbc",
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114
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"meta_subject.bloodresultshba1c",
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115
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"meta_subject.bloodresultslft",
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116
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"meta_subject.bloodresultslipid",
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117
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"meta_subject.bloodresultsrft",
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118
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"meta_subject.malariatest",
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119
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"meta_subject.urinedipsticktest",
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120
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],
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121
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"1005": [
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|
122
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"meta_subject.followupvitals",
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123
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"meta_subject.followupexamination",
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124
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"meta_subject.healtheconomics",
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125
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"meta_subject.medicationadherence",
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126
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],
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127
|
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"1010": [
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128
|
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"meta_subject.followupvitals",
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129
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"meta_subject.followupexamination",
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130
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"meta_subject.medicationadherence",
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131
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],
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132
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"1030": [
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133
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"meta_subject.bloodresultslft",
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134
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"meta_subject.bloodresultsrft",
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135
|
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"meta_subject.followupvitals",
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136
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"meta_subject.followupexamination",
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137
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"meta_subject.medicationadherence",
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138
|
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],
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139
|
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"1060": [
|
|
140
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"meta_subject.followupvitals",
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|
141
|
-
"meta_subject.followupexamination",
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|
142
|
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"meta_subject.medicationadherence",
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|
143
|
-
"meta_subject.glucose",
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|
144
|
-
"meta_subject.bloodresultshba1c",
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|
145
|
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"meta_subject.bloodresultslft",
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|
146
|
-
"meta_subject.bloodresultsrft",
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|
147
|
-
],
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|
148
|
-
"1090": [
|
|
149
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-
"meta_subject.bloodresultslft",
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|
150
|
-
"meta_subject.bloodresultsrft",
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|
151
|
-
"meta_subject.followupvitals",
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|
152
|
-
"meta_subject.followupexamination",
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|
153
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-
"meta_subject.medicationadherence",
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|
154
|
-
],
|
|
155
|
-
"1120": [
|
|
156
|
-
"meta_subject.followupvitals",
|
|
157
|
-
"meta_subject.followupexamination",
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|
158
|
-
"meta_subject.medicationadherence",
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|
159
|
-
"meta_subject.glucose",
|
|
160
|
-
"meta_subject.bloodresultshba1c",
|
|
161
|
-
"meta_subject.bloodresultsfbc",
|
|
162
|
-
"meta_subject.bloodresultslipid",
|
|
163
|
-
"meta_subject.bloodresultslft",
|
|
164
|
-
"meta_subject.bloodresultsrft",
|
|
165
|
-
"meta_subject.malariatest",
|
|
166
|
-
],
|
|
167
|
-
}
|
|
168
|
-
for visit_code, visit in schedule.visits.items():
|
|
169
|
-
with self.subTest(visit_code=visit_code, visit=visit):
|
|
170
|
-
actual = [crf.model for crf in visit.crfs]
|
|
171
|
-
actual.sort()
|
|
172
|
-
expected.get(visit_code).sort()
|
|
173
|
-
self.assertEqual(
|
|
174
|
-
expected.get(visit_code),
|
|
175
|
-
actual,
|
|
176
|
-
msg=f"see CRFs for visit {visit_code}",
|
|
177
|
-
)
|
|
178
|
-
|
|
179
|
-
actual = [crf.model for crf in visit.crfs_prn]
|
|
180
|
-
actual.sort()
|
|
181
|
-
self.assertEqual(prn, actual, msg=f"see PRN CRFs for visit {visit_code}")
|