meta-edc 1.1.14__py3-none-any.whl → 1.1.17__py3-none-any.whl

meta_pharmacy/admin/substitutions_admin.py

@@ -20,7 +20,7 @@ class SubstitutionsAdmin(
 
     form = SubstitutionsForm
 
-    autocomplete_fields = ["rx"]
+    autocomplete_fields = ("rx",)
 
     add_instructions = "This form is used to record any substitions made for IMP refills"
 

meta_pharmacy/forms/rx_form.py

@@ -4,7 +4,6 @@ from ..models import Rx
 
 
 class RxForm(forms.ModelForm):
-
     subject_identifier = forms.CharField(
         label="Subject Identifier",
         required=False,

meta_pharmacy/management/commands/update_initial_pharmacy_data.py

@@ -1,10 +1,11 @@
+import sys
+
 from django.core.management import BaseCommand
 
 from meta_pharmacy.utils import update_initial_pharmacy_data
 
 
 class Command(BaseCommand):
-
-    def handle(self, *args, **options):
+    def handle(self, *args, **options):  # noqa: ARG002
         update_initial_pharmacy_data()
-        print("Done")
+        sys.stdout.write("Done\n")

meta_pharmacy/models/rx_label.py

@@ -13,7 +13,6 @@ class LabelIdentifier(SimpleUniqueIdentifier):
 
 
 class RxLabel(BaseUuidModel):
-
     identifier_cls = LabelIdentifier
 
     rx = models.ForeignKey(Rx, on_delete=models.PROTECT)

meta_prn/action_items.py

@@ -38,13 +38,13 @@ class OffscheduleAction(ActionWithNotification):
     name = OFFSCHEDULE_ACTION
     display_name = "Submit Off-Schedule"
     notification_display_name = "Off-Schedule"
-    parent_action_names = [
+    parent_action_names = (
         UNBLINDING_REVIEW_ACTION,
         DEATH_REPORT_ACTION,
         LTFU_ACTION,
         BLOOD_RESULTS_RFT_ACTION,
         SUBJECT_TRANSFER_ACTION,
-    ]
+    )
     reference_model = "meta_prn.offschedule"
     show_link_to_changelist = True
     admin_site_name = "meta_prn_admin"
@@ -69,13 +69,13 @@ class OffschedulePregnancyAction(ActionWithNotification):
     name = OFFSCHEDULE_PREGNANCY_ACTION
     display_name = "Submit Off-Schedule (Pregnancy)"
     notification_display_name = "Off-Schedule (Pregnancy)"
-    parent_action_names = [
+    parent_action_names = (
         UNBLINDING_REVIEW_ACTION,
         DEATH_REPORT_ACTION,
         LTFU_ACTION,
         SUBJECT_TRANSFER_ACTION,
         DELIVERY_ACTION,
-    ]
+    )
     reference_model = "meta_prn.offschedulepregnancy"
     show_link_to_changelist = True
     admin_site_name = "meta_prn_admin"
@@ -83,20 +83,19 @@ class OffschedulePregnancyAction(ActionWithNotification):
     singleton = True
 
     def get_next_actions(self):
-        next_actions = [END_OF_STUDY_ACTION]
-        return next_actions
+        return [END_OF_STUDY_ACTION]
 
 
 class OffscheduleDmReferralAction(ActionWithNotification):
     name = OFFSCHEDULE_DM_REFERRAL_ACTION
     display_name = "Submit Off-Schedule (Diabetes Referral)"
     notification_display_name = "Off-Schedule (Diabetes Referral)"
-    parent_action_names = [
+    parent_action_names = (
         DM_FOLLOWUP_ACTION,
         DEATH_REPORT_ACTION,
         LTFU_ACTION,
         SUBJECT_TRANSFER_ACTION,
-    ]
+    )
     reference_model = "meta_prn.offscheduledmreferral"
     show_link_to_changelist = True
     admin_site_name = "meta_prn_admin"
@@ -104,20 +103,19 @@ class OffscheduleDmReferralAction(ActionWithNotification):
     singleton = True
 
     def get_next_actions(self):
-        next_actions = [END_OF_STUDY_ACTION]
-        return next_actions
+        return [END_OF_STUDY_ACTION]
 
 
 class EndOfStudyAction(ActionWithNotification):
     name = END_OF_STUDY_ACTION
     display_name = "Submit End of Study Report"
     notification_display_name = "End of Study Report"
-    parent_action_names = [
+    parent_action_names = (
         OFFSCHEDULE_ACTION,
         OFFSTUDY_MEDICATION_ACTION,
         OFFSCHEDULE_PREGNANCY_ACTION,
         OFFSCHEDULE_DM_REFERRAL_ACTION,
-    ]
+    )
     reference_model = "meta_prn.endofstudy"
     show_link_to_changelist = True
     admin_site_name = "meta_prn_admin"
@@ -129,7 +127,7 @@ class LossToFollowupAction(PregnancyActionItemMixin, ActionWithNotification):
     name = LTFU_ACTION
     display_name = "Submit Loss to Follow Up Report"
     notification_display_name = " Loss to Follow Up Report"
-    parent_action_names = [MISSED_VISIT_ACTION]
+    parent_action_names = (MISSED_VISIT_ACTION,)
     reference_model = "meta_prn.losstofollowup"
     show_link_to_changelist = True
     show_link_to_add = True
@@ -138,15 +136,14 @@ class LossToFollowupAction(PregnancyActionItemMixin, ActionWithNotification):
     singleton = True
 
     def get_next_actions(self):
-        next_actions = [self.get_next_offschedule_action(), OFFSTUDY_MEDICATION_ACTION]
-        return next_actions
+        return [self.get_next_offschedule_action(), OFFSTUDY_MEDICATION_ACTION]
 
 
 class PregnancyNotificationAction(ActionWithNotification):
     name = PREGNANCY_NOTIFICATION_ACTION
     display_name = "Submit Pregnancy Notification"
     notification_display_name = "Pregnancy Notification"
-    parent_action_names = [URINE_PREGNANCY_ACTION]
+    parent_action_names = (URINE_PREGNANCY_ACTION,)
     reference_model = "meta_prn.pregnancynotification"
     show_link_to_changelist = True
     show_link_to_add = True
@@ -160,7 +157,7 @@ class DmReferralAction(ActionWithNotification):
     name = DM_REFFERAL_ACTION
     display_name = "Diabetes referral"
     notification_display_name = "Diabetes referral"
-    parent_action_names = [OFFSTUDY_MEDICATION_ACTION]
+    parent_action_names = (OFFSTUDY_MEDICATION_ACTION,)
     reference_model = "meta_prn.dmreferral"
     show_link_to_changelist = True
     show_link_to_add = True
@@ -169,20 +166,19 @@ class DmReferralAction(ActionWithNotification):
     singleton = True
 
     def get_next_actions(self):
-        next_actions = [DM_FOLLOWUP_ACTION]
-        return next_actions
+        return [DM_FOLLOWUP_ACTION]
 
 
 class OffStudyMedicationAction(ActionWithNotification):
     name = OFFSTUDY_MEDICATION_ACTION
     display_name = "Withdrawal Study Medication"
     notification_display_name = "Withdrawal Study Medication"
-    parent_action_names = [
+    parent_action_names = (
         OFFSCHEDULE_ACTION,
         LTFU_ACTION,
         SUBJECT_TRANSFER_ACTION,
         DEATH_REPORT_ACTION,
-    ]
+    )
     reference_model = "meta_prn.offstudymedication"
     show_link_to_changelist = True
     show_link_to_add = True
@@ -202,7 +198,7 @@ class UnblindingRequestAction(ActionWithNotification):
     name = UNBLINDING_REQUEST_ACTION
     display_name = "Unblinding request"
     notification_display_name = " Unblinding request"
-    parent_action_names = []
+    parent_action_names = ()
     reference_model = "edc_unblinding.unblindingrequest"
     show_link_to_changelist = True
     show_link_to_add = True
@@ -210,20 +206,18 @@ class UnblindingRequestAction(ActionWithNotification):
     priority = HIGH_PRIORITY
 
     def get_next_actions(self):
-        next_actions = []
-        next_actions = self.append_to_next_if_required(
-            next_actions=next_actions,
+        return self.append_to_next_if_required(
+            next_actions=[],
             action_name=UNBLINDING_REVIEW_ACTION,
             required=self.reference_obj.approved == TBD,
         )
-        return next_actions
 
 
 class UnblindingReviewAction(PregnancyActionItemMixin, ActionWithNotification):
     name = UNBLINDING_REVIEW_ACTION
     display_name = "Unblinding review pending"
     notification_display_name = " Unblinding review needed"
-    parent_action_names = [UNBLINDING_REQUEST_ACTION]
+    parent_action_names = (UNBLINDING_REQUEST_ACTION,)
     reference_model = "edc_unblinding.unblindingreview"
     show_link_to_changelist = True
     admin_site_name = "edc_unblinding_admin"
@@ -235,13 +229,11 @@ class UnblindingReviewAction(PregnancyActionItemMixin, ActionWithNotification):
     )
 
     def get_next_actions(self):
-        next_actions = []
-        next_actions = self.append_to_next_if_required(
-            next_actions=next_actions,
+        return self.append_to_next_if_required(
+            next_actions=[],
             action_name=self.get_next_offschedule_action(),
             required=self.reference_obj.approved == YES,
         )
-        return next_actions
 
 
 class SubjectTransferAction(PregnancyActionItemMixin, BaseSubjectTransferAction):

meta_prn/admin/end_of_study_admin.py

@@ -111,7 +111,7 @@ class EndOfStudyAdmin(
         audit_fieldset_tuple,
     )
 
-    radio_fields = {
+    radio_fields = {  # noqa: RUF012
         "offstudy_reason": admin.VERTICAL,
         "clinical_withdrawal_reason": admin.VERTICAL,
         "toxicity_withdrawal_reason": admin.VERTICAL,
@@ -133,7 +133,7 @@ class EndOfStudyAdmin(
             "reason",
         )
         return custom_fields + tuple(
-            f for f in list_display if f not in custom_fields + ("__str__",)
+            f for f in list_display if f not in (*custom_fields, "__str__")
         )
 
     def get_list_filter(self, request) -> tuple[str, ...]:

meta_prn/admin/offschedule_dm_referral_admin.py

@@ -1,4 +1,3 @@
-
 from django.contrib import admin
 from django.template.loader import render_to_string
 from django.utils.safestring import mark_safe

meta_prn/admin/offschedule_postnatal_admin.py

@@ -1,4 +1,3 @@
-
 from django.contrib import admin
 from django.template.loader import render_to_string
 from django.utils.safestring import mark_safe

meta_prn/admin/offschedule_pregnancy_admin.py

@@ -1,4 +1,3 @@
-
 from django.contrib import admin
 from django.template.loader import render_to_string
 from django.utils.safestring import mark_safe

meta_prn/choices.py

@@ -48,30 +48,30 @@ LOSS_CHOICES = (
 )
 
 PROTOCOL_VIOLATION = (
-    ("failure_to_obtain_informed_consent", "Failure to obtain informed " "consent"),
+    ("failure_to_obtain_informed_consent", "Failure to obtain informed consent"),
     ("enrollment_of_ineligible_patient", "Enrollment of ineligible patient"),
     (
         "screening_procedure not done",
-        "Screening procedure required by " "protocol not done",
+        "Screening procedure required by protocol not done",
     ),
     (
         "screening_or_on-study_procedure",
-        "Screening or on-study procedure/lab " "work required not done",
+        "Screening or on-study procedure/lab work required not done",
     ),
     (
         "incorrect_research_treatment",
-        "Incorrect research treatment given to " "patient",
+        "Incorrect research treatment given to patient",
     ),
     (
         "procedure_not_completed",
-        "On-study procedure required by protocol not " "completed",
+        "On-study procedure required by protocol not completed",
     ),
     ("visit_non-compliance", "Visit non-compliance"),
     ("medication_stopped_early", "Medication stopped early"),
     ("medication_noncompliance", "Medication_noncompliance"),
     (
         "national_regulations_not_met",
-        "Standard WPD, ICH-GCP, local/national " "regulations not met",
+        "Standard WPD, ICH-GCP, local/national regulations not met",
     ),
     (OTHER, "Other"),
     (NOT_APPLICABLE, "Not applicable"),

meta_prn/form_validators/end_of_study.py

@@ -286,16 +286,17 @@ class EndOfStudyFormValidator(
             self.raise_validation_error(str(e), INVALID_ERROR)
 
     def validate_offstudy_datetime_against_last_seen_date(self):
-        if self.cleaned_data.get("offstudy_datetime") and self.cleaned_data.get(
-            "last_seen_date"
-        ):
-            if (
+        if (
+            self.cleaned_data.get("offstudy_datetime")
+            and self.cleaned_data.get("last_seen_date")
+            and (
                 self.cleaned_data.get("last_seen_date")
                 > self.cleaned_data.get("offstudy_datetime").date()
-            ):
-                raise forms.ValidationError(
-                    {"last_seen_date": "Invalid. May not be after termination date"}
-                )
+            )
+        ):
+            raise forms.ValidationError(
+                {"last_seen_date": "Invalid. May not be after termination date"}
+            )
 
     def validate_transfer(self):
         if (

meta_prn/forms/dm_referral_form.py

@@ -24,17 +24,11 @@ class DmReferralForm(
 ):
     form_validator_cls = DmReferralFormValidator
 
-    # subject_identifier = forms.CharField(
-    #     label="Subject Identifier",
-    #     required=False,
-    #     widget=forms.TextInput(attrs={"readonly": "readonly"}),
-    # )
-
     class Meta:
         model = DmReferral
         fields = "__all__"
-        help_text = {"subject_identifier": "(read-only)", "action_identifier": "(read-only)"}
-        widgets = {
+        help_text = {"subject_identifier": "(read-only)", "action_identifier": "(read-only)"}  # noqa: RUF012
+        widgets = {  # noqa: RUF012
             "subject_identifier": forms.TextInput(attrs={"readonly": "readonly"}),
             "action_identifier": forms.TextInput(attrs={"readonly": "readonly"}),
         }

meta_prn/forms/end_of_study_form.py

@@ -28,4 +28,4 @@ class EndOfStudyForm(
     class Meta:
         model = EndOfStudy
         fields = "__all__"
-        labels = {"offstudy_datetime": "Date patient terminated from study:"}
+        labels = {"offstudy_datetime": "Date patient terminated from study:"}  # noqa: RUF012

meta_prn/forms/off_study_medication_form.py

@@ -52,8 +52,8 @@ class OffStudyMedicationForm(
     class Meta:
         model = OffStudyMedication
         fields = "__all__"
-        help_text = {"subject_identifier": "(read-only)", "action_identifier": "(read-only)"}
-        widgets = {
+        help_text = {"subject_identifier": "(read-only)", "action_identifier": "(read-only)"}  # noqa: RUF012
+        widgets = {  # noqa: RUF012
             "subject_identifier": forms.TextInput(attrs={"readonly": "readonly"}),
             "action_identifier": forms.TextInput(attrs={"readonly": "readonly"}),
         }

meta_prn/forms/pregnancy_notification_form.py

@@ -47,23 +47,21 @@ class PregnancyNotificationFormValidator(PrnFormValidatorMixin, FormValidator):
             self.instance.id is None
             and self.cleaned_data.get("bhcg_confirmed") == YES
             and self.cleaned_data.get("bhcg_date")
+            and not UrinePregnancy.objects.filter(
+                subject_visit__subject_identifier=self.subject_identifier,
+                notified=False,
+                assay_date=self.cleaned_data.get("bhcg_date"),
+            )
+            .exclude(subject_visit__visit_code=DAY1, subject_visit__visit_code_sequence=0)
+            .exists()
         ):
-            if (
-                not UrinePregnancy.objects.filter(
-                    subject_visit__subject_identifier=self.subject_identifier,
-                    notified=False,
-                    assay_date=self.cleaned_data.get("bhcg_date"),
-                )
-                .exclude(subject_visit__visit_code=DAY1, subject_visit__visit_code_sequence=0)
-                .exists()
-            ):
-                self.raise_validation_error(
-                    "Invalid. A positive Urine βhCG cannot be found. "
-                    "Ensure the UPT has been entered, the date matches, and the "
-                    "UPT is not a baseline UPT. "
-                    f"See also PRN CRF {UrinePregnancy._meta.verbose_name}",
-                    INVALID_ERROR,
-                )
+            self.raise_validation_error(
+                "Invalid. A positive Urine βhCG cannot be found. "
+                "Ensure the UPT has been entered, the date matches, and the "
+                "UPT is not a baseline UPT. "
+                f"See also PRN CRF {UrinePregnancy._meta.verbose_name}",
+                INVALID_ERROR,
+            )
 
     def validate_edd(self):
         if (

meta_prn/list_data.py

@@ -2,7 +2,7 @@ from edc_constants.constants import NOT_APPLICABLE, OTHER
 
 list_data = {
     "edc_protocol_incident.protocolviolations": [
-        ("failure_to_obtain_informed_consent", "Failure to obtain informed " "consent"),
+        ("failure_to_obtain_informed_consent", "Failure to obtain informed consent"),
         ("enrollment_of_ineligible_patient", "Enrollment of ineligible patient"),
         (
             "screening_procedure_not_done",
@@ -31,7 +31,7 @@ list_data = {
         (NOT_APPLICABLE, "Not applicable"),
     ],
     "edc_protocol_incident.protocolincidents": [
-        ("failure_to_obtain_informed_consent", "Failure to obtain informed " "consent"),
+        ("failure_to_obtain_informed_consent", "Failure to obtain informed consent"),
         ("enrollment_of_ineligible_patient", "Enrollment of ineligible patient"),
         (
             "screening_procedure_not_done",

meta_prn/migrations/0068_alter_dmreferral_referral_note_and_more.py

@@ -0,0 +1,235 @@
+# Generated by Django 5.2.6 on 2025-09-29 21:51
+
+from django.db import migrations, models
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ("meta_prn", "0067_alter_offschedule_managers_and_more"),
+    ]
+
+    operations = [
+        migrations.AlterField(
+            model_name="dmreferral",
+            name="referral_note",
+            field=models.TextField(
+                default="",
+                verbose_name="Please provide a brief history of the diabetes diagnosis that lead to this referral",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="endofstudy",
+            name="clinical_withdrawal_investigator_decision",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If withdrawl was an 'investigator decision', please explain ...",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="endofstudy",
+            name="clinical_withdrawal_reason_other",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If withdrawn for 'other' condition, please explain",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="endofstudy",
+            name="comment",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="Please provide further details if possible",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="endofstudy",
+            name="other_offstudy_reason",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If OTHER, please specify",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="endofstudy",
+            name="toxicity_withdrawal_reason_other",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If 'other toxicity', please specify ...",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicaldmreferral",
+            name="referral_note",
+            field=models.TextField(
+                default="",
+                verbose_name="Please provide a brief history of the diabetes diagnosis that lead to this referral",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalendofstudy",
+            name="clinical_withdrawal_investigator_decision",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If withdrawl was an 'investigator decision', please explain ...",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalendofstudy",
+            name="clinical_withdrawal_reason_other",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If withdrawn for 'other' condition, please explain",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalendofstudy",
+            name="comment",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="Please provide further details if possible",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalendofstudy",
+            name="other_offstudy_reason",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If OTHER, please specify",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalendofstudy",
+            name="toxicity_withdrawal_reason_other",
+            field=models.TextField(
+                blank=True,
+                default="",
+                max_length=500,
+                verbose_name="If 'other toxicity', please specify ...",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicallosstofollowup",
+            name="comment",
+            field=models.TextField(
+                default="",
+                verbose_name="Please give details of the circumstances that have led to this decision.",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicallosstofollowup",
+            name="home_visit_detail",
+            field=models.TextField(
+                default="",
+                verbose_name="If YES, provide any further details of the home visit",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicaloffstudymedication",
+            name="comment",
+            field=models.TextField(
+                blank=True, default="", verbose_name="Any additional comments"
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicaloffstudymedication",
+            name="reason_other",
+            field=models.TextField(
+                blank=True, default="", verbose_name="If other, please specify ..."
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalpregnancynotification",
+            name="unconfirmed_details",
+            field=models.TextField(
+                blank=True, default="", verbose_name="If no, please provide details"
+            ),
+        ),
+        migrations.AlterField(
+            model_name="historicalprotocolincident",
+            name="action_required_old",
+            field=models.CharField(
+                choices=[
+                    ("remain_on_study", "Participant to remain on trial"),
+                    ("to_be_withdrawn", "Participant to be withdrawn from trial"),
+                    (
+                        "remain_on_study_modified",
+                        "Patient remains on study but data analysis will be modified",
+                    ),
+                ],
+                default="",
+                max_length=45,
+            ),
+        ),
+        migrations.AlterField(
+            model_name="losstofollowup",
+            name="comment",
+            field=models.TextField(
+                default="",
+                verbose_name="Please give details of the circumstances that have led to this decision.",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="losstofollowup",
+            name="home_visit_detail",
+            field=models.TextField(
+                default="",
+                verbose_name="If YES, provide any further details of the home visit",
+            ),
+        ),
+        migrations.AlterField(
+            model_name="offstudymedication",
+            name="comment",
+            field=models.TextField(
+                blank=True, default="", verbose_name="Any additional comments"
+            ),
+        ),
+        migrations.AlterField(
+            model_name="offstudymedication",
+            name="reason_other",
+            field=models.TextField(
+                blank=True, default="", verbose_name="If other, please specify ..."
+            ),
+        ),
+        migrations.AlterField(
+            model_name="pregnancynotification",
+            name="unconfirmed_details",
+            field=models.TextField(
+                blank=True, default="", verbose_name="If no, please provide details"
+            ),
+        ),
+        migrations.AlterField(
+            model_name="protocolincident",
+            name="action_required_old",
+            field=models.CharField(
+                choices=[
+                    ("remain_on_study", "Participant to remain on trial"),
+                    ("to_be_withdrawn", "Participant to be withdrawn from trial"),
+                    (
+                        "remain_on_study_modified",
+                        "Patient remains on study but data analysis will be modified",
+                    ),
+                ],
+                default="",
+                max_length=45,
+            ),
+        ),
+    ]