meta-edc 0.3.15__py3-none-any.whl → 0.3.50__py3-none-any.whl

meta_pharmacy/migrations/0003_auto_20240909_2335.py

@@ -0,0 +1,64 @@
+# Generated by Django 5.1 on 2024-09-09 20:35
+from pathlib import Path
+
+import pandas as pd
+from django.apps import apps as django_apps
+from django.conf import settings
+from django.db import migrations
+from edc_utils import get_utcnow
+from tqdm import tqdm
+
+
+def populate_substitutions(apps, schema_editor):
+    """import CSV file into pandas dataframe and use DF to
+    populate the model.
+
+    CSV file was sent to ERIK on 2024-09-09 in relation to
+    a possible protocol violation where a subject was given the
+    incorrect IMP. The CSV file lists `sid` where a bottle was not ready
+    to dispense and a bottle of `dispensed_sid` was dispensed instead.
+    """
+    path = Path(settings.META_PHARMACY_RX_SUBSTITUTION_FILE).expanduser()
+    df = pd.read_csv(path, header=1)
+    df = df.rename(
+        columns={"MISSING DRUG": "sid", "SUBSTITUTE": "dispensed_sid", "SITE": "site_id"}
+    )
+    df = df.rename(
+        columns={"MISSING DRUG": "sid", "SUBSTITUTE": "dispensed_sid", "SITE": "site_id"}
+    )
+    df["sid"] = df["sid"].apply(pd.to_numeric, errors="coerce")
+    df["dispensed_sid"] = df["dispensed_sid"].apply(pd.to_numeric, errors="coerce")
+    df["site_id"] = df["site_id"].apply(pd.to_numeric, errors="coerce")
+    now = get_utcnow()
+    model_cls = django_apps.get_model("meta_pharmacy.substitutions")
+    df_error = df[df["dispensed_sid"].isna()]
+    df_error = df_error.reset_index()
+    df_ok = df[df["dispensed_sid"].notna()]
+    df_ok = df_ok.reset_index()
+    data = [
+        model_cls(
+            row_index=row["index"],
+            report_datetime=now,
+            site_id=row["site_id"],
+            sid=row["sid"],
+            dispensed_sid=row["dispensed_sid"],
+            user_created="erikvw",
+            created=now,
+            locale_created="en-gb",
+        )
+        for _, row in df_ok.iterrows()
+    ]
+    created = len(model_cls.objects.bulk_create(data))
+    for obj in tqdm(model_cls.objects.all(), total=created):
+        obj.save()
+    if not df_error.empty:
+        print(df_error[["index", "sid"]])
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ("meta_pharmacy", "0002_initial"),
+    ]
+
+    operations = [migrations.RunPython(populate_substitutions)]

meta_pharmacy/migrations/0004_alter_historicalsubstitutions_report_datetime_and_more.py

@@ -0,0 +1,23 @@
+# Generated by Django 5.1 on 2024-09-11 00:30
+
+from django.db import migrations, models
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ("meta_pharmacy", "0003_auto_20240909_2335"),
+    ]
+
+    operations = [
+        migrations.AlterField(
+            model_name="historicalsubstitutions",
+            name="report_datetime",
+            field=models.DateTimeField(null=True),
+        ),
+        migrations.AlterField(
+            model_name="substitutions",
+            name="report_datetime",
+            field=models.DateTimeField(null=True),
+        ),
+    ]

meta_pharmacy/migrations/0005_auto_20240911_0352.py

@@ -0,0 +1,17 @@
+# Generated by Django 5.1 on 2024-09-11 00:52
+from django.apps import apps as django_apps
+from django.db import migrations
+
+
+def update_report_datetime_as_none(apps, schema_editor):
+    model_cls = django_apps.get_model("meta_pharmacy.substitutions")
+    model_cls.objects.update(report_datetime=None)
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ("meta_pharmacy", "0004_alter_historicalsubstitutions_report_datetime_and_more"),
+    ]
+
+    operations = [migrations.RunPython(update_report_datetime_as_none)]

meta_pharmacy/migrations/0006_lotnumber_label.py

@@ -0,0 +1,289 @@
+# Generated by Django 5.1 on 2024-10-07 22:05
+
+import _socket
+import django.db.models.deletion
+import django_audit_fields.fields.hostname_modification_field
+import django_audit_fields.fields.userfield
+import django_audit_fields.fields.uuid_auto_field
+import django_audit_fields.models.audit_model_mixin
+import django_revision.revision_field
+from django.db import migrations, models
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ("meta_pharmacy", "0005_auto_20240911_0352"),
+    ]
+
+    operations = [
+        migrations.CreateModel(
+            name="LotNumber",
+            fields=[
+                (
+                    "revision",
+                    django_revision.revision_field.RevisionField(
+                        blank=True,
+                        editable=False,
+                        help_text="System field. Git repository tag:branch:commit.",
+                        max_length=75,
+                        null=True,
+                        verbose_name="Revision",
+                    ),
+                ),
+                (
+                    "created",
+                    models.DateTimeField(
+                        blank=True, default=django_audit_fields.models.audit_model_mixin.utcnow
+                    ),
+                ),
+                (
+                    "modified",
+                    models.DateTimeField(
+                        blank=True, default=django_audit_fields.models.audit_model_mixin.utcnow
+                    ),
+                ),
+                (
+                    "user_created",
+                    django_audit_fields.fields.userfield.UserField(
+                        blank=True,
+                        help_text="Updated by admin.save_model",
+                        max_length=50,
+                        verbose_name="user created",
+                    ),
+                ),
+                (
+                    "user_modified",
+                    django_audit_fields.fields.userfield.UserField(
+                        blank=True,
+                        help_text="Updated by admin.save_model",
+                        max_length=50,
+                        verbose_name="user modified",
+                    ),
+                ),
+                (
+                    "hostname_created",
+                    models.CharField(
+                        blank=True,
+                        default=_socket.gethostname,
+                        help_text="System field. (modified on create only)",
+                        max_length=60,
+                        verbose_name="Hostname created",
+                    ),
+                ),
+                (
+                    "hostname_modified",
+                    django_audit_fields.fields.hostname_modification_field.HostnameModificationField(
+                        blank=True,
+                        help_text="System field. (modified on every save)",
+                        max_length=50,
+                        verbose_name="Hostname modified",
+                    ),
+                ),
+                (
+                    "device_created",
+                    models.CharField(blank=True, max_length=10, verbose_name="Device created"),
+                ),
+                (
+                    "device_modified",
+                    models.CharField(
+                        blank=True, max_length=10, verbose_name="Device modified"
+                    ),
+                ),
+                (
+                    "locale_created",
+                    models.CharField(
+                        blank=True,
+                        help_text="Auto-updated by Modeladmin",
+                        max_length=10,
+                        null=True,
+                        verbose_name="Locale created",
+                    ),
+                ),
+                (
+                    "locale_modified",
+                    models.CharField(
+                        blank=True,
+                        help_text="Auto-updated by Modeladmin",
+                        max_length=10,
+                        null=True,
+                        verbose_name="Locale modified",
+                    ),
+                ),
+                (
+                    "id",
+                    django_audit_fields.fields.uuid_auto_field.UUIDAutoField(
+                        blank=True,
+                        editable=False,
+                        help_text="System auto field. UUID primary key.",
+                        primary_key=True,
+                        serialize=False,
+                    ),
+                ),
+                ("lot_no", models.CharField(max_length=25, unique=True)),
+                (
+                    "allocation",
+                    models.CharField(
+                        choices=[("active", "Active"), ("placebo", "Placebo")], max_length=25
+                    ),
+                ),
+                ("expiration_date", models.DateField()),
+                ("qty", models.IntegerField(null=True)),
+            ],
+            options={
+                "verbose_name": "Lot Number",
+                "verbose_name_plural": "Lot Numbers",
+                "abstract": False,
+                "default_permissions": ("add", "change", "delete", "view", "export", "import"),
+                "default_manager_name": "objects",
+                "indexes": [
+                    models.Index(
+                        fields=["modified", "created"], name="meta_pharma_modifie_a98e60_idx"
+                    ),
+                    models.Index(
+                        fields=["user_modified", "user_created"],
+                        name="meta_pharma_user_mo_1be860_idx",
+                    ),
+                ],
+            },
+        ),
+        migrations.CreateModel(
+            name="Label",
+            fields=[
+                (
+                    "revision",
+                    django_revision.revision_field.RevisionField(
+                        blank=True,
+                        editable=False,
+                        help_text="System field. Git repository tag:branch:commit.",
+                        max_length=75,
+                        null=True,
+                        verbose_name="Revision",
+                    ),
+                ),
+                (
+                    "created",
+                    models.DateTimeField(
+                        blank=True, default=django_audit_fields.models.audit_model_mixin.utcnow
+                    ),
+                ),
+                (
+                    "modified",
+                    models.DateTimeField(
+                        blank=True, default=django_audit_fields.models.audit_model_mixin.utcnow
+                    ),
+                ),
+                (
+                    "user_created",
+                    django_audit_fields.fields.userfield.UserField(
+                        blank=True,
+                        help_text="Updated by admin.save_model",
+                        max_length=50,
+                        verbose_name="user created",
+                    ),
+                ),
+                (
+                    "user_modified",
+                    django_audit_fields.fields.userfield.UserField(
+                        blank=True,
+                        help_text="Updated by admin.save_model",
+                        max_length=50,
+                        verbose_name="user modified",
+                    ),
+                ),
+                (
+                    "hostname_created",
+                    models.CharField(
+                        blank=True,
+                        default=_socket.gethostname,
+                        help_text="System field. (modified on create only)",
+                        max_length=60,
+                        verbose_name="Hostname created",
+                    ),
+                ),
+                (
+                    "hostname_modified",
+                    django_audit_fields.fields.hostname_modification_field.HostnameModificationField(
+                        blank=True,
+                        help_text="System field. (modified on every save)",
+                        max_length=50,
+                        verbose_name="Hostname modified",
+                    ),
+                ),
+                (
+                    "device_created",
+                    models.CharField(blank=True, max_length=10, verbose_name="Device created"),
+                ),
+                (
+                    "device_modified",
+                    models.CharField(
+                        blank=True, max_length=10, verbose_name="Device modified"
+                    ),
+                ),
+                (
+                    "locale_created",
+                    models.CharField(
+                        blank=True,
+                        help_text="Auto-updated by Modeladmin",
+                        max_length=10,
+                        null=True,
+                        verbose_name="Locale created",
+                    ),
+                ),
+                (
+                    "locale_modified",
+                    models.CharField(
+                        blank=True,
+                        help_text="Auto-updated by Modeladmin",
+                        max_length=10,
+                        null=True,
+                        verbose_name="Locale modified",
+                    ),
+                ),
+                (
+                    "id",
+                    django_audit_fields.fields.uuid_auto_field.UUIDAutoField(
+                        blank=True,
+                        editable=False,
+                        help_text="System auto field. UUID primary key.",
+                        primary_key=True,
+                        serialize=False,
+                    ),
+                ),
+                ("rx_label_reference", models.CharField(max_length=15, unique=True)),
+                ("printed_datetime", models.DateTimeField(null=True)),
+                ("printed", models.BooleanField(default=False)),
+                ("scanned", models.BooleanField(default=False)),
+                ("scanned_datetime", models.DateTimeField(null=True)),
+                (
+                    "rx",
+                    models.ForeignKey(
+                        on_delete=django.db.models.deletion.PROTECT, to="meta_pharmacy.rx"
+                    ),
+                ),
+                (
+                    "lot_no",
+                    models.ForeignKey(
+                        on_delete=django.db.models.deletion.PROTECT,
+                        to="meta_pharmacy.lotnumber",
+                    ),
+                ),
+            ],
+            options={
+                "verbose_name": "Label",
+                "verbose_name_plural": "Labels",
+                "abstract": False,
+                "default_permissions": ("add", "change", "delete", "view", "export", "import"),
+                "default_manager_name": "objects",
+                "indexes": [
+                    models.Index(
+                        fields=["modified", "created"], name="meta_pharma_modifie_ebebcc_idx"
+                    ),
+                    models.Index(
+                        fields=["user_modified", "user_created"],
+                        name="meta_pharma_user_mo_cd7246_idx",
+                    ),
+                ],
+            },
+        ),
+    ]

meta_pharmacy/migrations/0007_lotnumber_medication.py

@@ -0,0 +1,24 @@
+# Generated by Django 5.1.2 on 2024-10-10 04:23
+
+import django.db.models.deletion
+from django.db import migrations, models
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ("edc_pharmacy", "0023_remove_rx_edc_pharmac_modifie_986021_idx_and_more"),
+        ("meta_pharmacy", "0006_lotnumber_label"),
+    ]
+
+    operations = [
+        migrations.AddField(
+            model_name="lotnumber",
+            name="medication",
+            field=models.ForeignKey(
+                null=True,
+                on_delete=django.db.models.deletion.PROTECT,
+                to="edc_pharmacy.medication",
+            ),
+        ),
+    ]