further improvements

atlas/api.py

@@ -32,6 +32,11 @@ class SeriesSchema(ModelSchema):
     def resolve_case_id(obj):
         return [i.id for i in obj.case.all()]
 
+class CaseSchema(ModelSchema):
+    class Config:
+        model = Case
+        model_fields = ["id", "title"]
+
 
 @router.post("/upload_dicom", auth=django_auth)
 def upload_dicom(request, files: List[UploadedFile] = File(...)):
@@ -73,9 +78,7 @@ def uncategorised_dicoms(request):
 
     return data
 
-
+def import_dicoms_helper(request, case_id: int | None=None):
-@router.get("/import_dicoms", auth=django_auth, response=List[SeriesSchema])
-def import_dicoms(request):
     dicoms = UncategorisedDicom.objects.filter(user=request.user)
 
     data = defaultdict(list)
@@ -104,16 +107,30 @@ def import_dicoms(request):
         # We might only want to add the author during creation....
         series.author.add(request.user)
 
+        if case_id is not None:
+            series.case.add(case_id)
+
         for dicom, dicom_tags in data[series_uid]:
             series_image = SeriesImage(image=dicom.image, series=series)
             series_image.save()
-            dicom.image.delete()
+            #dicom.image.delete()
 
             dicom.delete()
         series_list.append(series)
 
     return series_list
 
+
+@router.get("/import_dicoms", auth=django_auth, response=List[SeriesSchema])
+def import_dicoms(request):
+
+    return import_dicoms_helper(request)
+
+@router.get("/import_dicoms/{case_id}", auth=django_auth, response=List[SeriesSchema])
+def import_dicoms_case(request, case_id: int):
+
+    return import_dicoms_helper(request, case_id=case_id)
+
 @router.get("/orphan_series", auth=django_auth, response=List[SeriesSchema])
 def orphan_series(request):
     #print(request.user.series.filter(case=None))
@@ -137,4 +154,6 @@ def series_remove_duplicate_images(request, series_id: int):
 
     return len(dupes)
 
-
+@router.get("/get_cases_user", auth=django_auth, response=List[CaseSchema])
+def get_cases_user(request):
+    return Case.objects.filter(author=request.user)

atlas/migrations/0015_alter_seriesimage_series.py

@@ -0,0 +1,19 @@
+# Generated by Django 4.1.4 on 2023-08-14 12:31
+
+from django.db import migrations, models
+import django.db.models.deletion
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ('atlas', '0014_series_series_instance_uid_alter_series_examination_and_more'),
+    ]
+
+    operations = [
+        migrations.AlterField(
+            model_name='seriesimage',
+            name='series',
+            field=models.ForeignKey(null=True, on_delete=django.db.models.deletion.CASCADE, related_name='images', to='atlas.series'),
+        ),
+    ]

atlas/models.py

@@ -392,6 +392,7 @@ def extract_image_dicom_json_from_ds(ds, url, image_index):
             else:
                 d[key] = val
 
+    # Is it worth trying on fake dicom tags?.....
     if d == {}:
         d["SOPInstanceUID"] = f"1.2.840.1111.{image_index}"
         d["SeriesInstanceUID"] = f"1.2.840.1112.1"
@@ -402,7 +403,7 @@ def extract_image_dicom_json_from_ds(ds, url, image_index):
 class SeriesImage(SeriesImageBase):
     image = models.FileField(upload_to=image_directory_path)
     series = models.ForeignKey(
-        "Series", related_name="images", on_delete=models.SET_NULL, null=True
+        "Series", related_name="images", on_delete=models.CASCADE, null=True
     )
 
     def get_dicom_data(self):

atlas/templates/atlas/user_uploads.html

@@ -1,36 +1,47 @@
 {% extends 'atlas/base.html' %}
 
 {% block content %}
-<h2>Uploaded dicoms</h2>
+    <h2>Uploaded dicoms</h2>
 
-    
-{% if dicoms %}
-    <ul>
-    {% for dicom in dicoms %}
-    <li>
-        {{dicom.image}} {{dicom.get_basic_dicom_tags}}
-    </li>
-    {% endfor %}
-    </ul>
 
-        
+    {% if series_list %}
-<button
+        <ul>
-hx-get="{% url 'api-1:clear_dicoms' %}"
+            {% for series, n, tags in series_list %}
-hx-confirm="This will clear all uploads that have not been imported into series, Continue?"
+                <li>
->Delete Uploads</button>
+                    {{series}} [{{n}} images] <br/>
-<button
+                    {{tags}}
-hx-get="{% url 'api-1:import_dicoms' %}"
+                </li>
-hx-target=".imported"
+            {% endfor %}
+        </ul>
 
->Import</button>
+        {% if case %}
+            <p>Importing into case {{case}}</p>
+        {% endif %}
 
-    <div class="imported">
+        <button
+            hx-get="{% url 'api-1:clear_dicoms' %}"
+            hx-confirm="This will clear all uploads that have not been imported into series, Continue?"
+        >Delete Uploads</button>
+        {% if case %}
+        <button
+            hx-get="{% url 'api-1:import_dicoms_case' case.id %}"
+            hx-target=".imported"
+        >Import</button>
 
-    </div>
+        {% else %}
+        <button
+            hx-get="{% url 'api-1:import_dicoms' %}"
+            hx-target=".imported"
+        >Import</button>
+        {% endif %}
+
+        <div class="imported">
+
+        </div>
     {% else %}
-    No uploads awaiting importing have been found.
+        No uploads awaiting importing have been found.
-{% endif %}
+    {% endif %}
 
-<p><a href="{% url 'atlas:series_view' %}?case=null">View orphan series</a></p>
+    <p><a href="{% url 'atlas:series_view' %}?case=null">View orphan series</a></p>
 
 {% endblock %}

atlas/urls.py

@@ -35,6 +35,7 @@ urlpatterns = [
     path("collection/", views.CollectionView.as_view(), name="collection_view"),
     path("collection/user", views.user_collections, name="user_collections"),
     path("uploads", views.user_uploads, name="user_uploads"),
+    path("uploads/case/<int:case_id>", views.user_uploads, name="user_uploads"),
     path(
         "collection/create",
         views.CaseCollectionCreate.as_view(),

atlas/views.py

@@ -291,18 +291,39 @@ def author_list(request):
 
     return render(request, "atlas/author_list.html", {"authors": authors})
 
+
 def index(request):
     return render(request, "atlas/index.html", {})
 
+
 def user_collections(request):
     collections = request.user.user_casecollection_exams.all()
 
     return render(request, "atlas/user_collections.html", {"collections": collections})
 
-def user_uploads(request):
+
+def user_uploads(request, case_id: int | None = None):
     dicoms = UncategorisedDicom.objects.filter(user=request.user)
 
-    return render(request, "atlas/user_uploads.html", {"dicoms": dicoms})
+    data = defaultdict(list)
+    for d in dicoms:
+        tags = d.get_basic_dicom_tags()
+
+        data[tags["SeriesInstanceUID"]].append(tags)
+
+    series_list = []
+    for series in data:
+        series_list.append((series, len(data[series]), data[series][0]))
+    print(series_list)
+
+    case = False
+    if case_id is not None:
+        case = get_object_or_404(Case, pk=case_id)
+
+    return render(
+        request, "atlas/user_uploads.html", {"series_list": series_list, "case": case}
+    )
+
 
 class CaseDelete(RevisionMixin, AuthorOrCheckerRequiredMixin, DeleteView):
     model = Case
@@ -1319,7 +1340,6 @@ def collection_take_overview(
             return HttpResponse("True")
         else:
             raise Http404()
-            
 
     cases = collection.cases.all().order_by("casedetail__sort_order").prefetch_related()
 
@@ -1361,7 +1381,6 @@ def collection_take_overview(
     )
 
 
-
 def collection_case_view_take_user(request, pk: int, case_number: int):
     return collection_case_view_take(request, pk, case_number)
 
@@ -1402,9 +1421,7 @@ def collection_case_view_take(
         cid_user_exam.start_time = timezone.now()
         cid_user_exam.save()
 
-
     if not collection.review_only():
-
         if collection.collection_type == "REP":
             case_detail = CaseDetail.objects.get(case=case, collection=collection)
 
@@ -1419,7 +1436,6 @@ def collection_case_view_take(
 
     if request.method == "POST":
         if collection.collection_type == "REP":
-
             if not collection.publish_results:
                 if answer:
                     form = ReportAnswerForm(request.POST, instance=answer)
@@ -1534,7 +1550,6 @@ def collection_case_view(request, pk, case_number):
     form = None
     answer = None
 
-
     case, case_count = collection.get_case_by_index(case_number, case_count=True)
 
     series_list = case.series.all().prefetch_related("images", "examination", "plane")
@@ -1558,11 +1573,13 @@ def collection_case_view(request, pk, case_number):
         },
     )
 
+
 def case_dicom_json(request, pk):
     case = get_object_or_404(Case, pk=pk)
 
     return JsonResponse(case.get_case_dicom_json())
 
+
 @user_is_collection_author_or_atlas_editor
 def delete_collection_cid_answers(request, exam_id, cid):
     collection = get_object_or_404(CaseCollection, pk=exam_id)
@@ -1755,6 +1772,7 @@ GenericExamViews = ExamViews(
     CaseCollection, Case, None, CidReportAnswer, "atlas", "casecollection"
 )
 
+
 class CollectionCloneMixin:
     def get_initial(self):
         old_object = get_object_or_404(self.model, pk=self.kwargs["exam_id"])
@@ -1777,13 +1795,15 @@ class CollectionCloneMixin:
         object.save()
         return HttpResponseRedirect(object.get_absolute_url())
 
+
 class CollectionClone(CollectionCloneMixin, CaseCollectionCreate):
     """Clone exam view"""
 
+
 class SelfReviewDelete(DeleteView):
     model = SelfReview
     template_name = "confirm_delete.html"
-    #success_url = reverse_lazy("atlas:finding_view")
+    # success_url = reverse_lazy("atlas:finding_view")
 
     def get_initial(self):
         user_exam_id = self.kwargs["user_exam_id"]
@@ -1806,9 +1826,8 @@ class SelfReviewDelete(DeleteView):
     def get_success_url(self) -> str:
         return self.user_exam.exam.get_case_take_url(self.case)
 
-class SelfReviewUpdate(
+
-    UpdateView
+class SelfReviewUpdate(UpdateView):
-):
     model = SelfReview
     form_class = SelfReviewForm
 
@@ -1833,10 +1852,10 @@ class SelfReviewUpdate(
     def get_success_url(self) -> str:
         return self.user_exam.exam.get_case_take_url(self.case)
 
-    #def get_object(self):
+    # def get_object(self):
     #    return self.review
     #    return
-    #def get_initial(self):
+    # def get_initial(self):
     #    user_exam_id = self.kwargs["user_exam_id"]
     #    case_id = self.kwargs["case_id"]
 
@@ -1844,6 +1863,7 @@ class SelfReviewUpdate(
     #    self.case = get_object_or_404(Case, pk=case_id)
     #    return {"user_exam": user_exam_id, "case": case_id}
 
+
 class AddSelfReview(CreateView):
     model = SelfReview
     form_class = SelfReviewForm
@@ -1854,7 +1874,7 @@ class AddSelfReview(CreateView):
         kwargs = super(AddSelfReview, self).get_form_kwargs()
         # update the kwargs for the form init method with yours
         kwargs.update(self.kwargs)  # self.kwargs contains all url conf params
-        #kwargs.update({"user": self.request.user})
+        # kwargs.update({"user": self.request.user})
         return kwargs
 
     def get_initial(self):
@@ -1874,7 +1894,8 @@ class AddSelfReview(CreateView):
 
     def get_success_url(self) -> str:
         return self.user_exam.exam.get_case_take_url(self.case)
-        #return reverse("atlas:collection_take_overview_user", kwargs={"pk": self.user_exam.collection.id })
+        # return reverse("atlas:collection_take_overview_user", kwargs={"pk": self.user_exam.collection.id })
+
 
 #    def form_valid(self, form):
 #        model = form.save(commit=False)
@@ -1892,7 +1913,6 @@ def uncategorised_dicoms(request):
 
     data = []
     for d in dicoms:
-
         data.append((d.image.name, d.get_basic_dicom_tags()))
 
-    return JsonResponse(data, safe=False)
+    return JsonResponse(data, safe=False)

longs/migrations/0008_alter_longseriesimage_series.py

@@ -0,0 +1,19 @@
+# Generated by Django 4.1.4 on 2023-08-14 12:31
+
+from django.db import migrations, models
+import django.db.models.deletion
+
+
+class Migration(migrations.Migration):
+
+    dependencies = [
+        ('longs', '0007_longseriesimage_image_md5_hash_and_more'),
+    ]
+
+    operations = [
+        migrations.AlterField(
+            model_name='longseriesimage',
+            name='series',
+            field=models.ForeignKey(null=True, on_delete=django.db.models.deletion.CASCADE, related_name='images', to='longs.longseries'),
+        ),
+    ]

longs/models.py

@@ -354,7 +354,7 @@ def test_image_validator(file):
 class LongSeriesImage(SeriesImageBase):
     image = models.FileField(upload_to=image_directory_path)
     series = models.ForeignKey(
-        "LongSeries", related_name="images", on_delete=models.SET_NULL, null=True
+        "LongSeries", related_name="images", on_delete=models.CASCADE, null=True
     )