.

helpers/images.py

@@ -6,6 +6,8 @@ from io import BytesIO
 from PIL import Image, ImageFile
 
 import pydicom
+import sys
+import glob
 
 try:
     from .pydicom_PIL import get_PIL_image
@@ -72,3 +74,40 @@ def show_PIL(dataset):
     """Display an image using the Python Imaging Library (PIL)"""
     im = get_PIL_image(dataset)
     im.show()
+
+
+
+
+def get_dicom_order(path):
+    # load the DICOM files
+    files = []
+
+    for fname in glob.glob(path, recursive=False):
+        print("loading: {}".format(fname))
+        files.append((fname, pydicom.dcmread(fname)))
+
+    print("file count: {}".format(len(files)))
+
+    # skip files with no SliceLocation (eg scout views)
+    slices = []
+    map = {}
+    skipcount = 0
+    for fname, f in files:
+        print(dir(f))
+        print(fname)
+        if hasattr(f, 'SliceLocation'):
+            slices.append(f)
+            map[f.SliceLocation] = fname
+        else:
+            skipcount = skipcount + 1
+
+    print("skipped, no SliceLocation: {}".format(skipcount))
+
+    # ensure they are in the correct order
+    slices = sorted(slices, key=lambda s: s.SliceLocation)
+
+    #print(slices)
+    for i in slices:
+        print(map[i.SliceLocation])
+
+get_dicom_order("/home/ross/Downloads/DICOM HEAD/STD4/SER1/*.dcm")

longs/models.py

@@ -32,6 +32,8 @@ from generic.models import Examination, Condition, Sign, ExamBase, Plane, Contra
 from easy_thumbnails.files import get_thumbnailer
 from easy_thumbnails.exceptions import InvalidImageFormatError
 
+import pydicom
+
 
 
 image_storage = FileSystemStorage(
@@ -283,6 +285,39 @@ class LongSeries(models.Model):
             "<div>{}<br/>{}<br/>Images: {}</div>", examination, thumb, image_number
         )
 
+    def order_by_dicom_location(self):
+        images = self.images.all()
+
+        files = []
+
+        for i in images:
+            files.append((i, pydicom.dcmread(i.image.path)))
+
+        #print("file count: {}".format(len(files)))
+
+        # skip files with no SliceLocation (eg scout views)
+        slices = []
+        map = {}
+        skipcount = 0
+        for i, f in files:
+            if hasattr(f, 'SliceLocation'):
+                slices.append(f)
+                map[f.SliceLocation] = i
+            else:
+                skipcount = skipcount + 1
+
+        print("skipped, no SliceLocation: {}".format(skipcount))
+
+        # ensure they are in the correct order
+        slices = sorted(slices, key=lambda s: s.SliceLocation)
+
+        #print(slices)
+        n = 1
+        for f in slices:
+            i = map[f.SliceLocation]
+            i.position = n
+            i.save()
+            n = n + 1
 
 # class LongImage(models.Model):
 #    long = models.ForeignKey(Long,

longs/urls.py

@@ -11,6 +11,7 @@ urlpatterns = [
     path("question/", views.LongView.as_view(), name="long_view"),
     path("series/", views.LongSeriesView.as_view(), name="long_series_view"),
     path("series/<int:pk>", views.long_series_detail, name="long_series_detail"),
+    path("series/<int:pk>/order_dicom", views.long_series_order_dicom, name="long_series_order_dicom"),
     path("series/<int:pk>/delete", views.LongSeriesDelete.as_view(), name="long_series_delete"),
     # path("unchecked/", views.unchecked_list, name="unchecked_list"),
     # path("verified/<int:pk>/", views.verified_detail, name="verified_detail"),

longs/views.py

@@ -930,5 +930,9 @@ def exam_scores_cid_user(request, pk, sk):
         },
     )
 
+@login_required
+def long_series_order_dicom(request, pk):
+    series = get_object_or_404(LongSeries, pk=pk)
+    series.order_by_dicom_location()
 
 LongExamViews = ExamViews(Exam, Long, "longs", "long", loadJsonAnswer)