Move ilastik examples; auto-generate accessor

model_server/accessors.py

@@ -140,7 +140,9 @@ def write_accessor_data_to_file(fpath: Path, accessor: GenericImageDataAccessor)
 
 
 def generate_file_accessor(fpath):
-    if str(fpath).upper().endswith('.CZI'):
+    if str(fpath).upper().endswith('.TIF') or str(fpath).upper().endswith('.TIFF'):
+        return TifSingleSeriesFileAccessor(fpath)
+    elif str(fpath).upper().endswith('.CZI'):
         return CziImageFileAccessor(fpath)
     else:
         raise FileAccessorError(f'Could not match a file accessor with {fpath}')

tests/test_accessors.py

@@ -3,7 +3,7 @@ import unittest
 import numpy as np
 
 from conf.testing import czifile, output_path, tifffile
-from model_server.accessors import CziImageFileAccessor, DataShapeError, InMemoryDataAccessor, write_accessor_data_to_file, TifSingleSeriesFileAccessor
+from model_server.accessors import CziImageFileAccessor, DataShapeError, generate_file_accessor, InMemoryDataAccessor, write_accessor_data_to_file, TifSingleSeriesFileAccessor
 
 class TestCziImageFileAccess(unittest.TestCase):
 
@@ -11,7 +11,9 @@ class TestCziImageFileAccess(unittest.TestCase):
         pass
 
     def test_tiffile_is_correct_shape(self):
-        tf = TifSingleSeriesFileAccessor(tifffile['path'])
+        tf = generate_file_accessor(tifffile['path'])
+
+        self.assertIsInstance(tf, TifSingleSeriesFileAccessor)
         self.assertEqual(tf.shape_dict['Y'], tifffile['h'])
         self.assertEqual(tf.shape_dict['X'], tifffile['w'])
         self.assertEqual(tf.chroma, tifffile['c'])