large-image-source-tifffile 1.29.3.dev47__py3-none-any.whl → 1.29.3.dev49__py3-none-any.whl

large_image_source_tifffile/__init__.py

@@ -354,6 +354,63 @@ class TifffileFileTileSource(FileTileSource, metaclass=LruCacheMetaclass):
         except Exception:
             pass
 
+    def _handle_ome(self):
+        """
+        For OME Tiff, if we didn't parse the mangification elsewhere, try to
+        parse it here.
+        """
+        import xml.etree.ElementTree
+
+        import large_image.tilesource.utilities
+
+        _omeUnitsToMeters = {
+            'Ym': 1e24,
+            'Zm': 1e21,
+            'Em': 1e18,
+            'Pm': 1e15,
+            'Tm': 1e12,
+            'Gm': 1e9,
+            'Mm': 1e6,
+            'km': 1e3,
+            'hm': 1e2,
+            'dam': 1e1,
+            'm': 1,
+            'dm': 1e-1,
+            'cm': 1e-2,
+            'mm': 1e-3,
+            '\u00b5m': 1e-6,
+            'nm': 1e-9,
+            'pm': 1e-12,
+            'fm': 1e-15,
+            'am': 1e-18,
+            'zm': 1e-21,
+            'ym': 1e-24,
+            '\u00c5': 1e-10,
+        }
+
+        try:
+            root = xml.etree.ElementTree.fromstring(self._tf.pages[0].description)
+            self._xml = large_image.tilesource.utilities.etreeToDict(root)
+        except Exception:
+            return
+        try:
+            try:
+                base = self._xml['OME']['Image'][0]['Pixels']
+            except Exception:
+                base = self._xml['OME']['Image']['Pixels']
+            if self._mm_x is None and 'PhysicalSizeX' in base:
+                self._mm_x = (
+                    float(base['PhysicalSizeX']) * 1e3 *
+                    _omeUnitsToMeters[base.get('PhysicalSizeXUnit', '\u00b5m')])
+            if self._mm_y is None and 'PhysicalSizeY' in base:
+                self._mm_y = (
+                    float(base['PhysicalSizeY']) * 1e3 *
+                    _omeUnitsToMeters[base.get('PhysicalSizeYUnit', '\u00b5m')])
+            self._mm_x = self._mm_x or self._mm_y
+            self._mm_y = self._mm_y or self._mm_x
+        except Exception:
+            pass
+
     def getNativeMagnification(self):
         """
         Get the magnification at a particular level.

{large_image_source_tifffile-1.29.3.dev47.dist-info → large_image_source_tifffile-1.29.3.dev49.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: large-image-source-tifffile
-Version: 1.29.3.dev47
+Version: 1.29.3.dev49
 Summary: A tifffile tilesource for large_image.
 Home-page: https://github.com/girder/large_image
 Author: Kitware, Inc.
@@ -17,12 +17,12 @@ Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
 Requires-Python: >=3.8
 License-File: LICENSE
-Requires-Dist: large-image >=1.29.3.dev47
+Requires-Dist: large-image >=1.29.3.dev49
 Requires-Dist: dask[array]
 Requires-Dist: tifffile[all]
 Requires-Dist: zarr
 Provides-Extra: girder
-Requires-Dist: girder-large-image >=1.29.3.dev47 ; extra == 'girder'
+Requires-Dist: girder-large-image >=1.29.3.dev49 ; extra == 'girder'
 
 A tifffile tilesource for large_image.
 

large_image_source_tifffile-1.29.3.dev49.dist-info/RECORD

@@ -0,0 +1,8 @@
+large_image_source_tifffile/__init__.py,sha256=f7U3_Fkaqy8G6kJL1i4sC45RhQBbpQ3JLGLIJutoWgM,26877
+large_image_source_tifffile/girder_source.py,sha256=8YsxpSK_UzbAcpjn6fIMlgKye2FchkB8_HTSQV0FpRA,1064
+large_image_source_tifffile-1.29.3.dev49.dist-info/LICENSE,sha256=psuoW8kuDP96RQsdhzwOqi6fyWv0ct8CR6Jr7He_P_k,10173
+large_image_source_tifffile-1.29.3.dev49.dist-info/METADATA,sha256=-KP20UGS1myZf_KcXM51jZ6QSIX9mKWNHfmLsZnkdsk,1064
+large_image_source_tifffile-1.29.3.dev49.dist-info/WHEEL,sha256=-oYQCr74JF3a37z2nRlQays_SX2MqOANoqVjBBAP2yE,91
+large_image_source_tifffile-1.29.3.dev49.dist-info/entry_points.txt,sha256=aILCN5f7-Zj8-WRXcABxCQvqJv9VLTvqRhZ_7HEyokc,190
+large_image_source_tifffile-1.29.3.dev49.dist-info/top_level.txt,sha256=feOAsix2Rzy6mjy2Ua-N0-L6tlKsgvLdRhO6Hd8_ZFs,28
+large_image_source_tifffile-1.29.3.dev49.dist-info/RECORD,,

large_image_source_tifffile-1.29.3.dev47.dist-info/RECORD

@@ -1,8 +0,0 @@
-large_image_source_tifffile/__init__.py,sha256=vFAhxUmKUVLy5gFuUFUTVALX7tz7wA4xWBR1tCoFZ7M,25058
-large_image_source_tifffile/girder_source.py,sha256=8YsxpSK_UzbAcpjn6fIMlgKye2FchkB8_HTSQV0FpRA,1064
-large_image_source_tifffile-1.29.3.dev47.dist-info/LICENSE,sha256=psuoW8kuDP96RQsdhzwOqi6fyWv0ct8CR6Jr7He_P_k,10173
-large_image_source_tifffile-1.29.3.dev47.dist-info/METADATA,sha256=3HfYaBJNpRmstoxbx9KH_kRBTdK2ZPKK-kn21JVs1dA,1064
-large_image_source_tifffile-1.29.3.dev47.dist-info/WHEEL,sha256=-oYQCr74JF3a37z2nRlQays_SX2MqOANoqVjBBAP2yE,91
-large_image_source_tifffile-1.29.3.dev47.dist-info/entry_points.txt,sha256=aILCN5f7-Zj8-WRXcABxCQvqJv9VLTvqRhZ_7HEyokc,190
-large_image_source_tifffile-1.29.3.dev47.dist-info/top_level.txt,sha256=feOAsix2Rzy6mjy2Ua-N0-L6tlKsgvLdRhO6Hd8_ZFs,28
-large_image_source_tifffile-1.29.3.dev47.dist-info/RECORD,,