large-image-source-bioformats 1.27.5.dev55__tar.gz → 1.27.5.dev61__tar.gz

{large-image-source-bioformats-1.27.5.dev55 → large-image-source-bioformats-1.27.5.dev61}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: large-image-source-bioformats
-Version: 1.27.5.dev55
+Version: 1.27.5.dev61
 Summary: An bioformats tilesource for large_image.
 Home-page: https://github.com/girder/large_image
 Author: Kitware, Inc.

{large-image-source-bioformats-1.27.5.dev55 → large-image-source-bioformats-1.27.5.dev61}/large_image_source_bioformats/__init__.py

@@ -61,8 +61,7 @@ _openImages = []
 
 
 # Default to ignoring files with no extension and some specific extensions.
-config.ConfigValues['source_bioformats_ignored_names'] = \
-    r'(^[^.]*|\.(jpg|jpeg|jpe|png|tif|tiff|ndpi|nd2|ome|nc|json|isyntax|mrxs|zarr(\.db|\.zip)))$'
+config.ConfigValues['source_bioformats_ignored_names'] = r'(^[^.]*|\.(jpg|jpeg|jpe|png|tif|tiff|ndpi|nd2|ome|nc|json|isyntax|mrxs|zip|zarr(\.db|\.zip)))$'  # noqa
 
 
 def _monitor_thread():
@@ -215,6 +214,7 @@ class BioformatsFileTileSource(FileTileSource, metaclass=LruCacheMetaclass):
         if not _startJavabridge(self.logger):
             msg = 'File cannot be opened by bioformats reader because javabridge failed to start'
             raise TileSourceError(msg)
+        self.addKnownExtensions()
 
         self._tileLock = threading.RLock()
 
@@ -699,6 +699,18 @@ class BioformatsFileTileSource(FileTileSource, metaclass=LruCacheMetaclass):
                     javabridge.detach()
         return large_image.tilesource.base._imageToPIL(image)
 
+    @classmethod
+    def addKnownExtensions(cls):
+        # This starts javabridge/bioformats if needed
+        _getBioformatsVersion()
+        if not hasattr(cls, '_addedExtensions'):
+            cls._addedExtensions = True
+            cls.extensions = cls.extensions.copy()
+            for dotext in bioformats.READABLE_FORMATS:
+                ext = dotext.strip('.')
+                if ext not in cls.extensions:
+                    cls.extensions[ext] = SourcePriority.IMPLICIT
+
 
 def open(*args, **kwargs):
     """

{large-image-source-bioformats-1.27.5.dev55 → large-image-source-bioformats-1.27.5.dev61}/large_image_source_bioformats.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: large-image-source-bioformats
-Version: 1.27.5.dev55
+Version: 1.27.5.dev61
 Summary: An bioformats tilesource for large_image.
 Home-page: https://github.com/girder/large_image
 Author: Kitware, Inc.

large-image-source-bioformats-1.27.5.dev61/large_image_source_bioformats.egg-info/requires.txt

@@ -0,0 +1,5 @@
+large-image>=1.27.5.dev61
+python-bioformats>=1.5.2
+
+[girder]
+girder-large-image>=1.27.5.dev61

large-image-source-bioformats-1.27.5.dev55/large_image_source_bioformats.egg-info/requires.txt

@@ -1,5 +0,0 @@
-large-image>=1.27.5.dev55
-python-bioformats>=1.5.2
-
-[girder]
-girder-large-image>=1.27.5.dev55