large-image 1.30.2__tar.gz → 1.30.2.dev2__tar.gz

{large_image-1.30.2/large_image.egg-info → large_image-1.30.2.dev2}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: large-image
-Version: 1.30.2
+Version: 1.30.2.dev2
 Summary: Python modules to work with large, multiresolution images.
 Home-page: https://github.com/girder/large_image
 Author: Kitware, Inc.
@@ -30,7 +30,7 @@ Requires-Dist: pylibmc>=1.5.1; platform_system != "Windows" and extra == "memcac
 Provides-Extra: redis
 Requires-Dist: redis>=4.5.5; extra == "redis"
 Provides-Extra: converter
-Requires-Dist: large-image-converter>=1.30.2; extra == "converter"
+Requires-Dist: large-image-converter>=1.30.2.dev2; extra == "converter"
 Provides-Extra: colormaps
 Requires-Dist: matplotlib; extra == "colormaps"
 Provides-Extra: tiledoutput
@@ -39,105 +39,105 @@ Provides-Extra: performance
 Requires-Dist: psutil>=4.2.0; extra == "performance"
 Requires-Dist: simplejpeg; extra == "performance"
 Provides-Extra: bioformats
-Requires-Dist: large-image-source-bioformats>=1.30.2; extra == "bioformats"
+Requires-Dist: large-image-source-bioformats>=1.30.2.dev2; extra == "bioformats"
 Provides-Extra: deepzoom
-Requires-Dist: large-image-source-deepzoom>=1.30.2; extra == "deepzoom"
+Requires-Dist: large-image-source-deepzoom>=1.30.2.dev2; extra == "deepzoom"
 Provides-Extra: dicom
-Requires-Dist: large-image-source-dicom>=1.30.2; extra == "dicom"
+Requires-Dist: large-image-source-dicom>=1.30.2.dev2; extra == "dicom"
 Provides-Extra: dummy
-Requires-Dist: large-image-source-dummy>=1.30.2; extra == "dummy"
+Requires-Dist: large-image-source-dummy>=1.30.2.dev2; extra == "dummy"
 Provides-Extra: gdal
-Requires-Dist: large-image-source-gdal>=1.30.2; extra == "gdal"
+Requires-Dist: large-image-source-gdal>=1.30.2.dev2; extra == "gdal"
 Provides-Extra: mapnik
-Requires-Dist: large-image-source-mapnik>=1.30.2; extra == "mapnik"
+Requires-Dist: large-image-source-mapnik>=1.30.2.dev2; extra == "mapnik"
 Provides-Extra: multi
-Requires-Dist: large-image-source-multi>=1.30.2; extra == "multi"
+Requires-Dist: large-image-source-multi>=1.30.2.dev2; extra == "multi"
 Provides-Extra: nd2
-Requires-Dist: large-image-source-nd2>=1.30.2; extra == "nd2"
+Requires-Dist: large-image-source-nd2>=1.30.2.dev2; extra == "nd2"
 Provides-Extra: ometiff
-Requires-Dist: large-image-source-ometiff>=1.30.2; extra == "ometiff"
+Requires-Dist: large-image-source-ometiff>=1.30.2.dev2; extra == "ometiff"
 Provides-Extra: openjpeg
-Requires-Dist: large-image-source-openjpeg>=1.30.2; extra == "openjpeg"
+Requires-Dist: large-image-source-openjpeg>=1.30.2.dev2; extra == "openjpeg"
 Provides-Extra: openslide
-Requires-Dist: large-image-source-openslide>=1.30.2; extra == "openslide"
+Requires-Dist: large-image-source-openslide>=1.30.2.dev2; extra == "openslide"
 Provides-Extra: pil
-Requires-Dist: large-image-source-pil>=1.30.2; extra == "pil"
+Requires-Dist: large-image-source-pil>=1.30.2.dev2; extra == "pil"
 Provides-Extra: rasterio
-Requires-Dist: large-image-source-rasterio>=1.30.2; extra == "rasterio"
+Requires-Dist: large-image-source-rasterio>=1.30.2.dev2; extra == "rasterio"
 Provides-Extra: test
-Requires-Dist: large-image-source-test>=1.30.2; extra == "test"
+Requires-Dist: large-image-source-test>=1.30.2.dev2; extra == "test"
 Provides-Extra: tiff
-Requires-Dist: large-image-source-tiff>=1.30.2; extra == "tiff"
+Requires-Dist: large-image-source-tiff>=1.30.2.dev2; extra == "tiff"
 Provides-Extra: tifffile
-Requires-Dist: large-image-source-tifffile>=1.30.2; extra == "tifffile"
+Requires-Dist: large-image-source-tifffile>=1.30.2.dev2; extra == "tifffile"
 Provides-Extra: vips
-Requires-Dist: large-image-source-vips>=1.30.2; extra == "vips"
+Requires-Dist: large-image-source-vips>=1.30.2.dev2; extra == "vips"
 Provides-Extra: zarr
-Requires-Dist: large-image-source-zarr>=1.30.2; extra == "zarr"
+Requires-Dist: large-image-source-zarr>=1.30.2.dev2; extra == "zarr"
 Provides-Extra: sources
-Requires-Dist: large-image-source-openjpeg>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-gdal>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-nd2>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-openslide>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-dicom>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-rasterio>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-test>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-tifffile>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-zarr>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-mapnik>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-multi>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-ometiff>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-tiff>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-pil>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-vips>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-dummy>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-bioformats>=1.30.2; extra == "sources"
-Requires-Dist: large-image-source-deepzoom>=1.30.2; extra == "sources"
+Requires-Dist: large-image-source-mapnik>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-multi>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-dicom>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-ometiff>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-tiff>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-deepzoom>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-vips>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-bioformats>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-nd2>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-openjpeg>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-pil>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-test>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-rasterio>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-gdal>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-openslide>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-tifffile>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-dummy>=1.30.2.dev2; extra == "sources"
+Requires-Dist: large-image-source-zarr>=1.30.2.dev2; extra == "sources"
 Provides-Extra: all
-Requires-Dist: large-image-source-openjpeg>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-gdal>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-dicom>=1.30.2; extra == "all"
+Requires-Dist: large-image-source-mapnik>=1.30.2.dev2; extra == "all"
+Requires-Dist: psutil>=4.2.0; extra == "all"
+Requires-Dist: large-image-source-dicom>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-vips>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-deepzoom>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-converter>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-openjpeg>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-test>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-rasterio[all]>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-rasterio>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-gdal>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-zarr>=1.30.2.dev2; extra == "all"
 Requires-Dist: pylibmc>=1.5.1; platform_system != "Windows" and extra == "all"
-Requires-Dist: large-image-source-pil>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-bioformats>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-tifffile>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-vips>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-dummy>=1.30.2; extra == "all"
-Requires-Dist: pyvips; extra == "all"
-Requires-Dist: large-image-source-deepzoom>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-pil[all]>=1.30.2; extra == "all"
-Requires-Dist: large-image-converter>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-rasterio[all]>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-test>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-nd2>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-tiff[all]>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-rasterio>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-multi[all]>=1.30.2; extra == "all"
-Requires-Dist: redis>=4.5.5; extra == "all"
+Requires-Dist: large-image-source-multi[all]>=1.30.2.dev2; extra == "all"
 Requires-Dist: matplotlib; extra == "all"
-Requires-Dist: large-image-source-zarr>=1.30.2; extra == "all"
-Requires-Dist: psutil>=4.2.0; extra == "all"
-Requires-Dist: large-image-source-mapnik>=1.30.2; extra == "all"
+Requires-Dist: large-image-source-multi>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-ometiff>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-tiff>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-pil[all]>=1.30.2.dev2; extra == "all"
 Requires-Dist: simplejpeg; extra == "all"
-Requires-Dist: large-image-source-ometiff>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-multi>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-openslide>=1.30.2; extra == "all"
-Requires-Dist: large-image-source-tiff>=1.30.2; extra == "all"
+Requires-Dist: large-image-source-bioformats>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-nd2>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-pil>=1.30.2.dev2; extra == "all"
+Requires-Dist: redis>=4.5.5; extra == "all"
+Requires-Dist: pyvips; extra == "all"
+Requires-Dist: large-image-source-tiff[all]>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-openslide>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-tifffile>=1.30.2.dev2; extra == "all"
+Requires-Dist: large-image-source-dummy>=1.30.2.dev2; extra == "all"
 Provides-Extra: common
-Requires-Dist: large-image-source-pil[all]>=1.30.2; extra == "common"
-Requires-Dist: large-image-source-rasterio[all]>=1.30.2; extra == "common"
-Requires-Dist: large-image-source-test>=1.30.2; extra == "common"
-Requires-Dist: large-image-source-nd2>=1.30.2; extra == "common"
-Requires-Dist: large-image-source-dicom>=1.30.2; extra == "common"
-Requires-Dist: redis>=4.5.5; extra == "common"
 Requires-Dist: matplotlib; extra == "common"
-Requires-Dist: large-image-source-zarr>=1.30.2; extra == "common"
+Requires-Dist: large-image-source-multi>=1.30.2.dev2; extra == "common"
 Requires-Dist: psutil>=4.2.0; extra == "common"
+Requires-Dist: large-image-source-dicom>=1.30.2.dev2; extra == "common"
+Requires-Dist: large-image-source-pil[all]>=1.30.2.dev2; extra == "common"
 Requires-Dist: simplejpeg; extra == "common"
-Requires-Dist: large-image-source-multi>=1.30.2; extra == "common"
+Requires-Dist: large-image-source-deepzoom>=1.30.2.dev2; extra == "common"
+Requires-Dist: large-image-source-nd2>=1.30.2.dev2; extra == "common"
+Requires-Dist: redis>=4.5.5; extra == "common"
+Requires-Dist: large-image-source-test>=1.30.2.dev2; extra == "common"
+Requires-Dist: large-image-source-rasterio[all]>=1.30.2.dev2; extra == "common"
+Requires-Dist: large-image-source-zarr>=1.30.2.dev2; extra == "common"
 Requires-Dist: pylibmc>=1.5.1; platform_system != "Windows" and extra == "common"
-Requires-Dist: large-image-source-tifffile>=1.30.2; extra == "common"
-Requires-Dist: large-image-source-deepzoom>=1.30.2; extra == "common"
+Requires-Dist: large-image-source-tifffile>=1.30.2.dev2; extra == "common"
 
 Large Image
 ===========

{large_image-1.30.2 → large_image-1.30.2.dev2}/docs/getting_started.rst

@@ -334,60 +334,25 @@ You can also composite a multi-frame image into a false-color output:
 Writing an Image
 ----------------
 
-If you wish to visualize numpy data, ``large_image`` can write a tiled image.
-This requires a tile source that supports writing to be installed.
-As of this writing, the ``large-image-source-zarr`` and ``large-image-source-vips`` sources both support this.
-If both are installed, the ``large-image-source-zarr`` is the default.
-Some of the API options available for ``large-image-source-zarr`` are not available for ``large-image-source-vips``.
+If you wish to visualize numpy data, large_image can write a tiled tiff.  This requires a tile source that supports writing to be installed.  As of this writing, the ``large-image-source-zarr`` and ``large-image-source-vips`` sources supports this.  If both are installed, the ``large-image-source-zarr`` is the default.
 
 .. code-block:: python
 
     import large_image
-
     source = large_image.new()
     for nparray, x, y in fancy_algorithm():
         # We could optionally add a mask to limit the output
         source.addTile(nparray, x, y)
     source.write('/tmp/sample.tiff', lossy=False)
 
-Multiple Frames
-~~~~~~~~~~~~~~~
-
-``large-image-source-zarr`` can be used to store multiframe data with arbitrary axes.
-The example below demonstrates the creation of an image with five axes: T, Z, Y, X, S.
+The ``large-image-source-zarr`` can be used to store multiple frame data with arbitrary axes.
 
 .. code-block:: python
 
     import large_image
-
-    time_values = [0.5, 1.5, 2.5, 3.5]
-    z_values = [3, 6, 9]
-    tile_pos_values = [0, 1024, 2048, 3072, 4096]
-
     source = large_image.new()
-    for t_index, t_value in enumerate(time_values):
-        for z_index, z_value in enumerate(z_values):
-            for y_value in tile_pos_values:
-                for x_value in tile_pos_values:
-
-                    # tile is a numpy array with shape (1024, 1024, 3)
-                    # this shape corresponds to the following axes, respectively: (Y, X, S)
-                    tile = get_my_data_tile(x_value, y_value, z_value, t_value)
-
-                    source.addTile(
-                        tile,
-                        x_value,
-                        y_value,
-                        z=z_index,
-                        time=t_index,
-
-                        # z_value and t_value are optional parameters to store the
-                        # true values at the provided z index and t index
-                        z_value=z_value,
-                        time_value=t_value,
-                    )
-    source.frameUnits = dict(t='ms', z='cm')
-
+    for nparray, x, y, time, param1 in fancy_algorithm():
+        source.addTile(nparray, x, y, time=time, p1=param1)
     # The writer supports a variety of formats
     source.write('/tmp/sample.zarr.zip', lossy=False)
 
@@ -396,37 +361,31 @@ You may also choose to read tiles from one source and write modified tiles to a
 .. code-block:: python
 
     import large_image
-
     original_source = large_image.open('path/to/original/image.tiff')
     new_source = large_image.new()
     for frame in original_source.getMetadata().get('frames', []):
         for tile in original_source.tileIterator(frame=frame['Frame'], format='numpy'):
-            tile_data, x, y = tile['tile'], tile['x'], tile['y']
+            t, x, y = tile['tile'], tile['x'], tile['y']
             kwargs = {
                 'z': frame['IndexZ'],
                 'c': frame['IndexC'],
             }
-            modified_tile = modify_tile(tile_data)
+            modified_tile = modify_tile(t)
             new_source.addTile(modified_tile, x=x, y=y, **kwargs)
     new_source.write('path/to/new/image.tiff', lossy=False)
 
-Multiple processes
-~~~~~~~~~~~~~~~~~~
-
 In some cases, it may be beneficial to write to a single image from multiple processes or threads:
 
 .. code-block:: python
 
     import large_image
     import multiprocessing
-
     # Important: Must be a pickleable function
     def add_tile_to_source(tilesource, nparray, position):
         tilesource.addTile(
             nparray,
             **position
         )
-
     source = large_image.new()
     # Important: Maximum size must be allocated before any multiprocess concurrency
     add_tile_to_source(source, np.zeros(1, 1, 3), dict(x=max_x, y=max_y, z=max_z))
@@ -438,10 +397,4 @@ In some cases, it may be beneficial to write to a single image from multiple pro
         )
     source.write('/tmp/sample.zarr.zip', lossy=False)
 
-
-More examples
-~~~~~~~~~~~~~
-
-To see more examples of using ``large-image-source-zarr`` to write images, see :doc:`notebooks` and the `Zarr Sink Tests <https://github.com/girder/large_image/blob/master/test/test_sink.py>`_.
-
 .. _Girder: https://girder.readthedocs.io/en/latest/

{large_image-1.30.2 → large_image-1.30.2.dev2}/docs/girder_config_options.rst

@@ -94,14 +94,10 @@ This is used to specify how items appear in item lists.  There are two settings,
       # clicking on an item from showing the item page to another action.
       navigate:
         # type can be "item": the default, open the item page, "itemList": go
-        # to the named item page, or "open" to open an application
+        # to the named item page
         type: itemList
         # if the type is "itemList", the name is the name of the itemList to
-        # display.  If the type is "open", the name is the name of the
-        # registered  application that should be opened by preference (e.g.,
-        # "histomicsui" or "volview").  If that application does not report it
-        # can open the item or no name is specified, the highest priority
-        # application that can open the item will be used.
+        # display.
         name: studyList
       # show these columns in order from left to right.  Each column has a
       # "type" and "value".  It optionally has a "title" used for the column

{large_image-1.30.2 → large_image-1.30.2.dev2}/docs/notebooks/zarr_sink_example.ipynb

@@ -22,7 +22,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 1,
+   "execution_count": null,
    "id": "4ba28d02",
    "metadata": {},
    "outputs": [],
@@ -37,7 +37,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 2,
+   "execution_count": null,
    "id": "63c0c38f",
    "metadata": {},
    "outputs": [],
@@ -164,7 +164,7 @@
     {
      "data": {
       "application/vnd.jupyter.widget-view+json": {
-       "model_id": "97c6787b148c4b4f9639d623f32f8a3a",
+       "model_id": "bf6d0e9480cb43ef9851d7bd3ca7e356",
        "version_major": 2,
        "version_minor": 0
       },
@@ -191,7 +191,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 7,
+   "execution_count": null,
    "id": "0e75e6de",
    "metadata": {},
    "outputs": [],
@@ -228,22 +228,10 @@
      "data": {
       "application/json": {
        "IndexRange": {
-        "IndexFOOTPRINT": 3
+        "IndexI": 3
        },
        "IndexStride": {
-        "IndexFOOTPRINT": 1
-       },
-       "ValueFOOTPRINT": {
-        "datatype": "int64",
-        "max": 50,
-        "min": 1,
-        "uniform": true,
-        "units": null,
-        "values": [
-         1,
-         10,
-         50
-        ]
+        "IndexI": 1
        },
        "bandCount": 3,
        "channelmap": {
@@ -258,22 +246,19 @@
          "Channel": "Band 1",
          "Frame": 0,
          "Index": 0,
-         "IndexFOOTPRINT": 0,
-         "ValueFOOTPRINT": 1
+         "IndexI": 0
         },
         {
          "Channel": "Band 1",
          "Frame": 1,
          "Index": 1,
-         "IndexFOOTPRINT": 1,
-         "ValueFOOTPRINT": 10
+         "IndexI": 1
         },
         {
          "Channel": "Band 1",
          "Frame": 2,
          "Index": 2,
-         "IndexFOOTPRINT": 2,
-         "ValueFOOTPRINT": 50
+         "IndexI": 2
         }
        ],
        "levels": 6,
@@ -296,34 +281,16 @@
        " 'mm_y': 0,\n",
        " 'dtype': 'float64',\n",
        " 'bandCount': 3,\n",
-       " 'frames': [{'Frame': 0,\n",
-       "   'IndexFOOTPRINT': 0,\n",
-       "   'ValueFOOTPRINT': 1,\n",
-       "   'Index': 0,\n",
-       "   'Channel': 'Band 1'},\n",
-       "  {'Frame': 1,\n",
-       "   'IndexFOOTPRINT': 1,\n",
-       "   'ValueFOOTPRINT': 10,\n",
-       "   'Index': 1,\n",
-       "   'Channel': 'Band 1'},\n",
-       "  {'Frame': 2,\n",
-       "   'IndexFOOTPRINT': 2,\n",
-       "   'ValueFOOTPRINT': 50,\n",
-       "   'Index': 2,\n",
-       "   'Channel': 'Band 1'}],\n",
-       " 'ValueFOOTPRINT': {'values': [1, 10, 50],\n",
-       "  'uniform': True,\n",
-       "  'units': None,\n",
-       "  'min': 1,\n",
-       "  'max': 50,\n",
-       "  'datatype': 'int64'},\n",
-       " 'IndexRange': {'IndexFOOTPRINT': 3},\n",
-       " 'IndexStride': {'IndexFOOTPRINT': 1},\n",
+       " 'frames': [{'Frame': 0, 'IndexI': 0, 'Index': 0, 'Channel': 'Band 1'},\n",
+       "  {'Frame': 1, 'IndexI': 1, 'Index': 1, 'Channel': 'Band 1'},\n",
+       "  {'Frame': 2, 'IndexI': 2, 'Index': 2, 'Channel': 'Band 1'}],\n",
+       " 'IndexRange': {'IndexI': 3},\n",
+       " 'IndexStride': {'IndexI': 1},\n",
        " 'channels': ['Band 1'],\n",
        " 'channelmap': {'Band 1': 0}}"
       ]
      },
-     "execution_count": 8,
+     "execution_count": 7,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -348,7 +315,7 @@
     "\n",
     "        # add modified tile to sink\n",
     "        # specify tile x, tile y, and any arbitrary frame parameters\n",
-    "        sink.addTile(processed_tile, x=tile['x'], y=tile['y'], footprint=i, footprint_value=footprint_size)\n",
+    "        sink.addTile(processed_tile, x=tile['x'], y=tile['y'], i=i)\n",
     "# view metadata\n",
     "sink.getMetadata()"
    ]
@@ -362,7 +329,7 @@
     {
      "data": {
       "application/vnd.jupyter.widget-view+json": {
-       "model_id": "fb60c2b967274a99a632f32f99389705",
+       "model_id": "9b8e6175005d4af89cb4cfada7b72983",
        "version_major": 2,
        "version_minor": 0
       },
@@ -431,10 +398,10 @@
      "data": {
       "application/json": {
        "IndexRange": {
-        "IndexFOOTPRINT": 3
+        "IndexI": 3
        },
        "IndexStride": {
-        "IndexFOOTPRINT": 1
+        "IndexI": 1
        },
        "bandCount": 3,
        "channelmap": {
@@ -449,19 +416,19 @@
          "Channel": "Band 1",
          "Frame": 0,
          "Index": 0,
-         "IndexFOOTPRINT": 0
+         "IndexI": 0
         },
         {
          "Channel": "Band 1",
          "Frame": 1,
          "Index": 1,
-         "IndexFOOTPRINT": 1
+         "IndexI": 1
         },
         {
          "Channel": "Band 1",
          "Frame": 2,
          "Index": 2,
-         "IndexFOOTPRINT": 2
+         "IndexI": 2
         }
        ],
        "levels": 4,
@@ -484,16 +451,16 @@
        " 'mm_y': None,\n",
        " 'dtype': 'uint16',\n",
        " 'bandCount': 3,\n",
-       " 'frames': [{'Channel': 'Band 1', 'Frame': 0, 'Index': 0, 'IndexFOOTPRINT': 0},\n",
-       "  {'Channel': 'Band 1', 'Frame': 1, 'Index': 1, 'IndexFOOTPRINT': 1},\n",
-       "  {'Channel': 'Band 1', 'Frame': 2, 'Index': 2, 'IndexFOOTPRINT': 2}],\n",
-       " 'IndexRange': {'IndexFOOTPRINT': 3},\n",
-       " 'IndexStride': {'IndexFOOTPRINT': 1},\n",
+       " 'frames': [{'Channel': 'Band 1', 'Frame': 0, 'Index': 0, 'IndexI': 0},\n",
+       "  {'Channel': 'Band 1', 'Frame': 1, 'Index': 1, 'IndexI': 1},\n",
+       "  {'Channel': 'Band 1', 'Frame': 2, 'Index': 2, 'IndexI': 2}],\n",
+       " 'IndexRange': {'IndexI': 3},\n",
+       " 'IndexStride': {'IndexI': 1},\n",
        " 'channels': ['Band 1'],\n",
        " 'channelmap': {'Band 1': 0}}"
       ]
      },
-     "execution_count": 11,
+     "execution_count": 10,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -539,7 +506,7 @@
     {
      "data": {
       "application/vnd.jupyter.widget-view+json": {
-       "model_id": "a2d3df88fbd44079877b8f314ed97e6f",
+       "model_id": "30812bb388a0426da9806e62bf5e8711",
        "version_major": 2,
        "version_minor": 0
       },

{large_image-1.30.2 → large_image-1.30.2.dev2}/large_image/tilesource/base.py

@@ -1315,58 +1315,6 @@ class TileSource(IPyLeafletMixin):
     def metadata(self) -> JSONDict:
         return self.getMetadata()
 
-    def _getFrameValueInformation(self, frames: List[Dict]):
-        """
-        Given a `frames` list from a metadata response, return a dictionary describing
-        the value info for any frame axes. Keys in this dictionary follow the pattern "Value[AXIS]"
-        and each maps to a dictionary describing the axis, including a list of values, whether the
-        axis is uniform, the units, minimum value, maximum value, and data type.
-
-        :param frames: A list of dictionaries describing each frame in the image
-        :returns: A dictionary describing the values of frame axes
-        """
-        refvalues: Dict[str, Dict[str, List]] = {}
-        for frame in frames:
-            for key, value in frame.items():
-                if 'Value' in key:
-                    if key not in refvalues:
-                        refvalues[key] = {}
-                    value_index = str(frame.get(key.replace('Value', 'Index')))
-                    if value_index not in refvalues[key]:
-                        refvalues[key][value_index] = [value]
-                    else:
-                        refvalues[key][value_index].append(value)
-        frame_value_info = {}
-        for key, value_mapping in refvalues.items():
-            axis_name = key.replace('Value', '').lower()
-            units = None
-            if hasattr(self, 'frameUnits') and self.frameUnits is not None:
-                units = self.frameUnits.get(axis_name)
-            uniform = all(len(set(value_list)) <= 1 for value_list in value_mapping.values())
-            if uniform:
-                # for uniform values, only record values at each axis index
-                values = [
-                    value_list[0] for value_list in value_mapping.values() if len(value_list)
-                ]
-            else:
-                # for non-uniform axes, record values at every frame
-                values = [frame.get(key) for frame in frames]
-            try:
-                min_val = min(values)
-                max_val = max(values)
-            except TypeError:
-                min_val = None
-                max_val = None
-            frame_value_info[key] = dict(
-                values=values,
-                uniform=uniform,
-                units=units,
-                min=min_val,
-                max=max_val,
-                datatype=np.array(values).dtype.name,
-            )
-        return frame_value_info
-
     def _addMetadataFrameInformation(
             self, metadata: JSONDict, channels: Optional[List[str]] = None) -> None:
         """
@@ -1398,7 +1346,6 @@ class TileSource(IPyLeafletMixin):
                     metadata['frames'][idx].get(key) for key in refkeys)):
                 index += 1
             frame['Index'] = index
-        metadata.update(self._getFrameValueInformation(metadata['frames']))
         if any(val > 1 for val in maxref.values()):
             metadata['IndexRange'] = {key: value for key, value in maxref.items() if value > 1}
             metadata['IndexStride'] = {
@@ -1569,8 +1516,7 @@ class TileSource(IPyLeafletMixin):
         if (scale >= max(self.tileWidth, self.tileHeight) or
                 (self.dtype and self.dtype != np.uint8) or
                 (self.bandCount and self.bandCount > 4)):
-            nptile = np.zeros((self.tileHeight, self.tileWidth, cast(int, self.bandCount)),
-                              dtype=self.dtype)
+            nptile = np.zeros((self.tileHeight, self.tileWidth, cast(int, self.bandCount)))
             maxX = 2.0 ** (z + 1 - self.levels) * self.sizeX / self.tileWidth
             maxY = 2.0 ** (z + 1 - self.levels) * self.sizeY / self.tileHeight
             for newY in range(scale):

{large_image-1.30.2 → large_image-1.30.2.dev2}/large_image/tilesource/utilities.py

@@ -217,12 +217,6 @@ def _imageToPIL(
             image = np.floor_divide(image, 2 ** 24).astype(np.uint8)
         elif image.dtype == np.uint16:
             image = np.floor_divide(image, 256).astype(np.uint8)
-        elif image.dtype == np.int8:
-            image = (image.astype(float) + 128).astype(np.uint8)
-        elif image.dtype == np.int16:
-            image = np.floor_divide(image.astype(float) + 2 ** 15, 256).astype(np.uint8)
-        elif image.dtype == np.int32:
-            image = np.floor_divide(image.astype(float) + 2 ** 31, 2 ** 24).astype(np.uint8)
         # TODO: The scaling of float data needs to be identical across all
         # tiles of an image.  This means that we need a reference to the parent
         # tile source or some other way of regulating it.