Adding handling for un-pyramided tiff

labsyspharm · Oct 27, 2022 · 4faa369 · 4faa369
1 parent 321421f
commit 4faa369
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/minerva_analysis/server/models/data_model.py b/minerva_analysis/server/models/data_model.py
@@ -1431,6 +1431,9 @@ def convertOmeTiff(filePath, channelFilePath=None, dataDirectory=None, isLabelIm
         if isinstance(channels, zarr.Array):
             channel_info['maxLevel'] = 1
             chunks = channels.chunks
+            if chunks[1] == 1 or chunks[2] == 1:
+                chunks = [1, channels.shape[1], channels.shape[2]]
+                channel_info['channels'] = channels.shape[0]
             shape = channels.shape
         else:
             channel_info['maxLevel'] = len(channels)

diff --git a/minerva_analysis/server/routes/import_routes.py b/minerva_analysis/server/routes/import_routes.py
@@ -462,8 +462,6 @@ def save_config():
 
     for name in datasets:
         data_model.load_datasource(name, reload=True)
-    # Create Embedding
-    data_model.create_embedding(datasets)
 
     resp = jsonify(success=True)
     return resp