Assume N5 pixel data is always big endian

See specification at https://github.com/saalfeldlab/n5/blob/2.2.0/README.md
glencoesoftware · Apr 29, 2020 · 70137dd · 70137dd
1 parent b7b48dd
commit 70137dd
Showing 1 changed file with 8 additions and 2 deletions.
diff --git a/src/main/java/com/glencoesoftware/pyramid/PyramidFromDirectoryWriter.java b/src/main/java/com/glencoesoftware/pyramid/PyramidFromDirectoryWriter.java
@@ -182,7 +182,7 @@ private class PyramidSeries {
     /** Number of resolutions. */
     int numberOfResolutions;
 
-    boolean littleEndian;
+    boolean littleEndian = false;
 
     int planeCount = 1;
     int z = 1;
@@ -517,7 +517,13 @@ public void initialize()
       s.dimensionOrder =
         metadata.getPixelsDimensionOrder(seriesIndex).toString();
       s.planeCount = s.z * s.t;
-      s.littleEndian = !metadata.getPixelsBigEndian(seriesIndex);
+
+      // N5 format only allows big endian data
+      // Zarr format allows both
+      if (n5Reader instanceof N5ZarrReader) {
+        s.littleEndian = !metadata.getPixelsBigEndian(seriesIndex);
+      }
+
       s.pixelType = FormatTools.pixelTypeFromString(
             metadata.getPixelsType(seriesIndex).getValue());