Make setWriteSequentially(...) call configurable in bfconvert

-no-sequential won't change the order in which planes/tiles are written,
just the writer's assumption of plane/tile order.

components/bio-formats-tools/src/loci/formats/tools/ImageConverter.java

@@ -125,6 +125,7 @@ public final class ImageConverter {
   private boolean useMemoizer = false;
   private String cacheDir = null;
   private boolean originalMetadata = true;
+  private boolean noSequential = false;
 
   private IFormatReader reader;
   private MinMaxCalculator minMax;
@@ -244,6 +245,9 @@ else if (args[i].equals("-pyramid-resolutions")) {
           }
           catch (NumberFormatException e) { }
         }
+        else if (args[i].equals("-no-sequential")) {
+          noSequential = true;
+        }
         else if (!args[i].equals(CommandLineTools.NO_UPGRADE_CHECK)) {
           LOGGER.error("Found unknown command flag: {}; exiting.", args[i]);
           return false;
@@ -360,6 +364,7 @@ private void printUsage() {
       "              -tiley: image will be converted one tile at a time using the given tile height",
       "      -pyramid-scale: generates a pyramid image with each subsequent resolution level divided by scale",
       "-pyramid-resolutions: generates a pyramid image with the given number of resolution levels ",
+      "      -no-sequential: do not assume that planes are written in sequential order",
       "",
       "The extension of the output file specifies the file format to use",
       "for the conversion. The list of available formats and extensions is:",
@@ -605,7 +610,7 @@ public boolean testConvert(IFormatWriter writer, String[] args)
         throw new FormatException(e);
       }
     }
-    writer.setWriteSequentially(true);
+    writer.setWriteSequentially(!noSequential);
 
     if (writer instanceof TiffWriter) {
       ((TiffWriter) writer).setBigTiff(bigtiff);