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Use N5RemoveSpark to remove scale directories when replacing #2

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Use N5RemoveSpark to remove scale directories when replacing #2

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11 changes: 5 additions & 6 deletions src/main/java/org/janelia/saalfeldlab/hotknife/SparkConvertRenderStackToN5.java
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Original file line number Diff line number Diff line change
Expand Up @@ -33,11 +33,9 @@
import org.janelia.alignment.RenderParameters;
import org.janelia.alignment.util.ImageProcessorCache;
import org.janelia.saalfeldlab.hotknife.util.Grid;
import org.janelia.saalfeldlab.n5.DataType;
import org.janelia.saalfeldlab.n5.GzipCompression;
import org.janelia.saalfeldlab.n5.N5FSWriter;
import org.janelia.saalfeldlab.n5.N5Writer;
import org.janelia.saalfeldlab.n5.*;
import org.janelia.saalfeldlab.n5.imglib2.N5Utils;
import org.janelia.saalfeldlab.n5.spark.N5RemoveSpark;
import org.janelia.saalfeldlab.n5.spark.supplier.N5WriterSupplier;
import org.kohsuke.args4j.CmdLineException;
import org.kohsuke.args4j.CmdLineParser;
Expand Down Expand Up @@ -427,8 +425,9 @@ public static final void main(final String... args) throws IOException, Interrup
for(File f : datasetDir.listFiles()) {
// try/catch to check for int parse errors which happen if this is not a scale dir
try {
if (f.isDirectory() && f.getName().startsWith("s") && Integer.parseInt(f.getName().substring(1)) > 0)
FileUtils.deleteDirectory(f);
if (f.isDirectory() && f.getName().startsWith("s") && Integer.parseInt(f.getName().substring(1)) > 0) {
N5RemoveSpark.remove(sc, n5Supplier, Paths.get(datasetName, f.getName()).toString());
}
} catch( Exception ignored ) {
}
}
Expand Down