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ExperimentDataHandler File->FileLike #1057

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Merged
labkey-jeckels merged 2 commits into from
Oct 16, 2025
Merged

ExperimentDataHandler File->FileLike #1057

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3f80a64
ExperimentDataHandler File->FileLike
labkey-jeckels Oct 11, 2025
2b7d3e2
Merge branch 'develop' into fb_adoptFileLike
labkey-jeckels Oct 14, 2025
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6 changes: 4 additions & 2 deletions snd/src/org/labkey/snd/pipeline/SNDDataHandler.java
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Original file line number Diff line number Diff line change
Expand Up @@ -45,6 +45,7 @@
import org.labkey.data.xml.ColumnType;
import org.labkey.data.xml.ValidatorType;
import org.labkey.data.xml.ValidatorsType;
import org.labkey.vfs.FileLike;
import org.txbiomed.snd.AttributesType;
import org.txbiomed.snd.ChildType;
import org.txbiomed.snd.ExportDocument;
Expand All @@ -57,6 +58,7 @@
import java.io.File;
import java.io.FileInputStream;
import java.io.IOException;
import java.io.InputStream;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.LinkedList;
Expand All @@ -77,7 +79,7 @@ public class SNDDataHandler extends AbstractExperimentDataHandler
}

@Override
public void importFile(@NotNull ExpData data, File dataFile, @NotNull ViewBackgroundInfo info, @NotNull Logger log, @NotNull XarContext context) throws ExperimentException
public void importFile(@NotNull ExpData data, @NotNull FileLike dataFile, @NotNull ViewBackgroundInfo info, @NotNull Logger log, @NotNull XarContext context) throws ExperimentException
{
ExportDocument exportDocument;
String inputFileName = dataFile.getName();
Expand All @@ -92,7 +94,7 @@ public void importFile(@NotNull ExpData data, File dataFile, @NotNull ViewBackgr
}

//read xml data
try(FileInputStream in = FileUtils.openInputStream(dataFile))
try(InputStream in = dataFile.openInputStream())
{
XmlOptions options = XmlBeansUtil.getDefaultParseOptions();
options.setValidateStrict();
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