Detect and write gzip outputs

Author: bbimber

SequenceAnalysis/src/org/labkey/sequenceanalysis/pipeline/ImportGenomeTrackTask.java

@@ -501,7 +501,7 @@ private void validateAndTransformTsv(File file, File out, Map<String, Pair<Strin
             getJob().getLogger().info("writing log of translation to : " + outLog.getPath());
         }
 
-        try (CSVReader reader = new CSVReader(IOUtil.openFileForBufferedReading(file), '\t', CSVWriter.NO_QUOTE_CHARACTER); CSVWriter writer = new CSVWriter(PrintWriters.getPrintWriter(out), '\t', CSVWriter.NO_QUOTE_CHARACTER, CSVWriter.NO_ESCAPE_CHARACTER);CSVWriter logWriter = new CSVWriter(PrintWriters.getPrintWriter(outLog), '\t', CSVWriter.NO_QUOTE_CHARACTER))
+        try (CSVReader reader = new CSVReader(IOUtil.openFileForBufferedReading(file), '\t', CSVWriter.NO_QUOTE_CHARACTER); CSVWriter writer = new CSVWriter(IOUtil.openFileForBufferedUtf8Writing(out), '\t', CSVWriter.NO_QUOTE_CHARACTER, CSVWriter.NO_ESCAPE_CHARACTER);CSVWriter logWriter = new CSVWriter(PrintWriters.getPrintWriter(outLog), '\t', CSVWriter.NO_QUOTE_CHARACTER))
         {
             if (getPipelineJob().doChrTranslation())
             {