Package org.broad.igv.tools.sort

Examples of org.broad.igv.tools.sort.Sorter.run()

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        }

        sorter.setMaxRecords(maxRecords);

        try {
            sorter.run();
        } catch (Exception e) {
            e.printStackTrace();
            // Delete output file as its probably corrupt
            if (writeStdOut && outputFile.exists()) {
                outputFile.delete();
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        for (File file : files) {
            if (file.getName().endsWith(".eqtl")) {

                File sortedFile = new File(file.getAbsolutePath() + ".sorted.eqtl");
                Sorter sorter = Sorter.getSorter(file, sortedFile);
                sorter.run();

                (new EqtlPreprocessor()).process(sortedFile.getAbsolutePath(), file.getAbsolutePath() + ".bin");
            }
        }
    }
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