Package org.bioinfo.ngs.qc.qualimap.common

Examples of org.bioinfo.ngs.qc.qualimap.common.LoggerThread

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        computeCountsTask.setAttrName(ComputeCountsTask.GENE_ID_ATTR);

        final JTextArea logArea = settingsDlg.getLogArea();
        logArea.setText("");

        computeCountsTask.setLogger( new LoggerThread() {
            @Override
            public void logLine(String msg) {
                logArea.append(msg + "\n");
                logArea.setCaretPosition(logArea.getText().length());
            }
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        if (!infoFile.isEmpty()) {
            countsAnalysis.setInfoFilePath(infoFile);
        }

        LoggerThread loggerThread = new LoggerThread() {
            public void logLine(String msg) {
                System.out.println(msg);
            }
        };
        countsAnalysis.setOutputParsingThread(loggerThread);
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        AnalysisResultManager resultManager = new AnalysisResultManager(AnalysisType.CLUSTERING);

        EpiAnalysis epiAnalysis = new EpiAnalysis(resultManager,homePath,cfg);

        LoggerThread loggerThread = new LoggerThread() {
            public void logLine(String msg) {
                System.out.println(msg);
            }
        };
        epiAnalysis.setOutputParsingThread(loggerThread);
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                new MultisampleBamQcAnalysis(resultManager, homePath, bamQcResults);
        if (runBamQCFirst) {
            multiBamQCAnalysis.setRunBamQcFirst(bamQcCfg);
        }

        LoggerThread loggerThread = new LoggerThread() {
            public void logLine(String msg) {
                System.out.println(msg);
            }
        };
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Related Classes of org.bioinfo.ngs.qc.qualimap.common.LoggerThread

  • org.bioinfo.ngs.qc.qualimap.gui.threads.RNASeqQCAnalysisThread
  • org.bioinfo.ngs.qc.qualimap.main.CountsQcTool
  • org.bioinfo.ngs.qc.qualimap.main.EpiTool
  • org.bioinfo.ngs.qc.qualimap.main.MultisampleBamQcTool
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