Package org.bioinfo.ngs.qc.qualimap.beans

Examples of org.bioinfo.ngs.qc.qualimap.beans.BamQCRegionReporter.writeReport()

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        bamQC.prepareInputDescription(reporter, paintChromosomeLimits);

    // save stats

        reporter.writeReport(bamQC.getBamStats(),outdir);

        AnalysisResultManager resultManager = new AnalysisResultManager(AnalysisType.BAM_QC);

        reporter.loadReportData(bamQC.getBamStats());
        reporter.computeChartsBuffers(bamQC.getBamStats(), bamQC.getLocator(), bamQC.isPairedData());
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            outsideReporter.setPaintChromosomeLimits(paintChromosomeLimits);
            if (!genomeToCompare.isEmpty()) {
                outsideReporter.setGenomeGCContentName(genomeToCompare);
            }
            bamQC.prepareInputDescription(outsideReporter, paintChromosomeLimits);
            outsideReporter.writeReport(bamQC.getOutsideBamStats(),outdir);

            outsideReporter.loadReportData(bamQC.getOutsideBamStats());
            outsideReporter.computeChartsBuffers(bamQC.getOutsideBamStats(), bamQC.getLocator(), bamQC.isPairedData());

            resultManager.addReporter(outsideReporter);
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