io.github.msdk.util.MsScanUtil.java Source code

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Here is the source code for io.github.msdk.util.MsScanUtil.java

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/* 
 * (C) Copyright 2015-2016 by MSDK Development Team
 *
 * This software is dual-licensed under either
 *
 * (a) the terms of the GNU Lesser General Public License version 2.1
 * as published by the Free Software Foundation
 *
 * or (per the licensee's choosing)
 *
 * (b) the terms of the Eclipse Public License v1.0 as published by
 * the Eclipse Foundation.
 */

package io.github.msdk.util;

import javax.annotation.Nonnull;

import com.google.common.base.Preconditions;

import io.github.msdk.datamodel.datastore.DataPointStore;
import io.github.msdk.datamodel.impl.MSDKObjectBuilder;
import io.github.msdk.datamodel.rawdata.MsScan;

/**
 * <p>
 * MsScanUtil class.
 * </p>
 */
public class MsScanUtil {

    /**
     * <p>
     * clone.
     * </p>
     *
     * @param newStore
     *            a {@link io.github.msdk.datamodel.datastore.DataPointStore}
     *            object.
     * @param scan
     *            a {@link io.github.msdk.datamodel.rawdata.MsScan} object.
     * @param copyDataPoints
     *            a {@link java.lang.Boolean} object.
     * @return a {@link io.github.msdk.datamodel.rawdata.MsScan} object.
     */
    @Nonnull
    static public MsScan clone(@Nonnull DataPointStore newStore, @Nonnull MsScan scan,
            @Nonnull Boolean copyDataPoints) {

        Preconditions.checkNotNull(newStore);
        Preconditions.checkNotNull(scan);
        Preconditions.checkNotNull(copyDataPoints);

        MsScan newScan = MSDKObjectBuilder.getMsScan(newStore, scan.getScanNumber(), scan.getMsFunction());

        newScan.setPolarity(scan.getPolarity());
        newScan.setMsScanType(scan.getMsScanType());
        newScan.setScanningRange(scan.getScanningRange());
        newScan.setChromatographyInfo(scan.getChromatographyInfo());
        newScan.setSourceInducedFragmentation(scan.getSourceInducedFragmentation());
        newScan.getIsolations().addAll(scan.getIsolations());

        if (copyDataPoints) {
            double mzValues[] = scan.getMzValues();
            float intensityValues[] = scan.getIntensityValues();
            newScan.setDataPoints(mzValues, intensityValues, scan.getNumberOfDataPoints());
        }

        return newScan;
    }

}