Examples with NetCDFFileExportMethod io.github.msdk.io.netcdf.NetCDFFileExportMethod used on opensource projects

Example 1 with NetCDFFileExportMethod

use of io.github.msdk.io.netcdf.NetCDFFileExportMethod in project mzmine2 by mzmine.

the class RawDataExportTask method run.

/**
 * @see Runnable#run()
 */
public void run() {
    try {
        setStatus(TaskStatus.PROCESSING);
        logger.info("Started export of file " + dataFile + " to " + outFilename);
        MZmineToMSDKRawDataFile msdkDataFile = new MZmineToMSDKRawDataFile(dataFile);
        if (outFilename.getName().toLowerCase().endsWith("mzml")) {
            msdkMethod = new MzMLFileExportMethod(msdkDataFile, outFilename, MzMLCompressionType.ZLIB, MzMLCompressionType.ZLIB);
        }
        if (outFilename.getName().toLowerCase().endsWith("cdf")) {
            msdkMethod = new NetCDFFileExportMethod(msdkDataFile, outFilename);
        }
        if (isCanceled())
            return;
        msdkMethod.execute();
        setStatus(TaskStatus.FINISHED);
        logger.info("Finished export of file " + dataFile + " to " + outFilename);
    } catch (Exception e) {
        e.printStackTrace();
        setStatus(TaskStatus.ERROR);
        setErrorMessage("Error in file export: " + e.getMessage());
    }
}