/** * Sets the output stream that records will be written to. */ public void setOutputStream(final OutputStream os, final String filename) { this.binaryCodec.setOutputStream(os); this.binaryCodec.setOutputFileName(filename); }
/** * Sets the output stream that records will be written to. */ public void setOutputStream(final OutputStream os, final String filename) { this.binaryCodec.setOutputStream(os); this.binaryCodec.setOutputFileName(filename); }
/** Sets the output stream that records will be written to. */ public void setOutputStream(final OutputStream os, final String filename) { this.binaryCodec.setOutputStream(os); this.binaryCodec.setOutputFileName(filename); }
protected BAMFileWriter(final File path, final int compressionLevel) { blockCompressedOutputStream = new BlockCompressedOutputStream(path, compressionLevel); outputBinaryCodec = new BinaryCodec(new DataOutputStream(blockCompressedOutputStream)); outputBinaryCodec.setOutputFileName(path.getAbsolutePath()); }
protected BAMFileWriter(final File path) { blockCompressedOutputStream = new BlockCompressedOutputStream(path); outputBinaryCodec = new BinaryCodec(new DataOutputStream(blockCompressedOutputStream)); outputBinaryCodec.setOutputFileName(path.getAbsolutePath()); }
protected BAMFileWriter(final File path, final int compressionLevel) { blockCompressedOutputStream = new BlockCompressedOutputStream(path, compressionLevel); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(path.getAbsolutePath()); }
protected BAMFileWriter(final File path) { blockCompressedOutputStream = new BlockCompressedOutputStream(path); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(path.getAbsolutePath()); }
public BlockCompressedOutputStream(final OutputStream os, final File file, final int compressionLevel) { this.file = file; codec = new BinaryCodec(os); if (file != null) { codec.setOutputFileName(file.getAbsolutePath()); } deflater = DeflaterFactory.makeDeflater(compressionLevel, true); }
protected BAMFileWriter(final File path, final int compressionLevel) { blockCompressedOutputStream = new BlockCompressedOutputStream(path, compressionLevel); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(path.getAbsolutePath()); }
protected BAMFileWriter(final File path) { blockCompressedOutputStream = new BlockCompressedOutputStream(path); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(path.getAbsolutePath()); }
protected BAMFileWriter(final OutputStream os, final String absoluteFilename, final int compressionLevel, final DeflaterFactory deflaterFactory) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, (Path)null, compressionLevel, deflaterFactory); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(absoluteFilename); }
protected BAMFileWriter(final OutputStream os, final File file, final int compressionLevel) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file, compressionLevel); outputBinaryCodec = new BinaryCodec(new DataOutputStream(blockCompressedOutputStream)); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final File file) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file); outputBinaryCodec = new BinaryCodec(new DataOutputStream(blockCompressedOutputStream)); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final String absoluteFilename, final int compressionLevel, final DeflaterFactory deflaterFactory) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, (Path)null, compressionLevel, deflaterFactory); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(absoluteFilename); }
protected BAMFileWriter(final OutputStream os, final File file, final int compressionLevel, final DeflaterFactory deflaterFactory) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file, compressionLevel, deflaterFactory); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final File file, final int compressionLevel) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file, compressionLevel); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final File file) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final File file, final int compressionLevel) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file, compressionLevel); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final File file, final int compressionLevel, final DeflaterFactory deflaterFactory) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file, compressionLevel, deflaterFactory); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(getPathString(file)); }
protected BAMFileWriter(final OutputStream os, final File file) { blockCompressedOutputStream = new BlockCompressedOutputStream(os, file); outputBinaryCodec = new BinaryCodec(blockCompressedOutputStream); outputBinaryCodec.setOutputFileName(getPathString(file)); }