本文整理汇总了Java中htsjdk.tribble.AsciiFeatureCodec.decode方法的典型用法代码示例。如果您正苦于以下问题：Java AsciiFeatureCodec.decode方法的具体用法？Java AsciiFeatureCodec.decode怎么用？Java AsciiFeatureCodec.decode使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类htsjdk.tribble.AsciiFeatureCodec的用法示例。
在下文中一共展示了AsciiFeatureCodec.decode方法的2个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Java代码示例。
示例1: makeTabixCompressedIndex
import htsjdk.tribble.AsciiFeatureCodec; //导入方法依赖的package包/类
private void makeTabixCompressedIndex(final File sourceFile, final File indexFile, final AsciiFeatureCodec codec,
final TabixFormat format) throws IOException {
TabixIndexCreator indexCreator = new TabixIndexCreator(format);
try (
BlockCompressedInputStream inputStream = new BlockCompressedInputStream(
new FileInputStream(sourceFile));
LittleEndianOutputStream outputStream = new LittleEndianOutputStream(
new BlockCompressedOutputStream(indexFile))
) {
long p = 0;
String line = inputStream.readLine();
while (line != null) {
//add the feature to the index
Feature decode = codec.decode(line);
if (decode != null) {
indexCreator.addFeature(decode, p);
}
// read the next line if available
p = inputStream.getFilePointer();
line = inputStream.readLine();
}
// write the index to a file
Index index = indexCreator.finalizeIndex(p);
// VERY important! either use write based on input file or pass the little endian a BGZF stream
index.write(outputStream);
}
}
示例2: createGeneCompressedIndex
import htsjdk.tribble.AsciiFeatureCodec; //导入方法依赖的package包/类
private void createGeneCompressedIndex(File indexFile, File file, GffCodec.GffType gffType) throws IOException {
AsciiFeatureCodec<GeneFeature> codec = new GffCodec(gffType);
TabixIndexCreator indexCreator = new TabixIndexCreator(TabixFormat.GFF);
try (
BlockCompressedInputStream inputStream = new BlockCompressedInputStream(new FileInputStream(file));
LittleEndianOutputStream outputStream = new LittleEndianOutputStream(
new BlockCompressedOutputStream(indexFile))
) {
long p = 0;
String line = inputStream.readLine();
while (line != null) {
//add the feature to the index
GeneFeature decode = codec.decode(line);
if (decode != null) {
indexCreator.addFeature(decode, p);
}
// read the next line if available
p = inputStream.getFilePointer();
line = inputStream.readLine();
}
// write the index to a file
Index index = indexCreator.finalizeIndex(p);
// VERY important! either use write based on input file or pass the little endian a BGZF stream
index.write(outputStream);
}
}