You can use the following sample code for using Sqoop in your Java Program for importing data from MySQL to HDFS/HBase. Make sure you have Sqoop jar in your classpath
SqoopOptions options = new SqoopOptions();
options.setConnectString("jdbc:mysql://HOSTNAME:PORT/DATABASE_NAME");
//options.setTableName("TABLE_NAME");
//options.setWhereClause("id>10"); // this where clause works when importing whole table, ie when setTableName() is used
options.setUsername("USERNAME");
options.setPassword("PASSWORD");
//options.setDirectMode(true); // Make sure the direct mode is off when importing data to HBase
options.setNumMappers(8); // Default value is 4
options.setSqlQuery("SELECT * FROM user_logs WHERE $CONDITIONS limit 10");
options.setSplitByCol("log_id");
// HBase options
options.setHBaseTable("HBASE_TABLE_NAME");
options.setHBaseColFamily("colFamily");
options.setCreateHBaseTable(true); // Create HBase table, if it does not exist
options.setHBaseRowKeyColumn("log_id");
int ret = new ImportTool().run(options);