1 /*--------------------------------------------------------------------------
2 * Copyright 2008 utgenome.org
3 *
4 * Licensed under the Apache License, Version 2.0 (the "License");
5 * you may not use this file except in compliance with the License.
6 * You may obtain a copy of the License at
7 *
8 * http://www.apache.org/licenses/LICENSE-2.0
9 *
10 * Unless required by applicable law or agreed to in writing, software
11 * distributed under the License is distributed on an "AS IS" BASIS,
12 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
13 * See the License for the specific language governing permissions and
14 * limitations under the License.
15 *--------------------------------------------------------------------------*/
16 //--------------------------------------
17 // utgb-shell Project
18 //
19 // FastqToSAM.java
20 // Since: Jul 12, 2010
21 //
22 // $URL$
23 // $Author$
24 //--------------------------------------
25 package org.utgenome.shell;
26
27 import org.utgenome.format.fastq.FastqToBAM;
28
29 public class FastqToSAM extends UTGBShellCommand {
30
31 @Override
32 public void execute(String[] args) throws Exception {
33
34 FastqToBAM.execute(args);
35 }
36
37 @Override
38 public String getOneLinerDescription() {
39 return "convert fastq files into SAM/BAM format";
40 }
41
42 @Override
43 public String name() {
44 return "fastq2sam";
45 }
46
47 }