Mercurial > repos > yufei-luo > s_mart

comparison smart_toolShed/SMART/Java/FormatsContainer.java @ 0:e0f8dcca02ed

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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
author yufei-luo
date Thu, 17 Jan 2013 10:52:14 -0500
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-1:000000000000 0:e0f8dcca02ed
1 /**
2 *
3 * Copyright INRA-URGI 2009-2010
4 *
5 * This software is governed by the CeCILL license under French law and
6 * abiding by the rules of distribution of free software. You can use,
7 * modify and/ or redistribute the software under the terms of the CeCILL
8 * license as circulated by CEA, CNRS and INRIA at the following URL
9 * "http://www.cecill.info".
10 *
11 * As a counterpart to the access to the source code and rights to copy,
12 * modify and redistribute granted by the license, users are provided only
13 * with a limited warranty and the software's author, the holder of the
14 * economic rights, and the successive licensors have only limited
15 * liability.
16 *
17 * In this respect, the user's attention is drawn to the risks associated
18 * with loading, using, modifying and/or developing or reproducing the
19 * software by the user in light of its specific status of free software,
20 * that may mean that it is complicated to manipulate, and that also
21 * therefore means that it is reserved for developers and experienced
22 * professionals having in-depth computer knowledge. Users are therefore
23 * encouraged to load and test the software's suitability as regards their
24 * requirements in conditions enabling the security of their systems and/or
25 * data to be ensured and, more generally, to use and operate it in the
26 * same conditions as regards security.
27 *
28 * The fact that you are presently reading this means that you have had
29 * knowledge of the CeCILL license and that you accept its terms.
30 *
31 */
32 import java.util.*;
33
34 public class FormatsContainer {
35
36 HashMap < String, FormatType > formatTypes;
37
38
39 public FormatsContainer() {
40 this.formatTypes = new HashMap < String, FormatType > ();
41 }
42
43
44 public void addFormat(String type, String format) {
45 FormatType formatType;
46 if (formatTypes.containsKey(type)) {
47 formatType = this.formatTypes.get(type);
48 }
49 else {
50 formatType = new FormatType(type);
51 this.formatTypes.put(type, formatType);
52 }
53 formatType.addFormat(format);
54 }
55
56
57 public Vector < String > getFormatTypes () {
58 Vector < String > v = new Vector < String > ();
59 v.addAll(this.formatTypes.keySet());
60 return v;
61 }
62
63
64 public FormatType getFormats (String type) {
65 if (! formatTypes.containsKey(type)) {
66 System.out.print("Format type " + type + " is unavailable. Got: ");
67 Iterator it = formatTypes.entrySet().iterator();
68 while (it.hasNext()) {
69 Map.Entry pairs = (Map.Entry) it.next();
70 System.out.print(pairs.getKey() + " ");
71 }
72 System.out.println();
73 }
74 return formatTypes.get(type);
75 }
76
77
78 public String getFormatType (String format) {
79 for (Iterator it = formatTypes.keySet().iterator(); it.hasNext(); ) {
80 Object type = it.next();
81 Object formatType = formatTypes.get(type);
82 if (((FormatType) formatType).containsFormat(format)) {
83 return (String) type;
84 }
85 }
86 return null;
87 }
88 }
89
90