Class |
Line # |
Actions |
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AllRowsCollection | 27 | 8 | 5 |
1 | /* | |
2 | * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) | |
3 | * Copyright (C) $$Year-Rel$$ The Jalview Authors | |
4 | * | |
5 | * This file is part of Jalview. | |
6 | * | |
7 | * Jalview is free software: you can redistribute it and/or | |
8 | * modify it under the terms of the GNU General Public License | |
9 | * as published by the Free Software Foundation, either version 3 | |
10 | * of the License, or (at your option) any later version. | |
11 | * | |
12 | * Jalview is distributed in the hope that it will be useful, but | |
13 | * WITHOUT ANY WARRANTY; without even the implied warranty | |
14 | * of MERCHANTABILITY or FITNESS FOR A PARTICULAR | |
15 | * PURPOSE. See the GNU General Public License for more details. | |
16 | * | |
17 | * You should have received a copy of the GNU General Public License | |
18 | * along with Jalview. If not, see <http://www.gnu.org/licenses/>. | |
19 | * The Jalview Authors are detailed in the 'AUTHORS' file. | |
20 | */ | |
21 | package jalview.datamodel; | |
22 | ||
23 | import jalview.api.AlignmentRowsCollectionI; | |
24 | ||
25 | import java.util.Iterator; | |
26 | ||
27 | public class AllRowsCollection implements AlignmentRowsCollectionI | |
28 | { | |
29 | int start; | |
30 | ||
31 | int end; | |
32 | ||
33 | AlignmentI alignment; | |
34 | ||
35 | HiddenSequences hidden; | |
36 | ||
37 | 15 | public AllRowsCollection(int s, int e, AlignmentI al) |
38 | { | |
39 | 15 | start = s; |
40 | 15 | end = e; |
41 | 15 | alignment = al; |
42 | 15 | hidden = al.getHiddenSequences(); |
43 | } | |
44 | ||
45 | 15 | @Override |
46 | public Iterator<Integer> iterator() | |
47 | { | |
48 | 15 | return new AllRowsIterator(start, end, alignment); |
49 | } | |
50 | ||
51 | 0 | @Override |
52 | public boolean isHidden(int seq) | |
53 | { | |
54 | 0 | return hidden.isHidden(seq); |
55 | } | |
56 | ||
57 | 171 | @Override |
58 | public SequenceI getSequence(int seq) | |
59 | { | |
60 | 171 | return alignment.getSequenceAtAbsoluteIndex(seq); |
61 | } | |
62 | ||
63 | 15 | @Override |
64 | public boolean hasHidden() | |
65 | { | |
66 | 15 | return (hidden.getSize() > 0); |
67 | } | |
68 | } |