1. Project Clover database Fri Dec 6 2024 13:47:14 GMT
  2. Package jalview.datamodel

File AllRowsCollection.java

 

Coverage histogram

../../img/srcFileCovDistChart9.png
12% of files have more coverage

Code metrics

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Classes

Class
Line #
Actions
AllRowsCollection 27 8 5
0.8461538684.6%
 

Contributing tests

This file is covered by 1 test. .

Source view

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 toggle 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 toggle @Override
46    public Iterator<Integer> iterator()
47    {
48  15 return new AllRowsIterator(start, end, alignment);
49    }
50   
 
51  0 toggle @Override
52    public boolean isHidden(int seq)
53    {
54  0 return hidden.isHidden(seq);
55    }
56   
 
57  171 toggle @Override
58    public SequenceI getSequence(int seq)
59    {
60  171 return alignment.getSequenceAtAbsoluteIndex(seq);
61    }
62   
 
63  15 toggle @Override
64    public boolean hasHidden()
65    {
66  15 return (hidden.getSize() > 0);
67    }
68    }