Classes

Class	Line #	Total Statements	Complexity	Uncovered Elements	TOTAL Coverage	Actions
ComplexAlignFile	32	0	0	0	-1.0 -	Show methods

Class ComplexAlignFile

Class ComplexAlignFile	Line # 32	Total Statements 0	Complexity 0	Uncovered Elements 0	TOTAL Coverage -1.0 -

 

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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.api;
22
23		import jalview.datamodel.HiddenColumns;
24		import jalview.datamodel.SequenceI;
25
26		/**
27		* This interface should be implemented by complex file parser with the ability
28		* to store linked data and complex view states in addition to Alignment data
29		*
30		*
31		*/
		- Uncovered Elements: 0 (0) Complexity: 0 Complexity Density: -
32		public interface ComplexAlignFile
33		{
34		/**
35		* Determines if Sequence features should be shown
36		*
37		* @return
38		*/
39		public boolean isShowSeqFeatures();
40
41		/**
42		* Obtains the colour scheme from a complex file parser
43		*
44		* @return
45		*/
46		public String getGlobalColourScheme();
47
48		/**
49		* Retrieves the Column selection/hidden column from a complex file parser
50		*
51		* @return
52		*/
53		public HiddenColumns getHiddenColumns();
54
55		/**
56		* Retrieves hidden sequences from a complex file parser
57		*
58		* @return
59		*/
60		public SequenceI[] getHiddenSequences();
61
62		/**
63		* Retrieves displayed features from a complex file parser
64		*
65		* @return
66		*/
67		public FeaturesDisplayedI getDisplayedFeatures();
68		}