Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
Residue	25	8	4	1.0100%	Show methods

Class Residue

Class Residue	Line # 25	Total Statements 8	Complexity 4	TOTAL Coverage 1.0100%
Residue(Vector<Atom>,int,int)   Residue(Vector<Atom>,int,int)	3333	3.03	1.01	1.0 1.0100%
findAtom(String) : Atom   findAtom(String) : Atom	4040	4.04	2.02	1.0 1.0100%
getAtoms() : Vector<Atom>   getAtoms() : Vector<Atom>	5353	1.01	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.84615386	jalview.ext.jmol.JmolParserTest.testFileParserjalview.ext.jmol.JmolParserTest.testFileParser	1PASS
	0.84615386	jalview.structure.StructureSelectionManagerTest.testSetMapping_seqFeaturesjalview.structure.StructureSelectionManagerTest.testSetMapping_seqFeatures	1PASS
	0.84615386	mc_view.PDBfileTest.testParse_withJmol_noAnnotationsmc_view.PDBfileTest.testParse_withJmol_noAnnotations	1PASS
	0.84615386	jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest	1PASS
	0.84615386	jalview.structures.models.AAStructureBindingModelTest.testImportPDBPreservesChainMappingsjalview.structures.models.AAStructureBindingModelTest.testImportPDBPreservesChainMappings	1PASS
	0.84615386	jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest	1PASS
	0.84615386	mc_view.ResidueTest.testFindAtommc_view.ResidueTest.testFindAtom	1PASS
	0.84615386	jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest	1PASS
	0.84615386	jalview.ext.jmol.JmolViewerTest.testSingleSeqViewJMoljalview.ext.jmol.JmolViewerTest.testSingleSeqViewJMol	1PASS
	0.84615386	mc_view.PDBChainTest.testMakeCaBondList_nucleotidemc_view.PDBChainTest.testMakeCaBondList_nucleotide	1PASS
	0.84615386	jalview.ext.jmol.JmolParserTest.testLocalPDBIdjalview.ext.jmol.JmolParserTest.testLocalPDBId	1PASS
	0.84615386	jalview.ext.jmol.JmolParserTest.testAlignmentLoaderjalview.ext.jmol.JmolParserTest.testAlignmentLoader	1PASS
	0.84615386	jalview.ext.jmol.JmolParserTest.testParse_alternativeResiduesjalview.ext.jmol.JmolParserTest.testParse_alternativeResidues	1PASS
	0.84615386	jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest	1PASS
	0.84615386	mc_view.PDBfileTest.testParse_withJmolAddAlignmentAnnotationsmc_view.PDBfileTest.testParse_withJmolAddAlignmentAnnotations	1PASS
	0.84615386	jalview.ext.jmol.JmolParserTest.testParse_missingResiduesjalview.ext.jmol.JmolParserTest.testParse_missingResidues	1PASS
	0.84615386	jalview.gui.AssociatePDBFileTest.testAssociatePDBFilejalview.gui.AssociatePDBFileTest.testAssociatePDBFile	1PASS
	0.84615386	jalview.ext.jmol.JmolViewerTest.testAddStrToSingleSeqViewJMoljalview.ext.jmol.JmolViewerTest.testAddStrToSingleSeqViewJMol	1PASS
	0.84615386	jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest	1PASS
	0.84615386	jalview.gui.StructureChooserTest.openStructureFileForSequenceTestjalview.gui.StructureChooserTest.openStructureFileForSequenceTest	1PASS
	0.7692308	mc_view.PDBChainTest.testMakeCaBondListmc_view.PDBChainTest.testMakeCaBondList	1PASS
	0.6923077	mc_view.PDBfileTest.testParsemc_view.PDBfileTest.testParse	1PASS
	0.6923077	mc_view.PDBfileTest.testParse_withAnnotations_noSSmc_view.PDBfileTest.testParse_withAnnotations_noSS	1PASS
	0.3846154	jalview.util.MapListTest.testLocateInFrom_noIntronsjalview.util.MapListTest.testLocateInFrom_noIntrons	1PASS
	0.3846154	jalview.util.MapListTest.testLocateInFrom_reverseStrandjalview.util.MapListTest.testLocateInFrom_reverseStrand	1PASS
	0.30769232	mc_view.PDBChainTest.testMakeExactMappingmc_view.PDBChainTest.testMakeExactMapping	1PASS
	0.30769232	jalview.util.MapListTest.testGetRangesjalview.util.MapListTest.testGetRanges	1PASS
	0.30769232	jalview.util.MapListTest.testGetPositionsForOffsetsjalview.util.MapListTest.testGetPositionsForOffsets	1PASS
	0.30769232	mc_view.PDBChainTest.testMakeResidueList_noAnnotationmc_view.PDBChainTest.testMakeResidueList_noAnnotation	1PASS
	0.30769232	mc_view.PDBChainTest.testMakeResidueList_withTempFactormc_view.PDBChainTest.testMakeResidueList_withTempFactor	1PASS
	0.15384616	jalview.util.MapListTest.testLocateInFrom_withOverlapjalview.util.MapListTest.testLocateInFrom_withOverlap	1PASS

 

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 mc_view;
22
23		import java.util.Vector;
24
		100% Uncovered Elements: 0 (13) Complexity: 4 Complexity Density: 0.5
25		public class Residue
26		{
27		Vector<Atom> atoms;
28
29		int number;
30
31		int count;
32
		100% Uncovered Elements: 0 (3) Complexity: 1 Complexity Density: 0.33
33	25863	public Residue(Vector<Atom> resAtoms, int number, int count)...
34		{
35	25863	this.atoms = resAtoms;
36	25863	this.number = number;
37	25863	this.count = count;
38		}
39
		100% Uncovered Elements: 0 (6) Complexity: 2 Complexity Density: 0.5
40	51438	public Atom findAtom(String name)...
41		{
42	51438	for (Atom atom : atoms)
43		{
44	51450	if (atom.name.equals(name))
45		{
46	51433	return atom;
47		}
48		}
49
50	5	return null;
51		}
52
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1
53	19037	public Vector<Atom> getAtoms()...
54		{
55	19037	return this.atoms;
56		}
57		}