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package jalview.analysis.scoremodels; |
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import jalview.api.analysis.SimilarityParamsI; |
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@see |
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| 21.7% |
Uncovered Elements: 47 (60) |
Complexity: 18 |
Complexity Density: 0.58 |
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public class SimilarityParams implements SimilarityParamsI |
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{ |
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public static final SimilarityParamsI Jalview = new SimilarityParams(true, |
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true, true, true); |
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public static final SimilarityParamsI SeqSpace = new SimilarityParams( |
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true, false, true, true); |
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public static final SimilarityParamsI PID1 = new SimilarityParams(false, |
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false, true, false); |
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public static final SimilarityParamsI PID2 = new SimilarityParams(false, |
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false, false, false); |
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public static final SimilarityParamsI PID3 = new SimilarityParams(false, |
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false, false, true); |
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public static final SimilarityParamsI PID4 = new SimilarityParams(false, |
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false, true, true); |
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private boolean includeGappedColumns; |
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private boolean matchGaps; |
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private boolean includeGaps; |
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private boolean denominateByShortestLength; |
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@param |
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@param |
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@param |
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@param |
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| 100% |
Uncovered Elements: 0 (4) |
Complexity: 1 |
Complexity Density: 0.25 |
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public SimilarityParams(boolean includeGapGap, boolean matchGapResidue,... |
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boolean includeGapResidue, boolean shortestLength) |
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{ |
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includeGappedColumns = includeGapGap; |
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matchGaps = matchGapResidue; |
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includeGaps = includeGapResidue; |
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denominateByShortestLength = shortestLength; |
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} |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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2846 |
@Override... |
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public boolean includeGaps() |
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{ |
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return includeGaps; |
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} |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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@Override... |
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public boolean denominateByShortestLength() |
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{ |
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return denominateByShortestLength; |
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} |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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1341 |
@Override... |
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public boolean includeGappedColumns() |
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{ |
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return includeGappedColumns; |
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} |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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@Override... |
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public boolean matchGaps() |
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{ |
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return matchGaps; |
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} |
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| 0% |
Uncovered Elements: 15 (15) |
Complexity: 5 |
Complexity Density: 0.71 |
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@Override... |
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public int hashCode() |
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{ |
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final int prime = 31; |
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int result = 1; |
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result = prime * result + (denominateByShortestLength ? 1231 : 1237); |
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result = prime * result + (includeGappedColumns ? 1231 : 1237); |
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result = prime * result + (includeGaps ? 1231 : 1237); |
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result = prime * result + (matchGaps ? 1231 : 1237); |
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return result; |
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} |
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| 0% |
Uncovered Elements: 30 (30) |
Complexity: 8 |
Complexity Density: 0.5 |
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@Override... |
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public boolean equals(Object obj) |
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{ |
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if (this == obj) |
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{ |
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return true; |
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} |
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if (obj == null) |
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{ |
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return false; |
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} |
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if (getClass() != obj.getClass()) |
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{ |
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return false; |
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} |
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SimilarityParams other = (SimilarityParams) obj; |
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if (denominateByShortestLength != other.denominateByShortestLength) |
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{ |
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return false; |
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} |
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if (includeGappedColumns != other.includeGappedColumns) |
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{ |
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return false; |
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} |
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if (includeGaps != other.includeGaps) |
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{ |
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return false; |
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} |
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if (matchGaps != other.matchGaps) |
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{ |
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return false; |
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} |
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return true; |
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} |
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} |