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package jalview.datamodel.features; |
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import jalview.datamodel.ContiguousI; |
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import java.util.ArrayList; |
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import java.util.List; |
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@param |
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| 98% |
Uncovered Elements: 2 (102) |
Complexity: 37 |
Complexity Density: 0.7 |
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class NCNode<V extends ContiguousI> implements ContiguousI |
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{ |
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private int size; |
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private V region; |
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private NCList<V> subregions; |
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@param |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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NCNode(List<V> ranges)... |
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{ |
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build(ranges); |
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} |
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@param |
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| 100% |
Uncovered Elements: 0 (3) |
Complexity: 1 |
Complexity Density: 0.33 |
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NCNode(V range)... |
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{ |
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List<V> ranges = new ArrayList<>(); |
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ranges.add(range); |
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build(ranges); |
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} |
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| 100% |
Uncovered Elements: 0 (3) |
Complexity: 1 |
Complexity Density: 0.33 |
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NCNode(V entry, NCList<V> newNCList)... |
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{ |
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region = entry; |
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subregions = newNCList; |
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size = 1 + newNCList.size(); |
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} |
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@param |
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| 88.9% |
Uncovered Elements: 1 (9) |
Complexity: 3 |
Complexity Density: 0.6 |
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protected void build(List<V> ranges)... |
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{ |
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size = ranges.size(); |
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if (!ranges.isEmpty()) |
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{ |
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region = ranges.get(0); |
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} |
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if (ranges.size() > 1) |
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{ |
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subregions = new NCList<V>(ranges.subList(1, ranges.size())); |
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} |
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} |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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46099 |
@Override... |
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public int getBegin() |
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{ |
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return region.getBegin(); |
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} |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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32546 |
@Override... |
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public int getEnd() |
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{ |
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return region.getEnd(); |
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} |
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| 100% |
Uncovered Elements: 0 (7) |
Complexity: 2 |
Complexity Density: 0.4 |
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@Override... |
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public String toString() { |
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StringBuilder sb = new StringBuilder(10 * size); |
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sb.append(region.getBegin()).append("-").append(region.getEnd()); |
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if (subregions != null) |
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{ |
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sb.append(" ").append(subregions.toString()); |
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} |
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return sb.toString(); |
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} |
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| 100% |
Uncovered Elements: 0 (10) |
Complexity: 3 |
Complexity Density: 0.5 |
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void prettyPrint(StringBuilder sb, int offset, int indent) {... |
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for (int i = 0 ; i < offset ; i++) { |
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sb.append(" "); |
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} |
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sb.append(region.getBegin()).append("-").append(region.getEnd()); |
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if (subregions != null) |
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{ |
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sb.append(System.lineSeparator()); |
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subregions.prettyPrint(sb, offset + 2, indent); |
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} |
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} |
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@param |
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@param |
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@param |
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| 87.5% |
Uncovered Elements: 1 (8) |
Complexity: 4 |
Complexity Density: 1 |
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1062 |
void findOverlaps(long from, long to, List<V> result)... |
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{ |
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if (region.getBegin() <= to && region.getEnd() >= from) |
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{ |
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result.add(region); |
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} |
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1062 |
if (subregions != null) |
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{ |
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subregions.findOverlaps(from, to, result); |
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} |
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} |
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@param |
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| 100% |
Uncovered Elements: 0 (10) |
Complexity: 4 |
Complexity Density: 0.67 |
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synchronized void add(V entry)... |
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{ |
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if (entry.getBegin() < region.getBegin() || entry.getEnd() > region.getEnd()) { |
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throw new IllegalArgumentException(String.format( |
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"adding improper subrange %d-%d to range %d-%d", |
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entry.getBegin(), entry.getEnd(), region.getBegin(), |
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region.getEnd())); |
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} |
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if (subregions == null) |
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{ |
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subregions = new NCList<V>(entry); |
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} |
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else |
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{ |
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subregions.add(entry); |
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} |
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size++; |
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} |
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@return |
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| 100% |
Uncovered Elements: 0 (9) |
Complexity: 4 |
Complexity Density: 0.8 |
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4538 |
boolean isValid()... |
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{ |
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if (region != null && region.getBegin() > region.getEnd()) |
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{ |
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return false; |
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} |
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4537 |
if (subregions == null) |
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{ |
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return true; |
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} |
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2553 |
return subregions.isValid(getBegin(), getEnd()); |
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} |
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@param |
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| 100% |
Uncovered Elements: 0 (5) |
Complexity: 2 |
Complexity Density: 0.67 |
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void getEntries(List<V> entries)... |
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{ |
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entries.add(region); |
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if (subregions != null) |
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{ |
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subregions.getEntries(entries); |
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} |
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} |
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@param |
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@return |
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| 100% |
Uncovered Elements: 0 (11) |
Complexity: 4 |
Complexity Density: 0.8 |
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30633 |
boolean contains(V entry)... |
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{ |
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30633 |
if (entry == null) |
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{ |
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1 |
return false; |
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} |
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30632 |
if (entry.equals(region)) |
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{ |
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2175 |
return true; |
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} |
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28457 |
return subregions == null ? false : subregions.contains(entry); |
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} |
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@return |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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1344 |
V getRegion()... |
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{ |
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return region; |
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} |
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@return |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
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1344 |
NCList<V> getSubRegions()... |
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{ |
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return subregions; |
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} |
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| 100% |
Uncovered Elements: 0 (4) |
Complexity: 3 |
Complexity Density: 1.5 |
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189 |
void deleteSubRegionsIfEmpty()... |
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{ |
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if (subregions != null && subregions.size() == 0) |
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{ |
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14 |
subregions = null; |
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} |
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} |
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@return |
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| 100% |
Uncovered Elements: 0 (1) |
Complexity: 1 |
Complexity Density: 1 |
|
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int size()... |
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{ |
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return size; |
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} |
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} |