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Add generic taxonomy change processor #981

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merged 13 commits into from
Mar 9, 2022
Merged

Add generic taxonomy change processor #981

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249c419
feat(commons): Retire LongBidiMapWithInternalId in favor of...
apeteri Feb 17, 2022
237d501
feat(collections): Add copying factory method for IntValueMaps
apeteri Feb 17, 2022
9b30a35
feat(snomed): Use LongOrderedSet in TaxonomyGraph
apeteri Feb 17, 2022
e226f49
feat(commons): Add modified SparseFixedBitSet implementation
apeteri Feb 21, 2022
263e6e7
chore(commons): Clarify thrown exceptions in OrderedSet's javadoc
apeteri Feb 21, 2022
83be708
feat(core): Introduce string-based taxonomy graph implementation
apeteri Feb 21, 2022
6b33999
feat(core): Introduce generic taxonomy change processor for concept docs
apeteri Feb 21, 2022
ae8c60b
chore(commons): Update copyright date on PrimitiveMapFactory
apeteri Feb 21, 2022
dda1ac8
chore(fastutil): Update copyright date on FastUtilPrimitiveMapFactory
apeteri Feb 21, 2022
1b4b52c
chore(commons): Update copyright date on CompareUtils
apeteri Feb 21, 2022
a2d4107
chore(commons): Fix copyright date on new file LongOrderedSetImpl
apeteri Feb 21, 2022
bec7810
fix(commons): Return -1 from SparseFixedBitSet#nextSetBit if the...
apeteri Feb 22, 2022
f21f7e3
[taxonomy] Ensure updates don't get overwritten by taxonomy updates
AAAlinaaa Mar 8, 2022
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4 changes: 3 additions & 1 deletion ...nternational.collections.api/src/com/b2international/collections/PrimitiveMapFactory.java
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Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
/*
* Copyright 2011-2019 B2i Healthcare Pte Ltd, http://b2i.sg
* Copyright 2011-2022 B2i Healthcare Pte Ltd, http://b2i.sg
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
Expand Down Expand Up @@ -78,6 +78,8 @@ public interface PrimitiveMapFactory {

<K> IntValueMap<K> newObjectKeyIntOpenHashMapWithExpectedSize(int expectedSize);

<K> IntValueMap<K> newObjectKeyIntOpenHashMap(IntValueMap<K> source);

<K> LongValueMap<K> newObjectKeyLongOpenHashMap();

<K> LongValueMap<K> newObjectKeyLongOpenHashMapWithExpectedSize(int expectedSize);
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10 changes: 9 additions & 1 deletion ...om.b2international.collections.api/src/com/b2international/collections/PrimitiveMaps.java
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Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
/*
* Copyright 2011-2016 B2i Healthcare Pte Ltd, http://b2i.sg
* Copyright 2011-2022 B2i Healthcare Pte Ltd, http://b2i.sg
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
Expand Down Expand Up @@ -157,6 +157,14 @@ public static <K> IntValueMap<K> newObjectKeyIntOpenHashMap() {
public static <K> IntValueMap<K> newObjectKeyIntOpenHashMapWithExpectedSize(int expectedSize) {
return FACTORY.newObjectKeyIntOpenHashMapWithExpectedSize(expectedSize);
}

public static <K> IntValueMap<K> newObjectKeyIntOpenHashMap(IntValueMap<K> source) {
if (source == null) {
return newObjectKeyIntOpenHashMap();
} else {
return FACTORY.newObjectKeyIntOpenHashMap(source);
}
}

public static <K> LongValueMap<K> newObjectKeyLongOpenHashMap() {
return FACTORY.newObjectKeyLongOpenHashMap();
Expand Down
7 changes: 6 additions & 1 deletion ...collections.fastutil/src/com/b2international/collections/FastUtilPrimitiveMapFactory.java
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Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
/*
* Copyright 2011-2019 B2i Healthcare Pte Ltd, http://b2i.sg
* Copyright 2011-2022 B2i Healthcare Pte Ltd, http://b2i.sg
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
Expand Down Expand Up @@ -156,6 +156,11 @@ public <K> IntValueMap<K> newObjectKeyIntOpenHashMap() {
public <K> IntValueMap<K> newObjectKeyIntOpenHashMapWithExpectedSize(int expectedSize) {
return ObjectKeyIntMapWrapper.createWithExpectedSize(expectedSize);
}

@Override
public <K> IntValueMap<K> newObjectKeyIntOpenHashMap(IntValueMap<K> source) {
return ObjectKeyIntMapWrapper.create(source);
}

@Override
public <K> LongValueMap<K> newObjectKeyLongOpenHashMap() {
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12 changes: 5 additions & 7 deletions ...om.b2international.commons.test/src/com/b2international/commons/test/AllCommonsTests.java
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Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
/*
* Copyright 2011-2020 B2i Healthcare Pte Ltd, http://b2i.sg
* Copyright 2011-2022 B2i Healthcare Pte Ltd, http://b2i.sg
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
Expand All @@ -19,11 +19,7 @@
import org.junit.runners.Suite;
import org.junit.runners.Suite.SuiteClasses;

import com.b2international.commons.test.collect.BitSetTest;
import com.b2international.commons.test.collect.ByteOpenHashSetTest;
import com.b2international.commons.test.collect.EmptyLongListTest;
import com.b2international.commons.test.collect.IntOpenHashSetTest;
import com.b2international.commons.test.collect.LongOpenHashSetTest;
import com.b2international.commons.test.collect.*;
import com.b2international.commons.test.config.ConfigurationFactoryTest;

/**
Expand All @@ -39,7 +35,9 @@
ByteOpenHashSetTest.class,
IntOpenHashSetTest.class,
LongOpenHashSetTest.class,
EmptyLongListTest.class
EmptyLongListTest.class,
OrderedSetTest.class,
LongOrderedSetTest.class,
})
public class AllCommonsTests {
// Empty class body
Expand Down
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