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Merge branch 'master' of ssh://github.com/OpenRefine/OpenRefine

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This commit is contained in:
Antonin Delpeuch 2019-05-15 10:33:19 +01:00
commit 04af293481
8 changed files with 158 additions and 21 deletions
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2
README.md
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@ -1,6 +1,6 @@
# OpenRefine
[![Join the chat at https://gitter.im/OpenRefine/OpenRefine](https://badges.gitter.im/OpenRefine/OpenRefine.svg)](https://gitter.im/OpenRefine/OpenRefine?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) [![Build Status](https://travis-ci.org/OpenRefine/OpenRefine.png?branch=master)](https://travis-ci.org/OpenRefine/OpenRefine) [![Codacy Badge](https://api.codacy.com/project/badge/Grade/210578308bba42c5922c767493e83cf4)](https://www.codacy.com/app/OpenRefine/OpenRefine) [![Codacy Badge](https://api.codacy.com/project/badge/Coverage/210578308bba42c5922c767493e83cf4)](https://www.codacy.com/app/OpenRefine/OpenRefine) [![Translation progress](https://hosted.weblate.org/widgets/openrefine/-/svg-badge.svg)](https://hosted.weblate.org/engage/openrefine/?utm_source=widget)
[![Join the chat at https://gitter.im/OpenRefine/OpenRefine](https://badges.gitter.im/OpenRefine/OpenRefine.svg)](https://gitter.im/OpenRefine/OpenRefine?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge) [![Build Status](https://travis-ci.org/OpenRefine/OpenRefine.svg?branch=master)](https://travis-ci.org/OpenRefine/OpenRefine) [![Codacy Badge](https://api.codacy.com/project/badge/Grade/210578308bba42c5922c767493e83cf4)](https://www.codacy.com/app/OpenRefine/OpenRefine) [![Codacy Badge](https://api.codacy.com/project/badge/Coverage/210578308bba42c5922c767493e83cf4)](https://www.codacy.com/app/OpenRefine/OpenRefine) [![Translation progress](https://hosted.weblate.org/widgets/openrefine/-/svg-badge.svg)](https://hosted.weblate.org/engage/openrefine/?utm_source=widget)
OpenRefine is a Java-based power tool that allows you to load data, understand it,
clean it up, reconcile it, and augment it with data coming from

3
main/src/com/google/refine/commands/history/ApplyOperationsCommand.java
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@ -45,6 +45,7 @@ import com.fasterxml.jackson.databind.node.ObjectNode;
import com.google.refine.commands.Command;
import com.google.refine.model.AbstractOperation;
import com.google.refine.model.Project;
import com.google.refine.operations.UnknownOperation;
import com.google.refine.process.Process;
import com.google.refine.util.ParsingUtilities;
@ -79,7 +80,7 @@ public class ApplyOperationsCommand extends Command {
protected void reconstructOperation(Project project, ObjectNode obj) throws IOException {
AbstractOperation operation = ParsingUtilities.mapper.convertValue(obj, AbstractOperation.class);
if (operation != null) {
if (operation != null && !(operation instanceof UnknownOperation)) {
try {
Process process = operation.createProcess(project, new Properties());

6
main/src/com/google/refine/io/FileHistoryEntryManager.java
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@ -64,7 +64,11 @@ public class FileHistoryEntryManager implements HistoryEntryManager{
@Override
public void save(HistoryEntry historyEntry, Writer writer, Properties options) {
try {
ParsingUtilities.defaultWriter.writeValue(writer, historyEntry);
if("save".equals(options.getProperty("mode"))) {
ParsingUtilities.saveWriter.writeValue(writer, historyEntry);
} else {
ParsingUtilities.defaultWriter.writeValue(writer, historyEntry);
}
} catch (IOException e) {
e.printStackTrace();
}

3
main/src/com/google/refine/model/AbstractOperation.java
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@ -51,7 +51,8 @@ import com.google.refine.process.QuickHistoryEntryProcess;
@JsonTypeInfo(
use=JsonTypeInfo.Id.CUSTOM,
include=JsonTypeInfo.As.PROPERTY,
property="op")
property="op",
visible=true) // for UnknownOperation, which needs to read its own id
@JsonTypeIdResolver(OperationResolver.class)
abstract public class AbstractOperation {
public Process createProcess(Project project, Properties options) throws Exception {

13
main/src/com/google/refine/operations/OperationResolver.java
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@ -51,11 +51,20 @@ public class OperationResolver extends TypeIdResolverBase {
@Override
public String idFromValueAndType(Object instance, Class<?> type) {
return OperationRegistry.s_opClassToName.get(type);
String id = OperationRegistry.s_opClassToName.get(type);
if (id != null) {
return id;
} else { // this happens for an UnknownOperation
return ((AbstractOperation) instance).getOperationId();
}
}
@Override
public JavaType typeFromId(DatabindContext context, String id) throws IOException {
return factory.constructSimpleType(OperationRegistry.resolveOperationId(id), new JavaType[0]);
Class<? extends AbstractOperation> opClass = OperationRegistry.resolveOperationId(id);
if (opClass == null) {
opClass = UnknownOperation.class;
}
return factory.constructSimpleType(opClass, new JavaType[0]);
}
}

62
main/src/com/google/refine/operations/UnknownOperation.java Normal file
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@ -0,0 +1,62 @@
package com.google.refine.operations;
import java.util.HashMap;
import java.util.Map;
import com.fasterxml.jackson.annotation.JsonAnyGetter;
import com.fasterxml.jackson.annotation.JsonAnySetter;
import com.fasterxml.jackson.annotation.JsonCreator;
import com.fasterxml.jackson.annotation.JsonProperty;
import com.google.refine.model.AbstractOperation;
import com.google.refine.model.Project;
/**
* An operation that is unknown to the current OpenRefine
* instance, but might be interpretable by another instance
* (for instance, a later version of OpenRefine, or using
* an extension).
*
* This class holds the JSON serialization of the operation,
* in the interest of being able to serialize it later, hence
* avoiding to discard it and lose metadata.
*
* @author Antonin Delpeuch
*
*/
public class UnknownOperation extends AbstractOperation {
// Map storing the JSON serialization of the operation in an agnostic way
private Map<String, Object> properties;
// Operation code and description stored separately
private String opCode;
private String description;
@JsonCreator
public UnknownOperation(
@JsonProperty("op") String opCode,
@JsonProperty("description") String description) {
properties = new HashMap<>();
this.opCode = opCode;
this.description = description;
}
@JsonAnySetter
public void setAttribute(String key, Object value) {
properties.put(key, value);
}
@JsonAnyGetter
public Map<String,Object> getAttributes() {
return properties;
}
@JsonProperty("op")
public String getOperationId() {
return opCode;
}
protected String getBriefDescription(Project project) {
return description;
}
}

40
main/tests/server/src/com/google/refine/tests/history/FileHistoryEntryManagerTests.java Normal file
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@ -0,0 +1,40 @@
package com.google.refine.tests.history;
import static org.mockito.Mockito.mock;
import java.io.IOException;
import java.io.StringWriter;
import java.util.Properties;
import org.testng.annotations.BeforeMethod;
import org.testng.annotations.Test;
import com.google.refine.history.HistoryEntry;
import com.google.refine.io.FileHistoryEntryManager;
import com.google.refine.model.Project;
import com.google.refine.operations.OperationRegistry;
import com.google.refine.operations.column.ColumnAdditionOperation;
import com.google.refine.tests.RefineTest;
import com.google.refine.tests.util.TestUtils;
public class FileHistoryEntryManagerTests extends RefineTest {
Project project;
FileHistoryEntryManager sut = new FileHistoryEntryManager();
@BeforeMethod
public void setUp() {
project = mock(Project.class);
OperationRegistry.registerOperation(getCoreModule(), "column-addition", ColumnAdditionOperation.class);
}
@Test
public void testWriteHistoryEntry() throws IOException {
StringWriter writer = new StringWriter();
HistoryEntry historyEntry = HistoryEntry.load(project, HistoryEntryTests.fullJson);
Properties options = new Properties();
options.setProperty("mode", "save");
sut.save(historyEntry, writer, options);
TestUtils.equalAsJson(HistoryEntryTests.fullJson, writer.toString());
}
}

50
main/tests/server/src/com/google/refine/tests/history/HistoryEntryTests.java
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@ -28,6 +28,8 @@ package com.google.refine.tests.history;
import static org.mockito.Mockito.mock;
import java.io.IOException;
import org.testng.annotations.BeforeMethod;
import org.testng.annotations.BeforeTest;
import org.testng.annotations.Test;
@ -40,6 +42,30 @@ import com.google.refine.tests.RefineTest;
import com.google.refine.tests.util.TestUtils;
public class HistoryEntryTests extends RefineTest {
public static final String fullJson = "{"
+ "\"id\":1533633623158,"
+ "\"description\":\"Create new column uri based on column country by filling 269 rows with grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ "\"time\":\"2018-08-07T09:06:37Z\","
+ "\"operation\":{\"op\":\"core/column-addition\","
+ " \"description\":\"Create column uri at index 2 based on column country using expression grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ " \"engineConfig\":{\"mode\":\"row-based\",\"facets\":[]},"
+ " \"newColumnName\":\"uri\","
+ " \"columnInsertIndex\":2,"
+ " \"baseColumnName\":\"country\","
+ " \"expression\":\"grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ " \"onError\":\"set-to-blank\"}"
+ "}";
public static final String unknownOperationJson = "{"
+ "\"id\":1533633623158,"
+ "\"description\":\"some mysterious operation\","
+ "\"time\":\"2018-08-07T09:06:37Z\","
+ "\"operation\":{\"op\":\"someextension/unknown-operation\","
+ " \"description\":\"some mysterious operation\","
+ " \"some_parameter\":234\n"
+ "}\n"
+ "}";
Project project;
@ -63,26 +89,20 @@ public class HistoryEntryTests extends RefineTest {
@Test
public void serializeHistoryEntryWithOperation() throws Exception {
String json = "{"
+ "\"id\":1533633623158,"
+ "\"description\":\"Create new column uri based on column country by filling 269 rows with grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ "\"time\":\"2018-08-07T09:06:37Z\","
+ "\"operation\":{\"op\":\"core/column-addition\","
+ " \"description\":\"Create column uri at index 2 based on column country using expression grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ " \"engineConfig\":{\"mode\":\"row-based\",\"facets\":[]},"
+ " \"newColumnName\":\"uri\","
+ " \"columnInsertIndex\":2,"
+ " \"baseColumnName\":\"country\","
+ " \"expression\":\"grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ " \"onError\":\"set-to-blank\"}"
+ "}";
String jsonSimple = "{"
+ "\"id\":1533633623158,"
+ "\"description\":\"Create new column uri based on column country by filling 269 rows with grel:\\\"https://www.wikidata.org/wiki/\\\"+cell.recon.match.id\","
+ "\"time\":\"2018-08-07T09:06:37Z\"}";
HistoryEntry historyEntry = HistoryEntry.load(project, json);
HistoryEntry historyEntry = HistoryEntry.load(project, fullJson);
TestUtils.isSerializedTo(historyEntry, jsonSimple, false);
TestUtils.isSerializedTo(historyEntry, json, true);
TestUtils.isSerializedTo(historyEntry, fullJson, true);
}
@Test
public void deserializeUnknownOperation() throws IOException {
// Unknown operations are serialized back as they were parsed
HistoryEntry entry = HistoryEntry.load(project, unknownOperationJson);
TestUtils.isSerializedTo(entry, unknownOperationJson, true);
}
}