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GNU AFFERO GENERAL PUBLIC LICENSE
Version 3, 19 November 2007
Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/>
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Preamble
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<http://www.gnu.org/licenses/>.

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<artifactId>dhp-build-assembly-resources</artifactId>
<packaging>jar</packaging>
<description>This module contains a set of scripts supporting the build lifecycle for the dnet-hadoop project</description>
<build>
<plugins>
<plugin>

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dhp-build/dhp-build-properties-maven-plugin/pom.xml
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<artifactId>dhp-build-properties-maven-plugin</artifactId>
<packaging>maven-plugin</packaging>
<description>This module is a maven plugin implementing custom properties substitutions in the build lifecycle</description>
<dependencies>
<dependency>
<groupId>org.apache.maven</groupId>
<artifactId>maven-plugin-api</artifactId>
<version>2.0</version>
<version>3.6.3</version>
</dependency>
<dependency>
<groupId>org.apache.maven</groupId>
<artifactId>maven-project</artifactId>
<version>2.0</version>
<version>2.2.1</version>
</dependency>
<dependency>
<groupId>org.apache.maven</groupId>
<artifactId>maven-artifact</artifactId>
<version>2.2.1</version>
</dependency>
<dependency>
<groupId>org.kuali.maven.plugins</groupId>
<artifactId>properties-maven-plugin</artifactId>
<version>1.3.2</version>
<version>${properties.maven.plugin.version}</version>
</dependency>
<dependency>
<groupId>com.google.code.findbugs</groupId>
@ -73,44 +80,10 @@
<artifactId>maven-javadoc-plugin</artifactId>
<configuration>
<detectLinks>true</detectLinks>
<doclint>none</doclint>
</configuration>
</plugin>
</plugins>
<pluginManagement>
<plugins>
<!--This plugin's configuration is used to store Eclipse m2e settings only. It has no influence on the Maven build itself.-->
<plugin>
<groupId>org.eclipse.m2e</groupId>
<artifactId>lifecycle-mapping</artifactId>
<version>1.0.0</version>
<configuration>
<lifecycleMappingMetadata>
<pluginExecutions>
<pluginExecution>
<pluginExecutionFilter>
<groupId>
org.apache.maven.plugins
</groupId>
<artifactId>
maven-plugin-plugin
</artifactId>
<versionRange>
[3.2,)
</versionRange>
<goals>
<goal>descriptor</goal>
</goals>
</pluginExecutionFilter>
<action>
<ignore />
</action>
</pluginExecution>
</pluginExecutions>
</lifecycleMappingMetadata>
</configuration>
</plugin>
</plugins>
</pluginManagement>
</build>
</project>

101
dhp-build/dhp-build-properties-maven-plugin/src/main/java/eu/dnetlib/maven/plugin/properties/GenerateOoziePropertiesMojo.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.maven.plugin.properties;
import java.io.File;
@ -12,60 +13,64 @@ import org.apache.maven.plugin.MojoFailureException;
/**
* Generates oozie properties which were not provided from commandline.
* @author mhorst
*
* @author mhorst
* @goal generate-properties
*/
public class GenerateOoziePropertiesMojo extends AbstractMojo {
public static final String PROPERTY_NAME_WF_SOURCE_DIR = "workflow.source.dir";
public static final String PROPERTY_NAME_SANDBOX_NAME = "sandboxName";
private final String[] limiters = {"dhp", "dnetlib", "eu"};
@Override
public void execute() throws MojoExecutionException, MojoFailureException {
if (System.getProperties().containsKey(PROPERTY_NAME_WF_SOURCE_DIR) &&
!System.getProperties().containsKey(PROPERTY_NAME_SANDBOX_NAME)) {
String generatedSandboxName = generateSandboxName(System.getProperties().getProperty(
PROPERTY_NAME_WF_SOURCE_DIR));
if (generatedSandboxName!=null) {
System.getProperties().setProperty(PROPERTY_NAME_SANDBOX_NAME,
generatedSandboxName);
} else {
System.out.println("unable to generate sandbox name from path: " +
System.getProperties().getProperty(PROPERTY_NAME_WF_SOURCE_DIR));
}
}
}
/**
* Generates sandbox name from workflow source directory.
* @param wfSourceDir
* @return generated sandbox name
*/
private String generateSandboxName(String wfSourceDir) {
// utilize all dir names until finding one of the limiters
List<String> sandboxNameParts = new ArrayList<String>();
String[] tokens = StringUtils.split(wfSourceDir, File.separatorChar);
ArrayUtils.reverse(tokens);
if (tokens.length>0) {
for (String token : tokens) {
for (String limiter : limiters) {
if (limiter.equals(token)) {
return sandboxNameParts.size()>0?
StringUtils.join(sandboxNameParts.toArray()):null;
}
}
if (sandboxNameParts.size()>0) {
sandboxNameParts.add(0, File.separator);
}
sandboxNameParts.add(0, token);
}
return StringUtils.join(sandboxNameParts.toArray());
} else {
return null;
}
}
private final String[] limiters = {
"dhp", "dnetlib", "eu"
};
@Override
public void execute() throws MojoExecutionException, MojoFailureException {
if (System.getProperties().containsKey(PROPERTY_NAME_WF_SOURCE_DIR)
&& !System.getProperties().containsKey(PROPERTY_NAME_SANDBOX_NAME)) {
String generatedSandboxName = generateSandboxName(
System.getProperties().getProperty(PROPERTY_NAME_WF_SOURCE_DIR));
if (generatedSandboxName != null) {
System.getProperties().setProperty(PROPERTY_NAME_SANDBOX_NAME, generatedSandboxName);
} else {
System.out
.println(
"unable to generate sandbox name from path: "
+ System.getProperties().getProperty(PROPERTY_NAME_WF_SOURCE_DIR));
}
}
}
/**
* Generates sandbox name from workflow source directory.
*
* @param wfSourceDir
* @return generated sandbox name
*/
private String generateSandboxName(String wfSourceDir) {
// utilize all dir names until finding one of the limiters
List<String> sandboxNameParts = new ArrayList<String>();
String[] tokens = StringUtils.split(wfSourceDir, File.separatorChar);
ArrayUtils.reverse(tokens);
if (tokens.length > 0) {
for (String token : tokens) {
for (String limiter : limiters) {
if (limiter.equals(token)) {
return sandboxNameParts.size() > 0
? StringUtils.join(sandboxNameParts.toArray())
: null;
}
}
if (sandboxNameParts.size() > 0) {
sandboxNameParts.add(0, File.separator);
}
sandboxNameParts.add(0, token);
}
return StringUtils.join(sandboxNameParts.toArray());
} else {
return null;
}
}
}

701
dhp-build/dhp-build-properties-maven-plugin/src/main/java/eu/dnetlib/maven/plugin/properties/WritePredefinedProjectProperties.java
View File

@ -1,17 +1,15 @@
/**
*
* Licensed under the Educational Community License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
* Licensed under the Educational Community License, Version 2.0 (the "License"); you may not use
* this file except in compliance with the License. You may obtain a copy of the License at
*
* http://www.opensource.org/licenses/ecl2.php
* <p>http://www.opensource.org/licenses/ecl2.php
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* <p>Unless required by applicable law or agreed to in writing, software distributed under the
* License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either
* express or implied. See the License for the specific language governing permissions and
* limitations under the License.
*/
package eu.dnetlib.maven.plugin.properties;
import java.io.File;
@ -41,346 +39,361 @@ import org.springframework.core.io.ResourceLoader;
import edu.umd.cs.findbugs.annotations.SuppressFBWarnings;
/**
* Writes project properties for the keys listed in specified properties files.
* Based on:
* http://site.kuali.org/maven/plugins/properties-maven-plugin/1.3.2/write-project-properties-mojo.html
* Writes project properties for the keys listed in specified properties files. Based on:
* http://site.kuali.org/maven/plugins/properties-maven-plugin/2.0.1/write-project-properties-mojo.html
*
* @author mhorst
* @goal write-project-properties
*/
public class WritePredefinedProjectProperties extends AbstractMojo {
private static final String CR = "\r";
private static final String LF = "\n";
private static final String TAB = "\t";
protected static final String PROPERTY_PREFIX_ENV = "env.";
private static final String ENCODING_UTF8 = "utf8";
/**
* @parameter property="properties.includePropertyKeysFromFiles"
*/
protected static final String PROPERTY_PREFIX_ENV = "env.";
private static final String ENCODING_UTF8 = "utf8";
/** @parameter property="properties.includePropertyKeysFromFiles" */
private String[] includePropertyKeysFromFiles;
/**
* @parameter default-value="${project}"
* @required
* @readonly
*/
protected MavenProject project;
/**
* The file that properties will be written to
*
* @parameter property="properties.outputFile"
* default-value="${project.build.directory}/properties/project.properties";
* @required
*/
protected File outputFile;
/**
* If true, the plugin will silently ignore any non-existent properties files, and the build will continue
*
* @parameter property="properties.quiet" default-value="true"
*/
private boolean quiet;
/**
* Comma separated list of characters to escape when writing property values. cr=carriage return, lf=linefeed,
* tab=tab. Any other values are taken literally.
*
* @parameter default-value="cr,lf,tab" property="properties.escapeChars"
*/
private String escapeChars;
* @parameter default-value="${project}"
* @required
* @readonly
*/
protected MavenProject project;
/**
* If true, the plugin will include system properties when writing the properties file. System properties override
* both environment variables and project properties.
*
* @parameter default-value="false" property="properties.includeSystemProperties"
*/
private boolean includeSystemProperties;
/**
* The file that properties will be written to
*
* @parameter property="properties.outputFile"
* default-value="${project.build.directory}/properties/project.properties";
* @required
*/
protected File outputFile;
/**
* If true, the plugin will include environment variables when writing the properties file. Environment variables
* are prefixed with "env". Environment variables override project properties.
*
* @parameter default-value="false" property="properties.includeEnvironmentVariables"
*/
private boolean includeEnvironmentVariables;
/**
* If true, the plugin will silently ignore any non-existent properties files, and the build will continue
*
* @parameter property="properties.quiet" default-value="true"
*/
private boolean quiet;
/**
* Comma separated set of properties to exclude when writing the properties file
*
* @parameter property="properties.exclude"
*/
private String exclude;
/**
* Comma separated list of characters to escape when writing property values. cr=carriage return, lf=linefeed,
* tab=tab. Any other values are taken literally.
*
* @parameter default-value="cr,lf,tab" property="properties.escapeChars"
*/
private String escapeChars;
/**
* Comma separated set of properties to write to the properties file. If provided, only the properties matching
* those supplied here will be written to the properties file.
*
* @parameter property="properties.include"
*/
private String include;
/**
* If true, the plugin will include system properties when writing the properties file. System properties override
* both environment variables and project properties.
*
* @parameter default-value="false" property="properties.includeSystemProperties"
*/
private boolean includeSystemProperties;
/* (non-Javadoc)
* @see org.apache.maven.plugin.AbstractMojo#execute()
*/
@Override
@SuppressFBWarnings({"NP_UNWRITTEN_FIELD","UWF_UNWRITTEN_FIELD"})
public void execute() throws MojoExecutionException, MojoFailureException {
Properties properties = new Properties();
// Add project properties
properties.putAll(project.getProperties());
if (includeEnvironmentVariables) {
// Add environment variables, overriding any existing properties with the same key
properties.putAll(getEnvironmentVariables());
}
if (includeSystemProperties) {
// Add system properties, overriding any existing properties with the same key
properties.putAll(System.getProperties());
}
/**
* If true, the plugin will include environment variables when writing the properties file. Environment variables
* are prefixed with "env". Environment variables override project properties.
*
* @parameter default-value="false" property="properties.includeEnvironmentVariables"
*/
private boolean includeEnvironmentVariables;
// Remove properties as appropriate
trim(properties, exclude, include);
/**
* Comma separated set of properties to exclude when writing the properties file
*
* @parameter property="properties.exclude"
*/
private String exclude;
String comment = "# " + new Date() + "\n";
List<String> escapeTokens = getEscapeChars(escapeChars);
/**
* Comma separated set of properties to write to the properties file. If provided, only the properties matching
* those supplied here will be written to the properties file.
*
* @parameter property="properties.include"
*/
private String include;
getLog().info("Creating " + outputFile);
writeProperties(outputFile, comment, properties, escapeTokens);
}
/*
* (non-Javadoc)
* @see org.apache.maven.plugin.AbstractMojo#execute()
*/
@Override
@SuppressFBWarnings({
"NP_UNWRITTEN_FIELD", "UWF_UNWRITTEN_FIELD"
})
public void execute() throws MojoExecutionException, MojoFailureException {
Properties properties = new Properties();
// Add project properties
properties.putAll(project.getProperties());
if (includeEnvironmentVariables) {
// Add environment variables, overriding any existing properties with the same key
properties.putAll(getEnvironmentVariables());
}
if (includeSystemProperties) {
// Add system properties, overriding any existing properties with the same key
properties.putAll(System.getProperties());
}
/**
* Provides environment variables.
* @return environment variables
*/
protected static Properties getEnvironmentVariables() {
Properties props = new Properties();
for (Entry<String, String> entry : System.getenv().entrySet()) {
props.setProperty(PROPERTY_PREFIX_ENV + entry.getKey(), entry.getValue());
}
return props;
}
// Remove properties as appropriate
trim(properties, exclude, include);
/**
* Removes properties which should not be written.
* @param properties
* @param omitCSV
* @param includeCSV
* @throws MojoExecutionException
*/
protected void trim(Properties properties, String omitCSV, String includeCSV) throws MojoExecutionException {
List<String> omitKeys = getListFromCSV(omitCSV);
for (String key : omitKeys) {
properties.remove(key);
}
List<String> includeKeys = getListFromCSV(includeCSV);
// mh: including keys from predefined properties
if (includePropertyKeysFromFiles!=null && includePropertyKeysFromFiles.length>0) {
for (String currentIncludeLoc : includePropertyKeysFromFiles) {
if (validate(currentIncludeLoc)) {
Properties p = getProperties(currentIncludeLoc);
for (String key : p.stringPropertyNames()) {
includeKeys.add(key);
}
}
}
}
if (includeKeys!=null && !includeKeys.isEmpty()) {
// removing only when include keys provided
Set<String> keys = properties.stringPropertyNames();
for (String key : keys) {
if (!includeKeys.contains(key)) {
properties.remove(key);
}
}
}
}
String comment = "# " + new Date() + "\n";
List<String> escapeTokens = getEscapeChars(escapeChars);
/**
* Checks whether file exists.
* @param location
* @return true when exists, false otherwise.
*/
protected boolean exists(String location) {
if (StringUtils.isBlank(location)) {
return false;
}
File file = new File(location);
if (file.exists()) {
return true;
}
ResourceLoader loader = new DefaultResourceLoader();
Resource resource = loader.getResource(location);
return resource.exists();
}
getLog().info("Creating " + outputFile);
writeProperties(outputFile, comment, properties, escapeTokens);
}
/**
* Validates resource location.
* @param location
* @return true when valid, false otherwise
* @throws MojoExecutionException
*/
protected boolean validate(String location) throws MojoExecutionException {
boolean exists = exists(location);
if (exists) {
return true;
}
if (quiet) {
getLog().info("Ignoring non-existent properties file '" + location + "'");
return false;
} else {
throw new MojoExecutionException("Non-existent properties file '" + location + "'");
}
}
/**
* Provides environment variables.
*
* @return environment variables
*/
protected static Properties getEnvironmentVariables() {
Properties props = new Properties();
for (Entry<String, String> entry : System.getenv().entrySet()) {
props.setProperty(PROPERTY_PREFIX_ENV + entry.getKey(), entry.getValue());
}
return props;
}
/**
* Provides input stream.
* @param location
* @return input stream
* @throws IOException
*/
protected InputStream getInputStream(String location) throws IOException {
File file = new File(location);
if (file.exists()) {
return new FileInputStream(location);
}
ResourceLoader loader = new DefaultResourceLoader();
Resource resource = loader.getResource(location);
return resource.getInputStream();
}
/**
* Removes properties which should not be written.
*
* @param properties
* @param omitCSV
* @param includeCSV
* @throws MojoExecutionException
*/
protected void trim(Properties properties, String omitCSV, String includeCSV)
throws MojoExecutionException {
List<String> omitKeys = getListFromCSV(omitCSV);
for (String key : omitKeys) {
properties.remove(key);
}
/**
* Creates properties for given location.
* @param location
* @return properties for given location
* @throws MojoExecutionException
*/
protected Properties getProperties(String location) throws MojoExecutionException {
InputStream in = null;
try {
Properties properties = new Properties();
in = getInputStream(location);
if (location.toLowerCase().endsWith(".xml")) {
properties.loadFromXML(in);
} else {
properties.load(in);
}
return properties;
} catch (IOException e) {
throw new MojoExecutionException("Error reading properties file " + location, e);
} finally {
IOUtils.closeQuietly(in);
}
}
List<String> includeKeys = getListFromCSV(includeCSV);
// mh: including keys from predefined properties
if (includePropertyKeysFromFiles != null && includePropertyKeysFromFiles.length > 0) {
for (String currentIncludeLoc : includePropertyKeysFromFiles) {
if (validate(currentIncludeLoc)) {
Properties p = getProperties(currentIncludeLoc);
for (String key : p.stringPropertyNames()) {
includeKeys.add(key);
}
}
}
}
if (includeKeys != null && !includeKeys.isEmpty()) {
// removing only when include keys provided
Set<String> keys = properties.stringPropertyNames();
for (String key : keys) {
if (!includeKeys.contains(key)) {
properties.remove(key);
}
}
}
}
/**
* Provides escape characters.
* @param escapeChars
* @return escape characters
*/
protected List<String> getEscapeChars(String escapeChars) {
List<String> tokens = getListFromCSV(escapeChars);
List<String> realTokens = new ArrayList<String>();
for (String token : tokens) {
String realToken = getRealToken(token);
realTokens.add(realToken);
}
return realTokens;
}
/**
* Checks whether file exists.
*
* @param location
* @return true when exists, false otherwise.
*/
protected boolean exists(String location) {
if (StringUtils.isBlank(location)) {
return false;
}
File file = new File(location);
if (file.exists()) {
return true;
}
ResourceLoader loader = new DefaultResourceLoader();
Resource resource = loader.getResource(location);
return resource.exists();
}
/**
* Provides real token.
* @param token
* @return real token
*/
protected String getRealToken(String token) {
if (token.equalsIgnoreCase("CR")) {
return CR;
} else if (token.equalsIgnoreCase("LF")) {
return LF;
} else if (token.equalsIgnoreCase("TAB")) {
return TAB;
} else {
return token;
}
}
/**
* Validates resource location.
*
* @param location
* @return true when valid, false otherwise
* @throws MojoExecutionException
*/
protected boolean validate(String location) throws MojoExecutionException {
boolean exists = exists(location);
if (exists) {
return true;
}
if (quiet) {
getLog().info("Ignoring non-existent properties file '" + location + "'");
return false;
} else {
throw new MojoExecutionException("Non-existent properties file '" + location + "'");
}
}
/**
* Returns content.
* @param comment
* @param properties
* @param escapeTokens
* @return content
*/
protected String getContent(String comment, Properties properties, List<String> escapeTokens) {
List<String> names = new ArrayList<String>(properties.stringPropertyNames());
Collections.sort(names);
StringBuilder sb = new StringBuilder();
if (!StringUtils.isBlank(comment)) {
sb.append(comment);
}
for (String name : names) {
String value = properties.getProperty(name);
String escapedValue = escape(value, escapeTokens);
sb.append(name + "=" + escapedValue + "\n");
}
return sb.toString();
}
/**
* Provides input stream.
*
* @param location
* @return input stream
* @throws IOException
*/
protected InputStream getInputStream(String location) throws IOException {
File file = new File(location);
if (file.exists()) {
return new FileInputStream(location);
}
ResourceLoader loader = new DefaultResourceLoader();
Resource resource = loader.getResource(location);
return resource.getInputStream();
}
/**
* Writes properties to given file.
* @param file
* @param comment
* @param properties
* @param escapeTokens
* @throws MojoExecutionException
*/
protected void writeProperties(File file, String comment, Properties properties, List<String> escapeTokens)
throws MojoExecutionException {
try {
String content = getContent(comment, properties, escapeTokens);
FileUtils.writeStringToFile(file, content, ENCODING_UTF8);
} catch (IOException e) {
throw new MojoExecutionException("Error creating properties file", e);
}
}
/**
* Escapes characters.
* @param s
* @param escapeChars
* @return
*/
protected String escape(String s, List<String> escapeChars) {
String result = s;
for (String escapeChar : escapeChars) {
result = result.replace(escapeChar, getReplacementToken(escapeChar));
}
return result;
}
/**
* Creates properties for given location.
*
* @param location
* @return properties for given location
* @throws MojoExecutionException
*/
protected Properties getProperties(String location) throws MojoExecutionException {
InputStream in = null;
try {
Properties properties = new Properties();
in = getInputStream(location);
if (location.toLowerCase().endsWith(".xml")) {
properties.loadFromXML(in);
} else {
properties.load(in);
}
return properties;
} catch (IOException e) {
throw new MojoExecutionException("Error reading properties file " + location, e);
} finally {
IOUtils.closeQuietly(in);
}
}
/**
* Provides replacement token.
* @param escapeChar
* @return replacement token
*/
protected String getReplacementToken(String escapeChar) {
if (escapeChar.equals(CR)) {
return "\\r";
} else if (escapeChar.equals(LF)) {
return "\\n";
} else if (escapeChar.equals(TAB)) {
return "\\t";
} else {
return "\\" + escapeChar;
}
}
/**
* Provides escape characters.
*
* @param escapeChars
* @return escape characters
*/
protected List<String> getEscapeChars(String escapeChars) {
List<String> tokens = getListFromCSV(escapeChars);
List<String> realTokens = new ArrayList<String>();
for (String token : tokens) {
String realToken = getRealToken(token);
realTokens.add(realToken);
}
return realTokens;
}
/**
/**
* Provides real token.
*
* @param token
* @return real token
*/
protected String getRealToken(String token) {
if (token.equalsIgnoreCase("CR")) {
return CR;
} else if (token.equalsIgnoreCase("LF")) {
return LF;
} else if (token.equalsIgnoreCase("TAB")) {
return TAB;
} else {
return token;
}
}
/**
* Returns content.
*
* @param comment
* @param properties
* @param escapeTokens
* @return content
*/
protected String getContent(String comment, Properties properties, List<String> escapeTokens) {
List<String> names = new ArrayList<String>(properties.stringPropertyNames());
Collections.sort(names);
StringBuilder sb = new StringBuilder();
if (!StringUtils.isBlank(comment)) {
sb.append(comment);
}
for (String name : names) {
String value = properties.getProperty(name);
String escapedValue = escape(value, escapeTokens);
sb.append(name + "=" + escapedValue + "\n");
}
return sb.toString();
}
/**
* Writes properties to given file.
*
* @param file
* @param comment
* @param properties
* @param escapeTokens
* @throws MojoExecutionException
*/
protected void writeProperties(
File file, String comment, Properties properties, List<String> escapeTokens)
throws MojoExecutionException {
try {
String content = getContent(comment, properties, escapeTokens);
FileUtils.writeStringToFile(file, content, ENCODING_UTF8);
} catch (IOException e) {
throw new MojoExecutionException("Error creating properties file", e);
}
}
/**
* Escapes characters.
*
* @param s
* @param escapeChars
* @return
*/
protected String escape(String s, List<String> escapeChars) {
String result = s;
for (String escapeChar : escapeChars) {
result = result.replace(escapeChar, getReplacementToken(escapeChar));
}
return result;
}
/**
* Provides replacement token.
*
* @param escapeChar
* @return replacement token
*/
protected String getReplacementToken(String escapeChar) {
if (escapeChar.equals(CR)) {
return "\\r";
} else if (escapeChar.equals(LF)) {
return "\\n";
} else if (escapeChar.equals(TAB)) {
return "\\t";
} else {
return "\\" + escapeChar;
}
}
/**
* Returns list from csv.
*
* @param csv
* @return list of values generated from CSV
*/
@ -396,41 +409,39 @@ public class WritePredefinedProjectProperties extends AbstractMojo {
return list;
}
public void setIncludeSystemProperties(boolean includeSystemProperties) {
this.includeSystemProperties = includeSystemProperties;
}
public void setIncludeSystemProperties(boolean includeSystemProperties) {
this.includeSystemProperties = includeSystemProperties;
}
public void setEscapeChars(String escapeChars) {
this.escapeChars = escapeChars;
}
public void setEscapeChars(String escapeChars) {
this.escapeChars = escapeChars;
}
public void setIncludeEnvironmentVariables(boolean includeEnvironmentVariables) {
this.includeEnvironmentVariables = includeEnvironmentVariables;
}
public void setIncludeEnvironmentVariables(boolean includeEnvironmentVariables) {
this.includeEnvironmentVariables = includeEnvironmentVariables;
}
public void setExclude(String exclude) {
this.exclude = exclude;
}
public void setExclude(String exclude) {
this.exclude = exclude;
}
public void setInclude(String include) {
this.include = include;
}
public void setInclude(String include) {
this.include = include;
}
public void setQuiet(boolean quiet) {
this.quiet = quiet;
}
public void setQuiet(boolean quiet) {
this.quiet = quiet;
}
/**
* Sets property files for which keys properties should be included.
*
* @param includePropertyKeysFromFiles
*/
public void setIncludePropertyKeysFromFiles(
String[] includePropertyKeysFromFiles) {
if (includePropertyKeysFromFiles!=null) {
this.includePropertyKeysFromFiles = Arrays.copyOf(
includePropertyKeysFromFiles,
includePropertyKeysFromFiles.length);
public void setIncludePropertyKeysFromFiles(String[] includePropertyKeysFromFiles) {
if (includePropertyKeysFromFiles != null) {
this.includePropertyKeysFromFiles = Arrays
.copyOf(includePropertyKeysFromFiles, includePropertyKeysFromFiles.length);
}
}
}
}

177
dhp-build/dhp-build-properties-maven-plugin/src/test/java/eu/dnetlib/maven/plugin/properties/GenerateOoziePropertiesMojoTest.java
View File

@ -1,100 +1,97 @@
package eu.dnetlib.maven.plugin.properties;
import org.junit.jupiter.api.BeforeEach;
import org.junit.jupiter.api.Test;
package eu.dnetlib.maven.plugin.properties;
import static eu.dnetlib.maven.plugin.properties.GenerateOoziePropertiesMojo.PROPERTY_NAME_SANDBOX_NAME;
import static eu.dnetlib.maven.plugin.properties.GenerateOoziePropertiesMojo.PROPERTY_NAME_WF_SOURCE_DIR;
import static org.junit.jupiter.api.Assertions.*;
/**
* @author mhorst, claudio.atzori
*
*/
import org.junit.jupiter.api.BeforeEach;
import org.junit.jupiter.api.Test;
/** @author mhorst, claudio.atzori */
public class GenerateOoziePropertiesMojoTest {
private GenerateOoziePropertiesMojo mojo = new GenerateOoziePropertiesMojo();
@BeforeEach
public void clearSystemProperties() {
System.clearProperty(PROPERTY_NAME_SANDBOX_NAME);
System.clearProperty(PROPERTY_NAME_WF_SOURCE_DIR);
}
@Test
public void testExecuteEmpty() throws Exception {
// execute
mojo.execute();
// assert
assertNull(System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
private final GenerateOoziePropertiesMojo mojo = new GenerateOoziePropertiesMojo();
@Test
public void testExecuteSandboxNameAlreadySet() throws Exception {
// given
String workflowSourceDir = "eu/dnetlib/dhp/wf/transformers";
String sandboxName = "originalSandboxName";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
System.setProperty(PROPERTY_NAME_SANDBOX_NAME, sandboxName);
// execute
mojo.execute();
// assert
assertEquals(sandboxName, System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteEmptyWorkflowSourceDir() throws Exception {
// given
String workflowSourceDir = "";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertNull(System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteNullSandboxNameGenerated() throws Exception {
// given
String workflowSourceDir = "eu/dnetlib/dhp/";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertNull(System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecute() throws Exception {
// given
String workflowSourceDir = "eu/dnetlib/dhp/wf/transformers";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertEquals("wf/transformers", System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteWithoutRoot() throws Exception {
// given
String workflowSourceDir = "wf/transformers";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertEquals("wf/transformers", System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@BeforeEach
public void clearSystemProperties() {
System.clearProperty(PROPERTY_NAME_SANDBOX_NAME);
System.clearProperty(PROPERTY_NAME_WF_SOURCE_DIR);
}
@Test
public void testExecuteEmpty() throws Exception {
// execute
mojo.execute();
// assert
assertNull(System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteSandboxNameAlreadySet() throws Exception {
// given
String workflowSourceDir = "eu/dnetlib/dhp/wf/transformers";
String sandboxName = "originalSandboxName";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
System.setProperty(PROPERTY_NAME_SANDBOX_NAME, sandboxName);
// execute
mojo.execute();
// assert
assertEquals(sandboxName, System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteEmptyWorkflowSourceDir() throws Exception {
// given
String workflowSourceDir = "";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertNull(System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteNullSandboxNameGenerated() throws Exception {
// given
String workflowSourceDir = "eu/dnetlib/dhp/";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertNull(System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecute() throws Exception {
// given
String workflowSourceDir = "eu/dnetlib/dhp/wf/transformers";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertEquals("wf/transformers", System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
@Test
public void testExecuteWithoutRoot() throws Exception {
// given
String workflowSourceDir = "wf/transformers";
System.setProperty(PROPERTY_NAME_WF_SOURCE_DIR, workflowSourceDir);
// execute
mojo.execute();
// assert
assertEquals("wf/transformers", System.getProperty(PROPERTY_NAME_SANDBOX_NAME));
}
}

695
dhp-build/dhp-build-properties-maven-plugin/src/test/java/eu/dnetlib/maven/plugin/properties/WritePredefinedProjectPropertiesTest.java
View File

@ -1,5 +1,14 @@
package eu.dnetlib.maven.plugin.properties;
import static eu.dnetlib.maven.plugin.properties.WritePredefinedProjectProperties.PROPERTY_PREFIX_ENV;
import static org.junit.jupiter.api.Assertions.*;
import static org.mockito.Mockito.doReturn;
import static org.mockito.Mockito.lenient;
import java.io.*;
import java.util.Properties;
import org.apache.maven.plugin.MojoExecutionException;
import org.apache.maven.project.MavenProject;
import org.junit.jupiter.api.*;
@ -9,347 +18,357 @@ import org.mockito.Mock;
import org.mockito.MockitoAnnotations;
import org.mockito.junit.jupiter.MockitoExtension;
import java.io.*;
import java.util.Properties;
import static eu.dnetlib.maven.plugin.properties.WritePredefinedProjectProperties.PROPERTY_PREFIX_ENV;
import static org.junit.jupiter.api.Assertions.*;
import static org.mockito.Mockito.doReturn;
import static org.mockito.Mockito.lenient;
/**
* @author mhorst, claudio.atzori
*
*/
/** @author mhorst, claudio.atzori */
@ExtendWith(MockitoExtension.class)
public class WritePredefinedProjectPropertiesTest {
@Mock
private MavenProject mavenProject;
private WritePredefinedProjectProperties mojo;
@Mock
private MavenProject mavenProject;
@BeforeEach
public void init(@TempDir File testFolder) {
MockitoAnnotations.initMocks(this);
mojo = new WritePredefinedProjectProperties();
mojo.outputFile = getPropertiesFileLocation(testFolder);
mojo.project = mavenProject;
lenient().doReturn(new Properties()).when(mavenProject).getProperties();
}
private WritePredefinedProjectProperties mojo;
// ----------------------------------- TESTS ---------------------------------------------
@Test
public void testExecuteEmpty() throws Exception {
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(mojo.outputFile.getParentFile());
assertEquals(0, storedProperties.size());
}
@Test
public void testExecuteWithProjectProperties() throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
doReturn(projectProperties).when(mavenProject).getProperties();
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(mojo.outputFile.getParentFile());
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(key));
assertEquals(value, storedProperties.getProperty(key));
}
@Test()
public void testExecuteWithProjectPropertiesAndInvalidOutputFile(@TempDir File testFolder) {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.outputFile = testFolder;
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteWithProjectPropertiesExclusion(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String excludedKey = "excludedPropertyKey";
String excludedValue = "excludedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(excludedKey, excludedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setExclude(excludedKey);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(key));
assertEquals(value, storedProperties.getProperty(key));
}
@Test
public void testExecuteWithProjectPropertiesInclusion(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setInclude(includedKey);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromFile(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
File includedPropertiesFile = new File(testFolder, "included.properties");
Properties includedProperties = new Properties();
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.store(new FileWriter(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(new String[] {includedPropertiesFile.getAbsolutePath()});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromClasspathResource(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setIncludePropertyKeysFromFiles(new String[] {"/eu/dnetlib/maven/plugin/properties/included.properties"});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromBlankLocation() {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setIncludePropertyKeysFromFiles(new String[] {""});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteIncludingPropertyKeysFromXmlFile(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
File includedPropertiesFile = new File(testFolder, "included.xml");
Properties includedProperties = new Properties();
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.storeToXML(new FileOutputStream(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(new String[] {includedPropertiesFile.getAbsolutePath()});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromInvalidXmlFile(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
File includedPropertiesFile = new File(testFolder, "included.xml");
Properties includedProperties = new Properties();
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.store(new FileOutputStream(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(new String[] {includedPropertiesFile.getAbsolutePath()});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteWithQuietModeOn(@TempDir File testFolder) throws Exception {
// given
mojo.setQuiet(true);
mojo.setIncludePropertyKeysFromFiles(new String[] {"invalid location"});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(0, storedProperties.size());
}
@Test
public void testExecuteIncludingPropertyKeysFromInvalidFile() {
// given
mojo.setIncludePropertyKeysFromFiles(new String[] {"invalid location"});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteWithEnvironmentProperties(@TempDir File testFolder) throws Exception {
// given
mojo.setIncludeEnvironmentVariables(true);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertTrue(storedProperties.size() > 0);
for (Object currentKey : storedProperties.keySet()) {
assertTrue(((String)currentKey).startsWith(PROPERTY_PREFIX_ENV));
}
}
@Test
public void testExecuteWithSystemProperties(@TempDir File testFolder) throws Exception {
// given
String key = "systemPropertyKey";
String value = "systemPropertyValue";
System.setProperty(key, value);
mojo.setIncludeSystemProperties(true);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertTrue(storedProperties.size() > 0);
assertTrue(storedProperties.containsKey(key));
assertEquals(value, storedProperties.getProperty(key));
}
@Test
public void testExecuteWithSystemPropertiesAndEscapeChars(@TempDir File testFolder) throws Exception {
// given
String key = "systemPropertyKey ";
String value = "systemPropertyValue";
System.setProperty(key, value);
mojo.setIncludeSystemProperties(true);
String escapeChars = "cr,lf,tab,|";
mojo.setEscapeChars(escapeChars);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertTrue(storedProperties.size() > 0);
assertFalse(storedProperties.containsKey(key));
assertTrue(storedProperties.containsKey(key.trim()));
assertEquals(value, storedProperties.getProperty(key.trim()));
}
// ----------------------------------- PRIVATE -------------------------------------------
private File getPropertiesFileLocation(File testFolder) {
return new File(testFolder, "test.properties");
}
private Properties getStoredProperties(File testFolder) throws FileNotFoundException, IOException {
Properties properties = new Properties();
properties.load(new FileInputStream(getPropertiesFileLocation(testFolder)));
return properties;
}
@BeforeEach
public void init(@TempDir File testFolder) {
MockitoAnnotations.initMocks(this);
mojo = new WritePredefinedProjectProperties();
mojo.outputFile = getPropertiesFileLocation(testFolder);
mojo.project = mavenProject;
lenient().doReturn(new Properties()).when(mavenProject).getProperties();
}
// ----------------------------------- TESTS ---------------------------------------------
@Test
public void testExecuteEmpty() throws Exception {
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(mojo.outputFile.getParentFile());
assertEquals(0, storedProperties.size());
}
@Test
public void testExecuteWithProjectProperties() throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
doReturn(projectProperties).when(mavenProject).getProperties();
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(mojo.outputFile.getParentFile());
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(key));
assertEquals(value, storedProperties.getProperty(key));
}
@Test()
public void testExecuteWithProjectPropertiesAndInvalidOutputFile(@TempDir File testFolder) {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.outputFile = testFolder;
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteWithProjectPropertiesExclusion(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String excludedKey = "excludedPropertyKey";
String excludedValue = "excludedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(excludedKey, excludedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setExclude(excludedKey);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(key));
assertEquals(value, storedProperties.getProperty(key));
}
@Test
public void testExecuteWithProjectPropertiesInclusion(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setInclude(includedKey);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromFile(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
File includedPropertiesFile = new File(testFolder, "included.properties");
Properties includedProperties = new Properties();
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.store(new FileWriter(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(new String[] {
includedPropertiesFile.getAbsolutePath()
});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromClasspathResource(@TempDir File testFolder)
throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo
.setIncludePropertyKeysFromFiles(
new String[] {
"/eu/dnetlib/maven/plugin/properties/included.properties"
});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromBlankLocation() {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setIncludePropertyKeysFromFiles(new String[] {
""
});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteIncludingPropertyKeysFromXmlFile(@TempDir File testFolder)
throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
File includedPropertiesFile = new File(testFolder, "included.xml");
Properties includedProperties = new Properties();
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.storeToXML(new FileOutputStream(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(new String[] {
includedPropertiesFile.getAbsolutePath()
});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(1, storedProperties.size());
assertTrue(storedProperties.containsKey(includedKey));
assertEquals(includedValue, storedProperties.getProperty(includedKey));
}
@Test
public void testExecuteIncludingPropertyKeysFromInvalidXmlFile(@TempDir File testFolder)
throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
String includedKey = "includedPropertyKey";
String includedValue = "includedPropertyValue";
Properties projectProperties = new Properties();
projectProperties.setProperty(key, value);
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
File includedPropertiesFile = new File(testFolder, "included.xml");
Properties includedProperties = new Properties();
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.store(new FileOutputStream(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(new String[] {
includedPropertiesFile.getAbsolutePath()
});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteWithQuietModeOn(@TempDir File testFolder) throws Exception {
// given
mojo.setQuiet(true);
mojo.setIncludePropertyKeysFromFiles(new String[] {
"invalid location"
});
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertEquals(0, storedProperties.size());
}
@Test
public void testExecuteIncludingPropertyKeysFromInvalidFile() {
// given
mojo.setIncludePropertyKeysFromFiles(new String[] {
"invalid location"
});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
}
@Test
public void testExecuteWithEnvironmentProperties(@TempDir File testFolder) throws Exception {
// given
mojo.setIncludeEnvironmentVariables(true);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertTrue(storedProperties.size() > 0);
for (Object currentKey : storedProperties.keySet()) {
assertTrue(((String) currentKey).startsWith(PROPERTY_PREFIX_ENV));
}
}
@Test
public void testExecuteWithSystemProperties(@TempDir File testFolder) throws Exception {
// given
String key = "systemPropertyKey";
String value = "systemPropertyValue";
System.setProperty(key, value);
mojo.setIncludeSystemProperties(true);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertTrue(storedProperties.size() > 0);
assertTrue(storedProperties.containsKey(key));
assertEquals(value, storedProperties.getProperty(key));
}
@Test
public void testExecuteWithSystemPropertiesAndEscapeChars(@TempDir File testFolder)
throws Exception {
// given
String key = "systemPropertyKey ";
String value = "systemPropertyValue";
System.setProperty(key, value);
mojo.setIncludeSystemProperties(true);
String escapeChars = "cr,lf,tab,|";
mojo.setEscapeChars(escapeChars);
// execute
mojo.execute();
// assert
assertTrue(mojo.outputFile.exists());
Properties storedProperties = getStoredProperties(testFolder);
assertTrue(storedProperties.size() > 0);
assertFalse(storedProperties.containsKey(key));
assertTrue(storedProperties.containsKey(key.trim()));
assertEquals(value, storedProperties.getProperty(key.trim()));
}
// ----------------------------------- PRIVATE -------------------------------------------
private File getPropertiesFileLocation(File testFolder) {
return new File(testFolder, "test.properties");
}
private Properties getStoredProperties(File testFolder)
throws IOException {
Properties properties = new Properties();
properties.load(new FileInputStream(getPropertiesFileLocation(testFolder)));
return properties;
}
}

50
dhp-build/dhp-code-style/pom.xml Normal file
View File

@ -0,0 +1,50 @@
<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="http://maven.apache.org/POM/4.0.0"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
<modelVersion>4.0.0</modelVersion>
<groupId>eu.dnetlib.dhp</groupId>
<artifactId>dhp-code-style</artifactId>
<version>1.1.7-SNAPSHOT</version>
<packaging>jar</packaging>
<description>This module contains resources supporting common code style conventions</description>
<distributionManagement>
<snapshotRepository>
<id>dnet45-snapshots</id>
<name>DNet45 Snapshots</name>
<url>http://maven.research-infrastructures.eu/nexus/content/repositories/dnet45-snapshots</url>
<layout>default</layout>
</snapshotRepository>
<repository>
<id>dnet45-releases</id>
<url>http://maven.research-infrastructures.eu/nexus/content/repositories/dnet45-releases</url>
</repository>
</distributionManagement>
<build>
<pluginManagement>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-project-info-reports-plugin</artifactId>
<version>3.0.0</version>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-site-plugin</artifactId>
<version>3.7.1</version>
</plugin>
</plugins>
</pluginManagement>
</build>
<properties>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
</properties>
</project>

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dhp-build/dhp-code-style/src/main/resources/eclipse/formatter_aosp.xml Normal file
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<?xml version="1.0" encoding="UTF-8"?>
<profiles version="10">
<profile kind="CodeFormatterProfile" name="Android" version="10">
<setting id="org.eclipse.jdt.core.formatter.align_type_members_on_columns" value="false"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_qualified_allocation_expression" value="16"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_binary_expression" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_compact_if" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_conditional_expression" value="80"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_enum_constants" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_expressions_in_array_initializer" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_multiple_fields" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_constructor_declaration" value="16"/>
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<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_package" value="1"/>
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<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_first_class_body_declaration" value="0"/>
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<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_new_chunk" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_package" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_between_type_declarations" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_annotation_type_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_anonymous_type_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_array_initializer" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_block" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_block_in_case" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_constructor_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_enum_constant" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_enum_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_method_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_switch" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_type_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.comment.clear_blank_lines" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_header" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_html" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_source_code" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.indent_parameter_description" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.indent_root_tags" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.insert_new_line_before_root_tags" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.insert_new_line_for_parameter" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.line_length" value="120"/>
<setting id="org.eclipse.jdt.core.formatter.compact_else_if" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.continuation_indentation" value="2"/>
<setting id="org.eclipse.jdt.core.formatter.continuation_indentation_for_array_initializer" value="2"/>
<setting id="org.eclipse.jdt.core.formatter.format_guardian_clause_on_one_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_annotation_declaration_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_constant_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_declaration_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_type_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_breaks_compare_to_cases" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_empty_lines" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.indent_statements_compare_to_block" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_statements_compare_to_body" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_cases" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_switch" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indentation.size" value="4"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_opening_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_at_end_of_file_if_missing" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_catch_in_try_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_closing_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_else_in_if_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_finally_in_try_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_while_in_do_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_annotation_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_anonymous_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_block" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_constant" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_method_body" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_and_in_type_parameter" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_assignment_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation_type_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_binary_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_arguments" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_allocation_expression" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_annotation" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_parameters" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_constant_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_declarations" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_explicitconstructorcall_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_increments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_inits" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_parameters" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_local_declarations" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_parameters" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_ellipsis" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_constructor_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_enum_constant" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_for" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_if" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_parenthesized_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_switch" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_synchronized" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_while" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_return" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_postfix_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_prefix_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_question_in_conditional" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_question_in_wildcard" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_for" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_unary_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_brackets_in_array_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_braces_in_array_initializer" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_brackets_in_array_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_annotation_type_member_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_constructor_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_enum_constant" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_else_statement_on_same_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.keep_empty_array_initializer_on_one_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.keep_imple_if_on_one_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.keep_then_statement_on_same_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.lineSplit" value="100"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_at_beginning_of_method_body" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_empty_lines_to_preserve" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.put_empty_statement_on_new_line" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.tabulation.char" value="tab"/>
<setting id="org.eclipse.jdt.core.formatter.tabulation.size" value="4"/>
<setting id="org.eclipse.jdt.core.formatter.use_tabs_only_for_leading_indentations" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.join_wrapped_lines" value="false"/>
</profile>
</profiles>

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dhp-build/dhp-code-style/src/main/resources/eclipse/formatter_dnet.xml Normal file
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@ -0,0 +1,727 @@
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<profiles version="18">
<profile kind="CodeFormatterProfile" name="Android_custom" version="18">
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_ellipsis" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_declarations" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_at_in_annotation_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_for_statment" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.comment.new_lines_at_block_boundaries" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_logical_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_parameters" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.insert_new_line_for_parameter" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_package" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_method_invocation" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_enum_constant" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_imports" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_while" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.insert_new_line_before_root_tags" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_annotation_type_member_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_throws" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_switch_statement" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_javadoc_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indentation.size" value="4"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_postfix_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_enum_constant_declaration" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_increments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_arrow_in_switch_default" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_inits" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_for" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.align_with_spaces" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.disabling_tag" value="@formatter:off"/>
<setting id="org.eclipse.jdt.core.formatter.continuation_indentation" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_before_code_block" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_switch_case_expressions" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_enum_constants" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_imports" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_at_end_of_method_body" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_package" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_local_declarations" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_if_while_statement" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_parameterized_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.indent_root_tags" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_before_or_operator_multicatch" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.enabling_tag" value="@formatter:on"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_brace_in_block" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.count_line_length_from_starting_position" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_return" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_method_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_parameter" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_arrow_in_switch_case" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_before_multiplicative_operator" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.keep_then_statement_on_same_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_field" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_explicitconstructorcall_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_prefix_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_between_type_declarations" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_for" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_catch" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_arguments" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_method" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_switch" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameterized_type_references" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_anonymous_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_logical_operator" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_parenthesized_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_annotation_declaration_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_enum_constant" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_multiplicative_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.never_indent_line_comments_on_first_column" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_and_in_type_parameter" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_inits" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.indent_statements_compare_to_block" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_anonymous_type_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_question_in_wildcard" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_invocation_arguments" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_switch" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.align_tags_descriptions_grouped" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.comment.line_length" value="120"/>
<setting id="org.eclipse.jdt.core.formatter.use_on_off_tags" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.keep_method_body_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_brackets_in_array_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_loop_body_block_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_constant" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_assignment_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_for" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.preserve_white_space_between_code_and_line_comments" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_local_variable" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_method_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_abstract_method" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.keep_enum_constant_declaration_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.align_variable_declarations_on_columns" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_union_type_in_multicatch" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_for" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_type_declaration_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_at_beginning_of_method_body" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_else_statement_on_same_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_catch_clause" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_additive_operator" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_parameterized_type_reference" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_array_initializer" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_field_declarations" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_annotation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_explicit_constructor_call" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_relational_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_multiplicative_operator" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.keep_anonymous_type_declaration_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_switch_case_expressions" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_before_shift_operator" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_annotation_declaration_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_superinterfaces" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_colon_in_default" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_question_in_conditional" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_block" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_constructor_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_lambda_body" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_at_end_of_code_block" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.compact_else_if" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_catch" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_bitwise_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.put_empty_statement_on_new_line" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_constructor_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_type_parameters" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_invocation_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_method_invocation" value="32"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_constructor_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_compact_loops" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_block_comment" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_catch_in_try_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_try" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_simple_for_body_on_same_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_at_end_of_file_if_missing" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_javadoc_comment" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_relational_operator" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_unary_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_expressions_in_array_initializer" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.format_line_comment_starting_on_first_column" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_empty_lines_to_preserve" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.parentheses_positions_in_annotation" value="common_lines"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_case" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_ellipsis" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_additive_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_try_resources" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_assert" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_if" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_arguments" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_and_in_type_parameter" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_string_concatenation" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_parenthesized_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_line_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_labeled_statement" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.text_block_indentation" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.align_type_members_on_columns" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_assignment" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_module_statements" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_type_header" value="true"/>
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<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_after_code_block" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.comment.align_tags_names_descriptions" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_enum_constant" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.keep_if_then_body_block_on_one_line" value="one_line_never"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_first_class_body_declaration" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_conditional_expression" value="80"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_closing_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.format_guardian_clause_on_one_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_if" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.align_assignment_statements_on_columns" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_type" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_block" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.brace_position_for_block_in_case" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_arrow_in_switch_default" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.comment.insert_new_line_between_different_tags" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_conditional_expression_chain" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_header" value="false"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_cast" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_block_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_lambda_arrow" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_declaration" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.keep_imple_if_on_one_line" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration" value="80"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_brackets_in_array_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_string_concatenation" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_for" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_last_class_body_declaration" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.indent_statements_compare_to_body" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_multiple_fields" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_constant_arguments" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_catch" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_reference" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_local_declarations" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.keep_enum_declaration_on_one_line" value="one_line_if_empty"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_outer_expressions_when_nested" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_paren_in_cast" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_for" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_increments" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_explicitconstructorcall_arguments" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_constant_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_string_concatenation" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_question_in_conditional" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.indent_parameter_description" value="true"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_finally_in_try_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.tabulation.char" value="tab"/>
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<setting id="org.eclipse.jdt.core.formatter.lineSplit" value="160"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_annotation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_switch" value="insert"/>
</profile>
</profiles>

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dhp-build/dhp-code-style/src/main/resources/eclipse/formatter_google.xml Normal file
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@ -0,0 +1,337 @@
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<profiles version="13">
<profile kind="CodeFormatterProfile" name="GoogleStyle" version="13">
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<setting id="org.eclipse.jdt.core.formatter.comment.new_lines_at_block_boundaries" value="true"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_conditional_expression" value="80"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_catch_in_try_statement" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_cascading_method_invocation_with_arguments" value="16"/>
<setting id="org.eclipse.jdt.core.compiler.source" value="1.7"/>
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<setting id="org.eclipse.jdt.core.formatter.comment.format_line_comments" value="true"/>
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<setting id="org.eclipse.jdt.core.formatter.join_wrapped_lines" value="true"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_unary_operator" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_block_comment" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.lineSplit" value="100"/>
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<setting id="org.eclipse.jdt.core.formatter.indentation.size" value="4"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.enabling_tag" value="@formatter:on"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_package" value="1585"/>
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<setting id="org.eclipse.jdt.core.compiler.problem.assertIdentifier" value="error"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_method_body" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_constant" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.comment.preserve_white_space_between_code_and_line_comments" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_throw" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_arguments" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_switch" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment_new_line_at_start_of_html_paragraph" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_ellipsis" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_block" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comment_prefix" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_inits" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_method_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.compact_else_if" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_non_simple_parameter_annotation" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_before_or_operator_multicatch" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_array_initializer" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_increments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_method" value="1585"/>
<setting id="org.eclipse.jdt.core.formatter.format_line_comment_starting_on_first_column" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_field" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.indent_root_tags" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_enum_constant" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_declarations" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_union_type_in_multicatch" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_explicitconstructorcall_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_switch" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_superinterfaces" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.tabulation.size" value="2"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_opening_brace_in_array_initializer" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_brace_in_block" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_reference" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_annotation.count_dependent" value="16|-1|16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_and_in_type_parameter" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_type" value="1585"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_before_at_in_annotation_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_allocation_expression" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_cast" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_unary_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_new_anonymous_class" value="20"/>
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<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_local_variable.count_dependent" value="1585|-1|1585"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_anonymous_type_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.keep_empty_array_initializer_on_one_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_field.count_dependent" value="1585|-1|1585"/>
<setting id="org.eclipse.jdt.core.formatter.keep_imple_if_on_one_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_parameters" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_colon_in_labeled_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_at_end_of_file_if_missing" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_for" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_parameterized_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_constructor_declaration.count_dependent" value="16|5|80"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_enum_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_binary_expression" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_while" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_type" value="insert"/>
<setting id="org.eclipse.jdt.core.compiler.codegen.inlineJsrBytecode" value="enabled"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_try" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.put_empty_statement_on_new_line" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_label" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_parameter" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_javadoc_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_before_while_in_do_statement" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant.count_dependent" value="16|-1|16"/>
<setting id="org.eclipse.jdt.core.formatter.comment.line_length" value="100"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_package" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_between_import_groups" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_constant_arguments" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_constructor_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.number_of_blank_lines_at_beginning_of_method_body" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_colon_in_conditional" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_type_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation_type_member_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_before_binary_operator" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_between_type_declarations" value="2"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_declaration_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_synchronized" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_enum_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.indent_statements_compare_to_block" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.join_lines_in_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_question_in_conditional" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_field_declarations" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_compact_if" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_inits" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_cases" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_colon_in_default" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_and_in_type_parameter" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_constructor_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_imports" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_assert" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_field" value="1585"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_html" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_method_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_anonymous_type_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_conditional" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_parameterized_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_for" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_expressions_in_array_initializer.count_dependent" value="16|5|80"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_postfix_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_source_code" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_synchronized" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_allocation_expression" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_throws" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_brace_in_array_initializer" value="do not insert"/>
<setting id="org.eclipse.jdt.core.compiler.codegen.targetPlatform" value="1.7"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_resources_in_try" value="80"/>
<setting id="org.eclipse.jdt.core.formatter.use_tabs_only_for_leading_indentations" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_annotation" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.comment.format_block_comments" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_enum_constant" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_enum_constants" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_parenthesized_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_annotation_declaration_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_new_line_in_empty_block" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_parenthesized_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_catch" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_local_declarations" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration.count_dependent" value="16|4|48"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_switch" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_increments" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_method.count_dependent" value="1585|-1|1585"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_invocation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_colon_in_assert" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.brace_position_for_type_declaration" value="end_of_line"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_between_empty_braces_in_array_initializer" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_binary_expression.count_dependent" value="16|-1|16"/>
<setting id="org.eclipse.jdt.core.formatter.wrap_non_simple_member_annotation" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_annotations_on_local_variable" value="1585"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_declaration" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_for" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_explicit_constructor_call.count_dependent" value="16|5|80"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_catch" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_parameterized_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_field_declarations" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_annotation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_generic_type_arguments.count_dependent" value="16|-1|16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_parameterized_type_reference" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_allocation_expression.count_dependent" value="16|5|80"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_invocation_arguments" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration.count_dependent" value="16|5|80"/>
<setting id="org.eclipse.jdt.core.formatter.comment.new_lines_at_javadoc_boundaries" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_imports" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_local_declarations" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_constant_header" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_for" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.never_indent_line_comments_on_first_column" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_try_resources" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_for_statement" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_arguments" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.never_indent_block_comments_on_first_column" value="false"/>
<setting id="org.eclipse.jdt.core.formatter.keep_then_statement_on_same_line" value="false"/>
</profile>
</profiles>

4
dhp-build/pom.xml
View File

@ -8,7 +8,11 @@
</parent>
<artifactId>dhp-build</artifactId>
<packaging>pom</packaging>
<description>This module is a container for the build tools used in dnet-hadoop</description>
<modules>
<module>dhp-code-style</module>
<module>dhp-build-assembly-resources</module>
<module>dhp-build-properties-maven-plugin</module>
</modules>

2
dhp-common/pom.xml
View File

@ -12,6 +12,8 @@
<artifactId>dhp-common</artifactId>
<packaging>jar</packaging>
<description>This module contains common utilities meant to be used across the dnet-hadoop submodules</description>
<dependencies>
<dependency>

3
dhp-common/src/main/java/eu/dnetlib/collector/worker/model/ApiDescriptor.java
View File

@ -1,9 +1,9 @@
package eu.dnetlib.collector.worker.model;
import java.util.HashMap;
import java.util.Map;
public class ApiDescriptor {
private String id;
@ -45,5 +45,4 @@ public class ApiDescriptor {
public void setProtocol(final String protocol) {
this.protocol = protocol;
}
}

22
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStore.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
@ -12,9 +13,7 @@ import javax.persistence.Table;
@Table(name = "mdstores")
public class MDStore implements Serializable {
/**
*
*/
/** */
private static final long serialVersionUID = 3160530489149700055L;
@Id
@ -95,16 +94,18 @@ public class MDStore implements Serializable {
this.apiId = apiId;
}
public static MDStore newInstance(final String format, final String layout, final String interpretation) {
public static MDStore newInstance(
final String format, final String layout, final String interpretation) {
return newInstance(format, layout, interpretation, null, null, null);
}
public static MDStore newInstance(final String format,
final String layout,
final String interpretation,
final String dsName,
final String dsId,
final String apiId) {
public static MDStore newInstance(
final String format,
final String layout,
final String interpretation,
final String dsName,
final String dsId,
final String apiId) {
final MDStore md = new MDStore();
md.setId("md-" + UUID.randomUUID());
md.setFormat(format);
@ -115,5 +116,4 @@ public class MDStore implements Serializable {
md.setApiId(apiId);
return md;
}
}

5
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStoreCurrentVersion.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
@ -11,9 +12,7 @@ import javax.persistence.Table;
@Table(name = "mdstore_current_versions")
public class MDStoreCurrentVersion implements Serializable {
/**
*
*/
/** */
private static final long serialVersionUID = -4757725888593745773L;
@Id

6
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStoreVersion.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
@ -14,9 +15,7 @@ import javax.persistence.TemporalType;
@Table(name = "mdstore_versions")
public class MDStoreVersion implements Serializable {
/**
*
*/
/** */
private static final long serialVersionUID = -4763494442274298339L;
@Id
@ -97,5 +96,4 @@ public class MDStoreVersion implements Serializable {
public void setSize(final long size) {
this.size = size;
}
}

6
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStoreWithInfo.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
@ -14,9 +15,7 @@ import javax.persistence.TemporalType;
@Table(name = "mdstores_with_info")
public class MDStoreWithInfo implements Serializable {
/**
*
*/
/** */
private static final long serialVersionUID = -8445784770687571492L;
@Id
@ -141,5 +140,4 @@ public class MDStoreWithInfo implements Serializable {
public void setNumberOfVersions(final long numberOfVersions) {
this.numberOfVersions = numberOfVersions;
}
}

135
dhp-common/src/main/java/eu/dnetlib/dhp/application/ArgumentApplicationParser.java
View File

@ -1,9 +1,5 @@
package eu.dnetlib.dhp.application;
import com.fasterxml.jackson.databind.ObjectMapper;
import org.apache.commons.cli.*;
import org.apache.commons.codec.binary.Base64;
import org.apache.commons.io.IOUtils;
package eu.dnetlib.dhp.application;
import java.io.ByteArrayInputStream;
import java.io.ByteArrayOutputStream;
@ -12,76 +8,91 @@ import java.io.StringWriter;
import java.util.*;
import java.util.zip.GZIPInputStream;
import java.util.zip.GZIPOutputStream;
import java.util.zip.Inflater;
import org.apache.commons.cli.*;
import org.apache.commons.codec.binary.Base64;
import org.apache.commons.io.IOUtils;
import com.fasterxml.jackson.databind.ObjectMapper;
public class ArgumentApplicationParser implements Serializable {
private final Options options = new Options();
private final Map<String, String> objectMap = new HashMap<>();
private final Options options = new Options();
private final Map<String, String> objectMap = new HashMap<>();
private final List<String> compressedValues = new ArrayList<>();
private final List<String> compressedValues = new ArrayList<>();
public ArgumentApplicationParser(final String json_configuration) throws Exception {
final ObjectMapper mapper = new ObjectMapper();
final OptionsParameter[] configuration = mapper.readValue(json_configuration, OptionsParameter[].class);
createOptionMap(configuration);
}
public ArgumentApplicationParser(final String json_configuration) throws Exception {
final ObjectMapper mapper = new ObjectMapper();
final OptionsParameter[] configuration = mapper.readValue(json_configuration, OptionsParameter[].class);
createOptionMap(configuration);
}
public ArgumentApplicationParser(final OptionsParameter[] configuration) {
createOptionMap(configuration);
}
public ArgumentApplicationParser(final OptionsParameter[] configuration) {
createOptionMap(configuration);
}
private void createOptionMap(final OptionsParameter[] configuration) {
private void createOptionMap(final OptionsParameter[] configuration) {
Arrays.stream(configuration).map(conf -> {
final Option o = new Option(conf.getParamName(), true, conf.getParamDescription());
o.setLongOpt(conf.getParamLongName());
o.setRequired(conf.isParamRequired());
if (conf.isCompressed()) {
compressedValues.add(conf.getParamLongName());
}
return o;
}).forEach(options::addOption);
Arrays
.stream(configuration)
.map(
conf -> {
final Option o = new Option(conf.getParamName(), true, conf.getParamDescription());
o.setLongOpt(conf.getParamLongName());
o.setRequired(conf.isParamRequired());
if (conf.isCompressed()) {
compressedValues.add(conf.getParamLongName());
}
return o;
})
.forEach(options::addOption);
// HelpFormatter formatter = new HelpFormatter();
// formatter.printHelp("myapp", null, options, null, true);
// HelpFormatter formatter = new HelpFormatter();
// formatter.printHelp("myapp", null, options, null, true);
}
}
public static String decompressValue(final String abstractCompressed) {
try {
byte[] byteArray = Base64.decodeBase64(abstractCompressed.getBytes());
GZIPInputStream gis = new GZIPInputStream(new ByteArrayInputStream(byteArray));
final StringWriter stringWriter = new StringWriter();
IOUtils.copy(gis, stringWriter);
return stringWriter.toString();
} catch (Throwable e) {
System.out.println("Wrong value to decompress:" + abstractCompressed);
throw new RuntimeException(e);
}
}
public static String compressArgument(final String value) throws Exception {
ByteArrayOutputStream out = new ByteArrayOutputStream();
GZIPOutputStream gzip = new GZIPOutputStream(out);
gzip.write(value.getBytes());
gzip.close();
return java.util.Base64.getEncoder().encodeToString(out.toByteArray());
}
public static String decompressValue(final String abstractCompressed) {
try {
byte[] byteArray = Base64.decodeBase64(abstractCompressed.getBytes());
GZIPInputStream gis = new GZIPInputStream(new ByteArrayInputStream(byteArray));
final StringWriter stringWriter = new StringWriter();
IOUtils.copy(gis, stringWriter);
return stringWriter.toString();
} catch (Throwable e) {
System.out.println("Wrong value to decompress:" + abstractCompressed);
throw new RuntimeException(e);
}
}
public void parseArgument(final String[] args) throws Exception {
CommandLineParser parser = new BasicParser();
CommandLine cmd = parser.parse(options, args);
Arrays
.stream(cmd.getOptions())
.forEach(
it -> objectMap
.put(
it.getLongOpt(),
compressedValues.contains(it.getLongOpt())
? decompressValue(it.getValue())
: it.getValue()));
}
public static String compressArgument(final String value) throws Exception{
ByteArrayOutputStream out = new ByteArrayOutputStream();
GZIPOutputStream gzip = new GZIPOutputStream(out);
gzip.write(value.getBytes());
gzip.close();
return java.util.Base64.getEncoder().encodeToString(out.toByteArray());
}
public String get(final String key) {
return objectMap.get(key);
}
public void parseArgument(final String[] args) throws Exception {
CommandLineParser parser = new BasicParser();
CommandLine cmd = parser.parse(options, args);
Arrays.stream(cmd.getOptions()).forEach(it -> objectMap.put(it.getLongOpt(), compressedValues.contains(it.getLongOpt())? decompressValue(it.getValue()): it.getValue()));
}
public String get(final String key) {
return objectMap.get(key);
}
public Map<String, String> getObjectMap() {
return objectMap;
}
public Map<String, String> getObjectMap() {
return objectMap;
}
}

52
dhp-common/src/main/java/eu/dnetlib/dhp/application/OptionsParameter.java
View File

@ -1,38 +1,38 @@
package eu.dnetlib.dhp.application;
package eu.dnetlib.dhp.application;
public class OptionsParameter {
private String paramName;
private String paramLongName;
private String paramDescription;
private boolean paramRequired;
private boolean compressed;
private String paramName;
private String paramLongName;
private String paramDescription;
private boolean paramRequired;
private boolean compressed;
public OptionsParameter() {
}
public OptionsParameter() {
}
public String getParamName() {
return paramName;
}
public String getParamName() {
return paramName;
}
public String getParamLongName() {
return paramLongName;
}
public String getParamLongName() {
return paramLongName;
}
public String getParamDescription() {
return paramDescription;
}
public String getParamDescription() {
return paramDescription;
}
public boolean isParamRequired() {
return paramRequired;
}
public boolean isParamRequired() {
return paramRequired;
}
public boolean isCompressed() {
return compressed;
}
public boolean isCompressed() {
return compressed;
}
public void setCompressed(boolean compressed) {
this.compressed = compressed;
}
public void setCompressed(boolean compressed) {
this.compressed = compressed;
}
}

88
dhp-common/src/main/java/eu/dnetlib/dhp/common/FunctionalInterfaceSupport.java
View File

@ -1,56 +1,54 @@
package eu.dnetlib.dhp.common;
import java.io.Serializable;
import java.util.function.Supplier;
/**
* Provides serializable and throwing extensions to standard functional interfaces.
*/
/** Provides serializable and throwing extensions to standard functional interfaces. */
public class FunctionalInterfaceSupport {
private FunctionalInterfaceSupport() {
}
private FunctionalInterfaceSupport() {
}
/**
* Serializable supplier of any kind of objects. To be used withing spark processing pipelines when supplying
* functions externally.
*
* @param <T>
*/
@FunctionalInterface
public interface SerializableSupplier<T> extends Supplier<T>, Serializable {
}
/**
* Serializable supplier of any kind of objects. To be used withing spark processing pipelines when supplying
* functions externally.
*
* @param <T>
*/
@FunctionalInterface
public interface SerializableSupplier<T> extends Supplier<T>, Serializable {
}
/**
* Extension of consumer accepting functions throwing an exception.
*
* @param <T>
* @param <E>
*/
@FunctionalInterface
public interface ThrowingConsumer<T, E extends Exception> {
void accept(T t) throws E;
}
/**
* Extension of consumer accepting functions throwing an exception.
*
* @param <T>
* @param <E>
*/
@FunctionalInterface
public interface ThrowingConsumer<T, E extends Exception> {
void accept(T t) throws E;
}
/**
* Extension of supplier accepting functions throwing an exception.
*
* @param <T>
* @param <E>
*/
@FunctionalInterface
public interface ThrowingSupplier<T, E extends Exception> {
T get() throws E;
}
/**
* Extension of supplier accepting functions throwing an exception.
*
* @param <T>
* @param <E>
*/
@FunctionalInterface
public interface ThrowingSupplier<T, E extends Exception> {
T get() throws E;
}
/**
* Extension of runnable accepting functions throwing an exception.
*
* @param <E>
*/
@FunctionalInterface
public interface ThrowingRunnable<E extends Exception> {
void run() throws E;
}
}
/**
* Extension of runnable accepting functions throwing an exception.
*
* @param <E>
*/
@FunctionalInterface
public interface ThrowingRunnable<E extends Exception> {
void run() throws E;
}
}

103
dhp-common/src/main/java/eu/dnetlib/dhp/common/HdfsSupport.java
View File

@ -1,5 +1,12 @@
package eu.dnetlib.dhp.common;
import static eu.dnetlib.dhp.common.ThrowingSupport.rethrowAsRuntimeException;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.fs.FileStatus;
import org.apache.hadoop.fs.FileSystem;
@ -7,51 +14,61 @@ import org.apache.hadoop.fs.Path;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import static eu.dnetlib.dhp.common.ThrowingSupport.rethrowAsRuntimeException;
/**
* HDFS utility methods.
*/
/** HDFS utility methods. */
public class HdfsSupport {
private static final Logger logger = LoggerFactory.getLogger(HdfsSupport.class);
private static final Logger logger = LoggerFactory.getLogger(HdfsSupport.class);
private HdfsSupport() {
}
private HdfsSupport() {
}
/**
* Removes a path (file or dir) from HDFS.
*
* @param path Path to be removed
* @param configuration Configuration of hadoop env
*/
public static void remove(String path, Configuration configuration) {
logger.info("Removing path: {}", path);
rethrowAsRuntimeException(() -> {
Path f = new Path(path);
FileSystem fileSystem = FileSystem.get(configuration);
if (fileSystem.exists(f)) {
fileSystem.delete(f, true);
}
});
}
/**
* Checks a path (file or dir) exists on HDFS.
*
* @param path Path to be checked
* @param configuration Configuration of hadoop env
*/
public static boolean exists(String path, Configuration configuration) {
logger.info("Removing path: {}", path);
return rethrowAsRuntimeException(
() -> {
Path f = new Path(path);
FileSystem fileSystem = FileSystem.get(configuration);
return fileSystem.exists(f);
});
}
/**
* Lists hadoop files located below path or alternatively lists subdirs under path.
*
* @param path Path to be listed for hadoop files
* @param configuration Configuration of hadoop env
* @return List with string locations of hadoop files
*/
public static List<String> listFiles(String path, Configuration configuration) {
logger.info("Listing files in path: {}", path);
return rethrowAsRuntimeException(() -> Arrays
.stream(FileSystem.get(configuration).listStatus(new Path(path)))
.filter(FileStatus::isDirectory)
.map(x -> x.getPath().toString())
.collect(Collectors.toList()));
}
/**
* Removes a path (file or dir) from HDFS.
*
* @param path Path to be removed
* @param configuration Configuration of hadoop env
*/
public static void remove(String path, Configuration configuration) {
logger.info("Removing path: {}", path);
rethrowAsRuntimeException(
() -> {
Path f = new Path(path);
FileSystem fileSystem = FileSystem.get(configuration);
if (fileSystem.exists(f)) {
fileSystem.delete(f, true);
}
});
}
/**
* Lists hadoop files located below path or alternatively lists subdirs under path.
*
* @param path Path to be listed for hadoop files
* @param configuration Configuration of hadoop env
* @return List with string locations of hadoop files
*/
public static List<String> listFiles(String path, Configuration configuration) {
logger.info("Listing files in path: {}", path);
return rethrowAsRuntimeException(
() -> Arrays
.stream(FileSystem.get(configuration).listStatus(new Path(path)))
.filter(FileStatus::isDirectory)
.map(x -> x.getPath().toString())
.collect(Collectors.toList()));
}
}

126
dhp-common/src/main/java/eu/dnetlib/dhp/common/SparkSessionSupport.java
View File

@ -1,71 +1,75 @@
package eu.dnetlib.dhp.common;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
import org.apache.spark.SparkConf;
import org.apache.spark.sql.SparkSession;
package eu.dnetlib.dhp.common;
import java.util.Objects;
import java.util.function.Function;
/**
* SparkSession utility methods.
*/
import org.apache.spark.SparkConf;
import org.apache.spark.sql.SparkSession;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
/** SparkSession utility methods. */
public class SparkSessionSupport {
private SparkSessionSupport() {
}
private SparkSessionSupport() {
}
/**
* Runs a given function using SparkSession created using default builder and supplied SparkConf. Stops SparkSession
* when SparkSession is managed. Allows to reuse SparkSession created externally.
*
* @param conf SparkConf instance
* @param isSparkSessionManaged When true will stop SparkSession
* @param fn Consumer to be applied to constructed SparkSession
*/
public static void runWithSparkSession(SparkConf conf,
Boolean isSparkSessionManaged,
ThrowingConsumer<SparkSession, Exception> fn) {
runWithSparkSession(c -> SparkSession.builder().config(c).getOrCreate(), conf, isSparkSessionManaged, fn);
}
/**
* Runs a given function using SparkSession created using default builder and supplied SparkConf. Stops SparkSession
* when SparkSession is managed. Allows to reuse SparkSession created externally.
*
* @param conf SparkConf instance
* @param isSparkSessionManaged When true will stop SparkSession
* @param fn Consumer to be applied to constructed SparkSession
*/
public static void runWithSparkSession(
SparkConf conf, Boolean isSparkSessionManaged, ThrowingConsumer<SparkSession, Exception> fn) {
runWithSparkSession(
c -> SparkSession.builder().config(c).getOrCreate(), conf, isSparkSessionManaged, fn);
}
/**
* Runs a given function using SparkSession created with hive support and using default builder and supplied SparkConf.
* Stops SparkSession when SparkSession is managed. Allows to reuse SparkSession created externally.
*
* @param conf SparkConf instance
* @param isSparkSessionManaged When true will stop SparkSession
* @param fn Consumer to be applied to constructed SparkSession
*/
public static void runWithSparkHiveSession(SparkConf conf,
Boolean isSparkSessionManaged,
ThrowingConsumer<SparkSession, Exception> fn) {
runWithSparkSession(c -> SparkSession.builder().config(c).enableHiveSupport().getOrCreate(), conf, isSparkSessionManaged, fn);
}
/**
* Runs a given function using SparkSession created with hive support and using default builder and supplied
* SparkConf. Stops SparkSession when SparkSession is managed. Allows to reuse SparkSession created externally.
*
* @param conf SparkConf instance
* @param isSparkSessionManaged When true will stop SparkSession
* @param fn Consumer to be applied to constructed SparkSession
*/
public static void runWithSparkHiveSession(
SparkConf conf, Boolean isSparkSessionManaged, ThrowingConsumer<SparkSession, Exception> fn) {
runWithSparkSession(
c -> SparkSession.builder().config(c).enableHiveSupport().getOrCreate(),
conf,
isSparkSessionManaged,
fn);
}
/**
* Runs a given function using SparkSession created using supplied builder and supplied SparkConf. Stops SparkSession
* when SparkSession is managed. Allows to reuse SparkSession created externally.
*
* @param sparkSessionBuilder Builder of SparkSession
* @param conf SparkConf instance
* @param isSparkSessionManaged When true will stop SparkSession
* @param fn Consumer to be applied to constructed SparkSession
*/
public static void runWithSparkSession(Function<SparkConf, SparkSession> sparkSessionBuilder,
SparkConf conf,
Boolean isSparkSessionManaged,
ThrowingConsumer<SparkSession, Exception> fn) {
SparkSession spark = null;
try {
spark = sparkSessionBuilder.apply(conf);
fn.accept(spark);
} catch (Exception e) {
throw new RuntimeException(e);
} finally {
if (Objects.nonNull(spark) && isSparkSessionManaged) {
spark.stop();
}
}
}
}
/**
* Runs a given function using SparkSession created using supplied builder and supplied SparkConf. Stops
* SparkSession when SparkSession is managed. Allows to reuse SparkSession created externally.
*
* @param sparkSessionBuilder Builder of SparkSession
* @param conf SparkConf instance
* @param isSparkSessionManaged When true will stop SparkSession
* @param fn Consumer to be applied to constructed SparkSession
*/
public static void runWithSparkSession(
Function<SparkConf, SparkSession> sparkSessionBuilder,
SparkConf conf,
Boolean isSparkSessionManaged,
ThrowingConsumer<SparkSession, Exception> fn) {
SparkSession spark = null;
try {
spark = sparkSessionBuilder.apply(conf);
fn.accept(spark);
} catch (Exception e) {
throw new RuntimeException(e);
} finally {
if (Objects.nonNull(spark) && isSparkSessionManaged) {
spark.stop();
}
}
}
}

130
dhp-common/src/main/java/eu/dnetlib/dhp/common/ThrowingSupport.java
View File

@ -1,76 +1,76 @@
package eu.dnetlib.dhp.common;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingRunnable;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingSupplier;
/**
* Exception handling utility methods.
*/
/** Exception handling utility methods. */
public class ThrowingSupport {
private ThrowingSupport() {
}
private ThrowingSupport() {
}
/**
* Executes given runnable and rethrows any exceptions as RuntimeException.
*
* @param fn Runnable to be executed
* @param <E> Type of exception thrown
*/
public static <E extends Exception> void rethrowAsRuntimeException(ThrowingRunnable<E> fn) {
try {
fn.run();
} catch (Exception e) {
throw new RuntimeException(e);
}
}
/**
* Executes given runnable and rethrows any exceptions as RuntimeException.
*
* @param fn Runnable to be executed
* @param <E> Type of exception thrown
*/
public static <E extends Exception> void rethrowAsRuntimeException(ThrowingRunnable<E> fn) {
try {
fn.run();
} catch (Exception e) {
throw new RuntimeException(e);
}
}
/**
* Executes given runnable and rethrows any exceptions as RuntimeException with custom message.
*
* @param fn Runnable to be executed
* @param msg Message to be set for rethrown exception
* @param <E> Type of exception thrown
*/
public static <E extends Exception> void rethrowAsRuntimeException(ThrowingRunnable<E> fn, String msg) {
try {
fn.run();
} catch (Exception e) {
throw new RuntimeException(msg, e);
}
}
/**
* Executes given runnable and rethrows any exceptions as RuntimeException with custom message.
*
* @param fn Runnable to be executed
* @param msg Message to be set for rethrown exception
* @param <E> Type of exception thrown
*/
public static <E extends Exception> void rethrowAsRuntimeException(
ThrowingRunnable<E> fn, String msg) {
try {
fn.run();
} catch (Exception e) {
throw new RuntimeException(msg, e);
}
}
/**
* Executes given supplier and rethrows any exceptions as RuntimeException.
*
* @param fn Supplier to be executed
* @param <T> Type of returned value
* @param <E> Type of exception thrown
* @return Result of supplier execution
*/
public static <T, E extends Exception> T rethrowAsRuntimeException(ThrowingSupplier<T, E> fn) {
try {
return fn.get();
} catch (Exception e) {
throw new RuntimeException(e);
}
}
/**
* Executes given supplier and rethrows any exceptions as RuntimeException.
*
* @param fn Supplier to be executed
* @param <T> Type of returned value
* @param <E> Type of exception thrown
* @return Result of supplier execution
*/
public static <T, E extends Exception> T rethrowAsRuntimeException(ThrowingSupplier<T, E> fn) {
try {
return fn.get();
} catch (Exception e) {
throw new RuntimeException(e);
}
}
/**
* Executes given supplier and rethrows any exceptions as RuntimeException with custom message.
*
* @param fn Supplier to be executed
* @param msg Message to be set for rethrown exception
* @param <T> Type of returned value
* @param <E> Type of exception thrown
* @return Result of supplier execution
*/
public static <T, E extends Exception> T rethrowAsRuntimeException(ThrowingSupplier<T, E> fn, String msg) {
try {
return fn.get();
} catch (Exception e) {
throw new RuntimeException(msg, e);
}
}
}
/**
* Executes given supplier and rethrows any exceptions as RuntimeException with custom message.
*
* @param fn Supplier to be executed
* @param msg Message to be set for rethrown exception
* @param <T> Type of returned value
* @param <E> Type of exception thrown
* @return Result of supplier execution
*/
public static <T, E extends Exception> T rethrowAsRuntimeException(
ThrowingSupplier<T, E> fn, String msg) {
try {
return fn.get();
} catch (Exception e) {
throw new RuntimeException(msg, e);
}
}
}

192
dhp-common/src/main/java/eu/dnetlib/dhp/model/mdstore/MetadataRecord.java
View File

@ -1,137 +1,121 @@
package eu.dnetlib.dhp.model.mdstore;
import eu.dnetlib.dhp.utils.DHPUtils;
package eu.dnetlib.dhp.model.mdstore;
import java.io.Serializable;
import eu.dnetlib.dhp.utils.DHPUtils;
/**
* This class models a record inside the new Metadata store collection on HDFS *
*
*/
/** This class models a record inside the new Metadata store collection on HDFS * */
public class MetadataRecord implements Serializable {
/**
* The D-Net Identifier associated to the record
*/
private String id;
/** The D-Net Identifier associated to the record */
private String id;
/**
* The original Identifier of the record
*/
private String originalId;
/** The original Identifier of the record */
private String originalId;
/** The encoding of the record, should be JSON or XML */
private String encoding;
/**
* The encoding of the record, should be JSON or XML
*/
private String encoding;
/**
* The information about the provenance of the record see @{@link Provenance} for the model of this information
*/
private Provenance provenance;
/**
* The information about the provenance of the record see @{@link Provenance}
* for the model of this information
*/
private Provenance provenance;
/** The content of the metadata */
private String body;
/**
* The content of the metadata
*/
private String body;
/** the date when the record has been stored */
private long dateOfCollection;
/**
* the date when the record has been stored
*/
private long dateOfCollection;
/** the date when the record has been stored */
private long dateOfTransformation;
/**
* the date when the record has been stored
*/
private long dateOfTransformation;
public MetadataRecord() {
this.dateOfCollection = System.currentTimeMillis();
}
public MetadataRecord(
String originalId,
String encoding,
Provenance provenance,
String body,
long dateOfCollection) {
public MetadataRecord() {
this.dateOfCollection = System.currentTimeMillis();
}
this.originalId = originalId;
this.encoding = encoding;
this.provenance = provenance;
this.body = body;
this.dateOfCollection = dateOfCollection;
this.id = DHPUtils.generateIdentifier(originalId, this.provenance.getNsPrefix());
}
public MetadataRecord(String originalId, String encoding, Provenance provenance, String body, long dateOfCollection) {
public String getId() {
return id;
}
this.originalId = originalId;
this.encoding = encoding;
this.provenance = provenance;
this.body = body;
this.dateOfCollection = dateOfCollection;
this.id = DHPUtils.generateIdentifier(originalId,this.provenance.getNsPrefix());
}
public void setId(String id) {
this.id = id;
}
public String getId() {
return id;
}
public String getOriginalId() {
return originalId;
}
public void setId(String id) {
this.id = id;
}
public void setOriginalId(String originalId) {
this.originalId = originalId;
}
public String getEncoding() {
return encoding;
}
public String getOriginalId() {
return originalId;
}
public void setEncoding(String encoding) {
this.encoding = encoding;
}
public void setOriginalId(String originalId) {
this.originalId = originalId;
}
public Provenance getProvenance() {
return provenance;
}
public String getEncoding() {
return encoding;
}
public void setProvenance(Provenance provenance) {
this.provenance = provenance;
}
public void setEncoding(String encoding) {
this.encoding = encoding;
}
public String getBody() {
return body;
}
public Provenance getProvenance() {
return provenance;
}
public void setBody(String body) {
this.body = body;
}
public void setProvenance(Provenance provenance) {
this.provenance = provenance;
}
public long getDateOfCollection() {
return dateOfCollection;
}
public void setDateOfCollection(long dateOfCollection) {
this.dateOfCollection = dateOfCollection;
}
public String getBody() {
return body;
}
public long getDateOfTransformation() {
return dateOfTransformation;
}
public void setBody(String body) {
this.body = body;
}
public void setDateOfTransformation(long dateOfTransformation) {
this.dateOfTransformation = dateOfTransformation;
}
public long getDateOfCollection() {
return dateOfCollection;
}
@Override
public boolean equals(Object o) {
if (!(o instanceof MetadataRecord)) {
return false;
}
return ((MetadataRecord) o).getId().equalsIgnoreCase(id);
}
public void setDateOfCollection(long dateOfCollection) {
this.dateOfCollection = dateOfCollection;
}
public long getDateOfTransformation() {
return dateOfTransformation;
}
public void setDateOfTransformation(long dateOfTransformation) {
this.dateOfTransformation = dateOfTransformation;
}
@Override
public boolean equals(Object o) {
if (!(o instanceof MetadataRecord)) {
return false;
}
return ((MetadataRecord) o).getId().equalsIgnoreCase(id);
}
@Override
public int hashCode() {
return id.hashCode();
}
@Override
public int hashCode() {
return id.hashCode();
}
}

68
dhp-common/src/main/java/eu/dnetlib/dhp/model/mdstore/Provenance.java
View File

@ -1,56 +1,52 @@
package eu.dnetlib.dhp.model.mdstore;
import java.io.Serializable;
/**
* @author Sandro La Bruzzo
*
* Provenace class models the provenance of the record in the metadataStore
* It contains the identifier and the name of the datasource that gives the
* record
*
* <p>
* Provenace class models the provenance of the record in the metadataStore It contains the identifier and the
* name of the datasource that gives the record
*/
public class Provenance implements Serializable {
private String datasourceId;
private String datasourceId;
private String datasourceName;
private String datasourceName;
private String nsPrefix;
private String nsPrefix;
public Provenance() {
}
public Provenance() {
public Provenance(String datasourceId, String datasourceName, String nsPrefix) {
this.datasourceId = datasourceId;
this.datasourceName = datasourceName;
this.nsPrefix = nsPrefix;
}
}
public String getDatasourceId() {
return datasourceId;
}
public Provenance(String datasourceId, String datasourceName, String nsPrefix) {
this.datasourceId = datasourceId;
this.datasourceName = datasourceName;
this.nsPrefix = nsPrefix;
}
public void setDatasourceId(String datasourceId) {
this.datasourceId = datasourceId;
}
public String getDatasourceId() {
return datasourceId;
}
public String getDatasourceName() {
return datasourceName;
}
public void setDatasourceId(String datasourceId) {
this.datasourceId = datasourceId;
}
public void setDatasourceName(String datasourceName) {
this.datasourceName = datasourceName;
}
public String getDatasourceName() {
return datasourceName;
}
public String getNsPrefix() {
return nsPrefix;
}
public void setDatasourceName(String datasourceName) {
this.datasourceName = datasourceName;
}
public String getNsPrefix() {
return nsPrefix;
}
public void setNsPrefix(String nsPrefix) {
this.nsPrefix = nsPrefix;
}
public void setNsPrefix(String nsPrefix) {
this.nsPrefix = nsPrefix;
}
}

15
dhp-common/src/main/java/eu/dnetlib/dhp/parser/utility/VtdException.java
View File

@ -1,12 +1,13 @@
package eu.dnetlib.dhp.parser.utility;
public class VtdException extends Exception {
public VtdException(final Exception e) {
super(e);
}
public VtdException(final Exception e) {
super(e);
}
public VtdException(final Throwable e) {
super(e);
}
}
public VtdException(final Throwable e) {
super(e);
}
}

167
dhp-common/src/main/java/eu/dnetlib/dhp/parser/utility/VtdUtilityParser.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.parser.utility;
import java.util.ArrayList;
@ -5,103 +6,105 @@ import java.util.HashMap;
import java.util.List;
import java.util.Map;
import com.ximpleware.AutoPilot;
import com.ximpleware.VTDNav;
/**
* Created by sandro on 9/29/16.
*/
/** Created by sandro on 9/29/16. */
public class VtdUtilityParser {
public static List<Node> getTextValuesWithAttributes(final AutoPilot ap, final VTDNav vn, final String xpath, final List<String> attributes)
throws VtdException {
final List<Node> results = new ArrayList<>();
try {
ap.selectXPath(xpath);
public static List<Node> getTextValuesWithAttributes(
final AutoPilot ap, final VTDNav vn, final String xpath, final List<String> attributes)
throws VtdException {
final List<Node> results = new ArrayList<>();
try {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
final Node currentNode = new Node();
int t = vn.getText();
if (t >= 0) {
currentNode.setTextValue(vn.toNormalizedString(t));
}
currentNode.setAttributes(getAttributes(vn, attributes));
results.add(currentNode);
}
return results;
} catch (Exception e) {
throw new VtdException(e);
}
}
while (ap.evalXPath() != -1) {
final Node currentNode = new Node();
int t = vn.getText();
if (t >= 0) {
currentNode.setTextValue(vn.toNormalizedString(t));
}
currentNode.setAttributes(getAttributes(vn, attributes));
results.add(currentNode);
}
return results;
} catch (Exception e) {
throw new VtdException(e);
}
}
private static Map<String, String> getAttributes(final VTDNav vn, final List<String> attributes) {
final Map<String, String> currentAttributes = new HashMap<>();
if (attributes != null) {
private static Map<String, String> getAttributes(final VTDNav vn, final List<String> attributes) {
final Map<String, String> currentAttributes = new HashMap<>();
if (attributes != null) {
attributes.forEach(attributeKey -> {
try {
int attr = vn.getAttrVal(attributeKey);
if (attr > -1) {
currentAttributes.put(attributeKey, vn.toNormalizedString(attr));
}
} catch (Throwable e) {
throw new RuntimeException(e);
}
});
}
return currentAttributes;
}
attributes
.forEach(
attributeKey -> {
try {
int attr = vn.getAttrVal(attributeKey);
if (attr > -1) {
currentAttributes.put(attributeKey, vn.toNormalizedString(attr));
}
} catch (Throwable e) {
throw new RuntimeException(e);
}
});
}
return currentAttributes;
}
public static List<String> getTextValue(final AutoPilot ap, final VTDNav vn, final String xpath) throws VtdException {
List<String> results = new ArrayList<>();
try {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
int t = vn.getText();
if (t > -1) results.add(vn.toNormalizedString(t));
}
return results;
} catch (Exception e) {
throw new VtdException(e);
}
}
public static List<String> getTextValue(final AutoPilot ap, final VTDNav vn, final String xpath)
throws VtdException {
List<String> results = new ArrayList<>();
try {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
int t = vn.getText();
if (t > -1)
results.add(vn.toNormalizedString(t));
}
return results;
} catch (Exception e) {
throw new VtdException(e);
}
}
public static String getSingleValue(final AutoPilot ap, final VTDNav nav, final String xpath) throws VtdException {
try {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
int it = nav.getText();
if (it > -1)
return nav.toNormalizedString(it);
}
return null;
} catch (Exception e) {
throw new VtdException(e);
}
}
public static String getSingleValue(final AutoPilot ap, final VTDNav nav, final String xpath)
throws VtdException {
try {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
int it = nav.getText();
if (it > -1)
return nav.toNormalizedString(it);
}
return null;
} catch (Exception e) {
throw new VtdException(e);
}
}
public static class Node {
public static class Node {
private String textValue;
private String textValue;
private Map<String, String> attributes;
private Map<String, String> attributes;
public String getTextValue() {
return textValue;
}
public String getTextValue() {
return textValue;
}
public void setTextValue(final String textValue) {
this.textValue = textValue;
}
public void setTextValue(final String textValue) {
this.textValue = textValue;
}
public Map<String, String> getAttributes() {
return attributes;
}
public void setAttributes(final Map<String, String> attributes) {
this.attributes = attributes;
}
}
public Map<String, String> getAttributes() {
return attributes;
}
public void setAttributes(final Map<String, String> attributes) {
this.attributes = attributes;
}
}
}

117
dhp-common/src/main/java/eu/dnetlib/dhp/utils/DHPUtils.java
View File

@ -1,11 +1,5 @@
package eu.dnetlib.dhp.utils;
import com.jayway.jsonpath.JsonPath;
import net.minidev.json.JSONArray;
import org.apache.commons.codec.binary.Base64;
import org.apache.commons.codec.binary.Base64OutputStream;
import org.apache.commons.codec.binary.Hex;
import org.apache.commons.lang3.StringUtils;
package eu.dnetlib.dhp.utils;
import java.io.ByteArrayInputStream;
import java.io.ByteArrayOutputStream;
@ -14,61 +8,68 @@ import java.security.MessageDigest;
import java.util.zip.GZIPInputStream;
import java.util.zip.GZIPOutputStream;
import org.apache.commons.codec.binary.Base64;
import org.apache.commons.codec.binary.Base64OutputStream;
import org.apache.commons.codec.binary.Hex;
import com.jayway.jsonpath.JsonPath;
import net.minidev.json.JSONArray;
public class DHPUtils {
public static String md5(final String s) {
try {
final MessageDigest md = MessageDigest.getInstance("MD5");
md.update(s.getBytes("UTF-8"));
return new String(Hex.encodeHex(md.digest()));
} catch (final Exception e) {
System.err.println("Error creating id");
return null;
}
}
public static String md5(final String s) {
try {
final MessageDigest md = MessageDigest.getInstance("MD5");
md.update(s.getBytes(StandardCharsets.UTF_8));
return new String(Hex.encodeHex(md.digest()));
} catch (final Exception e) {
System.err.println("Error creating id");
return null;
}
}
public static String generateIdentifier(final String originalId, final String nsPrefix) {
return String.format("%s::%s",nsPrefix, DHPUtils.md5(originalId));
}
public static String generateIdentifier(final String originalId, final String nsPrefix) {
return String.format("%s::%s", nsPrefix, DHPUtils.md5(originalId));
}
public static String compressString(final String input ) {
try ( ByteArrayOutputStream out = new ByteArrayOutputStream(); Base64OutputStream b64os = new Base64OutputStream(out)) {
GZIPOutputStream gzip = new GZIPOutputStream(b64os);
gzip.write(input.getBytes(StandardCharsets.UTF_8));
gzip.close();
return out.toString();
} catch (Throwable e ) {
return null;
}
}
public static String compressString(final String input) {
try (ByteArrayOutputStream out = new ByteArrayOutputStream();
Base64OutputStream b64os = new Base64OutputStream(out)) {
GZIPOutputStream gzip = new GZIPOutputStream(b64os);
gzip.write(input.getBytes(StandardCharsets.UTF_8));
gzip.close();
return out.toString();
} catch (Throwable e) {
return null;
}
}
public static String decompressString(final String input) {
byte[] byteArray = Base64.decodeBase64(input.getBytes());
int len;
try (GZIPInputStream gis = new GZIPInputStream(new ByteArrayInputStream((byteArray)));
ByteArrayOutputStream bos = new ByteArrayOutputStream(byteArray.length)) {
byte[] buffer = new byte[1024];
while ((len = gis.read(buffer)) != -1) {
bos.write(buffer, 0, len);
}
return bos.toString();
} catch (Exception e) {
return null;
}
}
public static String decompressString(final String input) {
byte[] byteArray = Base64.decodeBase64(input.getBytes());
int len;
try (GZIPInputStream gis = new GZIPInputStream(new ByteArrayInputStream((byteArray))); ByteArrayOutputStream bos = new ByteArrayOutputStream(byteArray.length)) {
byte[] buffer = new byte[1024];
while((len = gis.read(buffer)) != -1){
bos.write(buffer, 0, len);
}
return bos.toString();
} catch (Exception e) {
return null;
}
}
public static String getJPathString(final String jsonPath, final String json) {
try {
Object o = JsonPath.read(json, jsonPath);
if (o instanceof String)
return (String) o;
if (o instanceof JSONArray && ((JSONArray) o).size() > 0)
return (String) ((JSONArray) o).get(0);
return o.toString();
} catch (Exception e) {
return "";
}
}
public static String getJPathString(final String jsonPath, final String json) {
try {
Object o = JsonPath.read(json, jsonPath);
if (o instanceof String)
return (String) o;
if (o instanceof JSONArray && ((JSONArray) o).size() > 0)
return (String) ((JSONArray) o).get(0);
return o.toString();
} catch (Exception e) {
return "";
}
}
}

28
dhp-common/src/main/java/eu/dnetlib/dhp/utils/ISLookupClientFactory.java
View File

@ -1,24 +1,26 @@
package eu.dnetlib.dhp.utils;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;
import org.apache.cxf.jaxws.JaxWsProxyFactoryBean;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
public class ISLookupClientFactory {
private static final Log log = LogFactory.getLog(ISLookupClientFactory.class);
private static final Log log = LogFactory.getLog(ISLookupClientFactory.class);
public static ISLookUpService getLookUpService(final String isLookupUrl) {
return getServiceStub(ISLookUpService.class, isLookupUrl);
}
public static ISLookUpService getLookUpService(final String isLookupUrl) {
return getServiceStub(ISLookUpService.class, isLookupUrl);
}
@SuppressWarnings("unchecked")
private static <T> T getServiceStub(final Class<T> clazz, final String endpoint) {
log.info(String.format("creating %s stub from %s", clazz.getName(), endpoint));
final JaxWsProxyFactoryBean jaxWsProxyFactory = new JaxWsProxyFactoryBean();
jaxWsProxyFactory.setServiceClass(clazz);
jaxWsProxyFactory.setAddress(endpoint);
return (T) jaxWsProxyFactory.create();
}
@SuppressWarnings("unchecked")
private static <T> T getServiceStub(final Class<T> clazz, final String endpoint) {
log.info(String.format("creating %s stub from %s", clazz.getName(), endpoint));
final JaxWsProxyFactoryBean jaxWsProxyFactory = new JaxWsProxyFactoryBean();
jaxWsProxyFactory.setServiceClass(clazz);
jaxWsProxyFactory.setAddress(endpoint);
return (T) jaxWsProxyFactory.create();
}
}

35
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/AbstractExtensionFunction.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.utils.saxon;
import net.sf.saxon.expr.XPathContext;
@ -9,24 +10,24 @@ import net.sf.saxon.trans.XPathException;
public abstract class AbstractExtensionFunction extends ExtensionFunctionDefinition {
public static String DEFAULT_SAXON_EXT_NS_URI = "http://www.d-net.research-infrastructures.eu/saxon-extension";
public static String DEFAULT_SAXON_EXT_NS_URI = "http://www.d-net.research-infrastructures.eu/saxon-extension";
public abstract String getName();
public abstract Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException;
public abstract String getName();
@Override
public StructuredQName getFunctionQName() {
return new StructuredQName("dnet", DEFAULT_SAXON_EXT_NS_URI, getName());
}
public abstract Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException;
@Override
public ExtensionFunctionCall makeCallExpression() {
return new ExtensionFunctionCall() {
@Override
public Sequence call(XPathContext context, Sequence[] arguments) throws XPathException {
return doCall(context, arguments);
}
};
}
@Override
public StructuredQName getFunctionQName() {
return new StructuredQName("dnet", DEFAULT_SAXON_EXT_NS_URI, getName());
}
}
@Override
public ExtensionFunctionCall makeCallExpression() {
return new ExtensionFunctionCall() {
@Override
public Sequence call(XPathContext context, Sequence[] arguments) throws XPathException {
return doCall(context, arguments);
}
};
}
}

102
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/ExtractYear.java
View File

@ -1,5 +1,11 @@
package eu.dnetlib.dhp.utils.saxon;
import java.text.ParseException;
import java.text.SimpleDateFormat;
import java.util.Calendar;
import java.util.GregorianCalendar;
import net.sf.saxon.expr.XPathContext;
import net.sf.saxon.om.Item;
import net.sf.saxon.om.Sequence;
@ -7,61 +13,61 @@ import net.sf.saxon.trans.XPathException;
import net.sf.saxon.value.SequenceType;
import net.sf.saxon.value.StringValue;
import java.text.ParseException;
import java.text.SimpleDateFormat;
import java.util.Calendar;
import java.util.GregorianCalendar;
public class ExtractYear extends AbstractExtensionFunction {
private static final String[] dateFormats = { "yyyy-MM-dd", "yyyy/MM/dd" };
private static final String[] dateFormats = {
"yyyy-MM-dd", "yyyy/MM/dd"
};
@Override
public String getName() {
return "extractYear";
}
@Override
public String getName() {
return "extractYear";
}
@Override
public Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException {
if (arguments == null | arguments.length == 0) {
return new StringValue("");
}
final Item item = arguments[0].head();
if (item == null) {
return new StringValue("");
}
return new StringValue(_year(item.getStringValue()));
}
@Override
public Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException {
if (arguments == null | arguments.length == 0) {
return new StringValue("");
}
final Item item = arguments[0].head();
if (item == null) {
return new StringValue("");
}
return new StringValue(_year(item.getStringValue()));
}
@Override
public int getMinimumNumberOfArguments() {
return 0;
}
@Override
public int getMinimumNumberOfArguments() {
return 0;
}
@Override
public int getMaximumNumberOfArguments() {
return 1;
}
@Override
public int getMaximumNumberOfArguments() {
return 1;
}
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] { SequenceType.OPTIONAL_ITEM };
}
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] {
SequenceType.OPTIONAL_ITEM
};
}
@Override
public SequenceType getResultType(SequenceType[] suppliedArgumentTypes) {
return SequenceType.SINGLE_STRING;
}
@Override
public SequenceType getResultType(SequenceType[] suppliedArgumentTypes) {
return SequenceType.SINGLE_STRING;
}
private String _year(String s) {
Calendar c = new GregorianCalendar();
for (String format : dateFormats) {
try {
c.setTime(new SimpleDateFormat(format).parse(s));
String year = String.valueOf(c.get(Calendar.YEAR));
return year;
} catch (ParseException e) {}
}
return "";
}
private String _year(String s) {
Calendar c = new GregorianCalendar();
for (String format : dateFormats) {
try {
c.setTime(new SimpleDateFormat(format).parse(s));
String year = String.valueOf(c.get(Calendar.YEAR));
return year;
} catch (ParseException e) {
}
}
return "";
}
}

97
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/NormalizeDate.java
View File

@ -1,66 +1,71 @@
package eu.dnetlib.dhp.utils.saxon;
import java.text.ParseException;
import java.text.SimpleDateFormat;
import java.util.Date;
import net.sf.saxon.expr.XPathContext;
import net.sf.saxon.om.Sequence;
import net.sf.saxon.trans.XPathException;
import net.sf.saxon.value.SequenceType;
import net.sf.saxon.value.StringValue;
import java.text.ParseException;
import java.text.SimpleDateFormat;
import java.util.Date;
public class NormalizeDate extends AbstractExtensionFunction {
private static final String[] normalizeDateFormats = { "yyyy-MM-dd'T'hh:mm:ss", "yyyy-MM-dd", "yyyy/MM/dd", "yyyy" };
private static final String[] normalizeDateFormats = {
"yyyy-MM-dd'T'hh:mm:ss", "yyyy-MM-dd", "yyyy/MM/dd", "yyyy"
};
private static final String normalizeOutFormat = new String("yyyy-MM-dd'T'hh:mm:ss'Z'");
private static final String normalizeOutFormat = "yyyy-MM-dd'T'hh:mm:ss'Z'";
@Override
public String getName() {
return "normalizeDate";
}
@Override
public String getName() {
return "normalizeDate";
}
@Override
public Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException {
if (arguments == null | arguments.length == 0) {
return new StringValue("");
}
String s = arguments[0].head().getStringValue();
return new StringValue(_year(s));
}
@Override
public Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException {
if (arguments == null | arguments.length == 0) {
return new StringValue("");
}
String s = arguments[0].head().getStringValue();
return new StringValue(_year(s));
}
@Override
public int getMinimumNumberOfArguments() {
return 0;
}
@Override
public int getMinimumNumberOfArguments() {
return 0;
}
@Override
public int getMaximumNumberOfArguments() {
return 1;
}
@Override
public int getMaximumNumberOfArguments() {
return 1;
}
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] { SequenceType.OPTIONAL_ITEM };
}
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] {
SequenceType.OPTIONAL_ITEM
};
}
@Override
public SequenceType getResultType(SequenceType[] suppliedArgumentTypes) {
return SequenceType.SINGLE_STRING;
}
@Override
public SequenceType getResultType(SequenceType[] suppliedArgumentTypes) {
return SequenceType.SINGLE_STRING;
}
private String _year(String s) {
final String date = s != null ? s.trim() : "";
for (String format : normalizeDateFormats) {
try {
Date parse = new SimpleDateFormat(format).parse(date);
String res = new SimpleDateFormat(normalizeOutFormat).format(parse);
return res;
} catch (ParseException e) {}
}
return "";
}
private String _year(String s) {
final String date = s != null ? s.trim() : "";
for (String format : normalizeDateFormats) {
try {
Date parse = new SimpleDateFormat(format).parse(date);
String res = new SimpleDateFormat(normalizeOutFormat).format(parse);
return res;
} catch (ParseException e) {
}
}
return "";
}
}

83
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/PickFirst.java
View File

@ -1,60 +1,63 @@
package eu.dnetlib.dhp.utils.saxon;
import org.apache.commons.lang3.StringUtils;
import net.sf.saxon.expr.XPathContext;
import net.sf.saxon.om.Item;
import net.sf.saxon.om.Sequence;
import net.sf.saxon.trans.XPathException;
import net.sf.saxon.value.SequenceType;
import net.sf.saxon.value.StringValue;
import org.apache.commons.lang3.StringUtils;
public class PickFirst extends AbstractExtensionFunction {
@Override
public String getName() {
return "pickFirst";
}
@Override
public String getName() {
return "pickFirst";
}
@Override
public Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException {
if (arguments == null | arguments.length == 0) {
return new StringValue("");
}
@Override
public Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException {
if (arguments == null | arguments.length == 0) {
return new StringValue("");
}
final String s1 = getValue(arguments[0]);
final String s2 = getValue(arguments[1]);
final String s1 = getValue(arguments[0]);
final String s2 = getValue(arguments[1]);
return new StringValue(StringUtils.isNotBlank(s1) ? s1 : StringUtils.isNotBlank(s2) ? s2 : "");
}
return new StringValue(StringUtils.isNotBlank(s1) ? s1 : StringUtils.isNotBlank(s2) ? s2 : "");
}
private String getValue(final Sequence arg) throws XPathException {
if (arg != null) {
final Item item = arg.head();
if (item != null) {
return item.getStringValue();
}
}
return "";
}
private String getValue(final Sequence arg) throws XPathException {
if (arg != null) {
final Item item = arg.head();
if (item != null) {
return item.getStringValue();
}
}
return "";
}
@Override
public int getMinimumNumberOfArguments() {
return 0;
}
@Override
public int getMinimumNumberOfArguments() {
return 0;
}
@Override
public int getMaximumNumberOfArguments() {
return 2;
}
@Override
public int getMaximumNumberOfArguments() {
return 2;
}
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] { SequenceType.OPTIONAL_ITEM };
}
@Override
public SequenceType getResultType(SequenceType[] suppliedArgumentTypes) {
return SequenceType.SINGLE_STRING;
}
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] {
SequenceType.OPTIONAL_ITEM
};
}
@Override
public SequenceType getResultType(SequenceType[] suppliedArgumentTypes) {
return SequenceType.SINGLE_STRING;
}
}

38
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/SaxonTransformerFactory.java
View File

@ -1,30 +1,32 @@
package eu.dnetlib.dhp.utils.saxon;
import net.sf.saxon.Configuration;
import net.sf.saxon.TransformerFactoryImpl;
import java.io.StringReader;
import javax.xml.transform.Transformer;
import javax.xml.transform.TransformerException;
import javax.xml.transform.stream.StreamSource;
import java.io.StringReader;
import net.sf.saxon.Configuration;
import net.sf.saxon.TransformerFactoryImpl;
public class SaxonTransformerFactory {
/**
* Creates the index record transformer from the given XSLT
* @param xslt
* @return
* @throws TransformerException
*/
public static Transformer newInstance(final String xslt) throws TransformerException {
/**
* Creates the index record transformer from the given XSLT
*
* @param xslt
* @return
* @throws TransformerException
*/
public static Transformer newInstance(final String xslt) throws TransformerException {
final TransformerFactoryImpl factory = new TransformerFactoryImpl();
final Configuration conf = factory.getConfiguration();
conf.registerExtensionFunction(new ExtractYear());
conf.registerExtensionFunction(new NormalizeDate());
conf.registerExtensionFunction(new PickFirst());
return factory.newTransformer(new StreamSource(new StringReader(xslt)));
}
final TransformerFactoryImpl factory = new TransformerFactoryImpl();
final Configuration conf = factory.getConfiguration();
conf.registerExtensionFunction(new ExtractYear());
conf.registerExtensionFunction(new NormalizeDate());
conf.registerExtensionFunction(new PickFirst());
return factory.newTransformer(new StreamSource(new StringReader(xslt)));
}
}

112
dhp-common/src/main/java/eu/dnetlib/message/Message.java
View File

@ -1,82 +1,76 @@
package eu.dnetlib.message;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.ObjectMapper;
package eu.dnetlib.message;
import java.io.IOException;
import java.util.Map;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.ObjectMapper;
public class Message {
private String workflowId;
private String workflowId;
private String jobName;
private String jobName;
private MessageType type;
private MessageType type;
private Map<String, String> body;
private Map<String, String> body;
public static Message fromJson(final String json) throws IOException {
final ObjectMapper jsonMapper = new ObjectMapper();
return jsonMapper.readValue(json, Message.class);
}
public static Message fromJson(final String json) throws IOException {
final ObjectMapper jsonMapper = new ObjectMapper();
return jsonMapper.readValue(json, Message.class);
public Message() {
}
public Message(String workflowId, String jobName, MessageType type, Map<String, String> body) {
this.workflowId = workflowId;
this.jobName = jobName;
this.type = type;
this.body = body;
}
}
public String getWorkflowId() {
return workflowId;
}
public void setWorkflowId(String workflowId) {
this.workflowId = workflowId;
}
public Message() {
public String getJobName() {
return jobName;
}
public void setJobName(String jobName) {
this.jobName = jobName;
}
public MessageType getType() {
return type;
}
}
public void setType(MessageType type) {
this.type = type;
}
public Message(String workflowId, String jobName, MessageType type, Map<String, String> body) {
this.workflowId = workflowId;
this.jobName = jobName;
this.type = type;
this.body = body;
}
public Map<String, String> getBody() {
return body;
}
public String getWorkflowId() {
return workflowId;
}
public void setBody(Map<String, String> body) {
this.body = body;
}
public void setWorkflowId(String workflowId) {
this.workflowId = workflowId;
}
public String getJobName() {
return jobName;
}
public void setJobName(String jobName) {
this.jobName = jobName;
}
public MessageType getType() {
return type;
}
public void setType(MessageType type) {
this.type = type;
}
public Map<String, String> getBody() {
return body;
}
public void setBody(Map<String, String> body) {
this.body = body;
}
@Override
public String toString() {
final ObjectMapper jsonMapper = new ObjectMapper();
try {
return jsonMapper.writeValueAsString(this);
} catch (JsonProcessingException e) {
return null;
}
}
@Override
public String toString() {
final ObjectMapper jsonMapper = new ObjectMapper();
try {
return jsonMapper.writeValueAsString(this);
} catch (JsonProcessingException e) {
return null;
}
}
}

69
dhp-common/src/main/java/eu/dnetlib/message/MessageConsumer.java
View File

@ -1,46 +1,47 @@
package eu.dnetlib.message;
import java.io.IOException;
import java.nio.charset.StandardCharsets;
import java.util.concurrent.LinkedBlockingQueue;
import com.rabbitmq.client.AMQP;
import com.rabbitmq.client.Channel;
import com.rabbitmq.client.DefaultConsumer;
import com.rabbitmq.client.Envelope;
import java.io.IOException;
import java.nio.charset.StandardCharsets;
import java.util.concurrent.LinkedBlockingQueue;
public class MessageConsumer extends DefaultConsumer {
final LinkedBlockingQueue<Message> queueMessages;
final LinkedBlockingQueue<Message> queueMessages;
/**
* Constructs a new instance and records its association to the passed-in channel.
*
* @param channel the channel to which this consumer is attached
* @param queueMessages
*/
public MessageConsumer(Channel channel, LinkedBlockingQueue<Message> queueMessages) {
super(channel);
this.queueMessages = queueMessages;
}
/**
* Constructs a new instance and records its association to the passed-in channel.
*
* @param channel the channel to which this consumer is attached
* @param queueMessages
*/
public MessageConsumer(Channel channel, LinkedBlockingQueue<Message> queueMessages) {
super(channel);
this.queueMessages = queueMessages;
}
@Override
public void handleDelivery(String consumerTag, Envelope envelope, AMQP.BasicProperties properties, byte[] body) throws IOException {
final String json = new String(body, StandardCharsets.UTF_8);
Message message = Message.fromJson(json);
try {
this.queueMessages.put(message);
System.out.println("Receiving Message "+message);
} catch (InterruptedException e) {
if (message.getType()== MessageType.REPORT)
throw new RuntimeException("Error on sending message");
else {
//TODO LOGGING EXCEPTION
}
} finally {
getChannel().basicAck(envelope.getDeliveryTag(), false);
}
}
@Override
public void handleDelivery(
String consumerTag, Envelope envelope, AMQP.BasicProperties properties, byte[] body)
throws IOException {
final String json = new String(body, StandardCharsets.UTF_8);
Message message = Message.fromJson(json);
try {
this.queueMessages.put(message);
System.out.println("Receiving Message " + message);
} catch (InterruptedException e) {
if (message.getType() == MessageType.REPORT)
throw new RuntimeException("Error on sending message");
else {
// TODO LOGGING EXCEPTION
}
} finally {
getChannel().basicAck(envelope.getDeliveryTag(), false);
}
}
}

191
dhp-common/src/main/java/eu/dnetlib/message/MessageManager.java
View File

@ -1,9 +1,5 @@
package eu.dnetlib.message;
import com.rabbitmq.client.Channel;
import com.rabbitmq.client.Connection;
import com.rabbitmq.client.ConnectionFactory;
import sun.rmi.runtime.Log;
package eu.dnetlib.message;
import java.io.IOException;
import java.util.HashMap;
@ -11,107 +7,130 @@ import java.util.Map;
import java.util.concurrent.LinkedBlockingQueue;
import java.util.concurrent.TimeoutException;
import com.rabbitmq.client.Channel;
import com.rabbitmq.client.Connection;
import com.rabbitmq.client.ConnectionFactory;
public class MessageManager {
private final String messageHost;
private final String messageHost;
private final String username;
private final String username;
private final String password;
private final String password;
private Connection connection;
private Connection connection;
private Map<String , Channel> channels = new HashMap<>();
private final Map<String, Channel> channels = new HashMap<>();
private boolean durable;
private boolean durable;
private boolean autodelete;
private boolean autodelete;
final private LinkedBlockingQueue<Message> queueMessages;
private final LinkedBlockingQueue<Message> queueMessages;
public MessageManager(String messageHost, String username, String password, final LinkedBlockingQueue<Message> queueMessages) {
this.queueMessages = queueMessages;
this.messageHost = messageHost;
this.username = username;
this.password = password;
}
public MessageManager(
String messageHost,
String username,
String password,
final LinkedBlockingQueue<Message> queueMessages) {
this.queueMessages = queueMessages;
this.messageHost = messageHost;
this.username = username;
this.password = password;
}
public MessageManager(
String messageHost,
String username,
String password,
boolean durable,
boolean autodelete,
final LinkedBlockingQueue<Message> queueMessages) {
this.queueMessages = queueMessages;
this.messageHost = messageHost;
this.username = username;
this.password = password;
public MessageManager(String messageHost, String username, String password, boolean durable, boolean autodelete, final LinkedBlockingQueue<Message> queueMessages) {
this.queueMessages = queueMessages;
this.messageHost = messageHost;
this.username = username;
this.password = password;
this.durable = durable;
this.autodelete = autodelete;
}
this.durable = durable;
this.autodelete = autodelete;
}
private Connection createConnection() throws IOException, TimeoutException {
ConnectionFactory factory = new ConnectionFactory();
factory.setHost(this.messageHost);
factory.setUsername(this.username);
factory.setPassword(this.password);
return factory.newConnection();
}
private Connection createConnection() throws IOException, TimeoutException {
ConnectionFactory factory = new ConnectionFactory();
factory.setHost(this.messageHost);
factory.setUsername(this.username);
factory.setPassword(this.password);
return factory.newConnection();
}
private Channel createChannel(
final Connection connection,
final String queueName,
final boolean durable,
final boolean autodelete)
throws Exception {
Map<String, Object> args = new HashMap<>();
args.put("x-message-ttl", 10000);
Channel channel = connection.createChannel();
channel.queueDeclare(queueName, durable, false, this.autodelete, args);
return channel;
}
private Channel createChannel(final Connection connection, final String queueName, final boolean durable, final boolean autodelete ) throws Exception {
Map<String, Object> args = new HashMap<>();
args.put("x-message-ttl", 10000);
Channel channel = connection.createChannel();
channel.queueDeclare(queueName, durable, false, this.autodelete, args);
return channel;
}
private Channel getOrCreateChannel(final String queueName, boolean durable, boolean autodelete)
throws Exception {
if (channels.containsKey(queueName)) {
return channels.get(queueName);
}
private Channel getOrCreateChannel(final String queueName, boolean durable, boolean autodelete) throws Exception {
if (channels.containsKey(queueName)) {
return channels.get(queueName);
}
if (this.connection == null) {
this.connection = createConnection();
}
channels.put(queueName, createChannel(this.connection, queueName, durable, autodelete));
return channels.get(queueName);
}
if (this.connection == null) {
this.connection = createConnection();
}
channels.put(queueName, createChannel(this.connection, queueName, durable, autodelete));
return channels.get(queueName);
}
public void close() throws IOException {
channels
.values()
.forEach(
ch -> {
try {
ch.close();
} catch (Exception e) {
// TODO LOG
}
});
this.connection.close();
}
public boolean sendMessage(final Message message, String queueName) throws Exception {
try {
Channel channel = getOrCreateChannel(queueName, this.durable, this.autodelete);
channel.basicPublish("", queueName, null, message.toString().getBytes());
return true;
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
public void close() throws IOException {
channels.values().forEach(ch-> {
try {
ch.close();
} catch (Exception e) {
//TODO LOG
}
});
public boolean sendMessage(
final Message message, String queueName, boolean durable_var, boolean autodelete_var)
throws Exception {
try {
Channel channel = getOrCreateChannel(queueName, durable_var, autodelete_var);
channel.basicPublish("", queueName, null, message.toString().getBytes());
return true;
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
this.connection.close();
}
public void startConsumingMessage(
final String queueName, final boolean durable, final boolean autodelete) throws Exception {
public boolean sendMessage(final Message message, String queueName) throws Exception {
try {
Channel channel = getOrCreateChannel(queueName, this.durable, this.autodelete);
channel.basicPublish("", queueName,null, message.toString().getBytes());
return true;
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
public boolean sendMessage(final Message message, String queueName, boolean durable_var, boolean autodelete_var) throws Exception {
try {
Channel channel = getOrCreateChannel(queueName, durable_var, autodelete_var);
channel.basicPublish("", queueName,null, message.toString().getBytes());
return true;
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
public void startConsumingMessage(final String queueName, final boolean durable, final boolean autodelete) throws Exception{
Channel channel = createChannel(createConnection(), queueName, durable, autodelete);
channel.basicConsume(queueName, false, new MessageConsumer(channel,queueMessages));
}
Channel channel = createChannel(createConnection(), queueName, durable, autodelete);
channel.basicConsume(queueName, false, new MessageConsumer(channel, queueMessages));
}
}

6
dhp-common/src/main/java/eu/dnetlib/message/MessageType.java
View File

@ -1,8 +1,6 @@
package eu.dnetlib.message;
public enum MessageType {
ONGOING,
REPORT
ONGOING, REPORT
}

31
dhp-common/src/main/java/eu/dnetlib/scholexplorer/relation/RelInfo.java
View File

@ -1,24 +1,25 @@
package eu.dnetlib.scholexplorer.relation;
import java.io.Serializable;
public class RelInfo implements Serializable {
private String original;
private String inverse;
public class RelInfo implements Serializable {
private String original;
private String inverse;
public String getOriginal() {
return original;
}
public String getOriginal() {
return original;
}
public void setOriginal(String original) {
this.original = original;
}
public void setOriginal(String original) {
this.original = original;
}
public String getInverse() {
return inverse;
}
public String getInverse() {
return inverse;
}
public void setInverse(String inverse) {
this.inverse = inverse;
}
public void setInverse(String inverse) {
this.inverse = inverse;
}
}

19
dhp-common/src/main/java/eu/dnetlib/scholexplorer/relation/RelationMapper.java
View File

@ -1,19 +1,20 @@
package eu.dnetlib.scholexplorer.relation;
import com.fasterxml.jackson.databind.ObjectMapper;
import org.apache.commons.io.IOUtils;
package eu.dnetlib.scholexplorer.relation;
import java.io.Serializable;
import java.util.HashMap;
public class RelationMapper extends HashMap<String,RelInfo > implements Serializable {
import org.apache.commons.io.IOUtils;
public static RelationMapper load() throws Exception {
import com.fasterxml.jackson.databind.ObjectMapper;
final String json = IOUtils.toString(RelationMapper.class.getResourceAsStream("relations.json"));
public class RelationMapper extends HashMap<String, RelInfo> implements Serializable {
ObjectMapper mapper = new ObjectMapper();
return mapper.readValue(json, RelationMapper.class);
}
public static RelationMapper load() throws Exception {
final String json = IOUtils.toString(RelationMapper.class.getResourceAsStream("relations.json"));
ObjectMapper mapper = new ObjectMapper();
return mapper.readValue(json, RelationMapper.class);
}
}

107
dhp-common/src/test/java/eu/dnetlib/dhp/application/ArgumentApplicationParserTest.java
View File

@ -1,56 +1,67 @@
package eu.dnetlib.dhp.application;
import org.apache.commons.io.IOUtils;
import org.junit.jupiter.api.Test;
package eu.dnetlib.dhp.application;
import static org.junit.jupiter.api.Assertions.assertEquals;
import static org.junit.jupiter.api.Assertions.assertNotNull;
import org.apache.commons.io.IOUtils;
import org.junit.jupiter.api.Test;
public class ArgumentApplicationParserTest {
@Test
public void testParseParameter() throws Exception {
final String jsonConfiguration = IOUtils.toString(this.getClass().getResourceAsStream("/eu/dnetlib/application/parameters.json"));
assertNotNull(jsonConfiguration);
ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser.parseArgument(new String[]{"-p", "value0",
"-a", "value1",
"-n", "value2",
"-u", "value3",
"-ru", "value4",
"-rp", "value5",
"-rh", "value6",
"-ro", "value7",
"-rr", "value8",
"-w", "value9",
"-cc", ArgumentApplicationParser.compressArgument(jsonConfiguration)
});
assertNotNull(parser.get("hdfsPath"));
assertNotNull(parser.get("apidescriptor"));
assertNotNull(parser.get("namenode"));
assertNotNull(parser.get("userHDFS"));
assertNotNull(parser.get("rabbitUser"));
assertNotNull(parser.get("rabbitPassWord"));
assertNotNull(parser.get("rabbitHost"));
assertNotNull(parser.get("rabbitOngoingQueue"));
assertNotNull(parser.get("rabbitReportQueue"));
assertNotNull(parser.get("workflowId"));
assertEquals("value0", parser.get("hdfsPath"));
assertEquals("value1", parser.get("apidescriptor"));
assertEquals("value2", parser.get("namenode"));
assertEquals("value3", parser.get("userHDFS"));
assertEquals("value4", parser.get("rabbitUser"));
assertEquals("value5", parser.get("rabbitPassWord"));
assertEquals("value6", parser.get("rabbitHost"));
assertEquals("value7", parser.get("rabbitOngoingQueue"));
assertEquals("value8", parser.get("rabbitReportQueue"));
assertEquals("value9", parser.get("workflowId"));
assertEquals(jsonConfiguration, parser.get("ccCoco"));
}
@Test
public void testParseParameter() throws Exception {
final String jsonConfiguration = IOUtils
.toString(
this.getClass().getResourceAsStream("/eu/dnetlib/application/parameters.json"));
assertNotNull(jsonConfiguration);
ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser
.parseArgument(
new String[] {
"-p",
"value0",
"-a",
"value1",
"-n",
"value2",
"-u",
"value3",
"-ru",
"value4",
"-rp",
"value5",
"-rh",
"value6",
"-ro",
"value7",
"-rr",
"value8",
"-w",
"value9",
"-cc",
ArgumentApplicationParser.compressArgument(jsonConfiguration)
});
assertNotNull(parser.get("hdfsPath"));
assertNotNull(parser.get("apidescriptor"));
assertNotNull(parser.get("namenode"));
assertNotNull(parser.get("userHDFS"));
assertNotNull(parser.get("rabbitUser"));
assertNotNull(parser.get("rabbitPassWord"));
assertNotNull(parser.get("rabbitHost"));
assertNotNull(parser.get("rabbitOngoingQueue"));
assertNotNull(parser.get("rabbitReportQueue"));
assertNotNull(parser.get("workflowId"));
assertEquals("value0", parser.get("hdfsPath"));
assertEquals("value1", parser.get("apidescriptor"));
assertEquals("value2", parser.get("namenode"));
assertEquals("value3", parser.get("userHDFS"));
assertEquals("value4", parser.get("rabbitUser"));
assertEquals("value5", parser.get("rabbitPassWord"));
assertEquals("value6", parser.get("rabbitHost"));
assertEquals("value7", parser.get("rabbitOngoingQueue"));
assertEquals("value8", parser.get("rabbitReportQueue"));
assertEquals("value9", parser.get("workflowId"));
assertEquals(jsonConfiguration, parser.get("ccCoco"));
}
}

110
dhp-common/src/test/java/eu/dnetlib/dhp/common/HdfsSupportTest.java
View File

@ -1,9 +1,7 @@
package eu.dnetlib.dhp.common;
import org.apache.hadoop.conf.Configuration;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
import org.junit.jupiter.api.io.TempDir;
import static org.junit.jupiter.api.Assertions.*;
import java.io.IOException;
import java.nio.file.Files;
@ -12,67 +10,71 @@ import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import static org.junit.jupiter.api.Assertions.*;
import org.apache.hadoop.conf.Configuration;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
import org.junit.jupiter.api.io.TempDir;
public class HdfsSupportTest {
@Nested
class Remove {
@Nested
class Remove {
@Test
public void shouldThrowARuntimeExceptionOnError() {
// when
assertThrows(RuntimeException.class, () ->
HdfsSupport.remove(null, new Configuration()));
}
@Test
public void shouldThrowARuntimeExceptionOnError() {
// when
assertThrows(RuntimeException.class, () -> HdfsSupport.remove(null, new Configuration()));
}
@Test
public void shouldRemoveADirFromHDFS(@TempDir Path tempDir) {
// when
HdfsSupport.remove(tempDir.toString(), new Configuration());
@Test
public void shouldRemoveADirFromHDFS(@TempDir Path tempDir) {
// when
HdfsSupport.remove(tempDir.toString(), new Configuration());
// then
assertFalse(Files.exists(tempDir));
}
// then
assertFalse(Files.exists(tempDir));
}
@Test
public void shouldRemoveAFileFromHDFS(@TempDir Path tempDir) throws IOException {
// given
Path file = Files.createTempFile(tempDir, "p", "s");
@Test
public void shouldRemoveAFileFromHDFS(@TempDir Path tempDir) throws IOException {
// given
Path file = Files.createTempFile(tempDir, "p", "s");
// when
HdfsSupport.remove(file.toString(), new Configuration());
// when
HdfsSupport.remove(file.toString(), new Configuration());
// then
assertFalse(Files.exists(file));
}
}
// then
assertFalse(Files.exists(file));
}
}
@Nested
class ListFiles {
@Nested
class ListFiles {
@Test
public void shouldThrowARuntimeExceptionOnError() {
// when
assertThrows(RuntimeException.class, () ->
HdfsSupport.listFiles(null, new Configuration()));
}
@Test
public void shouldThrowARuntimeExceptionOnError() {
// when
assertThrows(RuntimeException.class, () -> HdfsSupport.listFiles(null, new Configuration()));
}
@Test
public void shouldListFilesLocatedInPath(@TempDir Path tempDir) throws IOException {
Path subDir1 = Files.createTempDirectory(tempDir, "list_me");
Path subDir2 = Files.createTempDirectory(tempDir, "list_me");
@Test
public void shouldListFilesLocatedInPath(@TempDir Path tempDir) throws IOException {
Path subDir1 = Files.createTempDirectory(tempDir, "list_me");
Path subDir2 = Files.createTempDirectory(tempDir, "list_me");
// when
List<String> paths = HdfsSupport.listFiles(tempDir.toString(), new Configuration());
// when
List<String> paths = HdfsSupport.listFiles(tempDir.toString(), new Configuration());
// then
assertEquals(2, paths.size());
List<String> expecteds = Arrays.stream(new String[]{subDir1.toString(), subDir2.toString()})
.sorted().collect(Collectors.toList());
List<String> actuals = paths.stream().sorted().collect(Collectors.toList());
assertTrue(actuals.get(0).contains(expecteds.get(0)));
assertTrue(actuals.get(1).contains(expecteds.get(1)));
}
}
}
// then
assertEquals(2, paths.size());
List<String> expecteds = Arrays.stream(new String[] {
subDir1.toString(), subDir2.toString()
})
.sorted()
.collect(Collectors.toList());
List<String> actuals = paths.stream().sorted().collect(Collectors.toList());
assertTrue(actuals.get(0).contains(expecteds.get(0)));
assertTrue(actuals.get(1).contains(expecteds.get(1)));
}
}
}

80
dhp-common/src/test/java/eu/dnetlib/dhp/common/SparkSessionSupportTest.java
View File

@ -1,54 +1,58 @@
package eu.dnetlib.dhp.common;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
import static org.mockito.Mockito.*;
import java.util.function.Function;
import org.apache.spark.SparkConf;
import org.apache.spark.sql.SparkSession;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
import java.util.function.Function;
import static org.mockito.Mockito.*;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
public class SparkSessionSupportTest {
@Nested
class RunWithSparkSession {
@Nested
class RunWithSparkSession {
@Test
public void shouldExecuteFunctionAndNotStopSparkSessionWhenSparkSessionIsNotManaged() throws Exception {
// given
SparkSession spark = mock(SparkSession.class);
SparkConf conf = mock(SparkConf.class);
Function<SparkConf, SparkSession> sparkSessionBuilder = mock(Function.class);
when(sparkSessionBuilder.apply(conf)).thenReturn(spark);
ThrowingConsumer<SparkSession, Exception> fn = mock(ThrowingConsumer.class);
@Test
public void shouldExecuteFunctionAndNotStopSparkSessionWhenSparkSessionIsNotManaged()
throws Exception {
// given
SparkSession spark = mock(SparkSession.class);
SparkConf conf = mock(SparkConf.class);
Function<SparkConf, SparkSession> sparkSessionBuilder = mock(Function.class);
when(sparkSessionBuilder.apply(conf)).thenReturn(spark);
ThrowingConsumer<SparkSession, Exception> fn = mock(ThrowingConsumer.class);
// when
SparkSessionSupport.runWithSparkSession(sparkSessionBuilder, conf, false, fn);
// when
SparkSessionSupport.runWithSparkSession(sparkSessionBuilder, conf, false, fn);
// then
verify(sparkSessionBuilder).apply(conf);
verify(fn).accept(spark);
verify(spark, never()).stop();
}
// then
verify(sparkSessionBuilder).apply(conf);
verify(fn).accept(spark);
verify(spark, never()).stop();
}
@Test
public void shouldExecuteFunctionAndStopSparkSessionWhenSparkSessionIsManaged() throws Exception {
// given
SparkSession spark = mock(SparkSession.class);
SparkConf conf = mock(SparkConf.class);
Function<SparkConf, SparkSession> sparkSessionBuilder = mock(Function.class);
when(sparkSessionBuilder.apply(conf)).thenReturn(spark);
ThrowingConsumer<SparkSession, Exception> fn = mock(ThrowingConsumer.class);
@Test
public void shouldExecuteFunctionAndStopSparkSessionWhenSparkSessionIsManaged()
throws Exception {
// given
SparkSession spark = mock(SparkSession.class);
SparkConf conf = mock(SparkConf.class);
Function<SparkConf, SparkSession> sparkSessionBuilder = mock(Function.class);
when(sparkSessionBuilder.apply(conf)).thenReturn(spark);
ThrowingConsumer<SparkSession, Exception> fn = mock(ThrowingConsumer.class);
// when
SparkSessionSupport.runWithSparkSession(sparkSessionBuilder, conf, true, fn);
// when
SparkSessionSupport.runWithSparkSession(sparkSessionBuilder, conf, true, fn);
// then
verify(sparkSessionBuilder).apply(conf);
verify(fn).accept(spark);
verify(spark, times(1)).stop();
}
}
}
// then
verify(sparkSessionBuilder).apply(conf);
verify(fn).accept(spark);
verify(spark, times(1)).stop();
}
}
}

17
dhp-common/src/test/java/eu/dnetlib/dhp/model/mdstore/MetadataRecordTest.java
View File

@ -1,15 +1,16 @@
package eu.dnetlib.dhp.model.mdstore;
import org.junit.jupiter.api.Test;
package eu.dnetlib.dhp.model.mdstore;
import static org.junit.jupiter.api.Assertions.assertTrue;
import org.junit.jupiter.api.Test;
public class MetadataRecordTest {
@Test
public void getTimestamp() {
@Test
public void getTimestamp() {
MetadataRecord r = new MetadataRecord();
assertTrue(r.getDateOfCollection() > 0);
}
}
MetadataRecord r = new MetadataRecord();
assertTrue(r.getDateOfCollection() > 0);
}
}

76
dhp-common/src/test/java/eu/dnetlib/message/MessageTest.java
View File

@ -1,55 +1,51 @@
package eu.dnetlib.message;
import org.junit.jupiter.api.Test;
import static org.junit.jupiter.api.Assertions.*;
import java.io.IOException;
import java.util.HashMap;
import java.util.Map;
import static org.junit.jupiter.api.Assertions.*;
import org.junit.jupiter.api.Test;
public class MessageTest {
@Test
public void fromJsonTest() throws IOException {
Message m = new Message();
m.setWorkflowId("wId");
m.setType(MessageType.ONGOING);
m.setJobName("Collection");
Map<String,String> body= new HashMap<>();
body.put("parsedItem", "300");
body.put("ExecutionTime", "30s");
@Test
public void fromJsonTest() throws IOException {
Message m = new Message();
m.setWorkflowId("wId");
m.setType(MessageType.ONGOING);
m.setJobName("Collection");
Map<String, String> body = new HashMap<>();
body.put("parsedItem", "300");
body.put("ExecutionTime", "30s");
m.setBody(body);
System.out.println("m = " + m);
Message m1 = Message.fromJson(m.toString());
assertEquals(m1.getWorkflowId(), m.getWorkflowId());
assertEquals(m1.getType(), m.getType());
assertEquals(m1.getJobName(), m.getJobName());
m.setBody(body);
System.out.println("m = " + m);
Message m1 = Message.fromJson(m.toString());
assertEquals(m1.getWorkflowId(), m.getWorkflowId());
assertEquals(m1.getType(), m.getType());
assertEquals(m1.getJobName(), m.getJobName());
assertNotNull(m1.getBody());
m1.getBody().keySet().forEach(it -> assertEquals(m1.getBody().get(it), m.getBody().get(it)));
assertEquals(m1.getJobName(), m.getJobName());
}
assertNotNull(m1.getBody());
m1.getBody().keySet().forEach(it -> assertEquals(m1.getBody().get(it), m.getBody().get(it)));
assertEquals(m1.getJobName(), m.getJobName());
}
@Test
public void toStringTest() {
final String expectedJson= "{\"workflowId\":\"wId\",\"jobName\":\"Collection\",\"type\":\"ONGOING\",\"body\":{\"ExecutionTime\":\"30s\",\"parsedItem\":\"300\"}}";
Message m = new Message();
m.setWorkflowId("wId");
m.setType(MessageType.ONGOING);
m.setJobName("Collection");
Map<String,String> body= new HashMap<>();
body.put("parsedItem", "300");
body.put("ExecutionTime", "30s");
@Test
public void toStringTest() {
final String expectedJson = "{\"workflowId\":\"wId\",\"jobName\":\"Collection\",\"type\":\"ONGOING\",\"body\":{\"ExecutionTime\":\"30s\",\"parsedItem\":\"300\"}}";
Message m = new Message();
m.setWorkflowId("wId");
m.setType(MessageType.ONGOING);
m.setJobName("Collection");
Map<String, String> body = new HashMap<>();
body.put("parsedItem", "300");
body.put("ExecutionTime", "30s");
m.setBody(body);
m.setBody(body);
assertEquals(expectedJson,m.toString());
}
}
assertEquals(expectedJson, m.toString());
}
}

13
dhp-common/src/test/java/eu/dnetlib/scholexplorer/relation/RelationMapperTest.java
View File

@ -1,15 +1,14 @@
package eu.dnetlib.scholexplorer.relation;
import org.junit.jupiter.api.Test;
public class RelationMapperTest {
@Test
public void testLoadRels() throws Exception{
@Test
public void testLoadRels() throws Exception {
RelationMapper relationMapper = RelationMapper.load();
relationMapper.keySet().forEach(System.out::println);
}
RelationMapper relationMapper = RelationMapper.load();
relationMapper.keySet().forEach(System.out::println);
}
}

2
dhp-schemas/pom.xml
View File

@ -12,7 +12,7 @@
<artifactId>dhp-schemas</artifactId>
<packaging>jar</packaging>
<description>This module contains common schema classes meant to be used across the dnet-hadoop submodules</description>
<dependencies>

48
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/action/AtomicAction.java
View File

@ -1,38 +1,40 @@
package eu.dnetlib.dhp.schema.action;
import com.fasterxml.jackson.databind.annotation.JsonDeserialize;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import java.io.Serializable;
import com.fasterxml.jackson.databind.annotation.JsonDeserialize;
import eu.dnetlib.dhp.schema.oaf.Oaf;
@JsonDeserialize(using = AtomicActionDeserializer.class)
public class AtomicAction<T extends Oaf> implements Serializable {
private Class<T> clazz;
private Class<T> clazz;
private T payload;
private T payload;
public AtomicAction() {
}
public AtomicAction() {
}
public AtomicAction(Class<T> clazz, T payload) {
this.clazz = clazz;
this.payload = payload;
}
public AtomicAction(Class<T> clazz, T payload) {
this.clazz = clazz;
this.payload = payload;
}
public Class<T> getClazz() {
return clazz;
}
public Class<T> getClazz() {
return clazz;
}
public void setClazz(Class<T> clazz) {
this.clazz = clazz;
}
public void setClazz(Class<T> clazz) {
this.clazz = clazz;
}
public T getPayload() {
return payload;
}
public T getPayload() {
return payload;
}
public void setPayload(T payload) {
this.payload = payload;
}
public void setPayload(T payload) {
this.payload = payload;
}
}

33
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/action/AtomicActionDeserializer.java
View File

@ -1,29 +1,32 @@
package eu.dnetlib.dhp.schema.action;
import java.io.IOException;
import com.fasterxml.jackson.core.JsonParser;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.DeserializationContext;
import com.fasterxml.jackson.databind.JsonDeserializer;
import com.fasterxml.jackson.databind.JsonNode;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import java.io.IOException;
import eu.dnetlib.dhp.schema.oaf.Oaf;
public class AtomicActionDeserializer extends JsonDeserializer {
@Override
public Object deserialize(JsonParser jp, DeserializationContext ctxt) throws IOException, JsonProcessingException {
JsonNode node = jp.getCodec().readTree(jp);
String classTag = node.get("clazz").asText();
JsonNode payload = node.get("payload");
ObjectMapper mapper = new ObjectMapper();
@Override
public Object deserialize(JsonParser jp, DeserializationContext ctxt)
throws IOException {
JsonNode node = jp.getCodec().readTree(jp);
String classTag = node.get("clazz").asText();
JsonNode payload = node.get("payload");
ObjectMapper mapper = new ObjectMapper();
try {
final Class<?> clazz = Class.forName(classTag);
return new AtomicAction(clazz, (Oaf) mapper.readValue(payload.toString(), clazz));
} catch (ClassNotFoundException e) {
throw new IOException(e);
}
}
try {
final Class<?> clazz = Class.forName(classTag);
return new AtomicAction(clazz, (Oaf) mapper.readValue(payload.toString(), clazz));
} catch (ClassNotFoundException e) {
throw new IOException(e);
}
}
}

28
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/common/EntityType.java
View File

@ -1,23 +1,21 @@
package eu.dnetlib.dhp.schema.common;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
/**
* Actual entity types in the Graph
*/
/** Actual entity types in the Graph */
public enum EntityType {
publication, dataset, otherresearchproduct, software, datasource, organization, project;
publication, dataset, otherresearchproduct, software, datasource, organization, project;
/**
* Resolves the EntityType, given the relative class name
* @param clazz the given class name
* @param <T> actual OafEntity subclass
* @return the EntityType associated to the given class
*/
public static <T extends OafEntity> EntityType fromClass(Class<T> clazz) {
return EntityType.valueOf(clazz.getSimpleName().toLowerCase());
}
/**
* Resolves the EntityType, given the relative class name
*
* @param clazz the given class name
* @param <T> actual OafEntity subclass
* @return the EntityType associated to the given class
*/
public static <T extends OafEntity> EntityType fromClass(Class<T> clazz) {
return EntityType.valueOf(clazz.getSimpleName().toLowerCase());
}
}

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/common/MainEntityType.java
View File

@ -1,9 +1,7 @@
package eu.dnetlib.dhp.schema.common;
/**
* Main entity types in the Graph
*/
/** Main entity types in the Graph */
public enum MainEntityType {
result, datasource, organization, project
}
result, datasource, organization, project
}

41
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/common/ModelConstants.java Normal file
View File

@ -0,0 +1,41 @@
package eu.dnetlib.dhp.schema.common;
import eu.dnetlib.dhp.schema.oaf.Qualifier;
public class ModelConstants {
public static final String DNET_RESULT_TYPOLOGIES = "dnet:result_typologies";
public static final String DATASET_RESULTTYPE_CLASSID = "dataset";
public static final String PUBLICATION_RESULTTYPE_CLASSID = "publication";
public static final String SOFTWARE_RESULTTYPE_CLASSID = "software";
public static final String ORP_RESULTTYPE_CLASSID = "other";
public static Qualifier PUBLICATION_DEFAULT_RESULTTYPE = new Qualifier();
public static Qualifier DATASET_DEFAULT_RESULTTYPE = new Qualifier();
public static Qualifier SOFTWARE_DEFAULT_RESULTTYPE = new Qualifier();
public static Qualifier ORP_DEFAULT_RESULTTYPE = new Qualifier();
static {
PUBLICATION_DEFAULT_RESULTTYPE.setClassid(PUBLICATION_RESULTTYPE_CLASSID);
PUBLICATION_DEFAULT_RESULTTYPE.setClassname(PUBLICATION_RESULTTYPE_CLASSID);
PUBLICATION_DEFAULT_RESULTTYPE.setSchemeid(DNET_RESULT_TYPOLOGIES);
PUBLICATION_DEFAULT_RESULTTYPE.setSchemename(DNET_RESULT_TYPOLOGIES);
DATASET_DEFAULT_RESULTTYPE.setClassid(DATASET_RESULTTYPE_CLASSID);
DATASET_DEFAULT_RESULTTYPE.setClassname(DATASET_RESULTTYPE_CLASSID);
DATASET_DEFAULT_RESULTTYPE.setSchemeid(DNET_RESULT_TYPOLOGIES);
DATASET_DEFAULT_RESULTTYPE.setSchemename(DNET_RESULT_TYPOLOGIES);
SOFTWARE_DEFAULT_RESULTTYPE.setClassid(SOFTWARE_RESULTTYPE_CLASSID);
SOFTWARE_DEFAULT_RESULTTYPE.setClassname(SOFTWARE_RESULTTYPE_CLASSID);
SOFTWARE_DEFAULT_RESULTTYPE.setSchemeid(DNET_RESULT_TYPOLOGIES);
SOFTWARE_DEFAULT_RESULTTYPE.setSchemename(DNET_RESULT_TYPOLOGIES);
ORP_DEFAULT_RESULTTYPE.setClassid(ORP_RESULTTYPE_CLASSID);
ORP_DEFAULT_RESULTTYPE.setClassname(ORP_RESULTTYPE_CLASSID);
ORP_DEFAULT_RESULTTYPE.setSchemeid(DNET_RESULT_TYPOLOGIES);
ORP_DEFAULT_RESULTTYPE.setSchemename(DNET_RESULT_TYPOLOGIES);
}
}

312
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/common/ModelSupport.java
View File

@ -1,151 +1,205 @@
package eu.dnetlib.dhp.schema.common;
import java.util.Map;
import java.util.Optional;
import java.util.function.Function;
import com.google.common.collect.Maps;
import eu.dnetlib.dhp.schema.oaf.*;
import java.util.Map;
/**
* Oaf model utility methods.
*/
/** Oaf model utility methods. */
public class ModelSupport {
/**
* Defines the mapping between the actual entity type and the main entity type
*/
private static Map<EntityType, MainEntityType> entityMapping = Maps.newHashMap();
/** Defines the mapping between the actual entity type and the main entity type */
private static final Map<EntityType, MainEntityType> entityMapping = Maps.newHashMap();
static {
entityMapping.put(EntityType.publication, MainEntityType.result);
entityMapping.put(EntityType.dataset, MainEntityType.result);
entityMapping.put(EntityType.otherresearchproduct, MainEntityType.result);
entityMapping.put(EntityType.software, MainEntityType.result);
entityMapping.put(EntityType.datasource, MainEntityType.datasource);
entityMapping.put(EntityType.organization, MainEntityType.organization);
entityMapping.put(EntityType.project, MainEntityType.project);
}
static {
entityMapping.put(EntityType.publication, MainEntityType.result);
entityMapping.put(EntityType.dataset, MainEntityType.result);
entityMapping.put(EntityType.otherresearchproduct, MainEntityType.result);
entityMapping.put(EntityType.software, MainEntityType.result);
entityMapping.put(EntityType.datasource, MainEntityType.datasource);
entityMapping.put(EntityType.organization, MainEntityType.organization);
entityMapping.put(EntityType.project, MainEntityType.project);
}
/**
* Defines the mapping between the actual entity types and the relative classes implementing them
*/
public final static Map<EntityType, Class> entityTypes = Maps.newHashMap();
/**
* Defines the mapping between the actual entity types and the relative classes implementing them
*/
public static final Map<EntityType, Class> entityTypes = Maps.newHashMap();
static {
entityTypes.put(EntityType.datasource, Datasource.class);
entityTypes.put(EntityType.organization, Organization.class);
entityTypes.put(EntityType.project, Project.class);
entityTypes.put(EntityType.dataset, Dataset.class);
entityTypes.put(EntityType.otherresearchproduct, OtherResearchProduct.class);
entityTypes.put(EntityType.software, Software.class);
entityTypes.put(EntityType.publication, Publication.class);
}
static {
entityTypes.put(EntityType.datasource, Datasource.class);
entityTypes.put(EntityType.organization, Organization.class);
entityTypes.put(EntityType.project, Project.class);
entityTypes.put(EntityType.dataset, Dataset.class);
entityTypes.put(EntityType.otherresearchproduct, OtherResearchProduct.class);
entityTypes.put(EntityType.software, Software.class);
entityTypes.put(EntityType.publication, Publication.class);
}
public final static Map<String, Class> oafTypes = Maps.newHashMap();
public static final Map<String, Class> oafTypes = Maps.newHashMap();
static {
oafTypes.put("datasource", Datasource.class);
oafTypes.put("organization", Organization.class);
oafTypes.put("project", Project.class);
oafTypes.put("dataset", Dataset.class);
oafTypes.put("otherresearchproduct", OtherResearchProduct.class);
oafTypes.put("software", Software.class);
oafTypes.put("publication", Publication.class);
oafTypes.put("relation", Relation.class);
}
static {
oafTypes.put("datasource", Datasource.class);
oafTypes.put("organization", Organization.class);
oafTypes.put("project", Project.class);
oafTypes.put("dataset", Dataset.class);
oafTypes.put("otherresearchproduct", OtherResearchProduct.class);
oafTypes.put("software", Software.class);
oafTypes.put("publication", Publication.class);
oafTypes.put("relation", Relation.class);
}
private static final String schemeTemplate = "dnet:%s_%s_relations";
private static final String schemeTemplate = "dnet:%s_%s_relations";
private ModelSupport() {
}
private ModelSupport() {
}
/**
* Checks subclass-superclass relationship.
*
* @param subClazzObject Subclass object instance
* @param superClazzObject Superclass object instance
* @param <X> Subclass type
* @param <Y> Superclass type
* @return True if X is a subclass of Y
*/
public static <X extends Oaf, Y extends Oaf> Boolean isSubClass(X subClazzObject, Y superClazzObject) {
return isSubClass(subClazzObject.getClass(), superClazzObject.getClass());
}
/**
* Checks subclass-superclass relationship.
*
* @param subClazzObject Subclass object instance
* @param superClazzObject Superclass object instance
* @param <X> Subclass type
* @param <Y> Superclass type
* @return True if X is a subclass of Y
*/
public static <X extends Oaf, Y extends Oaf> Boolean isSubClass(
X subClazzObject, Y superClazzObject) {
return isSubClass(subClazzObject.getClass(), superClazzObject.getClass());
}
/**
* Checks subclass-superclass relationship.
*
* @param subClazzObject Subclass object instance
* @param superClazz Superclass class
* @param <X> Subclass type
* @param <Y> Superclass type
* @return True if X is a subclass of Y
*/
public static <X extends Oaf, Y extends Oaf> Boolean isSubClass(X subClazzObject, Class<Y> superClazz) {
return isSubClass(subClazzObject.getClass(), superClazz);
}
/**
* Checks subclass-superclass relationship.
*
* @param subClazzObject Subclass object instance
* @param superClazz Superclass class
* @param <X> Subclass type
* @param <Y> Superclass type
* @return True if X is a subclass of Y
*/
public static <X extends Oaf, Y extends Oaf> Boolean isSubClass(
X subClazzObject, Class<Y> superClazz) {
return isSubClass(subClazzObject.getClass(), superClazz);
}
/**
* Checks subclass-superclass relationship.
*
* @param subClazz Subclass class
* @param superClazz Superclass class
* @param <X> Subclass type
* @param <Y> Superclass type
* @return True if X is a subclass of Y
*/
public static <X extends Oaf, Y extends Oaf> Boolean isSubClass(Class<X> subClazz, Class<Y> superClazz) {
return superClazz.isAssignableFrom(subClazz);
}
/**
* Checks subclass-superclass relationship.
*
* @param subClazz Subclass class
* @param superClazz Superclass class
* @param <X> Subclass type
* @param <Y> Superclass type
* @return True if X is a subclass of Y
*/
public static <X extends Oaf, Y extends Oaf> Boolean isSubClass(
Class<X> subClazz, Class<Y> superClazz) {
return superClazz.isAssignableFrom(subClazz);
}
/**
* Lists all the OAF model classes
*
* @param <T>
* @return
*/
public static <T extends Oaf> Class<T>[] getOafModelClasses() {
return new Class[]{
Author.class,
Context.class,
Country.class,
DataInfo.class,
Dataset.class,
Datasource.class,
ExternalReference.class,
ExtraInfo.class,
Field.class,
GeoLocation.class,
Instance.class,
Journal.class,
KeyValue.class,
Oaf.class,
OafEntity.class,
OAIProvenance.class,
Organization.class,
OriginDescription.class,
OtherResearchProduct.class,
Project.class,
Publication.class,
Qualifier.class,
Relation.class,
Result.class,
Software.class,
StructuredProperty.class
};
}
/**
* Lists all the OAF model classes
*
* @param <T>
* @return
*/
public static <T extends Oaf> Class<T>[] getOafModelClasses() {
return new Class[] {
Author.class,
Context.class,
Country.class,
DataInfo.class,
Dataset.class,
Datasource.class,
ExternalReference.class,
ExtraInfo.class,
Field.class,
GeoLocation.class,
Instance.class,
Journal.class,
KeyValue.class,
Oaf.class,
OafEntity.class,
OAIProvenance.class,
Organization.class,
OriginDescription.class,
OtherResearchProduct.class,
Project.class,
Publication.class,
Qualifier.class,
Relation.class,
Result.class,
Software.class,
StructuredProperty.class
};
}
public static String getMainType(final EntityType type) {
return entityMapping.get(type).name();
}
public static String getMainType(final EntityType type) {
return entityMapping.get(type).name();
}
public static boolean isResult(EntityType type) {
return MainEntityType.result.name().equals(getMainType(type));
}
public static boolean isResult(EntityType type) {
return MainEntityType.result.name().equals(getMainType(type));
}
public static String getScheme(final String sourceType, final String targetType) {
return String.format(schemeTemplate,
entityMapping.get(EntityType.valueOf(sourceType)).name(),
entityMapping.get(EntityType.valueOf(targetType)).name());
}
public static String getScheme(final String sourceType, final String targetType) {
return String
.format(
schemeTemplate,
entityMapping.get(EntityType.valueOf(sourceType)).name(),
entityMapping.get(EntityType.valueOf(targetType)).name());
}
}
public static <T extends Oaf> Function<T, String> idFn() {
return x -> {
if (isSubClass(x, Relation.class)) {
return idFnForRelation(x);
}
return idFnForOafEntity(x);
};
}
private static <T extends Oaf> String idFnForRelation(T t) {
Relation r = (Relation) t;
return Optional
.ofNullable(r.getSource())
.map(
source -> Optional
.ofNullable(r.getTarget())
.map(
target -> Optional
.ofNullable(r.getRelType())
.map(
relType -> Optional
.ofNullable(r.getSubRelType())
.map(
subRelType -> Optional
.ofNullable(r.getRelClass())
.map(
relClass -> String
.join(
source,
target,
relType,
subRelType,
relClass))
.orElse(
String
.join(
source,
target,
relType,
subRelType)))
.orElse(String.join(source, target, relType)))
.orElse(String.join(source, target)))
.orElse(source))
.orElse(null);
}
private static <T extends Oaf> String idFnForOafEntity(T t) {
return ((OafEntity) t).getId();
}
}

119
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Author.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -6,81 +7,83 @@ import java.util.Objects;
public class Author implements Serializable {
private String fullname;
private String fullname;
private String name;
private String name;
private String surname;
private String surname;
private Integer rank;
private Integer rank;
private List<StructuredProperty> pid;
private List<StructuredProperty> pid;
private List<Field<String>> affiliation;
private List<Field<String>> affiliation;
public String getFullname() {
return fullname;
}
public String getFullname() {
return fullname;
}
public void setFullname(String fullname) {
this.fullname = fullname;
}
public void setFullname(String fullname) {
this.fullname = fullname;
}
public String getName() {
return name;
}
public String getName() {
return name;
}
public void setName(String name) {
this.name = name;
}
public void setName(String name) {
this.name = name;
}
public String getSurname() {
return surname;
}
public String getSurname() {
return surname;
}
public void setSurname(String surname) {
this.surname = surname;
}
public void setSurname(String surname) {
this.surname = surname;
}
public Integer getRank() {
return rank;
}
public Integer getRank() {
return rank;
}
public void setRank(Integer rank) {
this.rank = rank;
}
public void setRank(Integer rank) {
this.rank = rank;
}
public List<StructuredProperty> getPid() {
return pid;
}
public List<StructuredProperty> getPid() {
return pid;
}
public void setPid(List<StructuredProperty> pid) {
this.pid = pid;
}
public void setPid(List<StructuredProperty> pid) {
this.pid = pid;
}
public List<Field<String>> getAffiliation() {
return affiliation;
}
public List<Field<String>> getAffiliation() {
return affiliation;
}
public void setAffiliation(List<Field<String>> affiliation) {
this.affiliation = affiliation;
}
public void setAffiliation(List<Field<String>> affiliation) {
this.affiliation = affiliation;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
Author author = (Author) o;
return Objects.equals(fullname, author.fullname) &&
Objects.equals(name, author.name) &&
Objects.equals(surname, author.surname) &&
Objects.equals(rank, author.rank) &&
Objects.equals(pid, author.pid) &&
Objects.equals(affiliation, author.affiliation);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
Author author = (Author) o;
return Objects.equals(fullname, author.fullname)
&& Objects.equals(name, author.name)
&& Objects.equals(surname, author.surname)
&& Objects.equals(rank, author.rank)
&& Objects.equals(pid, author.pid)
&& Objects.equals(affiliation, author.affiliation);
}
@Override
public int hashCode() {
return Objects.hash(fullname, name, surname, rank, pid, affiliation);
}
@Override
public int hashCode() {
return Objects.hash(fullname, name, surname, rank, pid, affiliation);
}
}

59
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Context.java
View File

@ -1,45 +1,46 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
public class Context implements Serializable {
private String id;
private String id;
private List<DataInfo> dataInfo;
private List<DataInfo> dataInfo;
public String getId() {
return id;
}
public String getId() {
return id;
}
public void setId(String id) {
this.id = id;
}
public void setId(String id) {
this.id = id;
}
public List<DataInfo> getDataInfo() {
return dataInfo;
}
public List<DataInfo> getDataInfo() {
return dataInfo;
}
public void setDataInfo(List<DataInfo> dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(List<DataInfo> dataInfo) {
this.dataInfo = dataInfo;
}
@Override
public int hashCode() {
return id ==null? 0 : id.hashCode();
}
@Override
public int hashCode() {
return id == null ? 0 : id.hashCode();
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Context other = (Context) obj;
Context other = (Context) obj;
return id.equals(other.getId());
}
return id.equals(other.getId());
}
}

42
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Country.java
View File

@ -1,30 +1,34 @@
package eu.dnetlib.dhp.schema.oaf;
import java.util.Objects;
public class Country extends Qualifier {
private DataInfo dataInfo;
private DataInfo dataInfo;
public DataInfo getDataInfo() {
return dataInfo;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Country country = (Country) o;
return Objects.equals(dataInfo, country.dataInfo);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
if (!super.equals(o))
return false;
Country country = (Country) o;
return Objects.equals(dataInfo, country.dataInfo);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), dataInfo);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), dataInfo);
}
}

123
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/DataInfo.java
View File

@ -1,82 +1,85 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
public class DataInfo implements Serializable {
private Boolean invisible = false;
private Boolean inferred;
private Boolean deletedbyinference;
private String trust;
private String inferenceprovenance;
private Qualifier provenanceaction;
private Boolean invisible = false;
private Boolean inferred;
private Boolean deletedbyinference;
private String trust;
private String inferenceprovenance;
private Qualifier provenanceaction;
public Boolean getInvisible() {
return invisible;
}
public Boolean getInvisible() {
return invisible;
}
public void setInvisible(Boolean invisible) {
this.invisible = invisible;
}
public void setInvisible(Boolean invisible) {
this.invisible = invisible;
}
public Boolean getInferred() {
return inferred;
}
public Boolean getInferred() {
return inferred;
}
public void setInferred(Boolean inferred) {
this.inferred = inferred;
}
public void setInferred(Boolean inferred) {
this.inferred = inferred;
}
public Boolean getDeletedbyinference() {
return deletedbyinference;
}
public Boolean getDeletedbyinference() {
return deletedbyinference;
}
public void setDeletedbyinference(Boolean deletedbyinference) {
this.deletedbyinference = deletedbyinference;
}
public void setDeletedbyinference(Boolean deletedbyinference) {
this.deletedbyinference = deletedbyinference;
}
public String getTrust() {
return trust;
}
public String getTrust() {
return trust;
}
public void setTrust(String trust) {
this.trust = trust;
}
public void setTrust(String trust) {
this.trust = trust;
}
public String getInferenceprovenance() {
return inferenceprovenance;
}
public String getInferenceprovenance() {
return inferenceprovenance;
}
public void setInferenceprovenance(String inferenceprovenance) {
this.inferenceprovenance = inferenceprovenance;
}
public void setInferenceprovenance(String inferenceprovenance) {
this.inferenceprovenance = inferenceprovenance;
}
public Qualifier getProvenanceaction() {
return provenanceaction;
}
public Qualifier getProvenanceaction() {
return provenanceaction;
}
public void setProvenanceaction(Qualifier provenanceaction) {
this.provenanceaction = provenanceaction;
}
public void setProvenanceaction(Qualifier provenanceaction) {
this.provenanceaction = provenanceaction;
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
DataInfo dataInfo = (DataInfo) o;
return Objects.equals(invisible, dataInfo.invisible)
&& Objects.equals(inferred, dataInfo.inferred)
&& Objects.equals(deletedbyinference, dataInfo.deletedbyinference)
&& Objects.equals(trust, dataInfo.trust)
&& Objects.equals(inferenceprovenance, dataInfo.inferenceprovenance)
&& Objects.equals(provenanceaction, dataInfo.provenanceaction);
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
DataInfo dataInfo = (DataInfo) o;
return Objects.equals(invisible, dataInfo.invisible) &&
Objects.equals(inferred, dataInfo.inferred) &&
Objects.equals(deletedbyinference, dataInfo.deletedbyinference) &&
Objects.equals(trust, dataInfo.trust) &&
Objects.equals(inferenceprovenance, dataInfo.inferenceprovenance) &&
Objects.equals(provenanceaction, dataInfo.provenanceaction);
}
@Override
public int hashCode() {
return Objects.hash(invisible, inferred, deletedbyinference, trust, inferenceprovenance, provenanceaction);
}
@Override
public int hashCode() {
return Objects
.hash(
invisible, inferred, deletedbyinference, trust, inferenceprovenance, provenanceaction);
}
}

160
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Dataset.java
View File

@ -1,125 +1,115 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
import eu.dnetlib.dhp.schema.common.ModelConstants;
public class Dataset extends Result implements Serializable {
private Field<String> storagedate;
private Field<String> storagedate;
private Field<String> device;
private Field<String> device;
private Field<String> size;
private Field<String> size;
private Field<String> version;
private Field<String> version;
private Field<String> lastmetadataupdate;
private Field<String> lastmetadataupdate;
private Field<String> metadataversionnumber;
private Field<String> metadataversionnumber;
private List<GeoLocation> geolocation;
private List<GeoLocation> geolocation;
public Field<String> getStoragedate() {
return storagedate;
}
public Dataset() {
setResulttype(ModelConstants.DATASET_DEFAULT_RESULTTYPE);
}
public void setStoragedate(Field<String> storagedate) {
this.storagedate = storagedate;
}
public Field<String> getStoragedate() {
return storagedate;
}
public Field<String> getDevice() {
return device;
}
public void setStoragedate(Field<String> storagedate) {
this.storagedate = storagedate;
}
public void setDevice(Field<String> device) {
this.device = device;
}
public Field<String> getDevice() {
return device;
}
public Field<String> getSize() {
return size;
}
public void setDevice(Field<String> device) {
this.device = device;
}
public void setSize(Field<String> size) {
this.size = size;
}
public Field<String> getSize() {
return size;
}
public Field<String> getVersion() {
return version;
}
public void setSize(Field<String> size) {
this.size = size;
}
public void setVersion(Field<String> version) {
this.version = version;
}
public Field<String> getVersion() {
return version;
}
public Field<String> getLastmetadataupdate() {
return lastmetadataupdate;
}
public void setVersion(Field<String> version) {
this.version = version;
}
public void setLastmetadataupdate(Field<String> lastmetadataupdate) {
this.lastmetadataupdate = lastmetadataupdate;
}
public Field<String> getLastmetadataupdate() {
return lastmetadataupdate;
}
public Field<String> getMetadataversionnumber() {
return metadataversionnumber;
}
public void setLastmetadataupdate(Field<String> lastmetadataupdate) {
this.lastmetadataupdate = lastmetadataupdate;
}
public void setMetadataversionnumber(Field<String> metadataversionnumber) {
this.metadataversionnumber = metadataversionnumber;
}
public Field<String> getMetadataversionnumber() {
return metadataversionnumber;
}
public List<GeoLocation> getGeolocation() {
return geolocation;
}
public void setMetadataversionnumber(Field<String> metadataversionnumber) {
this.metadataversionnumber = metadataversionnumber;
}
public void setGeolocation(List<GeoLocation> geolocation) {
this.geolocation = geolocation;
}
public List<GeoLocation> getGeolocation() {
return geolocation;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
public void setGeolocation(List<GeoLocation> geolocation) {
this.geolocation = geolocation;
}
if (!Dataset.class.isAssignableFrom(e.getClass())){
return;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
final Dataset d = (Dataset) e;
if (!Dataset.class.isAssignableFrom(e.getClass())) {
return;
}
storagedate = d.getStoragedate() != null && compareTrust(this, e)<0? d.getStoragedate() : storagedate;
final Dataset d = (Dataset) e;
device= d.getDevice() != null && compareTrust(this, e)<0? d.getDevice() : device;
storagedate = d.getStoragedate() != null && compareTrust(this, e) < 0 ? d.getStoragedate() : storagedate;
size= d.getSize() != null && compareTrust(this, e)<0? d.getSize() : size;
device = d.getDevice() != null && compareTrust(this, e) < 0 ? d.getDevice() : device;
version= d.getVersion() != null && compareTrust(this, e)<0? d.getVersion() : version;
size = d.getSize() != null && compareTrust(this, e) < 0 ? d.getSize() : size;
lastmetadataupdate= d.getLastmetadataupdate() != null && compareTrust(this, e)<0? d.getLastmetadataupdate() :lastmetadataupdate;
version = d.getVersion() != null && compareTrust(this, e) < 0 ? d.getVersion() : version;
metadataversionnumber= d.getMetadataversionnumber() != null && compareTrust(this, e)<0? d.getMetadataversionnumber() : metadataversionnumber;
lastmetadataupdate = d.getLastmetadataupdate() != null && compareTrust(this, e) < 0
? d.getLastmetadataupdate()
: lastmetadataupdate;
geolocation = mergeLists(geolocation, d.getGeolocation());
metadataversionnumber = d.getMetadataversionnumber() != null && compareTrust(this, e) < 0
? d.getMetadataversionnumber()
: metadataversionnumber;
mergeOAFDataInfo(d);
}
geolocation = mergeLists(geolocation, d.getGeolocation());
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Dataset dataset = (Dataset) o;
return Objects.equals(storagedate, dataset.storagedate) &&
Objects.equals(device, dataset.device) &&
Objects.equals(size, dataset.size) &&
Objects.equals(version, dataset.version) &&
Objects.equals(lastmetadataupdate, dataset.lastmetadataupdate) &&
Objects.equals(metadataversionnumber, dataset.metadataversionnumber) &&
Objects.equals(geolocation, dataset.geolocation);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), storagedate, device, size, version, lastmetadataupdate, metadataversionnumber, geolocation);
}
mergeOAFDataInfo(d);
}
}

768
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Datasource.java
View File

@ -1,480 +1,472 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
public class Datasource extends OafEntity implements Serializable {
private Qualifier datasourcetype;
private Qualifier datasourcetype;
private Qualifier openairecompatibility;
private Qualifier openairecompatibility;
private Field<String> officialname;
private Field<String> officialname;
private Field<String> englishname;
private Field<String> englishname;
private Field<String> websiteurl;
private Field<String> websiteurl;
private Field<String> logourl;
private Field<String> logourl;
private Field<String> contactemail;
private Field<String> contactemail;
private Field<String> namespaceprefix;
private Field<String> namespaceprefix;
private Field<String> latitude;
private Field<String> latitude;
private Field<String> longitude;
private Field<String> longitude;
private Field<String> dateofvalidation;
private Field<String> dateofvalidation;
private Field<String> description;
private Field<String> description;
private List<StructuredProperty> subjects;
private List<StructuredProperty> subjects;
// opendoar specific fields (od*)
private Field<String> odnumberofitems;
// opendoar specific fields (od*)
private Field<String> odnumberofitems;
private Field<String> odnumberofitemsdate;
private Field<String> odnumberofitemsdate;
private Field<String> odpolicies;
private Field<String> odpolicies;
private List<Field<String>> odlanguages;
private List<Field<String>> odlanguages;
private List<Field<String>> odcontenttypes;
private List<Field<String>> odcontenttypes;
private List<Field<String>> accessinfopackage;
private List<Field<String>> accessinfopackage;
// re3data fields
private Field<String> releasestartdate;
// re3data fields
private Field<String> releasestartdate;
private Field<String> releaseenddate;
private Field<String> releaseenddate;
private Field<String> missionstatementurl;
private Field<String> missionstatementurl;
private Field<Boolean> dataprovider;
private Field<Boolean> dataprovider;
private Field<Boolean> serviceprovider;
private Field<Boolean> serviceprovider;
// {open, restricted or closed}
private Field<String> databaseaccesstype;
// {open, restricted or closed}
private Field<String> databaseaccesstype;
// {open, restricted or closed}
private Field<String> datauploadtype;
// {open, restricted or closed}
private Field<String> datauploadtype;
// {feeRequired, registration, other}
private Field<String> databaseaccessrestriction;
// {feeRequired, registration, other}
private Field<String> databaseaccessrestriction;
// {feeRequired, registration, other}
private Field<String> datauploadrestriction;
// {feeRequired, registration, other}
private Field<String> datauploadrestriction;
private Field<Boolean> versioning;
private Field<Boolean> versioning;
private Field<String> citationguidelineurl;
private Field<String> citationguidelineurl;
//{yes, no, uknown}
private Field<String> qualitymanagementkind;
// {yes, no, uknown}
private Field<String> qualitymanagementkind;
private Field<String> pidsystems;
private Field<String> pidsystems;
private Field<String> certificates;
private Field<String> certificates;
private List<KeyValue> policies;
private List<KeyValue> policies;
private Journal journal;
private Journal journal;
public Qualifier getDatasourcetype() {
return datasourcetype;
}
public Qualifier getDatasourcetype() {
return datasourcetype;
}
public void setDatasourcetype(Qualifier datasourcetype) {
this.datasourcetype = datasourcetype;
}
public void setDatasourcetype(Qualifier datasourcetype) {
this.datasourcetype = datasourcetype;
}
public Qualifier getOpenairecompatibility() {
return openairecompatibility;
}
public Qualifier getOpenairecompatibility() {
return openairecompatibility;
}
public void setOpenairecompatibility(Qualifier openairecompatibility) {
this.openairecompatibility = openairecompatibility;
}
public void setOpenairecompatibility(Qualifier openairecompatibility) {
this.openairecompatibility = openairecompatibility;
}
public Field<String> getOfficialname() {
return officialname;
}
public Field<String> getOfficialname() {
return officialname;
}
public void setOfficialname(Field<String> officialname) {
this.officialname = officialname;
}
public void setOfficialname(Field<String> officialname) {
this.officialname = officialname;
}
public Field<String> getEnglishname() {
return englishname;
}
public Field<String> getEnglishname() {
return englishname;
}
public void setEnglishname(Field<String> englishname) {
this.englishname = englishname;
}
public void setEnglishname(Field<String> englishname) {
this.englishname = englishname;
}
public Field<String> getWebsiteurl() {
return websiteurl;
}
public Field<String> getWebsiteurl() {
return websiteurl;
}
public void setWebsiteurl(Field<String> websiteurl) {
this.websiteurl = websiteurl;
}
public void setWebsiteurl(Field<String> websiteurl) {
this.websiteurl = websiteurl;
}
public Field<String> getLogourl() {
return logourl;
}
public Field<String> getLogourl() {
return logourl;
}
public void setLogourl(Field<String> logourl) {
this.logourl = logourl;
}
public void setLogourl(Field<String> logourl) {
this.logourl = logourl;
}
public Field<String> getContactemail() {
return contactemail;
}
public Field<String> getContactemail() {
return contactemail;
}
public void setContactemail(Field<String> contactemail) {
this.contactemail = contactemail;
}
public void setContactemail(Field<String> contactemail) {
this.contactemail = contactemail;
}
public Field<String> getNamespaceprefix() {
return namespaceprefix;
}
public Field<String> getNamespaceprefix() {
return namespaceprefix;
}
public void setNamespaceprefix(Field<String> namespaceprefix) {
this.namespaceprefix = namespaceprefix;
}
public void setNamespaceprefix(Field<String> namespaceprefix) {
this.namespaceprefix = namespaceprefix;
}
public Field<String> getLatitude() {
return latitude;
}
public Field<String> getLatitude() {
return latitude;
}
public void setLatitude(Field<String> latitude) {
this.latitude = latitude;
}
public void setLatitude(Field<String> latitude) {
this.latitude = latitude;
}
public Field<String> getLongitude() {
return longitude;
}
public Field<String> getLongitude() {
return longitude;
}
public void setLongitude(Field<String> longitude) {
this.longitude = longitude;
}
public void setLongitude(Field<String> longitude) {
this.longitude = longitude;
}
public Field<String> getDateofvalidation() {
return dateofvalidation;
}
public Field<String> getDateofvalidation() {
return dateofvalidation;
}
public void setDateofvalidation(Field<String> dateofvalidation) {
this.dateofvalidation = dateofvalidation;
}
public void setDateofvalidation(Field<String> dateofvalidation) {
this.dateofvalidation = dateofvalidation;
}
public Field<String> getDescription() {
return description;
}
public Field<String> getDescription() {
return description;
}
public void setDescription(Field<String> description) {
this.description = description;
}
public void setDescription(Field<String> description) {
this.description = description;
}
public List<StructuredProperty> getSubjects() {
return subjects;
}
public List<StructuredProperty> getSubjects() {
return subjects;
}
public void setSubjects(List<StructuredProperty> subjects) {
this.subjects = subjects;
}
public void setSubjects(List<StructuredProperty> subjects) {
this.subjects = subjects;
}
public Field<String> getOdnumberofitems() {
return odnumberofitems;
}
public Field<String> getOdnumberofitems() {
return odnumberofitems;
}
public void setOdnumberofitems(Field<String> odnumberofitems) {
this.odnumberofitems = odnumberofitems;
}
public void setOdnumberofitems(Field<String> odnumberofitems) {
this.odnumberofitems = odnumberofitems;
}
public Field<String> getOdnumberofitemsdate() {
return odnumberofitemsdate;
}
public Field<String> getOdnumberofitemsdate() {
return odnumberofitemsdate;
}
public void setOdnumberofitemsdate(Field<String> odnumberofitemsdate) {
this.odnumberofitemsdate = odnumberofitemsdate;
}
public void setOdnumberofitemsdate(Field<String> odnumberofitemsdate) {
this.odnumberofitemsdate = odnumberofitemsdate;
}
public Field<String> getOdpolicies() {
return odpolicies;
}
public Field<String> getOdpolicies() {
return odpolicies;
}
public void setOdpolicies(Field<String> odpolicies) {
this.odpolicies = odpolicies;
}
public void setOdpolicies(Field<String> odpolicies) {
this.odpolicies = odpolicies;
}
public List<Field<String>> getOdlanguages() {
return odlanguages;
}
public List<Field<String>> getOdlanguages() {
return odlanguages;
}
public void setOdlanguages(List<Field<String>> odlanguages) {
this.odlanguages = odlanguages;
}
public void setOdlanguages(List<Field<String>> odlanguages) {
this.odlanguages = odlanguages;
}
public List<Field<String>> getOdcontenttypes() {
return odcontenttypes;
}
public List<Field<String>> getOdcontenttypes() {
return odcontenttypes;
}
public void setOdcontenttypes(List<Field<String>> odcontenttypes) {
this.odcontenttypes = odcontenttypes;
}
public void setOdcontenttypes(List<Field<String>> odcontenttypes) {
this.odcontenttypes = odcontenttypes;
}
public List<Field<String>> getAccessinfopackage() {
return accessinfopackage;
}
public List<Field<String>> getAccessinfopackage() {
return accessinfopackage;
}
public void setAccessinfopackage(List<Field<String>> accessinfopackage) {
this.accessinfopackage = accessinfopackage;
}
public void setAccessinfopackage(List<Field<String>> accessinfopackage) {
this.accessinfopackage = accessinfopackage;
}
public Field<String> getReleasestartdate() {
return releasestartdate;
}
public Field<String> getReleasestartdate() {
return releasestartdate;
}
public void setReleasestartdate(Field<String> releasestartdate) {
this.releasestartdate = releasestartdate;
}
public void setReleasestartdate(Field<String> releasestartdate) {
this.releasestartdate = releasestartdate;
}
public Field<String> getReleaseenddate() {
return releaseenddate;
}
public Field<String> getReleaseenddate() {
return releaseenddate;
}
public void setReleaseenddate(Field<String> releaseenddate) {
this.releaseenddate = releaseenddate;
}
public void setReleaseenddate(Field<String> releaseenddate) {
this.releaseenddate = releaseenddate;
}
public Field<String> getMissionstatementurl() {
return missionstatementurl;
}
public Field<String> getMissionstatementurl() {
return missionstatementurl;
}
public void setMissionstatementurl(Field<String> missionstatementurl) {
this.missionstatementurl = missionstatementurl;
}
public void setMissionstatementurl(Field<String> missionstatementurl) {
this.missionstatementurl = missionstatementurl;
}
public Field<Boolean> getDataprovider() {
return dataprovider;
}
public Field<Boolean> getDataprovider() {
return dataprovider;
}
public void setDataprovider(Field<Boolean> dataprovider) {
this.dataprovider = dataprovider;
}
public void setDataprovider(Field<Boolean> dataprovider) {
this.dataprovider = dataprovider;
}
public Field<Boolean> getServiceprovider() {
return serviceprovider;
}
public Field<Boolean> getServiceprovider() {
return serviceprovider;
}
public void setServiceprovider(Field<Boolean> serviceprovider) {
this.serviceprovider = serviceprovider;
}
public void setServiceprovider(Field<Boolean> serviceprovider) {
this.serviceprovider = serviceprovider;
}
public Field<String> getDatabaseaccesstype() {
return databaseaccesstype;
}
public Field<String> getDatabaseaccesstype() {
return databaseaccesstype;
}
public void setDatabaseaccesstype(Field<String> databaseaccesstype) {
this.databaseaccesstype = databaseaccesstype;
}
public Field<String> getDatauploadtype() {
return datauploadtype;
}
public void setDatauploadtype(Field<String> datauploadtype) {
this.datauploadtype = datauploadtype;
}
public Field<String> getDatabaseaccessrestriction() {
return databaseaccessrestriction;
}
public void setDatabaseaccessrestriction(Field<String> databaseaccessrestriction) {
this.databaseaccessrestriction = databaseaccessrestriction;
}
public Field<String> getDatauploadrestriction() {
return datauploadrestriction;
}
public void setDatauploadrestriction(Field<String> datauploadrestriction) {
this.datauploadrestriction = datauploadrestriction;
}
public Field<Boolean> getVersioning() {
return versioning;
}
public void setVersioning(Field<Boolean> versioning) {
this.versioning = versioning;
}
public Field<String> getCitationguidelineurl() {
return citationguidelineurl;
}
public void setCitationguidelineurl(Field<String> citationguidelineurl) {
this.citationguidelineurl = citationguidelineurl;
}
public Field<String> getQualitymanagementkind() {
return qualitymanagementkind;
}
public void setQualitymanagementkind(Field<String> qualitymanagementkind) {
this.qualitymanagementkind = qualitymanagementkind;
}
public Field<String> getPidsystems() {
return pidsystems;
}
public void setPidsystems(Field<String> pidsystems) {
this.pidsystems = pidsystems;
}
public Field<String> getCertificates() {
return certificates;
}
public void setCertificates(Field<String> certificates) {
this.certificates = certificates;
}
public List<KeyValue> getPolicies() {
return policies;
}
public void setPolicies(List<KeyValue> policies) {
this.policies = policies;
}
public Journal getJournal() {
return journal;
}
public void setJournal(Journal journal) {
this.journal = journal;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
if (!Datasource.class.isAssignableFrom(e.getClass())){
return;
}
Datasource d = (Datasource)e;
datasourcetype = d.getDatasourcetype() != null && compareTrust(this, e)<0? d.getDatasourcetype() : datasourcetype;
openairecompatibility = d.getOpenairecompatibility() != null && compareTrust(this, e)<0? d.getOpenairecompatibility() : openairecompatibility;
officialname = d.getOfficialname() != null && compareTrust(this, e)<0? d.getOfficialname() : officialname;
englishname = d.getEnglishname() != null && compareTrust(this, e)<0? d.getEnglishname() : officialname;
websiteurl = d.getWebsiteurl() != null && compareTrust(this, e)<0? d.getWebsiteurl() : websiteurl;
logourl = d.getLogourl() != null && compareTrust(this, e)<0? d.getLogourl() : getLogourl();
contactemail = d.getContactemail() != null && compareTrust(this, e)<0? d.getContactemail() : contactemail;
namespaceprefix = d.getNamespaceprefix() != null && compareTrust(this, e)<0? d.getNamespaceprefix() : namespaceprefix;
latitude = d.getLatitude() != null && compareTrust(this, e)<0? d.getLatitude() : latitude;
longitude = d.getLongitude() != null && compareTrust(this, e)<0? d.getLongitude() : longitude;
dateofvalidation = d.getDateofvalidation() != null && compareTrust(this, e)<0? d.getDateofvalidation() : dateofvalidation;
description = d.getDescription() != null && compareTrust(this, e)<0? d.getDescription() : description;
subjects = mergeLists(subjects, d.getSubjects());
// opendoar specific fields (od*)
odnumberofitems = d.getOdnumberofitems() != null && compareTrust(this, e)<0? d.getOdnumberofitems() : odnumberofitems;
odnumberofitemsdate = d.getOdnumberofitemsdate() != null && compareTrust(this, e)<0? d.getOdnumberofitemsdate() : odnumberofitemsdate;
odpolicies = d.getOdpolicies() != null && compareTrust(this, e)<0? d.getOdpolicies() : odpolicies;
odlanguages = mergeLists(odlanguages, d.getOdlanguages());
odcontenttypes = mergeLists(odcontenttypes, d.getOdcontenttypes());
accessinfopackage = mergeLists(accessinfopackage, d.getAccessinfopackage());
// re3data fields
releasestartdate = d.getReleasestartdate() != null && compareTrust(this, e)<0? d.getReleasestartdate() : releasestartdate;
releaseenddate = d.getReleaseenddate() != null && compareTrust(this, e)<0? d.getReleaseenddate() : releaseenddate;
missionstatementurl = d.getMissionstatementurl() != null && compareTrust(this, e)<0? d.getMissionstatementurl() : missionstatementurl;
dataprovider = d.getDataprovider() != null && compareTrust(this, e)<0? d.getDataprovider() : dataprovider;
serviceprovider = d.getServiceprovider() != null && compareTrust(this, e)<0? d.getServiceprovider() : serviceprovider;
// {open, restricted or closed}
databaseaccesstype = d.getDatabaseaccesstype() != null && compareTrust(this, e)<0? d.getDatabaseaccesstype() : databaseaccesstype;
// {open, restricted or closed}
datauploadtype = d.getDatauploadtype() != null && compareTrust(this, e)<0? d.getDatauploadtype() : datauploadtype;
// {feeRequired, registration, other}
databaseaccessrestriction = d.getDatabaseaccessrestriction() != null && compareTrust(this, e)<0? d.getDatabaseaccessrestriction() : databaseaccessrestriction;
// {feeRequired, registration, other}
datauploadrestriction = d.getDatauploadrestriction() != null && compareTrust(this, e)<0? d.getDatauploadrestriction() : datauploadrestriction;
versioning = d.getVersioning() != null && compareTrust(this, e)<0? d.getVersioning() : versioning;
citationguidelineurl = d.getCitationguidelineurl() != null && compareTrust(this, e)<0? d.getCitationguidelineurl() : citationguidelineurl;
//{yes, no, unknown}
qualitymanagementkind = d.getQualitymanagementkind() != null && compareTrust(this, e)<0? d.getQualitymanagementkind() : qualitymanagementkind;
pidsystems = d.getPidsystems() != null && compareTrust(this, e)<0? d.getPidsystems() : pidsystems;
certificates = d.getCertificates() != null && compareTrust(this, e)<0? d.getCertificates() : certificates;
policies = mergeLists(policies, d.getPolicies());
journal = d.getJournal() != null && compareTrust(this, e)<0? d.getJournal() : journal;
mergeOAFDataInfo(e);
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Datasource that = (Datasource) o;
return Objects.equals(datasourcetype, that.datasourcetype) &&
Objects.equals(openairecompatibility, that.openairecompatibility) &&
Objects.equals(officialname, that.officialname) &&
Objects.equals(englishname, that.englishname) &&
Objects.equals(websiteurl, that.websiteurl) &&
Objects.equals(logourl, that.logourl) &&
Objects.equals(contactemail, that.contactemail) &&
Objects.equals(namespaceprefix, that.namespaceprefix) &&
Objects.equals(latitude, that.latitude) &&
Objects.equals(longitude, that.longitude) &&
Objects.equals(dateofvalidation, that.dateofvalidation) &&
Objects.equals(description, that.description) &&
Objects.equals(subjects, that.subjects) &&
Objects.equals(odnumberofitems, that.odnumberofitems) &&
Objects.equals(odnumberofitemsdate, that.odnumberofitemsdate) &&
Objects.equals(odpolicies, that.odpolicies) &&
Objects.equals(odlanguages, that.odlanguages) &&
Objects.equals(odcontenttypes, that.odcontenttypes) &&
Objects.equals(accessinfopackage, that.accessinfopackage) &&
Objects.equals(releasestartdate, that.releasestartdate) &&
Objects.equals(releaseenddate, that.releaseenddate) &&
Objects.equals(missionstatementurl, that.missionstatementurl) &&
Objects.equals(dataprovider, that.dataprovider) &&
Objects.equals(serviceprovider, that.serviceprovider) &&
Objects.equals(databaseaccesstype, that.databaseaccesstype) &&
Objects.equals(datauploadtype, that.datauploadtype) &&
Objects.equals(databaseaccessrestriction, that.databaseaccessrestriction) &&
Objects.equals(datauploadrestriction, that.datauploadrestriction) &&
Objects.equals(versioning, that.versioning) &&
Objects.equals(citationguidelineurl, that.citationguidelineurl) &&
Objects.equals(qualitymanagementkind, that.qualitymanagementkind) &&
Objects.equals(pidsystems, that.pidsystems) &&
Objects.equals(certificates, that.certificates) &&
Objects.equals(policies, that.policies) &&
Objects.equals(journal, that.journal);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), datasourcetype, openairecompatibility, officialname, englishname, websiteurl, logourl, contactemail, namespaceprefix, latitude, longitude, dateofvalidation, description, subjects, odnumberofitems, odnumberofitemsdate, odpolicies, odlanguages, odcontenttypes, accessinfopackage, releasestartdate, releaseenddate, missionstatementurl, dataprovider, serviceprovider, databaseaccesstype, datauploadtype, databaseaccessrestriction, datauploadrestriction, versioning, citationguidelineurl, qualitymanagementkind, pidsystems, certificates, policies, journal);
}
public void setDatabaseaccesstype(Field<String> databaseaccesstype) {
this.databaseaccesstype = databaseaccesstype;
}
public Field<String> getDatauploadtype() {
return datauploadtype;
}
public void setDatauploadtype(Field<String> datauploadtype) {
this.datauploadtype = datauploadtype;
}
public Field<String> getDatabaseaccessrestriction() {
return databaseaccessrestriction;
}
public void setDatabaseaccessrestriction(Field<String> databaseaccessrestriction) {
this.databaseaccessrestriction = databaseaccessrestriction;
}
public Field<String> getDatauploadrestriction() {
return datauploadrestriction;
}
public void setDatauploadrestriction(Field<String> datauploadrestriction) {
this.datauploadrestriction = datauploadrestriction;
}
public Field<Boolean> getVersioning() {
return versioning;
}
public void setVersioning(Field<Boolean> versioning) {
this.versioning = versioning;
}
public Field<String> getCitationguidelineurl() {
return citationguidelineurl;
}
public void setCitationguidelineurl(Field<String> citationguidelineurl) {
this.citationguidelineurl = citationguidelineurl;
}
public Field<String> getQualitymanagementkind() {
return qualitymanagementkind;
}
public void setQualitymanagementkind(Field<String> qualitymanagementkind) {
this.qualitymanagementkind = qualitymanagementkind;
}
public Field<String> getPidsystems() {
return pidsystems;
}
public void setPidsystems(Field<String> pidsystems) {
this.pidsystems = pidsystems;
}
public Field<String> getCertificates() {
return certificates;
}
public void setCertificates(Field<String> certificates) {
this.certificates = certificates;
}
public List<KeyValue> getPolicies() {
return policies;
}
public void setPolicies(List<KeyValue> policies) {
this.policies = policies;
}
public Journal getJournal() {
return journal;
}
public void setJournal(Journal journal) {
this.journal = journal;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
if (!Datasource.class.isAssignableFrom(e.getClass())) {
return;
}
Datasource d = (Datasource) e;
datasourcetype = d.getDatasourcetype() != null && compareTrust(this, e) < 0
? d.getDatasourcetype()
: datasourcetype;
openairecompatibility = d.getOpenairecompatibility() != null && compareTrust(this, e) < 0
? d.getOpenairecompatibility()
: openairecompatibility;
officialname = d.getOfficialname() != null && compareTrust(this, e) < 0
? d.getOfficialname()
: officialname;
englishname = d.getEnglishname() != null && compareTrust(this, e) < 0 ? d.getEnglishname() : officialname;
websiteurl = d.getWebsiteurl() != null && compareTrust(this, e) < 0 ? d.getWebsiteurl() : websiteurl;
logourl = d.getLogourl() != null && compareTrust(this, e) < 0 ? d.getLogourl() : getLogourl();
contactemail = d.getContactemail() != null && compareTrust(this, e) < 0
? d.getContactemail()
: contactemail;
namespaceprefix = d.getNamespaceprefix() != null && compareTrust(this, e) < 0
? d.getNamespaceprefix()
: namespaceprefix;
latitude = d.getLatitude() != null && compareTrust(this, e) < 0 ? d.getLatitude() : latitude;
longitude = d.getLongitude() != null && compareTrust(this, e) < 0 ? d.getLongitude() : longitude;
dateofvalidation = d.getDateofvalidation() != null && compareTrust(this, e) < 0
? d.getDateofvalidation()
: dateofvalidation;
description = d.getDescription() != null && compareTrust(this, e) < 0 ? d.getDescription() : description;
subjects = mergeLists(subjects, d.getSubjects());
// opendoar specific fields (od*)
odnumberofitems = d.getOdnumberofitems() != null && compareTrust(this, e) < 0
? d.getOdnumberofitems()
: odnumberofitems;
odnumberofitemsdate = d.getOdnumberofitemsdate() != null && compareTrust(this, e) < 0
? d.getOdnumberofitemsdate()
: odnumberofitemsdate;
odpolicies = d.getOdpolicies() != null && compareTrust(this, e) < 0 ? d.getOdpolicies() : odpolicies;
odlanguages = mergeLists(odlanguages, d.getOdlanguages());
odcontenttypes = mergeLists(odcontenttypes, d.getOdcontenttypes());
accessinfopackage = mergeLists(accessinfopackage, d.getAccessinfopackage());
// re3data fields
releasestartdate = d.getReleasestartdate() != null && compareTrust(this, e) < 0
? d.getReleasestartdate()
: releasestartdate;
releaseenddate = d.getReleaseenddate() != null && compareTrust(this, e) < 0
? d.getReleaseenddate()
: releaseenddate;
missionstatementurl = d.getMissionstatementurl() != null && compareTrust(this, e) < 0
? d.getMissionstatementurl()
: missionstatementurl;
dataprovider = d.getDataprovider() != null && compareTrust(this, e) < 0
? d.getDataprovider()
: dataprovider;
serviceprovider = d.getServiceprovider() != null && compareTrust(this, e) < 0
? d.getServiceprovider()
: serviceprovider;
// {open, restricted or closed}
databaseaccesstype = d.getDatabaseaccesstype() != null && compareTrust(this, e) < 0
? d.getDatabaseaccesstype()
: databaseaccesstype;
// {open, restricted or closed}
datauploadtype = d.getDatauploadtype() != null && compareTrust(this, e) < 0
? d.getDatauploadtype()
: datauploadtype;
// {feeRequired, registration, other}
databaseaccessrestriction = d.getDatabaseaccessrestriction() != null && compareTrust(this, e) < 0
? d.getDatabaseaccessrestriction()
: databaseaccessrestriction;
// {feeRequired, registration, other}
datauploadrestriction = d.getDatauploadrestriction() != null && compareTrust(this, e) < 0
? d.getDatauploadrestriction()
: datauploadrestriction;
versioning = d.getVersioning() != null && compareTrust(this, e) < 0 ? d.getVersioning() : versioning;
citationguidelineurl = d.getCitationguidelineurl() != null && compareTrust(this, e) < 0
? d.getCitationguidelineurl()
: citationguidelineurl;
// {yes, no, unknown}
qualitymanagementkind = d.getQualitymanagementkind() != null && compareTrust(this, e) < 0
? d.getQualitymanagementkind()
: qualitymanagementkind;
pidsystems = d.getPidsystems() != null && compareTrust(this, e) < 0 ? d.getPidsystems() : pidsystems;
certificates = d.getCertificates() != null && compareTrust(this, e) < 0
? d.getCertificates()
: certificates;
policies = mergeLists(policies, d.getPolicies());
journal = d.getJournal() != null && compareTrust(this, e) < 0 ? d.getJournal() : journal;
mergeOAFDataInfo(e);
}
}

169
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/ExternalReference.java
View File

@ -1,114 +1,119 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.Objects;
public class ExternalReference implements Serializable {
// source
private String sitename;
// source
private String sitename;
// title
private String label;
// title
private String label;
// text()
private String url;
// text()
private String url;
// ?? not mapped yet ??
private String description;
// ?? not mapped yet ??
private String description;
// type
private Qualifier qualifier;
// type
private Qualifier qualifier;
// site internal identifier
private String refidentifier;
// site internal identifier
private String refidentifier;
// maps the oaf:reference/@query attribute
private String query;
// maps the oaf:reference/@query attribute
private String query;
// ExternalReferences might be also inferred
private DataInfo dataInfo;
// ExternalReferences might be also inferred
private DataInfo dataInfo;
public String getSitename() {
return sitename;
}
public String getSitename() {
return sitename;
}
public void setSitename(String sitename) {
this.sitename = sitename;
}
public void setSitename(String sitename) {
this.sitename = sitename;
}
public String getLabel() {
return label;
}
public String getLabel() {
return label;
}
public void setLabel(String label) {
this.label = label;
}
public void setLabel(String label) {
this.label = label;
}
public String getUrl() {
return url;
}
public String getUrl() {
return url;
}
public void setUrl(String url) {
this.url = url;
}
public void setUrl(String url) {
this.url = url;
}
public String getDescription() {
return description;
}
public String getDescription() {
return description;
}
public void setDescription(String description) {
this.description = description;
}
public void setDescription(String description) {
this.description = description;
}
public Qualifier getQualifier() {
return qualifier;
}
public Qualifier getQualifier() {
return qualifier;
}
public void setQualifier(Qualifier qualifier) {
this.qualifier = qualifier;
}
public void setQualifier(Qualifier qualifier) {
this.qualifier = qualifier;
}
public String getRefidentifier() {
return refidentifier;
}
public String getRefidentifier() {
return refidentifier;
}
public void setRefidentifier(String refidentifier) {
this.refidentifier = refidentifier;
}
public void setRefidentifier(String refidentifier) {
this.refidentifier = refidentifier;
}
public String getQuery() {
return query;
}
public String getQuery() {
return query;
}
public void setQuery(String query) {
this.query = query;
}
public void setQuery(String query) {
this.query = query;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
ExternalReference that = (ExternalReference) o;
return Objects.equals(sitename, that.sitename) &&
Objects.equals(label, that.label) &&
Objects.equals(url, that.url) &&
Objects.equals(description, that.description) &&
Objects.equals(qualifier, that.qualifier) &&
Objects.equals(refidentifier, that.refidentifier) &&
Objects.equals(query, that.query) &&
Objects.equals(dataInfo, that.dataInfo);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
ExternalReference that = (ExternalReference) o;
return Objects.equals(sitename, that.sitename)
&& Objects.equals(label, that.label)
&& Objects.equals(url, that.url)
&& Objects.equals(description, that.description)
&& Objects.equals(qualifier, that.qualifier)
&& Objects.equals(refidentifier, that.refidentifier)
&& Objects.equals(query, that.query)
&& Objects.equals(dataInfo, that.dataInfo);
}
@Override
public int hashCode() {
return Objects.hash(sitename, label, url, description, qualifier, refidentifier, query, dataInfo);
}
@Override
public int hashCode() {
return Objects
.hash(
sitename, label, url, description, qualifier, refidentifier, query, dataInfo);
}
}

105
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/ExtraInfo.java
View File

@ -1,74 +1,77 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.Objects;
public class ExtraInfo implements Serializable {
private String name;
private String name;
private String typology;
private String typology;
private String provenance;
private String provenance;
private String trust;
private String trust;
// json containing a Citation or Statistics
private String value;
// json containing a Citation or Statistics
private String value;
public String getName() {
return name;
}
public String getName() {
return name;
}
public void setName(String name) {
this.name = name;
}
public void setName(String name) {
this.name = name;
}
public String getTypology() {
return typology;
}
public String getTypology() {
return typology;
}
public void setTypology(String typology) {
this.typology = typology;
}
public void setTypology(String typology) {
this.typology = typology;
}
public String getProvenance() {
return provenance;
}
public String getProvenance() {
return provenance;
}
public void setProvenance(String provenance) {
this.provenance = provenance;
}
public void setProvenance(String provenance) {
this.provenance = provenance;
}
public String getTrust() {
return trust;
}
public String getTrust() {
return trust;
}
public void setTrust(String trust) {
this.trust = trust;
}
public void setTrust(String trust) {
this.trust = trust;
}
public String getValue() {
return value;
}
public String getValue() {
return value;
}
public void setValue(String value) {
this.value = value;
}
public void setValue(String value) {
this.value = value;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
ExtraInfo extraInfo = (ExtraInfo) o;
return Objects.equals(name, extraInfo.name) &&
Objects.equals(typology, extraInfo.typology) &&
Objects.equals(provenance, extraInfo.provenance) &&
Objects.equals(trust, extraInfo.trust) &&
Objects.equals(value, extraInfo.value);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
ExtraInfo extraInfo = (ExtraInfo) o;
return Objects.equals(name, extraInfo.name)
&& Objects.equals(typology, extraInfo.typology)
&& Objects.equals(provenance, extraInfo.provenance)
&& Objects.equals(trust, extraInfo.trust)
&& Objects.equals(value, extraInfo.value);
}
@Override
public int hashCode() {
return Objects.hash(name, typology, provenance, trust, value);
}
@Override
public int hashCode() {
return Objects.hash(name, typology, provenance, trust, value);
}
}

59
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Field.java
View File

@ -1,43 +1,44 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
public class Field<T> implements Serializable {
private T value;
private T value;
private DataInfo dataInfo;
private DataInfo dataInfo;
public T getValue() {
return value;
}
public T getValue() {
return value;
}
public void setValue(T value) {
this.value = value;
}
public void setValue(T value) {
this.value = value;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
@Override
public int hashCode() {
return getValue() == null ? 0 : getValue().hashCode();
}
@Override
public int hashCode() {
return getValue() == null ? 0 : getValue().hashCode();
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Field<T> other = (Field<T>) obj;
return getValue().equals(other.getValue());
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Field<T> other = (Field<T>) obj;
return getValue().equals(other.getValue());
}
}

104
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/GeoLocation.java
View File

@ -1,70 +1,76 @@
package eu.dnetlib.dhp.schema.oaf;
import com.fasterxml.jackson.annotation.JsonIgnore;
import org.apache.commons.lang3.StringUtils;
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import org.apache.commons.lang3.StringUtils;
import com.fasterxml.jackson.annotation.JsonIgnore;
public class GeoLocation implements Serializable {
private String point;
private String point;
private String box;
private String box;
private String place;
private String place;
public String getPoint() {
return point;
}
public String getPoint() {
return point;
}
public void setPoint(String point) {
this.point = point;
}
public void setPoint(String point) {
this.point = point;
}
public String getBox() {
return box;
}
public String getBox() {
return box;
}
public void setBox(String box) {
this.box = box;
}
public void setBox(String box) {
this.box = box;
}
public String getPlace() {
return place;
}
public String getPlace() {
return place;
}
public void setPlace(String place) {
this.place = place;
}
public void setPlace(String place) {
this.place = place;
}
@JsonIgnore
public boolean isBlank() {
return StringUtils.isBlank(point) &&
StringUtils.isBlank(box) &&
StringUtils.isBlank(place);
}
@JsonIgnore
public boolean isBlank() {
return StringUtils.isBlank(point) && StringUtils.isBlank(box) && StringUtils.isBlank(place);
}
public String toComparableString() {
return isBlank()?"":String.format("%s::%s%s", point != null ? point.toLowerCase() : "", box != null ? box.toLowerCase() : "", place != null ? place.toLowerCase() : "");
}
public String toComparableString() {
return isBlank()
? ""
: String
.format(
"%s::%s%s",
point != null ? point.toLowerCase() : "",
box != null ? box.toLowerCase() : "",
place != null ? place.toLowerCase() : "");
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
GeoLocation other = (GeoLocation) obj;
GeoLocation other = (GeoLocation) obj;
return toComparableString()
.equals(other.toComparableString());
}
return toComparableString().equals(other.toComparableString());
}
}

210
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Instance.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -5,144 +6,147 @@ import java.util.List;
public class Instance implements Serializable {
private Field<String> license;
private Field<String> license;
private Qualifier accessright;
private Qualifier accessright;
private Qualifier instancetype;
private Qualifier instancetype;
private KeyValue hostedby;
private KeyValue hostedby;
private List<String> url;
private List<String> url;
// other research products specifc
private String distributionlocation;
// other research products specifc
private String distributionlocation;
private KeyValue collectedfrom;
private KeyValue collectedfrom;
private Field<String> dateofacceptance;
private Field<String> dateofacceptance;
// ( article | book ) processing charges. Defined here to cope with possible wrongly typed results
private Field<String> processingchargeamount;
// ( article | book ) processing charges. Defined here to cope with possible wrongly typed
// results
private Field<String> processingchargeamount;
// currency - alphabetic code describe in ISO-4217. Defined here to cope with possible wrongly typed results
private Field<String> processingchargecurrency;
// currency - alphabetic code describe in ISO-4217. Defined here to cope with possible wrongly
// typed results
private Field<String> processingchargecurrency;
private Field<String> refereed; //peer-review status
private Field<String> refereed; // peer-review status
public Field<String> getLicense() {
return license;
}
public Field<String> getLicense() {
return license;
}
public void setLicense(Field<String> license) {
this.license = license;
}
public void setLicense(Field<String> license) {
this.license = license;
}
public Qualifier getAccessright() {
return accessright;
}
public Qualifier getAccessright() {
return accessright;
}
public void setAccessright(Qualifier accessright) {
this.accessright = accessright;
}
public void setAccessright(Qualifier accessright) {
this.accessright = accessright;
}
public Qualifier getInstancetype() {
return instancetype;
}
public Qualifier getInstancetype() {
return instancetype;
}
public void setInstancetype(Qualifier instancetype) {
this.instancetype = instancetype;
}
public void setInstancetype(Qualifier instancetype) {
this.instancetype = instancetype;
}
public KeyValue getHostedby() {
return hostedby;
}
public KeyValue getHostedby() {
return hostedby;
}
public void setHostedby(KeyValue hostedby) {
this.hostedby = hostedby;
}
public void setHostedby(KeyValue hostedby) {
this.hostedby = hostedby;
}
public List<String> getUrl() {
return url;
}
public List<String> getUrl() {
return url;
}
public void setUrl(List<String> url) {
this.url = url;
}
public void setUrl(List<String> url) {
this.url = url;
}
public String getDistributionlocation() {
return distributionlocation;
}
public String getDistributionlocation() {
return distributionlocation;
}
public void setDistributionlocation(String distributionlocation) {
this.distributionlocation = distributionlocation;
}
public void setDistributionlocation(String distributionlocation) {
this.distributionlocation = distributionlocation;
}
public KeyValue getCollectedfrom() {
return collectedfrom;
}
public KeyValue getCollectedfrom() {
return collectedfrom;
}
public void setCollectedfrom(KeyValue collectedfrom) {
this.collectedfrom = collectedfrom;
}
public void setCollectedfrom(KeyValue collectedfrom) {
this.collectedfrom = collectedfrom;
}
public Field<String> getDateofacceptance() {
return dateofacceptance;
}
public Field<String> getDateofacceptance() {
return dateofacceptance;
}
public void setDateofacceptance(Field<String> dateofacceptance) {
this.dateofacceptance = dateofacceptance;
}
public void setDateofacceptance(Field<String> dateofacceptance) {
this.dateofacceptance = dateofacceptance;
}
public Field<String> getProcessingchargeamount() {
return processingchargeamount;
}
public Field<String> getProcessingchargeamount() {
return processingchargeamount;
}
public void setProcessingchargeamount(Field<String> processingchargeamount) {
this.processingchargeamount = processingchargeamount;
}
public void setProcessingchargeamount(Field<String> processingchargeamount) {
this.processingchargeamount = processingchargeamount;
}
public Field<String> getProcessingchargecurrency() {
return processingchargecurrency;
}
public Field<String> getProcessingchargecurrency() {
return processingchargecurrency;
}
public void setProcessingchargecurrency(Field<String> processingchargecurrency) {
this.processingchargecurrency = processingchargecurrency;
}
public void setProcessingchargecurrency(Field<String> processingchargecurrency) {
this.processingchargecurrency = processingchargecurrency;
}
public Field<String> getRefereed() {
return refereed;
}
public Field<String> getRefereed() {
return refereed;
}
public void setRefereed(Field<String> refereed) {
this.refereed = refereed;
}
public void setRefereed(Field<String> refereed) {
this.refereed = refereed;
}
public String toComparableString(){
return String.format("%s::%s::%s::%s",
hostedby != null && hostedby.getKey()!= null ? hostedby.getKey().toLowerCase() : "",
accessright!= null && accessright.getClassid()!= null ? accessright.getClassid() : "",
instancetype!= null && instancetype.getClassid()!= null ? instancetype.getClassid() : "",
url != null ? url:"");
}
public String toComparableString() {
return String
.format(
"%s::%s::%s::%s",
hostedby != null && hostedby.getKey() != null ? hostedby.getKey().toLowerCase() : "",
accessright != null && accessright.getClassid() != null ? accessright.getClassid() : "",
instancetype != null && instancetype.getClassid() != null ? instancetype.getClassid() : "",
url != null ? url : "");
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Instance other = (Instance) obj;
Instance other = (Instance) obj;
return toComparableString()
.equals(other.toComparableString());
}
return toComparableString().equals(other.toComparableString());
}
}

228
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Journal.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -5,147 +6,162 @@ import java.util.Objects;
public class Journal implements Serializable {
private String name;
private String name;
private String issnPrinted;
private String issnPrinted;
private String issnOnline;
private String issnOnline;
private String issnLinking;
private String issnLinking;
private String ep;
private String ep;
private String iss;
private String iss;
private String sp;
private String sp;
private String vol;
private String vol;
private String edition;
private String edition;
private String conferenceplace;
private String conferenceplace;
private String conferencedate;
private String conferencedate;
private DataInfo dataInfo;
private DataInfo dataInfo;
public String getName() {
return name;
}
public String getName() {
return name;
}
public void setName(String name) {
this.name = name;
}
public void setName(String name) {
this.name = name;
}
public String getIssnPrinted() {
return issnPrinted;
}
public String getIssnPrinted() {
return issnPrinted;
}
public void setIssnPrinted(String issnPrinted) {
this.issnPrinted = issnPrinted;
}
public void setIssnPrinted(String issnPrinted) {
this.issnPrinted = issnPrinted;
}
public String getIssnOnline() {
return issnOnline;
}
public String getIssnOnline() {
return issnOnline;
}
public void setIssnOnline(String issnOnline) {
this.issnOnline = issnOnline;
}
public void setIssnOnline(String issnOnline) {
this.issnOnline = issnOnline;
}
public String getIssnLinking() {
return issnLinking;
}
public String getIssnLinking() {
return issnLinking;
}
public void setIssnLinking(String issnLinking) {
this.issnLinking = issnLinking;
}
public void setIssnLinking(String issnLinking) {
this.issnLinking = issnLinking;
}
public String getEp() {
return ep;
}
public String getEp() {
return ep;
}
public void setEp(String ep) {
this.ep = ep;
}
public void setEp(String ep) {
this.ep = ep;
}
public String getIss() {
return iss;
}
public String getIss() {
return iss;
}
public void setIss(String iss) {
this.iss = iss;
}
public void setIss(String iss) {
this.iss = iss;
}
public String getSp() {
return sp;
}
public String getSp() {
return sp;
}
public void setSp(String sp) {
this.sp = sp;
}
public void setSp(String sp) {
this.sp = sp;
}
public String getVol() {
return vol;
}
public String getVol() {
return vol;
}
public void setVol(String vol) {
this.vol = vol;
}
public void setVol(String vol) {
this.vol = vol;
}
public String getEdition() {
return edition;
}
public String getEdition() {
return edition;
}
public void setEdition(String edition) {
this.edition = edition;
}
public void setEdition(String edition) {
this.edition = edition;
}
public String getConferenceplace() {
return conferenceplace;
}
public String getConferenceplace() {
return conferenceplace;
}
public void setConferenceplace(String conferenceplace) {
this.conferenceplace = conferenceplace;
}
public void setConferenceplace(String conferenceplace) {
this.conferenceplace = conferenceplace;
}
public String getConferencedate() {
return conferencedate;
}
public String getConferencedate() {
return conferencedate;
}
public void setConferencedate(String conferencedate) {
this.conferencedate = conferencedate;
}
public void setConferencedate(String conferencedate) {
this.conferencedate = conferencedate;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
Journal journal = (Journal) o;
return Objects.equals(name, journal.name) &&
Objects.equals(issnPrinted, journal.issnPrinted) &&
Objects.equals(issnOnline, journal.issnOnline) &&
Objects.equals(issnLinking, journal.issnLinking) &&
Objects.equals(ep, journal.ep) &&
Objects.equals(iss, journal.iss) &&
Objects.equals(sp, journal.sp) &&
Objects.equals(vol, journal.vol) &&
Objects.equals(edition, journal.edition) &&
Objects.equals(conferenceplace, journal.conferenceplace) &&
Objects.equals(conferencedate, journal.conferencedate) &&
Objects.equals(dataInfo, journal.dataInfo);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
Journal journal = (Journal) o;
return Objects.equals(name, journal.name)
&& Objects.equals(issnPrinted, journal.issnPrinted)
&& Objects.equals(issnOnline, journal.issnOnline)
&& Objects.equals(issnLinking, journal.issnLinking)
&& Objects.equals(ep, journal.ep)
&& Objects.equals(iss, journal.iss)
&& Objects.equals(sp, journal.sp)
&& Objects.equals(vol, journal.vol)
&& Objects.equals(edition, journal.edition)
&& Objects.equals(conferenceplace, journal.conferenceplace)
&& Objects.equals(conferencedate, journal.conferencedate)
&& Objects.equals(dataInfo, journal.dataInfo);
}
@Override
public int hashCode() {
return Objects.hash(name, issnPrinted, issnOnline, issnLinking, ep, iss, sp, vol, edition, conferenceplace, conferencedate, dataInfo);
}
@Override
public int hashCode() {
return Objects
.hash(
name,
issnPrinted,
issnOnline,
issnLinking,
ep,
iss,
sp,
vol,
edition,
conferenceplace,
conferencedate,
dataInfo);
}
}

99
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/KeyValue.java
View File

@ -1,67 +1,74 @@
package eu.dnetlib.dhp.schema.oaf;
import com.fasterxml.jackson.annotation.JsonIgnore;
import org.apache.commons.lang3.StringUtils;
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import org.apache.commons.lang3.StringUtils;
import com.fasterxml.jackson.annotation.JsonIgnore;
public class KeyValue implements Serializable {
private String key;
private String key;
private String value;
private String value;
private DataInfo dataInfo;
private DataInfo dataInfo;
public String getKey() {
return key;
}
public String getKey() {
return key;
}
public void setKey(String key) {
this.key = key;
}
public void setKey(String key) {
this.key = key;
}
public String getValue() {
return value;
}
public String getValue() {
return value;
}
public void setValue(String value) {
this.value = value;
}
public void setValue(String value) {
this.value = value;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public String toComparableString() {
return isBlank()?"":String.format("%s::%s", key != null ? key.toLowerCase() : "", value != null ? value.toLowerCase() : "");
}
public String toComparableString() {
return isBlank()
? ""
: String
.format(
"%s::%s",
key != null ? key.toLowerCase() : "", value != null ? value.toLowerCase() : "");
}
@JsonIgnore
public boolean isBlank() {
return StringUtils.isBlank(key) && StringUtils.isBlank(value);
}
@JsonIgnore
public boolean isBlank() {
return StringUtils.isBlank(key) && StringUtils.isBlank(value);
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
KeyValue other = (KeyValue) obj;
KeyValue other = (KeyValue) obj;
return toComparableString().equals(other.toComparableString());
}
return toComparableString().equals(other.toComparableString());
}
}

4
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Measure.java Normal file
View File

@ -0,0 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
public class Measure {
}

41
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OAIProvenance.java
View File

@ -1,30 +1,33 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.Objects;
public class OAIProvenance implements Serializable {
public class OAIProvenance implements Serializable {
private OriginDescription originDescription;
private OriginDescription originDescription;
public OriginDescription getOriginDescription() {
return originDescription;
}
public OriginDescription getOriginDescription() {
return originDescription;
}
public void setOriginDescription(OriginDescription originDescription) {
this.originDescription = originDescription;
}
public void setOriginDescription(OriginDescription originDescription) {
this.originDescription = originDescription;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
OAIProvenance that = (OAIProvenance) o;
return Objects.equals(originDescription, that.originDescription);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
OAIProvenance that = (OAIProvenance) o;
return Objects.equals(originDescription, that.originDescription);
}
@Override
public int hashCode() {
return Objects.hash(originDescription);
}
@Override
public int hashCode() {
return Objects.hash(originDescription);
}
}

92
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Oaf.java
View File

@ -1,61 +1,73 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
public abstract class Oaf implements Serializable {
private DataInfo dataInfo;
private Long lastupdatetimestamp;
/**
* The list of datasource id/name pairs providing this relationship.
*/
protected List<KeyValue> collectedfrom;
public DataInfo getDataInfo() {
return dataInfo;
}
private DataInfo dataInfo;
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
private Long lastupdatetimestamp;
public Long getLastupdatetimestamp() {
return lastupdatetimestamp;
}
public List<KeyValue> getCollectedfrom() {
return collectedfrom;
}
public void setLastupdatetimestamp(Long lastupdatetimestamp) {
this.lastupdatetimestamp = lastupdatetimestamp;
}
public void setCollectedfrom(List<KeyValue> collectedfrom) {
this.collectedfrom = collectedfrom;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void mergeOAFDataInfo(Oaf e) {
if (e.getDataInfo()!= null && compareTrust(this,e)<0)
dataInfo = e.getDataInfo();
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
protected String extractTrust(Oaf e) {
if (e == null || e.getDataInfo()== null || e.getDataInfo().getTrust()== null)
return "0.0";
return e.getDataInfo().getTrust();
public Long getLastupdatetimestamp() {
return lastupdatetimestamp;
}
public void setLastupdatetimestamp(Long lastupdatetimestamp) {
this.lastupdatetimestamp = lastupdatetimestamp;
}
public void mergeOAFDataInfo(Oaf e) {
if (e.getDataInfo() != null && compareTrust(this, e) < 0)
dataInfo = e.getDataInfo();
}
}
protected String extractTrust(Oaf e) {
if (e == null || e.getDataInfo() == null || e.getDataInfo().getTrust() == null)
return "0.0";
return e.getDataInfo().getTrust();
}
protected int compareTrust(Oaf a, Oaf b) {
return extractTrust(a).compareTo(extractTrust(b));
protected int compareTrust(Oaf a, Oaf b) {
return extractTrust(a).compareTo(extractTrust(b));
}
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
Oaf oaf = (Oaf) o;
return Objects.equals(dataInfo, oaf.dataInfo)
&& Objects.equals(lastupdatetimestamp, oaf.lastupdatetimestamp);
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
Oaf oaf = (Oaf) o;
return Objects.equals(dataInfo, oaf.dataInfo) &&
Objects.equals(lastupdatetimestamp, oaf.lastupdatetimestamp);
}
@Override
public int hashCode() {
return Objects.hash(dataInfo, lastupdatetimestamp);
}
@Override
public int hashCode() {
return Objects.hash(dataInfo, lastupdatetimestamp);
}
}

184
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OafEntity.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -6,134 +7,123 @@ import java.util.stream.Collectors;
public abstract class OafEntity extends Oaf implements Serializable {
private String id;
private String id;
private List<String> originalId;
private List<String> originalId;
private List<KeyValue> collectedfrom;
private List<StructuredProperty> pid;
private List<StructuredProperty> pid;
private String dateofcollection;
private String dateofcollection;
private String dateoftransformation;
private String dateoftransformation;
private List<ExtraInfo> extraInfo;
private List<ExtraInfo> extraInfo;
private OAIProvenance oaiprovenance;
private OAIProvenance oaiprovenance;
public String getId() {
return id;
}
public String getId() {
return id;
}
public void setId(String id) {
this.id = id;
}
public void setId(String id) {
this.id = id;
}
public List<String> getOriginalId() {
return originalId;
}
public List<String> getOriginalId() {
return originalId;
}
public void setOriginalId(List<String> originalId) {
this.originalId = originalId;
}
public void setOriginalId(List<String> originalId) {
this.originalId = originalId;
}
public List<StructuredProperty> getPid() {
return pid;
}
public List<KeyValue> getCollectedfrom() {
return collectedfrom;
}
public void setPid(List<StructuredProperty> pid) {
this.pid = pid;
}
public void setCollectedfrom(List<KeyValue> collectedfrom) {
this.collectedfrom = collectedfrom;
}
public String getDateofcollection() {
return dateofcollection;
}
public List<StructuredProperty> getPid() {
return pid;
}
public void setDateofcollection(String dateofcollection) {
this.dateofcollection = dateofcollection;
}
public void setPid(List<StructuredProperty> pid) {
this.pid = pid;
}
public String getDateoftransformation() {
return dateoftransformation;
}
public String getDateofcollection() {
return dateofcollection;
}
public void setDateoftransformation(String dateoftransformation) {
this.dateoftransformation = dateoftransformation;
}
public void setDateofcollection(String dateofcollection) {
this.dateofcollection = dateofcollection;
}
public List<ExtraInfo> getExtraInfo() {
return extraInfo;
}
public String getDateoftransformation() {
return dateoftransformation;
}
public void setExtraInfo(List<ExtraInfo> extraInfo) {
this.extraInfo = extraInfo;
}
public void setDateoftransformation(String dateoftransformation) {
this.dateoftransformation = dateoftransformation;
}
public OAIProvenance getOaiprovenance() {
return oaiprovenance;
}
public List<ExtraInfo> getExtraInfo() {
return extraInfo;
}
public void setOaiprovenance(OAIProvenance oaiprovenance) {
this.oaiprovenance = oaiprovenance;
}
public void setExtraInfo(List<ExtraInfo> extraInfo) {
this.extraInfo = extraInfo;
}
public void mergeFrom(OafEntity e) {
public OAIProvenance getOaiprovenance() {
return oaiprovenance;
}
if (e == null)
return;
public void setOaiprovenance(OAIProvenance oaiprovenance) {
this.oaiprovenance = oaiprovenance;
}
originalId = mergeLists(originalId, e.getOriginalId());
collectedfrom = mergeLists(collectedfrom, e.getCollectedfrom());
public void mergeFrom(OafEntity e) {
pid = mergeLists(pid, e.getPid());
if (e == null)
return;
if (e.getDateofcollection() != null && compareTrust(this, e) < 0)
dateofcollection = e.getDateofcollection();
originalId = mergeLists(originalId, e.getOriginalId());
if (e.getDateoftransformation() != null && compareTrust(this, e) < 0)
dateoftransformation = e.getDateoftransformation();
collectedfrom = mergeLists(collectedfrom, e.getCollectedfrom());
extraInfo = mergeLists(extraInfo, e.getExtraInfo());
pid = mergeLists(pid, e.getPid());
if (e.getOaiprovenance() != null && compareTrust(this, e) < 0)
oaiprovenance = e.getOaiprovenance();
}
if (e.getDateofcollection() != null && compareTrust(this, e) < 0)
dateofcollection = e.getDateofcollection();
protected <T> List<T> mergeLists(final List<T>... lists) {
if (e.getDateoftransformation() != null && compareTrust(this, e) < 0)
dateoftransformation = e.getDateoftransformation();
return Arrays
.stream(lists)
.filter(Objects::nonNull)
.flatMap(List::stream)
.distinct()
.collect(Collectors.toList());
}
extraInfo = mergeLists(extraInfo, e.getExtraInfo());
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
if (!super.equals(o))
return false;
OafEntity oafEntity = (OafEntity) o;
return Objects.equals(id, oafEntity.id);
}
if (e.getOaiprovenance() != null && compareTrust(this, e) < 0)
oaiprovenance = e.getOaiprovenance();
}
protected <T> List<T> mergeLists(final List<T>... lists) {
return Arrays.stream(lists).filter(Objects::nonNull).flatMap(List::stream).distinct().collect(Collectors.toList());
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
OafEntity oafEntity = (OafEntity) o;
return Objects.equals(id, oafEntity.id) &&
Objects.equals(originalId, oafEntity.originalId) &&
Objects.equals(collectedfrom, oafEntity.collectedfrom) &&
Objects.equals(pid, oafEntity.pid) &&
Objects.equals(dateofcollection, oafEntity.dateofcollection) &&
Objects.equals(dateoftransformation, oafEntity.dateoftransformation) &&
Objects.equals(extraInfo, oafEntity.extraInfo) &&
Objects.equals(oaiprovenance, oafEntity.oaiprovenance);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), id, originalId, collectedfrom, pid, dateofcollection, dateoftransformation, extraInfo, oaiprovenance);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), id);
}
}

324
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Organization.java
View File

@ -1,226 +1,214 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
public class Organization extends OafEntity implements Serializable {
private Field<String> legalshortname;
private Field<String> legalshortname;
private Field<String> legalname;
private Field<String> legalname;
private List<Field<String>> alternativeNames;
private List<Field<String>> alternativeNames;
private Field<String> websiteurl;
private Field<String> websiteurl;
private Field<String> logourl;
private Field<String> logourl;
private Field<String> eclegalbody;
private Field<String> eclegalbody;
private Field<String> eclegalperson;
private Field<String> eclegalperson;
private Field<String> ecnonprofit;
private Field<String> ecnonprofit;
private Field<String> ecresearchorganization;
private Field<String> ecresearchorganization;
private Field<String> echighereducation;
private Field<String> echighereducation;
private Field<String> ecinternationalorganizationeurinterests;
private Field<String> ecinternationalorganizationeurinterests;
private Field<String> ecinternationalorganization;
private Field<String> ecinternationalorganization;
private Field<String> ecenterprise;
private Field<String> ecenterprise;
private Field<String> ecsmevalidated;
private Field<String> ecsmevalidated;
private Field<String> ecnutscode;
private Field<String> ecnutscode;
private Qualifier country;
private Qualifier country;
public Field<String> getLegalshortname() {
return legalshortname;
}
public Field<String> getLegalshortname() {
return legalshortname;
}
public void setLegalshortname(Field<String> legalshortname) {
this.legalshortname = legalshortname;
}
public void setLegalshortname(Field<String> legalshortname) {
this.legalshortname = legalshortname;
}
public Field<String> getLegalname() {
return legalname;
}
public Field<String> getLegalname() {
return legalname;
}
public void setLegalname(Field<String> legalname) {
this.legalname = legalname;
}
public void setLegalname(Field<String> legalname) {
this.legalname = legalname;
}
public List<Field<String>> getAlternativeNames() {
return alternativeNames;
}
public List<Field<String>> getAlternativeNames() {
return alternativeNames;
}
public void setAlternativeNames(List<Field<String>> alternativeNames) {
this.alternativeNames = alternativeNames;
}
public void setAlternativeNames(List<Field<String>> alternativeNames) {
this.alternativeNames = alternativeNames;
}
public Field<String> getWebsiteurl() {
return websiteurl;
}
public Field<String> getWebsiteurl() {
return websiteurl;
}
public void setWebsiteurl(Field<String> websiteurl) {
this.websiteurl = websiteurl;
}
public void setWebsiteurl(Field<String> websiteurl) {
this.websiteurl = websiteurl;
}
public Field<String> getLogourl() {
return logourl;
}
public Field<String> getLogourl() {
return logourl;
}
public void setLogourl(Field<String> logourl) {
this.logourl = logourl;
}
public void setLogourl(Field<String> logourl) {
this.logourl = logourl;
}
public Field<String> getEclegalbody() {
return eclegalbody;
}
public Field<String> getEclegalbody() {
return eclegalbody;
}
public void setEclegalbody(Field<String> eclegalbody) {
this.eclegalbody = eclegalbody;
}
public void setEclegalbody(Field<String> eclegalbody) {
this.eclegalbody = eclegalbody;
}
public Field<String> getEclegalperson() {
return eclegalperson;
}
public Field<String> getEclegalperson() {
return eclegalperson;
}
public void setEclegalperson(Field<String> eclegalperson) {
this.eclegalperson = eclegalperson;
}
public void setEclegalperson(Field<String> eclegalperson) {
this.eclegalperson = eclegalperson;
}
public Field<String> getEcnonprofit() {
return ecnonprofit;
}
public Field<String> getEcnonprofit() {
return ecnonprofit;
}
public void setEcnonprofit(Field<String> ecnonprofit) {
this.ecnonprofit = ecnonprofit;
}
public void setEcnonprofit(Field<String> ecnonprofit) {
this.ecnonprofit = ecnonprofit;
}
public Field<String> getEcresearchorganization() {
return ecresearchorganization;
}
public Field<String> getEcresearchorganization() {
return ecresearchorganization;
}
public void setEcresearchorganization(Field<String> ecresearchorganization) {
this.ecresearchorganization = ecresearchorganization;
}
public void setEcresearchorganization(Field<String> ecresearchorganization) {
this.ecresearchorganization = ecresearchorganization;
}
public Field<String> getEchighereducation() {
return echighereducation;
}
public Field<String> getEchighereducation() {
return echighereducation;
}
public void setEchighereducation(Field<String> echighereducation) {
this.echighereducation = echighereducation;
}
public void setEchighereducation(Field<String> echighereducation) {
this.echighereducation = echighereducation;
}
public Field<String> getEcinternationalorganizationeurinterests() {
return ecinternationalorganizationeurinterests;
}
public Field<String> getEcinternationalorganizationeurinterests() {
return ecinternationalorganizationeurinterests;
}
public void setEcinternationalorganizationeurinterests(Field<String> ecinternationalorganizationeurinterests) {
this.ecinternationalorganizationeurinterests = ecinternationalorganizationeurinterests;
}
public void setEcinternationalorganizationeurinterests(
Field<String> ecinternationalorganizationeurinterests) {
this.ecinternationalorganizationeurinterests = ecinternationalorganizationeurinterests;
}
public Field<String> getEcinternationalorganization() {
return ecinternationalorganization;
}
public Field<String> getEcinternationalorganization() {
return ecinternationalorganization;
}
public void setEcinternationalorganization(Field<String> ecinternationalorganization) {
this.ecinternationalorganization = ecinternationalorganization;
}
public void setEcinternationalorganization(Field<String> ecinternationalorganization) {
this.ecinternationalorganization = ecinternationalorganization;
}
public Field<String> getEcenterprise() {
return ecenterprise;
}
public Field<String> getEcenterprise() {
return ecenterprise;
}
public void setEcenterprise(Field<String> ecenterprise) {
this.ecenterprise = ecenterprise;
}
public void setEcenterprise(Field<String> ecenterprise) {
this.ecenterprise = ecenterprise;
}
public Field<String> getEcsmevalidated() {
return ecsmevalidated;
}
public Field<String> getEcsmevalidated() {
return ecsmevalidated;
}
public void setEcsmevalidated(Field<String> ecsmevalidated) {
this.ecsmevalidated = ecsmevalidated;
}
public void setEcsmevalidated(Field<String> ecsmevalidated) {
this.ecsmevalidated = ecsmevalidated;
}
public Field<String> getEcnutscode() {
return ecnutscode;
}
public Field<String> getEcnutscode() {
return ecnutscode;
}
public void setEcnutscode(Field<String> ecnutscode) {
this.ecnutscode = ecnutscode;
}
public void setEcnutscode(Field<String> ecnutscode) {
this.ecnutscode = ecnutscode;
}
public Qualifier getCountry() {
return country;
}
public Qualifier getCountry() {
return country;
}
public void setCountry(Qualifier country) {
this.country = country;
}
public void setCountry(Qualifier country) {
this.country = country;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
if (!Organization.class.isAssignableFrom(e.getClass())) {
return;
}
if (!Organization.class.isAssignableFrom(e.getClass())){
return;
}
final Organization o = (Organization) e;
legalshortname = o.getLegalshortname() != null && compareTrust(this, e)<0? o.getLegalshortname() : legalshortname;
legalname = o.getLegalname() != null && compareTrust(this, e)<0 ? o.getLegalname() : legalname;
alternativeNames = mergeLists(o.getAlternativeNames(), alternativeNames);
websiteurl = o.getWebsiteurl() != null && compareTrust(this, e)<0? o.getWebsiteurl() : websiteurl;
logourl = o.getLogourl() != null && compareTrust(this, e)<0? o.getLogourl() : logourl;
eclegalbody = o.getEclegalbody() != null && compareTrust(this, e)<0? o.getEclegalbody() : eclegalbody;
eclegalperson = o.getEclegalperson() != null && compareTrust(this, e)<0? o.getEclegalperson() : eclegalperson;
ecnonprofit = o.getEcnonprofit() != null && compareTrust(this, e)<0? o.getEcnonprofit() : ecnonprofit;
ecresearchorganization = o.getEcresearchorganization() != null && compareTrust(this, e)<0? o.getEcresearchorganization() : ecresearchorganization;
echighereducation = o.getEchighereducation() != null && compareTrust(this, e)<0? o.getEchighereducation() : echighereducation;
ecinternationalorganizationeurinterests = o.getEcinternationalorganizationeurinterests() != null && compareTrust(this, e)<0? o.getEcinternationalorganizationeurinterests() : ecinternationalorganizationeurinterests;
ecinternationalorganization = o.getEcinternationalorganization() != null && compareTrust(this, e)<0? o.getEcinternationalorganization() : ecinternationalorganization;
ecenterprise = o.getEcenterprise() != null && compareTrust(this, e)<0? o.getEcenterprise() :ecenterprise;
ecsmevalidated = o.getEcsmevalidated() != null && compareTrust(this, e)<0? o.getEcsmevalidated() :ecsmevalidated;
ecnutscode = o.getEcnutscode() != null && compareTrust(this, e)<0? o.getEcnutscode() :ecnutscode;
country = o.getCountry() != null && compareTrust(this, e)<0 ? o.getCountry() :country;
mergeOAFDataInfo(o);
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Organization that = (Organization) o;
return Objects.equals(legalshortname, that.legalshortname) &&
Objects.equals(legalname, that.legalname) &&
Objects.equals(alternativeNames, that.alternativeNames) &&
Objects.equals(websiteurl, that.websiteurl) &&
Objects.equals(logourl, that.logourl) &&
Objects.equals(eclegalbody, that.eclegalbody) &&
Objects.equals(eclegalperson, that.eclegalperson) &&
Objects.equals(ecnonprofit, that.ecnonprofit) &&
Objects.equals(ecresearchorganization, that.ecresearchorganization) &&
Objects.equals(echighereducation, that.echighereducation) &&
Objects.equals(ecinternationalorganizationeurinterests, that.ecinternationalorganizationeurinterests) &&
Objects.equals(ecinternationalorganization, that.ecinternationalorganization) &&
Objects.equals(ecenterprise, that.ecenterprise) &&
Objects.equals(ecsmevalidated, that.ecsmevalidated) &&
Objects.equals(ecnutscode, that.ecnutscode) &&
Objects.equals(country, that.country);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), legalshortname, legalname, alternativeNames, websiteurl, logourl, eclegalbody, eclegalperson, ecnonprofit, ecresearchorganization, echighereducation, ecinternationalorganizationeurinterests, ecinternationalorganization, ecenterprise, ecsmevalidated, ecnutscode, country);
}
final Organization o = (Organization) e;
legalshortname = o.getLegalshortname() != null && compareTrust(this, e) < 0
? o.getLegalshortname()
: legalshortname;
legalname = o.getLegalname() != null && compareTrust(this, e) < 0 ? o.getLegalname() : legalname;
alternativeNames = mergeLists(o.getAlternativeNames(), alternativeNames);
websiteurl = o.getWebsiteurl() != null && compareTrust(this, e) < 0 ? o.getWebsiteurl() : websiteurl;
logourl = o.getLogourl() != null && compareTrust(this, e) < 0 ? o.getLogourl() : logourl;
eclegalbody = o.getEclegalbody() != null && compareTrust(this, e) < 0 ? o.getEclegalbody() : eclegalbody;
eclegalperson = o.getEclegalperson() != null && compareTrust(this, e) < 0
? o.getEclegalperson()
: eclegalperson;
ecnonprofit = o.getEcnonprofit() != null && compareTrust(this, e) < 0 ? o.getEcnonprofit() : ecnonprofit;
ecresearchorganization = o.getEcresearchorganization() != null && compareTrust(this, e) < 0
? o.getEcresearchorganization()
: ecresearchorganization;
echighereducation = o.getEchighereducation() != null && compareTrust(this, e) < 0
? o.getEchighereducation()
: echighereducation;
ecinternationalorganizationeurinterests = o.getEcinternationalorganizationeurinterests() != null
&& compareTrust(this, e) < 0
? o.getEcinternationalorganizationeurinterests()
: ecinternationalorganizationeurinterests;
ecinternationalorganization = o.getEcinternationalorganization() != null && compareTrust(this, e) < 0
? o.getEcinternationalorganization()
: ecinternationalorganization;
ecenterprise = o.getEcenterprise() != null && compareTrust(this, e) < 0
? o.getEcenterprise()
: ecenterprise;
ecsmevalidated = o.getEcsmevalidated() != null && compareTrust(this, e) < 0
? o.getEcsmevalidated()
: ecsmevalidated;
ecnutscode = o.getEcnutscode() != null && compareTrust(this, e) < 0 ? o.getEcnutscode() : ecnutscode;
country = o.getCountry() != null && compareTrust(this, e) < 0 ? o.getCountry() : country;
mergeOAFDataInfo(o);
}
}

119
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OriginDescription.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -5,81 +6,83 @@ import java.util.Objects;
public class OriginDescription implements Serializable {
private String harvestDate;
private String harvestDate;
private Boolean altered = true;
private Boolean altered = true;
private String baseURL;
private String baseURL;
private String identifier;
private String identifier;
private String datestamp;
private String datestamp;
private String metadataNamespace;
private String metadataNamespace;
public String getHarvestDate() {
return harvestDate;
}
public String getHarvestDate() {
return harvestDate;
}
public void setHarvestDate(String harvestDate) {
this.harvestDate = harvestDate;
}
public void setHarvestDate(String harvestDate) {
this.harvestDate = harvestDate;
}
public Boolean getAltered() {
return altered;
}
public Boolean getAltered() {
return altered;
}
public void setAltered(Boolean altered) {
this.altered = altered;
}
public void setAltered(Boolean altered) {
this.altered = altered;
}
public String getBaseURL() {
return baseURL;
}
public String getBaseURL() {
return baseURL;
}
public void setBaseURL(String baseURL) {
this.baseURL = baseURL;
}
public void setBaseURL(String baseURL) {
this.baseURL = baseURL;
}
public String getIdentifier() {
return identifier;
}
public String getIdentifier() {
return identifier;
}
public void setIdentifier(String identifier) {
this.identifier = identifier;
}
public void setIdentifier(String identifier) {
this.identifier = identifier;
}
public String getDatestamp() {
return datestamp;
}
public String getDatestamp() {
return datestamp;
}
public void setDatestamp(String datestamp) {
this.datestamp = datestamp;
}
public void setDatestamp(String datestamp) {
this.datestamp = datestamp;
}
public String getMetadataNamespace() {
return metadataNamespace;
}
public String getMetadataNamespace() {
return metadataNamespace;
}
public void setMetadataNamespace(String metadataNamespace) {
this.metadataNamespace = metadataNamespace;
}
public void setMetadataNamespace(String metadataNamespace) {
this.metadataNamespace = metadataNamespace;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
OriginDescription that = (OriginDescription) o;
return Objects.equals(harvestDate, that.harvestDate) &&
Objects.equals(altered, that.altered) &&
Objects.equals(baseURL, that.baseURL) &&
Objects.equals(identifier, that.identifier) &&
Objects.equals(datestamp, that.datestamp) &&
Objects.equals(metadataNamespace, that.metadataNamespace);
}
@Override
public boolean equals(Object o) {
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
OriginDescription that = (OriginDescription) o;
return Objects.equals(harvestDate, that.harvestDate)
&& Objects.equals(altered, that.altered)
&& Objects.equals(baseURL, that.baseURL)
&& Objects.equals(identifier, that.identifier)
&& Objects.equals(datestamp, that.datestamp)
&& Objects.equals(metadataNamespace, that.metadataNamespace);
}
@Override
public int hashCode() {
return Objects.hash(harvestDate, altered, baseURL, identifier, datestamp, metadataNamespace);
}
@Override
public int hashCode() {
return Objects.hash(harvestDate, altered, baseURL, identifier, datestamp, metadataNamespace);
}
}

88
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OtherResearchProduct.java
View File

@ -1,70 +1,60 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
import eu.dnetlib.dhp.schema.common.ModelConstants;
public class OtherResearchProduct extends Result implements Serializable {
private List<Field<String>> contactperson;
private List<Field<String>> contactperson;
private List<Field<String>> contactgroup;
private List<Field<String>> contactgroup;
private List<Field<String>> tool;
private List<Field<String>> tool;
public List<Field<String>> getContactperson() {
return contactperson;
}
public OtherResearchProduct() {
setResulttype(ModelConstants.ORP_DEFAULT_RESULTTYPE);
}
public void setContactperson(List<Field<String>> contactperson) {
this.contactperson = contactperson;
}
public List<Field<String>> getContactperson() {
return contactperson;
}
public List<Field<String>> getContactgroup() {
return contactgroup;
}
public void setContactperson(List<Field<String>> contactperson) {
this.contactperson = contactperson;
}
public void setContactgroup(List<Field<String>> contactgroup) {
this.contactgroup = contactgroup;
}
public List<Field<String>> getContactgroup() {
return contactgroup;
}
public List<Field<String>> getTool() {
return tool;
}
public void setContactgroup(List<Field<String>> contactgroup) {
this.contactgroup = contactgroup;
}
public void setTool(List<Field<String>> tool) {
this.tool = tool;
}
public List<Field<String>> getTool() {
return tool;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
public void setTool(List<Field<String>> tool) {
this.tool = tool;
}
if (!OtherResearchProduct.class.isAssignableFrom(e.getClass())){
return;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
OtherResearchProduct o = (OtherResearchProduct)e;
if (!OtherResearchProduct.class.isAssignableFrom(e.getClass())) {
return;
}
contactperson = mergeLists(contactperson, o.getContactperson());
contactgroup = mergeLists(contactgroup, o.getContactgroup());
tool = mergeLists(tool, o.getTool());
mergeOAFDataInfo(e);
}
OtherResearchProduct o = (OtherResearchProduct) e;
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
OtherResearchProduct that = (OtherResearchProduct) o;
return Objects.equals(contactperson, that.contactperson) &&
Objects.equals(contactgroup, that.contactgroup) &&
Objects.equals(tool, that.tool);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), contactperson, contactgroup, tool);
}
contactperson = mergeLists(contactperson, o.getContactperson());
contactgroup = mergeLists(contactgroup, o.getContactgroup());
tool = mergeLists(tool, o.getTool());
mergeOAFDataInfo(e);
}
}

542
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Project.java
View File

@ -1,347 +1,325 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
public class Project extends OafEntity implements Serializable {
private Field<String> websiteurl;
private Field<String> websiteurl;
private Field<String> code;
private Field<String> code;
private Field<String> acronym;
private Field<String> acronym;
private Field<String> title;
private Field<String> title;
private Field<String> startdate;
private Field<String> startdate;
private Field<String> enddate;
private Field<String> enddate;
private Field<String> callidentifier;
private Field<String> callidentifier;
private Field<String> keywords;
private Field<String> keywords;
private Field<String> duration;
private Field<String> duration;
private Field<String> ecsc39;
private Field<String> ecsc39;
private Field<String> oamandatepublications;
private Field<String> oamandatepublications;
private Field<String> ecarticle29_3;
private Field<String> ecarticle29_3;
private List<StructuredProperty> subjects;
private List<StructuredProperty> subjects;
private List<Field<String>> fundingtree;
private List<Field<String>> fundingtree;
private Qualifier contracttype;
private Qualifier contracttype;
private Field<String> optional1;
private Field<String> optional1;
private Field<String> optional2;
private Field<String> optional2;
private Field<String> jsonextrainfo;
private Field<String> jsonextrainfo;
private Field<String> contactfullname;
private Field<String> contactfullname;
private Field<String> contactfax;
private Field<String> contactfax;
private Field<String> contactphone;
private Field<String> contactphone;
private Field<String> contactemail;
private Field<String> contactemail;
private Field<String> summary;
private Field<String> summary;
private Field<String> currency;
private Field<String> currency;
private Float totalcost;
private Float totalcost;
private Float fundedamount;
private Float fundedamount;
public Field<String> getWebsiteurl() {
return websiteurl;
}
public Field<String> getWebsiteurl() {
return websiteurl;
}
public void setWebsiteurl(Field<String> websiteurl) {
this.websiteurl = websiteurl;
}
public void setWebsiteurl(Field<String> websiteurl) {
this.websiteurl = websiteurl;
}
public Field<String> getCode() {
return code;
}
public Field<String> getCode() {
return code;
}
public void setCode(Field<String> code) {
this.code = code;
}
public void setCode(Field<String> code) {
this.code = code;
}
public Field<String> getAcronym() {
return acronym;
}
public Field<String> getAcronym() {
return acronym;
}
public void setAcronym(Field<String> acronym) {
this.acronym = acronym;
}
public void setAcronym(Field<String> acronym) {
this.acronym = acronym;
}
public Field<String> getTitle() {
return title;
}
public Field<String> getTitle() {
return title;
}
public void setTitle(Field<String> title) {
this.title = title;
}
public void setTitle(Field<String> title) {
this.title = title;
}
public Field<String> getStartdate() {
return startdate;
}
public Field<String> getStartdate() {
return startdate;
}
public void setStartdate(Field<String> startdate) {
this.startdate = startdate;
}
public void setStartdate(Field<String> startdate) {
this.startdate = startdate;
}
public Field<String> getEnddate() {
return enddate;
}
public Field<String> getEnddate() {
return enddate;
}
public void setEnddate(Field<String> enddate) {
this.enddate = enddate;
}
public void setEnddate(Field<String> enddate) {
this.enddate = enddate;
}
public Field<String> getCallidentifier() {
return callidentifier;
}
public Field<String> getCallidentifier() {
return callidentifier;
}
public void setCallidentifier(Field<String> callidentifier) {
this.callidentifier = callidentifier;
}
public void setCallidentifier(Field<String> callidentifier) {
this.callidentifier = callidentifier;
}
public Field<String> getKeywords() {
return keywords;
}
public Field<String> getKeywords() {
return keywords;
}
public void setKeywords(Field<String> keywords) {
this.keywords = keywords;
}
public void setKeywords(Field<String> keywords) {
this.keywords = keywords;
}
public Field<String> getDuration() {
return duration;
}
public Field<String> getDuration() {
return duration;
}
public void setDuration(Field<String> duration) {
this.duration = duration;
}
public void setDuration(Field<String> duration) {
this.duration = duration;
}
public Field<String> getEcsc39() {
return ecsc39;
}
public Field<String> getEcsc39() {
return ecsc39;
}
public void setEcsc39(Field<String> ecsc39) {
this.ecsc39 = ecsc39;
}
public void setEcsc39(Field<String> ecsc39) {
this.ecsc39 = ecsc39;
}
public Field<String> getOamandatepublications() {
return oamandatepublications;
}
public Field<String> getOamandatepublications() {
return oamandatepublications;
}
public void setOamandatepublications(Field<String> oamandatepublications) {
this.oamandatepublications = oamandatepublications;
}
public void setOamandatepublications(Field<String> oamandatepublications) {
this.oamandatepublications = oamandatepublications;
}
public Field<String> getEcarticle29_3() {
return ecarticle29_3;
}
public Field<String> getEcarticle29_3() {
return ecarticle29_3;
}
public void setEcarticle29_3(Field<String> ecarticle29_3) {
this.ecarticle29_3 = ecarticle29_3;
}
public void setEcarticle29_3(Field<String> ecarticle29_3) {
this.ecarticle29_3 = ecarticle29_3;
}
public List<StructuredProperty> getSubjects() {
return subjects;
}
public List<StructuredProperty> getSubjects() {
return subjects;
}
public void setSubjects(List<StructuredProperty> subjects) {
this.subjects = subjects;
}
public void setSubjects(List<StructuredProperty> subjects) {
this.subjects = subjects;
}
public List<Field<String>> getFundingtree() {
return fundingtree;
}
public List<Field<String>> getFundingtree() {
return fundingtree;
}
public void setFundingtree(List<Field<String>> fundingtree) {
this.fundingtree = fundingtree;
}
public void setFundingtree(List<Field<String>> fundingtree) {
this.fundingtree = fundingtree;
}
public Qualifier getContracttype() {
return contracttype;
}
public Qualifier getContracttype() {
return contracttype;
}
public void setContracttype(Qualifier contracttype) {
this.contracttype = contracttype;
}
public void setContracttype(Qualifier contracttype) {
this.contracttype = contracttype;
}
public Field<String> getOptional1() {
return optional1;
}
public Field<String> getOptional1() {
return optional1;
}
public void setOptional1(Field<String> optional1) {
this.optional1 = optional1;
}
public Field<String> getOptional2() {
return optional2;
}
public void setOptional2(Field<String> optional2) {
this.optional2 = optional2;
}
public Field<String> getJsonextrainfo() {
return jsonextrainfo;
}
public void setJsonextrainfo(Field<String> jsonextrainfo) {
this.jsonextrainfo = jsonextrainfo;
}
public Field<String> getContactfullname() {
return contactfullname;
}
public void setContactfullname(Field<String> contactfullname) {
this.contactfullname = contactfullname;
}
public Field<String> getContactfax() {
return contactfax;
}
public void setContactfax(Field<String> contactfax) {
this.contactfax = contactfax;
}
public Field<String> getContactphone() {
return contactphone;
}
public void setContactphone(Field<String> contactphone) {
this.contactphone = contactphone;
}
public Field<String> getContactemail() {
return contactemail;
}
public void setContactemail(Field<String> contactemail) {
this.contactemail = contactemail;
}
public Field<String> getSummary() {
return summary;
}
public void setSummary(Field<String> summary) {
this.summary = summary;
}
public Field<String> getCurrency() {
return currency;
}
public void setCurrency(Field<String> currency) {
this.currency = currency;
}
public Float getTotalcost() {
return totalcost;
}
public void setTotalcost(Float totalcost) {
this.totalcost = totalcost;
}
public Float getFundedamount() {
return fundedamount;
}
public void setFundedamount(Float fundedamount) {
this.fundedamount = fundedamount;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
if (!Project.class.isAssignableFrom(e.getClass())){
return;
}
Project p = (Project)e;
websiteurl= p.getWebsiteurl()!= null && compareTrust(this,e)<0?p.getWebsiteurl():websiteurl;
code= p.getCode()!=null && compareTrust(this,e)<0?p.getCode():code;
acronym= p.getAcronym()!= null && compareTrust(this,e)<0?p.getAcronym():acronym;
title= p.getTitle()!= null && compareTrust(this,e)<0?p.getTitle():title;
startdate= p.getStartdate()!=null && compareTrust(this,e)<0?p.getStartdate():startdate;
enddate= p.getEnddate()!=null && compareTrust(this,e)<0?p.getEnddate():enddate;
callidentifier= p.getCallidentifier()!=null && compareTrust(this,e)<0?p.getCallidentifier():callidentifier;
keywords= p.getKeywords()!=null && compareTrust(this,e)<0?p.getKeywords():keywords;
duration= p.getDuration()!=null && compareTrust(this,e)<0?p.getDuration():duration;
ecsc39= p.getEcsc39()!=null && compareTrust(this,e)<0?p.getEcsc39():ecsc39;
oamandatepublications= p.getOamandatepublications()!=null && compareTrust(this,e)<0?p.getOamandatepublications():oamandatepublications;
ecarticle29_3= p.getEcarticle29_3()!=null && compareTrust(this,e)<0?p.getEcarticle29_3():ecarticle29_3;
subjects= mergeLists(subjects, p.getSubjects());
fundingtree= mergeLists(fundingtree, p.getFundingtree());
contracttype= p.getContracttype()!=null && compareTrust(this,e)<0?p.getContracttype():contracttype;
optional1= p.getOptional1()!=null && compareTrust(this,e)<0?p.getOptional1():optional1;
optional2= p.getOptional2()!=null && compareTrust(this,e)<0?p.getOptional2():optional2;
jsonextrainfo= p.getJsonextrainfo()!=null && compareTrust(this,e)<0?p.getJsonextrainfo():jsonextrainfo;
contactfullname= p.getContactfullname()!=null && compareTrust(this,e)<0?p.getContactfullname():contactfullname;
contactfax= p.getContactfax()!=null && compareTrust(this,e)<0?p.getContactfax():contactfax;
contactphone= p.getContactphone()!=null && compareTrust(this,e)<0?p.getContactphone():contactphone;
contactemail= p.getContactemail()!=null && compareTrust(this,e)<0?p.getContactemail():contactemail;
summary= p.getSummary()!=null && compareTrust(this,e)<0?p.getSummary():summary;
currency= p.getCurrency()!=null && compareTrust(this,e)<0?p.getCurrency():currency;
totalcost= p.getTotalcost()!=null && compareTrust(this,e)<0?p.getTotalcost():totalcost;
fundedamount= p.getFundedamount()!= null && compareTrust(this,e)<0?p.getFundedamount():fundedamount;
mergeOAFDataInfo(e);
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Project project = (Project) o;
return Objects.equals(websiteurl, project.websiteurl) &&
Objects.equals(code, project.code) &&
Objects.equals(acronym, project.acronym) &&
Objects.equals(title, project.title) &&
Objects.equals(startdate, project.startdate) &&
Objects.equals(enddate, project.enddate) &&
Objects.equals(callidentifier, project.callidentifier) &&
Objects.equals(keywords, project.keywords) &&
Objects.equals(duration, project.duration) &&
Objects.equals(ecsc39, project.ecsc39) &&
Objects.equals(oamandatepublications, project.oamandatepublications) &&
Objects.equals(ecarticle29_3, project.ecarticle29_3) &&
Objects.equals(subjects, project.subjects) &&
Objects.equals(fundingtree, project.fundingtree) &&
Objects.equals(contracttype, project.contracttype) &&
Objects.equals(optional1, project.optional1) &&
Objects.equals(optional2, project.optional2) &&
Objects.equals(jsonextrainfo, project.jsonextrainfo) &&
Objects.equals(contactfullname, project.contactfullname) &&
Objects.equals(contactfax, project.contactfax) &&
Objects.equals(contactphone, project.contactphone) &&
Objects.equals(contactemail, project.contactemail) &&
Objects.equals(summary, project.summary) &&
Objects.equals(currency, project.currency) &&
Objects.equals(totalcost, project.totalcost) &&
Objects.equals(fundedamount, project.fundedamount);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), websiteurl, code, acronym, title, startdate, enddate, callidentifier, keywords, duration, ecsc39, oamandatepublications, ecarticle29_3, subjects, fundingtree, contracttype, optional1, optional2, jsonextrainfo, contactfullname, contactfax, contactphone, contactemail, summary, currency, totalcost, fundedamount);
}
public void setOptional1(Field<String> optional1) {
this.optional1 = optional1;
}
public Field<String> getOptional2() {
return optional2;
}
public void setOptional2(Field<String> optional2) {
this.optional2 = optional2;
}
public Field<String> getJsonextrainfo() {
return jsonextrainfo;
}
public void setJsonextrainfo(Field<String> jsonextrainfo) {
this.jsonextrainfo = jsonextrainfo;
}
public Field<String> getContactfullname() {
return contactfullname;
}
public void setContactfullname(Field<String> contactfullname) {
this.contactfullname = contactfullname;
}
public Field<String> getContactfax() {
return contactfax;
}
public void setContactfax(Field<String> contactfax) {
this.contactfax = contactfax;
}
public Field<String> getContactphone() {
return contactphone;
}
public void setContactphone(Field<String> contactphone) {
this.contactphone = contactphone;
}
public Field<String> getContactemail() {
return contactemail;
}
public void setContactemail(Field<String> contactemail) {
this.contactemail = contactemail;
}
public Field<String> getSummary() {
return summary;
}
public void setSummary(Field<String> summary) {
this.summary = summary;
}
public Field<String> getCurrency() {
return currency;
}
public void setCurrency(Field<String> currency) {
this.currency = currency;
}
public Float getTotalcost() {
return totalcost;
}
public void setTotalcost(Float totalcost) {
this.totalcost = totalcost;
}
public Float getFundedamount() {
return fundedamount;
}
public void setFundedamount(Float fundedamount) {
this.fundedamount = fundedamount;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
if (!Project.class.isAssignableFrom(e.getClass())) {
return;
}
Project p = (Project) e;
websiteurl = p.getWebsiteurl() != null && compareTrust(this, e) < 0 ? p.getWebsiteurl() : websiteurl;
code = p.getCode() != null && compareTrust(this, e) < 0 ? p.getCode() : code;
acronym = p.getAcronym() != null && compareTrust(this, e) < 0 ? p.getAcronym() : acronym;
title = p.getTitle() != null && compareTrust(this, e) < 0 ? p.getTitle() : title;
startdate = p.getStartdate() != null && compareTrust(this, e) < 0 ? p.getStartdate() : startdate;
enddate = p.getEnddate() != null && compareTrust(this, e) < 0 ? p.getEnddate() : enddate;
callidentifier = p.getCallidentifier() != null && compareTrust(this, e) < 0
? p.getCallidentifier()
: callidentifier;
keywords = p.getKeywords() != null && compareTrust(this, e) < 0 ? p.getKeywords() : keywords;
duration = p.getDuration() != null && compareTrust(this, e) < 0 ? p.getDuration() : duration;
ecsc39 = p.getEcsc39() != null && compareTrust(this, e) < 0 ? p.getEcsc39() : ecsc39;
oamandatepublications = p.getOamandatepublications() != null && compareTrust(this, e) < 0
? p.getOamandatepublications()
: oamandatepublications;
ecarticle29_3 = p.getEcarticle29_3() != null && compareTrust(this, e) < 0
? p.getEcarticle29_3()
: ecarticle29_3;
subjects = mergeLists(subjects, p.getSubjects());
fundingtree = mergeLists(fundingtree, p.getFundingtree());
contracttype = p.getContracttype() != null && compareTrust(this, e) < 0
? p.getContracttype()
: contracttype;
optional1 = p.getOptional1() != null && compareTrust(this, e) < 0 ? p.getOptional1() : optional1;
optional2 = p.getOptional2() != null && compareTrust(this, e) < 0 ? p.getOptional2() : optional2;
jsonextrainfo = p.getJsonextrainfo() != null && compareTrust(this, e) < 0
? p.getJsonextrainfo()
: jsonextrainfo;
contactfullname = p.getContactfullname() != null && compareTrust(this, e) < 0
? p.getContactfullname()
: contactfullname;
contactfax = p.getContactfax() != null && compareTrust(this, e) < 0 ? p.getContactfax() : contactfax;
contactphone = p.getContactphone() != null && compareTrust(this, e) < 0
? p.getContactphone()
: contactphone;
contactemail = p.getContactemail() != null && compareTrust(this, e) < 0
? p.getContactemail()
: contactemail;
summary = p.getSummary() != null && compareTrust(this, e) < 0 ? p.getSummary() : summary;
currency = p.getCurrency() != null && compareTrust(this, e) < 0 ? p.getCurrency() : currency;
totalcost = p.getTotalcost() != null && compareTrust(this, e) < 0 ? p.getTotalcost() : totalcost;
fundedamount = p.getFundedamount() != null && compareTrust(this, e) < 0
? p.getFundedamount()
: fundedamount;
mergeOAFDataInfo(e);
}
}

58
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Publication.java
View File

@ -1,47 +1,39 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.Objects;
import eu.dnetlib.dhp.schema.common.ModelConstants;
public class Publication extends Result implements Serializable {
// publication specific
private Journal journal;
// publication specific
private Journal journal;
public Journal getJournal() {
return journal;
}
public Publication() {
setResulttype(ModelConstants.PUBLICATION_DEFAULT_RESULTTYPE);
}
public void setJournal(Journal journal) {
this.journal = journal;
}
public Journal getJournal() {
return journal;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
public void setJournal(Journal journal) {
this.journal = journal;
}
if (!Publication.class.isAssignableFrom(e.getClass())){
return;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
Publication p = (Publication) e;
if (!Publication.class.isAssignableFrom(e.getClass())) {
return;
}
if (p.getJournal() != null && compareTrust(this, e)<0)
journal = p.getJournal();
mergeOAFDataInfo(e);
}
Publication p = (Publication) e;
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Publication that = (Publication) o;
return Objects.equals(journal, that.journal);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), journal);
}
if (p.getJournal() != null && compareTrust(this, e) < 0)
journal = p.getJournal();
mergeOAFDataInfo(e);
}
}

128
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Qualifier.java
View File

@ -1,81 +1,87 @@
package eu.dnetlib.dhp.schema.oaf;
import com.fasterxml.jackson.annotation.JsonIgnore;
import org.apache.commons.lang3.StringUtils;
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import org.apache.commons.lang3.StringUtils;
import com.fasterxml.jackson.annotation.JsonIgnore;
public class Qualifier implements Serializable {
private String classid;
private String classname;
private String schemeid;
private String schemename;
private String classid;
private String classname;
private String schemeid;
private String schemename;
public String getClassid() {
return classid;
}
public String getClassid() {
return classid;
}
public void setClassid(String classid) {
this.classid = classid;
}
public void setClassid(String classid) {
this.classid = classid;
}
public String getClassname() {
return classname;
}
public String getClassname() {
return classname;
}
public void setClassname(String classname) {
this.classname = classname;
}
public void setClassname(String classname) {
this.classname = classname;
}
public String getSchemeid() {
return schemeid;
}
public String getSchemeid() {
return schemeid;
}
public void setSchemeid(String schemeid) {
this.schemeid = schemeid;
}
public void setSchemeid(String schemeid) {
this.schemeid = schemeid;
}
public String getSchemename() {
return schemename;
}
public String getSchemename() {
return schemename;
}
public void setSchemename(String schemename) {
this.schemename = schemename;
}
public void setSchemename(String schemename) {
this.schemename = schemename;
}
public String toComparableString() {
return isBlank()?"": String.format("%s::%s::%s::%s",
classid != null ? classid : "",
classname != null ? classname : "",
schemeid != null ? schemeid : "",
schemename != null ? schemename : "");
}
public String toComparableString() {
return isBlank()
? ""
: String
.format(
"%s::%s::%s::%s",
classid != null ? classid : "",
classname != null ? classname : "",
schemeid != null ? schemeid : "",
schemename != null ? schemename : "");
}
@JsonIgnore
public boolean isBlank() {
return StringUtils.isBlank(classid) &&
StringUtils.isBlank(classname) &&
StringUtils.isBlank(schemeid) &&
StringUtils.isBlank(schemename);
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@JsonIgnore
public boolean isBlank() {
return StringUtils.isBlank(classid)
&& StringUtils.isBlank(classname)
&& StringUtils.isBlank(schemeid)
&& StringUtils.isBlank(schemename);
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
@Override
public int hashCode() {
return toComparableString().hashCode();
}
Qualifier other = (Qualifier) obj;
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
return toComparableString()
.equals(other.toComparableString());
}
Qualifier other = (Qualifier) obj;
return toComparableString().equals(other.toComparableString());
}
}

84
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Relation.java
View File

@ -1,14 +1,15 @@
package eu.dnetlib.dhp.schema.oaf;
import static com.google.common.base.Preconditions.checkArgument;
import java.util.*;
import java.util.stream.Collectors;
import java.util.stream.Stream;
import static com.google.common.base.Preconditions.checkArgument;
/**
* Relation aims to model any edge between two nodes in the OpenAIRE graph. It has a source id and a target id
* pointing to graph node identifiers and it is further characterised by the semantic of the link throught the fields
* Relation models any edge between two nodes in the OpenAIRE graph. It has a source id and a target id
* pointing to graph node identifiers and it is further characterised by the semantic of the link through the fields
* relType, subRelType and relClass. Provenance information is modeled according to the dataInfo element and collectedFrom,
* while individual relationship types can provide extra information via the properties field.
*/
@ -39,16 +40,6 @@ public class Relation extends Oaf {
*/
private String target;
/**
* The list of datasource id/name pairs providing this relationship.
*/
private List<KeyValue> collectedFrom = new ArrayList<>();
/**
* List of relation specific properties. Values include 'similarityLevel', indicating the similarity score between a pair of publications.
*/
private List<KeyValue> properties = new ArrayList<>();
public String getRelType() {
return relType;
}
@ -89,53 +80,46 @@ public class Relation extends Oaf {
this.target = target;
}
public List<KeyValue> getCollectedFrom() {
return collectedFrom;
}
public void setCollectedFrom(final List<KeyValue> collectedFrom) {
this.collectedFrom = collectedFrom;
}
public List<KeyValue> getProperties() {
return properties;
}
public void setProperties(List<KeyValue> properties) {
this.properties = properties;
}
public void mergeFrom(final Relation r) {
checkArgument(Objects.equals(getSource(), r.getSource()),"source ids must be equal");
checkArgument(Objects.equals(getTarget(), r.getTarget()),"target ids must be equal");
checkArgument(Objects.equals(getRelType(), r.getRelType()),"relType(s) must be equal");
checkArgument(Objects.equals(getSubRelType(), r.getSubRelType()),"subRelType(s) must be equal");
checkArgument(Objects.equals(getRelClass(), r.getRelClass()),"relClass(es) must be equal");
checkArgument(Objects.equals(getSource(), r.getSource()), "source ids must be equal");
checkArgument(Objects.equals(getTarget(), r.getTarget()), "target ids must be equal");
checkArgument(Objects.equals(getRelType(), r.getRelType()), "relType(s) must be equal");
checkArgument(
Objects.equals(getSubRelType(), r.getSubRelType()), "subRelType(s) must be equal");
checkArgument(Objects.equals(getRelClass(), r.getRelClass()), "relClass(es) must be equal");
setCollectedFrom(
Stream
.concat(Optional.ofNullable(getCollectedFrom()).map(Collection::stream).orElse(Stream.empty()),
Optional.ofNullable(r.getCollectedFrom()).map(Collection::stream).orElse(Stream.empty()))
.distinct() // relies on KeyValue.equals
.collect(Collectors.toList()));
setCollectedfrom(
Stream
.concat(
Optional
.ofNullable(getCollectedfrom())
.map(Collection::stream)
.orElse(Stream.empty()),
Optional
.ofNullable(r.getCollectedfrom())
.map(Collection::stream)
.orElse(Stream.empty()))
.distinct() // relies on KeyValue.equals
.collect(Collectors.toList()));
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (this == o)
return true;
if (o == null || getClass() != o.getClass())
return false;
Relation relation = (Relation) o;
return relType.equals(relation.relType) &&
subRelType.equals(relation.subRelType) &&
relClass.equals(relation.relClass) &&
source.equals(relation.source) &&
target.equals(relation.target);
return relType.equals(relation.relType)
&& subRelType.equals(relation.subRelType)
&& relClass.equals(relation.relClass)
&& source.equals(relation.source)
&& target.equals(relation.target);
}
@Override
public int hashCode() {
return Objects.hash(relType, subRelType, relClass, source, target, collectedFrom);
return Objects.hash(relType, subRelType, relClass, source, target, collectedfrom);
}
}

428
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Result.java
View File

@ -1,319 +1,297 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.Comparator;
import java.util.List;
import java.util.Objects;
public class Result extends OafEntity implements Serializable {
private List<Author> author;
private List<Author> author;
// resulttype allows subclassing results into publications | datasets | software
private Qualifier resulttype;
// resulttype allows subclassing results into publications | datasets | software
private Qualifier resulttype;
// common fields
private Qualifier language;
// common fields
private Qualifier language;
private List<Country> country;
private List<Country> country;
private List<StructuredProperty> subject;
private List<StructuredProperty> subject;
private List<StructuredProperty> title;
private List<StructuredProperty> title;
private List<StructuredProperty> relevantdate;
private List<StructuredProperty> relevantdate;
private List<Field<String>> description;
private List<Field<String>> description;
private Field<String> dateofacceptance;
private Field<String> dateofacceptance;
private Field<String> publisher;
private Field<String> publisher;
private Field<String> embargoenddate;
private Field<String> embargoenddate;
private List<Field<String>> source;
private List<Field<String>> source;
private List<Field<String>> fulltext; // remove candidate
private List<Field<String>> fulltext; // remove candidate
private List<Field<String>> format;
private List<Field<String>> format;
private List<Field<String>> contributor;
private List<Field<String>> contributor;
private Qualifier resourcetype;
private Qualifier resourcetype;
private List<Field<String>> coverage;
private List<Field<String>> coverage;
private Qualifier bestaccessright;
private Qualifier bestaccessright;
private List<Context> context;
private List<Context> context;
private List<ExternalReference> externalReference;
private List<ExternalReference> externalReference;
private List<Instance> instance;
private List<Instance> instance;
public List<Author> getAuthor() {
return author;
}
public List<Author> getAuthor() {
return author;
}
public void setAuthor(List<Author> author) {
this.author = author;
}
public void setAuthor(List<Author> author) {
this.author = author;
}
public Qualifier getResulttype() {
return resulttype;
}
public Qualifier getResulttype() {
return resulttype;
}
public void setResulttype(Qualifier resulttype) {
this.resulttype = resulttype;
}
public void setResulttype(Qualifier resulttype) {
this.resulttype = resulttype;
}
public Qualifier getLanguage() {
return language;
}
public Qualifier getLanguage() {
return language;
}
public void setLanguage(Qualifier language) {
this.language = language;
}
public void setLanguage(Qualifier language) {
this.language = language;
}
public List<Country> getCountry() {
return country;
}
public List<Country> getCountry() {
return country;
}
public void setCountry(List<Country> country) {
this.country = country;
}
public void setCountry(List<Country> country) {
this.country = country;
}
public List<StructuredProperty> getSubject() {
return subject;
}
public List<StructuredProperty> getSubject() {
return subject;
}
public void setSubject(List<StructuredProperty> subject) {
this.subject = subject;
}
public void setSubject(List<StructuredProperty> subject) {
this.subject = subject;
}
public List<StructuredProperty> getTitle() {
return title;
}
public List<StructuredProperty> getTitle() {
return title;
}
public void setTitle(List<StructuredProperty> title) {
this.title = title;
}
public void setTitle(List<StructuredProperty> title) {
this.title = title;
}
public List<StructuredProperty> getRelevantdate() {
return relevantdate;
}
public List<StructuredProperty> getRelevantdate() {
return relevantdate;
}
public void setRelevantdate(List<StructuredProperty> relevantdate) {
this.relevantdate = relevantdate;
}
public void setRelevantdate(List<StructuredProperty> relevantdate) {
this.relevantdate = relevantdate;
}
public List<Field<String>> getDescription() {
return description;
}
public List<Field<String>> getDescription() {
return description;
}
public void setDescription(List<Field<String>> description) {
this.description = description;
}
public void setDescription(List<Field<String>> description) {
this.description = description;
}
public Field<String> getDateofacceptance() {
return dateofacceptance;
}
public Field<String> getDateofacceptance() {
return dateofacceptance;
}
public void setDateofacceptance(Field<String> dateofacceptance) {
this.dateofacceptance = dateofacceptance;
}
public void setDateofacceptance(Field<String> dateofacceptance) {
this.dateofacceptance = dateofacceptance;
}
public Field<String> getPublisher() {
return publisher;
}
public Field<String> getPublisher() {
return publisher;
}
public void setPublisher(Field<String> publisher) {
this.publisher = publisher;
}
public void setPublisher(Field<String> publisher) {
this.publisher = publisher;
}
public Field<String> getEmbargoenddate() {
return embargoenddate;
}
public Field<String> getEmbargoenddate() {
return embargoenddate;
}
public void setEmbargoenddate(Field<String> embargoenddate) {
this.embargoenddate = embargoenddate;
}
public void setEmbargoenddate(Field<String> embargoenddate) {
this.embargoenddate = embargoenddate;
}
public List<Field<String>> getSource() {
return source;
}
public List<Field<String>> getSource() {
return source;
}
public void setSource(List<Field<String>> source) {
this.source = source;
}
public void setSource(List<Field<String>> source) {
this.source = source;
}
public List<Field<String>> getFulltext() {
return fulltext;
}
public List<Field<String>> getFulltext() {
return fulltext;
}
public void setFulltext(List<Field<String>> fulltext) {
this.fulltext = fulltext;
}
public void setFulltext(List<Field<String>> fulltext) {
this.fulltext = fulltext;
}
public List<Field<String>> getFormat() {
return format;
}
public List<Field<String>> getFormat() {
return format;
}
public void setFormat(List<Field<String>> format) {
this.format = format;
}
public void setFormat(List<Field<String>> format) {
this.format = format;
}
public List<Field<String>> getContributor() {
return contributor;
}
public List<Field<String>> getContributor() {
return contributor;
}
public void setContributor(List<Field<String>> contributor) {
this.contributor = contributor;
}
public void setContributor(List<Field<String>> contributor) {
this.contributor = contributor;
}
public Qualifier getResourcetype() {
return resourcetype;
}
public Qualifier getResourcetype() {
return resourcetype;
}
public void setResourcetype(Qualifier resourcetype) {
this.resourcetype = resourcetype;
}
public void setResourcetype(Qualifier resourcetype) {
this.resourcetype = resourcetype;
}
public List<Field<String>> getCoverage() {
return coverage;
}
public List<Field<String>> getCoverage() {
return coverage;
}
public void setCoverage(List<Field<String>> coverage) {
this.coverage = coverage;
}
public void setCoverage(List<Field<String>> coverage) {
this.coverage = coverage;
}
public Qualifier getBestaccessright() {
return bestaccessright;
}
public Qualifier getBestaccessright() {
return bestaccessright;
}
public void setBestaccessright(Qualifier bestaccessright) {
this.bestaccessright = bestaccessright;
}
public void setBestaccessright(Qualifier bestaccessright) {
this.bestaccessright = bestaccessright;
}
public List<Context> getContext() {
return context;
}
public List<Context> getContext() {
return context;
}
public void setContext(List<Context> context) {
this.context = context;
}
public void setContext(List<Context> context) {
this.context = context;
}
public List<ExternalReference> getExternalReference() {
return externalReference;
}
public List<ExternalReference> getExternalReference() {
return externalReference;
}
public void setExternalReference(List<ExternalReference> externalReference) {
this.externalReference = externalReference;
}
public void setExternalReference(List<ExternalReference> externalReference) {
this.externalReference = externalReference;
}
public List<Instance> getInstance() {
return instance;
}
public List<Instance> getInstance() {
return instance;
}
public void setInstance(List<Instance> instance) {
this.instance = instance;
}
public void setInstance(List<Instance> instance) {
this.instance = instance;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
if (!Result.class.isAssignableFrom(e.getClass())){
return;
}
if (!Result.class.isAssignableFrom(e.getClass())) {
return;
}
Result r = (Result) e;
Result r = (Result) e;
instance = mergeLists(instance, r.getInstance());
instance = mergeLists(instance, r.getInstance());
if (r.getResulttype() != null && compareTrust(this, r) < 0)
resulttype = r.getResulttype();
if (r.getBestaccessright() != null && compareTrust(this, r) < 0)
bestaccessright = r.getBestaccessright();
if (r.getLanguage() != null && compareTrust(this, r) < 0)
language = r.getLanguage();
if (r.getResulttype() != null && compareTrust(this, r) < 0)
resulttype = r.getResulttype();
country = mergeLists(country, r.getCountry());
if (r.getLanguage() != null && compareTrust(this, r) < 0)
language = r.getLanguage();
subject = mergeLists(subject, r.getSubject());
country = mergeLists(country, r.getCountry());
title = mergeLists(title, r.getTitle());
subject = mergeLists(subject, r.getSubject());
relevantdate = mergeLists(relevantdate, r.getRelevantdate());
title = mergeLists(title, r.getTitle());
description = longestLists(description, r.getDescription());
relevantdate = mergeLists(relevantdate, r.getRelevantdate());
if (r.getPublisher() != null && compareTrust(this, r) < 0)
publisher = r.getPublisher();
description = longestLists(description, r.getDescription());
if (r.getEmbargoenddate() != null && compareTrust(this, r) < 0)
embargoenddate = r.getEmbargoenddate();
if (r.getPublisher() != null && compareTrust(this, r) < 0)
publisher = r.getPublisher();
source = mergeLists(source, r.getSource());
if (r.getEmbargoenddate() != null && compareTrust(this, r) < 0)
embargoenddate = r.getEmbargoenddate();
fulltext = mergeLists(fulltext, r.getFulltext());
source = mergeLists(source, r.getSource());
format = mergeLists(format, r.getFormat());
fulltext = mergeLists(fulltext, r.getFulltext());
contributor = mergeLists(contributor, r.getContributor());
format = mergeLists(format, r.getFormat());
if (r.getResourcetype() != null)
resourcetype = r.getResourcetype();
contributor = mergeLists(contributor, r.getContributor());
coverage = mergeLists(coverage, r.getCoverage());
if (r.getResourcetype() != null)
resourcetype = r.getResourcetype();
context = mergeLists(context, r.getContext());
coverage = mergeLists(coverage, r.getCoverage());
externalReference = mergeLists(externalReference, r.getExternalReference());
}
context = mergeLists(context, r.getContext());
externalReference = mergeLists(externalReference, r.getExternalReference());
}
private List<Field<String>> longestLists(List<Field<String>> a, List<Field<String>> b) {
if (a == null || b == null)
return a == null ? b : a;
if (a.size() == b.size()) {
int msa = a.stream().filter(i -> i.getValue() != null).map(i -> i.getValue().length()).max(Comparator.naturalOrder()).orElse(0);
int msb = b.stream().filter(i -> i.getValue() != null).map(i -> i.getValue().length()).max(Comparator.naturalOrder()).orElse(0);
return msa > msb ? a : b;
}
return a.size() > b.size() ? a : b;
}
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Result result = (Result) o;
return Objects.equals(author, result.author) &&
Objects.equals(resulttype, result.resulttype) &&
Objects.equals(language, result.language) &&
Objects.equals(country, result.country) &&
Objects.equals(subject, result.subject) &&
Objects.equals(title, result.title) &&
Objects.equals(relevantdate, result.relevantdate) &&
Objects.equals(description, result.description) &&
Objects.equals(dateofacceptance, result.dateofacceptance) &&
Objects.equals(publisher, result.publisher) &&
Objects.equals(embargoenddate, result.embargoenddate) &&
Objects.equals(source, result.source) &&
Objects.equals(fulltext, result.fulltext) &&
Objects.equals(format, result.format) &&
Objects.equals(contributor, result.contributor) &&
Objects.equals(resourcetype, result.resourcetype) &&
Objects.equals(coverage, result.coverage) &&
Objects.equals(bestaccessright, result.bestaccessright) &&
Objects.equals(context, result.context) &&
Objects.equals(externalReference, result.externalReference) &&
Objects.equals(instance, result.instance);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), author, resulttype, language, country, subject, title, relevantdate, description, dateofacceptance, publisher, embargoenddate, source, fulltext, format, contributor, resourcetype, coverage, bestaccessright, context, externalReference, instance);
}
private List<Field<String>> longestLists(List<Field<String>> a, List<Field<String>> b) {
if (a == null || b == null)
return a == null ? b : a;
if (a.size() == b.size()) {
int msa = a
.stream()
.filter(i -> i.getValue() != null)
.map(i -> i.getValue().length())
.max(Comparator.naturalOrder())
.orElse(0);
int msb = b
.stream()
.filter(i -> i.getValue() != null)
.map(i -> i.getValue().length())
.max(Comparator.naturalOrder())
.orElse(0);
return msa > msb ? a : b;
}
return a.size() > b.size() ? a : b;
}
}

109
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Software.java
View File

@ -1,85 +1,78 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
import eu.dnetlib.dhp.schema.common.ModelConstants;
public class Software extends Result implements Serializable {
private List<Field<String>> documentationUrl;
private List<Field<String>> documentationUrl;
private List<StructuredProperty> license;
private List<StructuredProperty> license;
private Field<String> codeRepositoryUrl;
private Field<String> codeRepositoryUrl;
private Qualifier programmingLanguage;
private Qualifier programmingLanguage;
public List<Field<String>> getDocumentationUrl() {
return documentationUrl;
}
public Software() {
setResulttype(ModelConstants.SOFTWARE_DEFAULT_RESULTTYPE);
}
public void setDocumentationUrl(List<Field<String>> documentationUrl) {
this.documentationUrl = documentationUrl;
}
public List<Field<String>> getDocumentationUrl() {
return documentationUrl;
}
public List<StructuredProperty> getLicense() {
return license;
}
public void setDocumentationUrl(List<Field<String>> documentationUrl) {
this.documentationUrl = documentationUrl;
}
public void setLicense(List<StructuredProperty> license) {
this.license = license;
}
public List<StructuredProperty> getLicense() {
return license;
}
public Field<String> getCodeRepositoryUrl() {
return codeRepositoryUrl;
}
public void setLicense(List<StructuredProperty> license) {
this.license = license;
}
public void setCodeRepositoryUrl(Field<String> codeRepositoryUrl) {
this.codeRepositoryUrl = codeRepositoryUrl;
}
public Field<String> getCodeRepositoryUrl() {
return codeRepositoryUrl;
}
public Qualifier getProgrammingLanguage() {
return programmingLanguage;
}
public void setCodeRepositoryUrl(Field<String> codeRepositoryUrl) {
this.codeRepositoryUrl = codeRepositoryUrl;
}
public void setProgrammingLanguage(Qualifier programmingLanguage) {
this.programmingLanguage = programmingLanguage;
}
public Qualifier getProgrammingLanguage() {
return programmingLanguage;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
public void setProgrammingLanguage(Qualifier programmingLanguage) {
this.programmingLanguage = programmingLanguage;
}
if (!Software.class.isAssignableFrom(e.getClass())){
return;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
final Software s = (Software) e;
documentationUrl = mergeLists(documentationUrl, s.getDocumentationUrl());
if (!Software.class.isAssignableFrom(e.getClass())) {
return;
}
license = mergeLists(license, s.getLicense());
final Software s = (Software) e;
documentationUrl = mergeLists(documentationUrl, s.getDocumentationUrl());
codeRepositoryUrl = s.getCodeRepositoryUrl()!= null && compareTrust(this, s)<0?s.getCodeRepositoryUrl():codeRepositoryUrl;
license = mergeLists(license, s.getLicense());
programmingLanguage= s.getProgrammingLanguage()!= null && compareTrust(this, s)<0?s.getProgrammingLanguage():programmingLanguage;
codeRepositoryUrl = s.getCodeRepositoryUrl() != null && compareTrust(this, s) < 0
? s.getCodeRepositoryUrl()
: codeRepositoryUrl;
mergeOAFDataInfo(e);
}
programmingLanguage = s.getProgrammingLanguage() != null && compareTrust(this, s) < 0
? s.getProgrammingLanguage()
: programmingLanguage;
@Override
public boolean equals(Object o) {
if (this == o) return true;
if (o == null || getClass() != o.getClass()) return false;
if (!super.equals(o)) return false;
Software software = (Software) o;
return Objects.equals(documentationUrl, software.documentationUrl) &&
Objects.equals(license, software.license) &&
Objects.equals(codeRepositoryUrl, software.codeRepositoryUrl) &&
Objects.equals(programmingLanguage, software.programmingLanguage);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), documentationUrl, license, codeRepositoryUrl, programmingLanguage);
}
mergeOAFDataInfo(e);
}
}

80
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/StructuredProperty.java
View File

@ -1,60 +1,60 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
public class StructuredProperty implements Serializable {
private String value;
private String value;
private Qualifier qualifier;
private Qualifier qualifier;
private DataInfo dataInfo;
private DataInfo dataInfo;
public String getValue() {
return value;
}
public String getValue() {
return value;
}
public void setValue(String value) {
this.value = value;
}
public void setValue(String value) {
this.value = value;
}
public Qualifier getQualifier() {
return qualifier;
}
public Qualifier getQualifier() {
return qualifier;
}
public void setQualifier(Qualifier qualifier) {
this.qualifier = qualifier;
}
public void setQualifier(Qualifier qualifier) {
this.qualifier = qualifier;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public DataInfo getDataInfo() {
return dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public void setDataInfo(DataInfo dataInfo) {
this.dataInfo = dataInfo;
}
public String toComparableString(){
return value != null ? value.toLowerCase() : "";
}
public String toComparableString() {
return value != null ? value.toLowerCase() : "";
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public int hashCode() {
return toComparableString().hashCode();
}
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
@Override
public boolean equals(Object obj) {
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
StructuredProperty other = (StructuredProperty) obj;
StructuredProperty other = (StructuredProperty) obj;
return toComparableString()
.equals(other.toComparableString());
}
return toComparableString().equals(other.toComparableString());
}
}

123
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIDataset.java
View File

@ -1,80 +1,89 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.Dataset;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import org.apache.commons.lang3.StringUtils;
package eu.dnetlib.dhp.schema.scholexplorer;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import org.apache.commons.lang3.StringUtils;
import eu.dnetlib.dhp.schema.oaf.Dataset;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
public class DLIDataset extends Dataset {
private String originalObjIdentifier;
private String originalObjIdentifier;
private List<ProvenaceInfo> dlicollectedfrom;
private List<ProvenaceInfo> dlicollectedfrom;
private String completionStatus;
private String completionStatus;
public String getCompletionStatus() {
return completionStatus;
}
public String getCompletionStatus() {
return completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public List<ProvenaceInfo> getDlicollectedfrom() {
return dlicollectedfrom;
}
public List<ProvenaceInfo> getDlicollectedfrom() {
return dlicollectedfrom;
}
public void setDlicollectedfrom(List<ProvenaceInfo> dlicollectedfrom) {
this.dlicollectedfrom = dlicollectedfrom;
}
public void setDlicollectedfrom(List<ProvenaceInfo> dlicollectedfrom) {
this.dlicollectedfrom = dlicollectedfrom;
}
public String getOriginalObjIdentifier() {
return originalObjIdentifier;
}
public String getOriginalObjIdentifier() {
return originalObjIdentifier;
}
public void setOriginalObjIdentifier(String originalObjIdentifier) {
this.originalObjIdentifier = originalObjIdentifier;
}
public void setOriginalObjIdentifier(String originalObjIdentifier) {
this.originalObjIdentifier = originalObjIdentifier;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
DLIDataset p = (DLIDataset) e;
if (StringUtils.isBlank(completionStatus) && StringUtils.isNotBlank(p.completionStatus))
completionStatus = p.completionStatus;
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
DLIDataset p = (DLIDataset) e;
if (StringUtils.isBlank(completionStatus) && StringUtils.isNotBlank(p.completionStatus))
completionStatus = p.completionStatus;
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
private List<ProvenaceInfo> mergeProvenance(final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a.forEach(p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus()) && StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
private List<ProvenaceInfo> mergeProvenance(
final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a
.forEach(
p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus())
&& StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
if (b != null)
b.forEach(p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus()) && StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
if (b != null)
b
.forEach(
p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus())
&& StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
return new ArrayList<>(result.values());
}
return new ArrayList<>(result.values());
}
}

122
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIPublication.java
View File

@ -1,77 +1,87 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import eu.dnetlib.dhp.schema.oaf.Publication;
import org.apache.commons.lang3.StringUtils;
import java.io.Serializable;
import java.util.*;
import org.apache.commons.lang3.StringUtils;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import eu.dnetlib.dhp.schema.oaf.Publication;
public class DLIPublication extends Publication implements Serializable {
private String originalObjIdentifier;
private String originalObjIdentifier;
private List<ProvenaceInfo> dlicollectedfrom;
private List<ProvenaceInfo> dlicollectedfrom;
private String completionStatus;
private String completionStatus;
public String getCompletionStatus() {
return completionStatus;
}
public String getCompletionStatus() {
return completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public List<ProvenaceInfo> getDlicollectedfrom() {
return dlicollectedfrom;
}
public List<ProvenaceInfo> getDlicollectedfrom() {
return dlicollectedfrom;
}
public void setDlicollectedfrom(List<ProvenaceInfo> dlicollectedfrom) {
this.dlicollectedfrom = dlicollectedfrom;
}
public void setDlicollectedfrom(List<ProvenaceInfo> dlicollectedfrom) {
this.dlicollectedfrom = dlicollectedfrom;
}
public String getOriginalObjIdentifier() {
return originalObjIdentifier;
}
public String getOriginalObjIdentifier() {
return originalObjIdentifier;
}
public void setOriginalObjIdentifier(String originalObjIdentifier) {
this.originalObjIdentifier = originalObjIdentifier;
}
public void setOriginalObjIdentifier(String originalObjIdentifier) {
this.originalObjIdentifier = originalObjIdentifier;
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
DLIPublication p = (DLIPublication) e;
if (StringUtils.isBlank(completionStatus) && StringUtils.isNotBlank(p.completionStatus))
completionStatus = p.completionStatus;
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
@Override
public void mergeFrom(OafEntity e) {
super.mergeFrom(e);
DLIPublication p = (DLIPublication) e;
if (StringUtils.isBlank(completionStatus) && StringUtils.isNotBlank(p.completionStatus))
completionStatus = p.completionStatus;
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
private List<ProvenaceInfo> mergeProvenance(final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a.forEach(p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus()) && StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
private List<ProvenaceInfo> mergeProvenance(
final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a
.forEach(
p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus())
&& StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
if (b != null)
b.forEach(p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus()) && StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
if (b != null)
b
.forEach(
p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus())
&& StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
return new ArrayList<>(result.values());
}
return new ArrayList<>(result.values());
}
}

16
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIRelation.java Normal file
View File

@ -0,0 +1,16 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.Relation;
public class DLIRelation extends Relation {
private String dateOfCollection;
public String getDateOfCollection() {
return dateOfCollection;
}
public void setDateOfCollection(String dateOfCollection) {
this.dateOfCollection = dateOfCollection;
}
}

157
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIUnknown.java
View File

@ -1,9 +1,5 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
import org.apache.commons.lang3.StringUtils;
package eu.dnetlib.dhp.schema.scholexplorer;
import java.io.Serializable;
import java.util.ArrayList;
@ -11,98 +7,109 @@ import java.util.HashMap;
import java.util.List;
import java.util.Map;
import org.apache.commons.lang3.StringUtils;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
public class DLIUnknown extends Oaf implements Serializable {
private String id;
private String id;
private List<StructuredProperty> pid;
private List<StructuredProperty> pid;
private String dateofcollection;
private String dateofcollection;
private String dateoftransformation;
private String dateoftransformation;
private List<ProvenaceInfo> dlicollectedfrom;
private List<ProvenaceInfo> dlicollectedfrom;
private String completionStatus = "incomplete";
private String completionStatus = "incomplete";
public String getCompletionStatus() {
return completionStatus;
}
public String getCompletionStatus() {
return completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public List<ProvenaceInfo> getDlicollectedfrom() {
return dlicollectedfrom;
}
public List<ProvenaceInfo> getDlicollectedfrom() {
return dlicollectedfrom;
}
public void setDlicollectedfrom(List<ProvenaceInfo> dlicollectedfrom) {
this.dlicollectedfrom = dlicollectedfrom;
}
public void setDlicollectedfrom(List<ProvenaceInfo> dlicollectedfrom) {
this.dlicollectedfrom = dlicollectedfrom;
}
public String getId() {
return id;
}
public String getId() {
return id;
}
public void setId(String id) {
this.id = id;
}
public void setId(String id) {
this.id = id;
}
public List<StructuredProperty> getPid() {
return pid;
}
public List<StructuredProperty> getPid() {
return pid;
}
public void setPid(List<StructuredProperty> pid) {
this.pid = pid;
}
public void setPid(List<StructuredProperty> pid) {
this.pid = pid;
}
public String getDateofcollection() {
return dateofcollection;
}
public String getDateofcollection() {
return dateofcollection;
}
public void setDateofcollection(String dateofcollection) {
this.dateofcollection = dateofcollection;
}
public void setDateofcollection(String dateofcollection) {
this.dateofcollection = dateofcollection;
}
public String getDateoftransformation() {
return dateoftransformation;
}
public String getDateoftransformation() {
return dateoftransformation;
}
public void setDateoftransformation(String dateoftransformation) {
this.dateoftransformation = dateoftransformation;
}
public void setDateoftransformation(String dateoftransformation) {
this.dateoftransformation = dateoftransformation;
}
public void mergeFrom(DLIUnknown p) {
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
public void mergeFrom(DLIUnknown p) {
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
private List<ProvenaceInfo> mergeProvenance(
final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a
.forEach(
p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus())
&& StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
private List<ProvenaceInfo> mergeProvenance(final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a.forEach(p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus()) && StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
if (b != null)
b
.forEach(
p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus())
&& StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
if (b != null)
b.forEach(p -> {
if (p != null && StringUtils.isNotBlank(p.getId()) && result.containsKey(p.getId())) {
if ("incomplete".equalsIgnoreCase(result.get(p.getId()).getCompletionStatus()) && StringUtils.isNotBlank(p.getCompletionStatus())) {
result.put(p.getId(), p);
}
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
} else if (p != null && p.getId() != null && !result.containsKey(p.getId()))
result.put(p.getId(), p);
});
return new ArrayList<>(result.values());
}
return new ArrayList<>(result.values());
}
}

57
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/ProvenaceInfo.java
View File

@ -1,46 +1,47 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import java.io.Serializable;
public class ProvenaceInfo implements Serializable {
private String id;
private String id;
private String name;
private String name;
private String completionStatus;
private String completionStatus;
private String collectionMode ="collected";
private String collectionMode = "collected";
public String getId() {
return id;
}
public String getId() {
return id;
}
public void setId(String id) {
this.id = id;
}
public void setId(String id) {
this.id = id;
}
public String getName() {
return name;
}
public String getName() {
return name;
}
public void setName(String name) {
this.name = name;
}
public void setName(String name) {
this.name = name;
}
public String getCompletionStatus() {
return completionStatus;
}
public String getCompletionStatus() {
return completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public void setCompletionStatus(String completionStatus) {
this.completionStatus = completionStatus;
}
public String getCollectionMode() {
return collectionMode;
}
public String getCollectionMode() {
return collectionMode;
}
public void setCollectionMode(String collectionMode) {
this.collectionMode = collectionMode;
}
public void setCollectionMode(String collectionMode) {
this.collectionMode = collectionMode;
}
}

56
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/action/AtomicActionTest.java
View File

@ -1,42 +1,40 @@
package eu.dnetlib.dhp.schema.action;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.schema.oaf.Relation;
import org.apache.commons.lang3.StringUtils;
import org.junit.jupiter.api.Test;
import java.io.IOException;
import static org.junit.jupiter.api.Assertions.*;
/**
* @author claudio.atzori
*/
import java.io.IOException;
import org.apache.commons.lang3.StringUtils;
import org.junit.jupiter.api.Test;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.schema.oaf.Relation;
/** @author claudio.atzori */
public class AtomicActionTest {
@Test
public void serializationTest() throws IOException {
@Test
public void serializationTest() throws IOException {
Relation rel = new Relation();
rel.setSource("1");
rel.setTarget("2");
rel.setRelType("resultResult");
rel.setSubRelType("dedup");
rel.setRelClass("merges");
Relation rel = new Relation();
rel.setSource("1");
rel.setTarget("2");
rel.setRelType("resultResult");
rel.setSubRelType("dedup");
rel.setRelClass("merges");
AtomicAction aa1 = new AtomicAction(Relation.class, rel);
AtomicAction aa1 = new AtomicAction(Relation.class, rel);
final ObjectMapper mapper = new ObjectMapper();
String json = mapper.writeValueAsString(aa1);
final ObjectMapper mapper = new ObjectMapper();
String json = mapper.writeValueAsString(aa1);
assertTrue(StringUtils.isNotBlank(json));
assertTrue(StringUtils.isNotBlank(json));
AtomicAction aa2 = mapper.readValue(json, AtomicAction.class);
assertEquals(aa1.getClazz(), aa2.getClazz());
assertEquals(aa1.getPayload(), aa2.getPayload());
}
AtomicAction aa2 = mapper.readValue(json, AtomicAction.class);
assertEquals(aa1.getClazz(), aa2.getClazz());
assertEquals(aa1.getPayload(), aa2.getPayload());
}
}

50
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/common/ModelSupportTest.java
View File

@ -1,35 +1,37 @@
package eu.dnetlib.dhp.schema.common;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import eu.dnetlib.dhp.schema.oaf.Relation;
import eu.dnetlib.dhp.schema.oaf.Result;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
package eu.dnetlib.dhp.schema.common;
import static org.junit.jupiter.api.Assertions.assertFalse;
import static org.junit.jupiter.api.Assertions.assertTrue;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import eu.dnetlib.dhp.schema.oaf.Relation;
import eu.dnetlib.dhp.schema.oaf.Result;
public class ModelSupportTest {
@Nested
class IsSubClass {
@Nested
class IsSubClass {
@Test
public void shouldReturnFalseWhenSubClassDoesNotExtendSuperClass() {
// when
Boolean result = ModelSupport.isSubClass(Relation.class, OafEntity.class);
@Test
public void shouldReturnFalseWhenSubClassDoesNotExtendSuperClass() {
// when
Boolean result = ModelSupport.isSubClass(Relation.class, OafEntity.class);
// then
assertFalse(result);
}
// then
assertFalse(result);
}
@Test
public void shouldReturnTrueWhenSubClassExtendsSuperClass() {
// when
Boolean result = ModelSupport.isSubClass(Result.class, OafEntity.class);
@Test
public void shouldReturnTrueWhenSubClassExtendsSuperClass() {
// when
Boolean result = ModelSupport.isSubClass(Result.class, OafEntity.class);
// then
assertTrue(result);
}
}
}
// then
assertTrue(result);
}
}
}

4
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/oaf/MeasureTest.java Normal file
View File

@ -0,0 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
public class MeasureTest {
}

113
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/oaf/MergeTest.java
View File

@ -1,87 +1,88 @@
package eu.dnetlib.dhp.schema.oaf;
import static org.junit.jupiter.api.Assertions.*;
import org.junit.jupiter.api.BeforeEach;
import org.junit.jupiter.api.Test;
import java.util.Arrays;
import java.util.List;
import org.junit.jupiter.api.BeforeEach;
import org.junit.jupiter.api.Test;
public class MergeTest {
OafEntity oaf;
OafEntity oaf;
@BeforeEach
public void setUp() {
oaf = new Publication();
}
@BeforeEach
public void setUp() {
oaf = new Publication();
}
@Test
public void mergeListsTest() {
@Test
public void mergeListsTest() {
//string list merge test
List<String> a = Arrays.asList("a", "b", "c", "e");
List<String> b = Arrays.asList("a", "b", "c", "d");
List<String> c = null;
// string list merge test
List<String> a = Arrays.asList("a", "b", "c", "e");
List<String> b = Arrays.asList("a", "b", "c", "d");
List<String> c = null;
System.out.println("merge result 1 = " + oaf.mergeLists(a, b));
System.out.println("merge result 1 = " + oaf.mergeLists(a, b));
System.out.println("merge result 2 = " + oaf.mergeLists(a, c));
System.out.println("merge result 2 = " + oaf.mergeLists(a, c));
System.out.println("merge result 3 = " + oaf.mergeLists(c, c));
}
System.out.println("merge result 3 = " + oaf.mergeLists(c, c));
}
@Test
public void mergePublicationCollectedFromTest() {
@Test
public void mergePublicationCollectedFromTest() {
Publication a = new Publication();
Publication b = new Publication();
Publication a = new Publication();
Publication b = new Publication();
a.setCollectedfrom(Arrays.asList(setKV("a", "open"), setKV("b", "closed")));
b.setCollectedfrom(Arrays.asList(setKV("A", "open"), setKV("b", "Open")));
a.setCollectedfrom(Arrays.asList(setKV("a", "open"), setKV("b", "closed")));
b.setCollectedfrom(Arrays.asList(setKV("A", "open"), setKV("b", "Open")));
a.mergeFrom(b);
a.mergeFrom(b);
assertNotNull(a.getCollectedfrom());
assertEquals(3, a.getCollectedfrom().size());
assertNotNull(a.getCollectedfrom());
assertEquals(3, a.getCollectedfrom().size());
}
}
@Test
public void mergePublicationSubjectTest() {
@Test
public void mergePublicationSubjectTest() {
Publication a = new Publication();
Publication b = new Publication();
Publication a = new Publication();
Publication b = new Publication();
a.setSubject(Arrays.asList(setSP("a", "open", "classe"), setSP("b", "open", "classe")));
b.setSubject(Arrays.asList(setSP("A", "open", "classe"), setSP("c", "open", "classe")));
a.setSubject(Arrays.asList(setSP("a", "open", "classe"), setSP("b", "open", "classe")));
b.setSubject(Arrays.asList(setSP("A", "open", "classe"), setSP("c", "open", "classe")));
a.mergeFrom(b);
a.mergeFrom(b);
assertNotNull(a.getSubject());
assertEquals(3, a.getSubject().size());
}
assertNotNull(a.getSubject());
assertEquals(3, a.getSubject().size());
private KeyValue setKV(final String key, final String value) {
}
KeyValue k = new KeyValue();
private KeyValue setKV(final String key, final String value) {
k.setKey(key);
k.setValue(value);
KeyValue k = new KeyValue();
return k;
}
k.setKey(key);
k.setValue(value);
return k;
}
private StructuredProperty setSP(final String value, final String schema, final String classname) {
StructuredProperty s = new StructuredProperty();
s.setValue(value);
Qualifier q = new Qualifier();
q.setClassname(classname);
q.setClassid(classname);
q.setSchemename(schema);
q.setSchemeid(schema);
s.setQualifier(q);
return s;
}
private StructuredProperty setSP(
final String value, final String schema, final String classname) {
StructuredProperty s = new StructuredProperty();
s.setValue(value);
Qualifier q = new Qualifier();
q.setClassname(classname);
q.setClassid(classname);
q.setSchemename(schema);
q.setSchemeid(schema);
s.setQualifier(q);
return s;
}
}

130
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/scholexplorer/DLItest.java
View File

@ -1,81 +1,83 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.DeserializationFeature;
import com.fasterxml.jackson.databind.ObjectMapper;
import com.fasterxml.jackson.databind.SerializationFeature;
import eu.dnetlib.dhp.schema.oaf.Qualifier;
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
import org.junit.jupiter.api.Test;
package eu.dnetlib.dhp.schema.scholexplorer;
import java.io.IOException;
import java.util.Arrays;
import java.util.Collections;
import org.junit.jupiter.api.Test;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.DeserializationFeature;
import com.fasterxml.jackson.databind.ObjectMapper;
import com.fasterxml.jackson.databind.SerializationFeature;
import eu.dnetlib.dhp.schema.oaf.Qualifier;
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
public class DLItest {
@Test
public void testMergePublication() throws JsonProcessingException {
DLIPublication a1 = new DLIPublication();
a1.setPid(Arrays.asList(createSP("123456", "pdb", "dnet:pid_types")));
a1.setTitle(Collections.singletonList(createSP("Un Titolo", "title", "dnetTitle")));
a1.setDlicollectedfrom(Arrays.asList(createCollectedFrom("znd", "Zenodo", "complete")));
a1.setCompletionStatus("complete");
@Test
public void testMergePublication() throws JsonProcessingException {
DLIPublication a1 = new DLIPublication();
a1.setPid(Arrays.asList( createSP("123456","pdb","dnet:pid_types")));
a1.setTitle(Collections.singletonList(createSP("Un Titolo", "title", "dnetTitle")));
a1.setDlicollectedfrom(Arrays.asList(createCollectedFrom("znd","Zenodo","complete")));
a1.setCompletionStatus("complete");
DLIPublication a = new DLIPublication();
a
.setPid(
Arrays
.asList(
createSP("10.11", "doi", "dnet:pid_types"),
createSP("123456", "pdb", "dnet:pid_types")));
a.setTitle(Collections.singletonList(createSP("A Title", "title", "dnetTitle")));
a
.setDlicollectedfrom(
Arrays
.asList(
createCollectedFrom("dct", "datacite", "complete"),
createCollectedFrom("dct", "datacite", "incomplete")));
a.setCompletionStatus("incomplete");
DLIPublication a = new DLIPublication();
a.setPid(Arrays.asList(createSP("10.11","doi","dnet:pid_types"), createSP("123456","pdb","dnet:pid_types")));
a.setTitle(Collections.singletonList(createSP("A Title", "title", "dnetTitle")));
a.setDlicollectedfrom(Arrays.asList(createCollectedFrom("dct","datacite","complete"),createCollectedFrom("dct","datacite","incomplete")));
a.setCompletionStatus("incomplete");
a.mergeFrom(a1);
a.mergeFrom(a1);
ObjectMapper mapper = new ObjectMapper();
System.out.println(mapper.writeValueAsString(a));
}
ObjectMapper mapper = new ObjectMapper();
System.out.println(mapper.writeValueAsString(a));
@Test
public void testDeserialization() throws IOException {
final String json = "{\"dataInfo\":{\"invisible\":false,\"inferred\":null,\"deletedbyinference\":false,\"trust\":\"0.9\",\"inferenceprovenance\":null,\"provenanceaction\":null},\"lastupdatetimestamp\":null,\"id\":\"60|bd9352547098929a394655ad1a44a479\",\"originalId\":[\"bd9352547098929a394655ad1a44a479\"],\"collectedfrom\":[{\"key\":\"dli_________::datacite\",\"value\":\"Datasets in Datacite\",\"dataInfo\":null,\"blank\":false}],\"pid\":[{\"value\":\"10.7925/DRS1.DUCHAS_5078760\",\"qualifier\":{\"classid\":\"doi\",\"classname\":\"doi\",\"schemeid\":\"dnet:pid_types\",\"schemename\":\"dnet:pid_types\",\"blank\":false},\"dataInfo\":null}],\"dateofcollection\":\"2020-01-09T08:29:31.885Z\",\"dateoftransformation\":null,\"extraInfo\":null,\"oaiprovenance\":null,\"author\":[{\"fullname\":\"Cathail, S. Ó\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Donnell, Breda Mc\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Ireland. Department of Arts, Culture, and the Gaeltacht\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"University College Dublin\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"National Folklore Foundation\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Cathail, S. Ó\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Donnell, Breda Mc\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null}],\"resulttype\":null,\"language\":null,\"country\":null,\"subject\":[{\"value\":\"Recreation\",\"qualifier\":{\"classid\":\"dnet:subject\",\"classname\":\"dnet:subject\",\"schemeid\":\"unknown\",\"schemename\":\"unknown\",\"blank\":false},\"dataInfo\":null},{\"value\":\"Entertainments and recreational activities\",\"qualifier\":{\"classid\":\"dnet:subject\",\"classname\":\"dnet:subject\",\"schemeid\":\"unknown\",\"schemename\":\"unknown\",\"blank\":false},\"dataInfo\":null},{\"value\":\"Siamsaíocht agus caitheamh aimsire\",\"qualifier\":{\"classid\":\"dnet:subject\",\"classname\":\"dnet:subject\",\"schemeid\":\"unknown\",\"schemename\":\"unknown\",\"blank\":false},\"dataInfo\":null}],\"title\":[{\"value\":\"Games We Play\",\"qualifier\":null,\"dataInfo\":null}],\"relevantdate\":[{\"value\":\"1938-09-28\",\"qualifier\":{\"classid\":\"date\",\"classname\":\"date\",\"schemeid\":\"dnet::date\",\"schemename\":\"dnet::date\",\"blank\":false},\"dataInfo\":null}],\"description\":[{\"value\":\"Story collected by Breda Mc Donnell, a student at Tenure school (Tinure, Co. Louth) (no informant identified).\",\"dataInfo\":null}],\"dateofacceptance\":null,\"publisher\":{\"value\":\"University College Dublin\",\"dataInfo\":null},\"embargoenddate\":null,\"source\":null,\"fulltext\":null,\"format\":null,\"contributor\":null,\"resourcetype\":null,\"coverage\":null,\"refereed\":null,\"context\":null,\"processingchargeamount\":null,\"processingchargecurrency\":null,\"externalReference\":null,\"instance\":[],\"storagedate\":null,\"device\":null,\"size\":null,\"version\":null,\"lastmetadataupdate\":null,\"metadataversionnumber\":null,\"geolocation\":null,\"dlicollectedfrom\":[{\"id\":\"dli_________::datacite\",\"name\":\"Datasets in Datacite\",\"completionStatus\":\"complete\",\"collectionMode\":\"resolved\"}],\"completionStatus\":\"complete\"}";
ObjectMapper mapper = new ObjectMapper();
mapper.configure(DeserializationFeature.FAIL_ON_UNKNOWN_PROPERTIES, false);
DLIDataset dliDataset = mapper.readValue(json, DLIDataset.class);
mapper.enable(SerializationFeature.INDENT_OUTPUT);
System.out.println(mapper.writeValueAsString(dliDataset));
}
private ProvenaceInfo createCollectedFrom(
final String id, final String name, final String completionStatus) {
ProvenaceInfo p = new ProvenaceInfo();
p.setId(id);
p.setName(name);
p.setCompletionStatus(completionStatus);
return p;
}
}
@Test
public void testDeserialization() throws IOException {
final String json ="{\"dataInfo\":{\"invisible\":false,\"inferred\":null,\"deletedbyinference\":false,\"trust\":\"0.9\",\"inferenceprovenance\":null,\"provenanceaction\":null},\"lastupdatetimestamp\":null,\"id\":\"60|bd9352547098929a394655ad1a44a479\",\"originalId\":[\"bd9352547098929a394655ad1a44a479\"],\"collectedfrom\":[{\"key\":\"dli_________::datacite\",\"value\":\"Datasets in Datacite\",\"dataInfo\":null,\"blank\":false}],\"pid\":[{\"value\":\"10.7925/DRS1.DUCHAS_5078760\",\"qualifier\":{\"classid\":\"doi\",\"classname\":\"doi\",\"schemeid\":\"dnet:pid_types\",\"schemename\":\"dnet:pid_types\",\"blank\":false},\"dataInfo\":null}],\"dateofcollection\":\"2020-01-09T08:29:31.885Z\",\"dateoftransformation\":null,\"extraInfo\":null,\"oaiprovenance\":null,\"author\":[{\"fullname\":\"Cathail, S. Ó\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Donnell, Breda Mc\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Ireland. Department of Arts, Culture, and the Gaeltacht\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"University College Dublin\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"National Folklore Foundation\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Cathail, S. Ó\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null},{\"fullname\":\"Donnell, Breda Mc\",\"name\":null,\"surname\":null,\"rank\":null,\"pid\":null,\"affiliation\":null}],\"resulttype\":null,\"language\":null,\"country\":null,\"subject\":[{\"value\":\"Recreation\",\"qualifier\":{\"classid\":\"dnet:subject\",\"classname\":\"dnet:subject\",\"schemeid\":\"unknown\",\"schemename\":\"unknown\",\"blank\":false},\"dataInfo\":null},{\"value\":\"Entertainments and recreational activities\",\"qualifier\":{\"classid\":\"dnet:subject\",\"classname\":\"dnet:subject\",\"schemeid\":\"unknown\",\"schemename\":\"unknown\",\"blank\":false},\"dataInfo\":null},{\"value\":\"Siamsaíocht agus caitheamh aimsire\",\"qualifier\":{\"classid\":\"dnet:subject\",\"classname\":\"dnet:subject\",\"schemeid\":\"unknown\",\"schemename\":\"unknown\",\"blank\":false},\"dataInfo\":null}],\"title\":[{\"value\":\"Games We Play\",\"qualifier\":null,\"dataInfo\":null}],\"relevantdate\":[{\"value\":\"1938-09-28\",\"qualifier\":{\"classid\":\"date\",\"classname\":\"date\",\"schemeid\":\"dnet::date\",\"schemename\":\"dnet::date\",\"blank\":false},\"dataInfo\":null}],\"description\":[{\"value\":\"Story collected by Breda Mc Donnell, a student at Tenure school (Tinure, Co. Louth) (no informant identified).\",\"dataInfo\":null}],\"dateofacceptance\":null,\"publisher\":{\"value\":\"University College Dublin\",\"dataInfo\":null},\"embargoenddate\":null,\"source\":null,\"fulltext\":null,\"format\":null,\"contributor\":null,\"resourcetype\":null,\"coverage\":null,\"refereed\":null,\"context\":null,\"processingchargeamount\":null,\"processingchargecurrency\":null,\"externalReference\":null,\"instance\":[],\"storagedate\":null,\"device\":null,\"size\":null,\"version\":null,\"lastmetadataupdate\":null,\"metadataversionnumber\":null,\"geolocation\":null,\"dlicollectedfrom\":[{\"id\":\"dli_________::datacite\",\"name\":\"Datasets in Datacite\",\"completionStatus\":\"complete\",\"collectionMode\":\"resolved\"}],\"completionStatus\":\"complete\"}";
ObjectMapper mapper = new ObjectMapper();
mapper.configure(DeserializationFeature.FAIL_ON_UNKNOWN_PROPERTIES, false);
DLIDataset dliDataset = mapper.readValue(json, DLIDataset.class);
mapper.enable(SerializationFeature.INDENT_OUTPUT);
System.out.println(mapper.writeValueAsString(dliDataset));
}
private ProvenaceInfo createCollectedFrom(final String id, final String name, final String completionStatus) {
ProvenaceInfo p = new ProvenaceInfo();
p.setId(id);
p.setName(name);
p.setCompletionStatus(completionStatus);
return p;
}
private StructuredProperty createSP(final String value, final String className, final String schemeName) {
StructuredProperty p = new StructuredProperty();
p.setValue(value);
Qualifier schema = new Qualifier();
schema.setClassname(className);
schema.setClassid(className);
schema.setSchemename(schemeName);
schema.setSchemeid(schemeName);
p.setQualifier(schema);
return p;
}
private StructuredProperty createSP(
final String value, final String className, final String schemeName) {
StructuredProperty p = new StructuredProperty();
p.setValue(value);
Qualifier schema = new Qualifier();
schema.setClassname(className);
schema.setClassid(className);
schema.setSchemename(schemeName);
schema.setSchemeid(schemeName);
p.setQualifier(schema);
return p;
}
}

48
dhp-workflows/dhp-actionmanager/pom.xml
View File

@ -47,6 +47,16 @@
<artifactId>jaxen</artifactId>
</dependency>
<dependency>
<groupId>org.apache.hadoop</groupId>
<artifactId>hadoop-distcp</artifactId>
</dependency>
<dependency>
<groupId>eu.dnetlib</groupId>
<artifactId>dnet-openaire-data-protos</artifactId>
</dependency>
<dependency>
<groupId>eu.dnetlib.dhp</groupId>
<artifactId>dhp-schemas</artifactId>
@ -57,6 +67,44 @@
<groupId>eu.dnetlib</groupId>
<artifactId>dnet-actionmanager-api</artifactId>
</dependency>
<dependency>
<groupId>eu.dnetlib</groupId>
<artifactId>dnet-actionmanager-common</artifactId>
<exclusions>
<exclusion>
<groupId>eu.dnetlib</groupId>
<artifactId>dnet-openaireplus-mapping-utils</artifactId>
</exclusion>
<exclusion>
<groupId>saxonica</groupId>
<artifactId>saxon</artifactId>
</exclusion>
<exclusion>
<groupId>saxonica</groupId>
<artifactId>saxon-dom</artifactId>
</exclusion>
<exclusion>
<groupId>jgrapht</groupId>
<artifactId>jgrapht</artifactId>
</exclusion>
<exclusion>
<groupId>net.sf.ehcache</groupId>
<artifactId>ehcache</artifactId>
</exclusion>
<exclusion>
<groupId>org.springframework</groupId>
<artifactId>spring-test</artifactId>
</exclusion>
<exclusion>
<groupId>org.apache.*</groupId>
<artifactId>*</artifactId>
</exclusion>
<exclusion>
<groupId>apache</groupId>
<artifactId>*</artifactId>
</exclusion>
</exclusions>
</dependency>
</dependencies>
</project>

92
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/ISClient.java
View File

@ -1,20 +1,5 @@
package eu.dnetlib.dhp.actionmanager;
import com.google.common.base.Splitter;
import com.google.common.collect.Iterables;
import com.google.common.collect.Lists;
import eu.dnetlib.actionmanager.rmi.ActionManagerException;
import eu.dnetlib.actionmanager.set.ActionManagerSet;
import eu.dnetlib.actionmanager.set.ActionManagerSet.ImpactTypes;
import eu.dnetlib.dhp.actionmanager.partition.PartitionActionSetsByPayloadTypeJob;
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
import org.dom4j.Document;
import org.dom4j.Element;
import org.dom4j.io.SAXReader;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
package eu.dnetlib.dhp.actionmanager;
import java.io.Serializable;
import java.io.StringReader;
@ -23,31 +8,59 @@ import java.util.List;
import java.util.NoSuchElementException;
import java.util.stream.Collectors;
import org.dom4j.Document;
import org.dom4j.Element;
import org.dom4j.io.SAXReader;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import com.google.common.base.Splitter;
import com.google.common.collect.Iterables;
import com.google.common.collect.Lists;
import eu.dnetlib.actionmanager.rmi.ActionManagerException;
import eu.dnetlib.actionmanager.set.ActionManagerSet;
import eu.dnetlib.actionmanager.set.ActionManagerSet.ImpactTypes;
import eu.dnetlib.dhp.actionmanager.partition.PartitionActionSetsByPayloadTypeJob;
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
public class ISClient implements Serializable {
private static final Logger log = LoggerFactory.getLogger(PartitionActionSetsByPayloadTypeJob.class);
private static final String INPUT_ACTION_SET_ID_SEPARATOR = ",";
public static List<String> getLatestRawsetPaths(String isLookupUrl, String setIds) {
private final ISLookUpService isLookup;
ISLookUpService isLookup = ISLookupClientFactory.getLookUpService(isLookupUrl);
ISClient isClient = new ISClient();
List<String> ids = Lists.newArrayList(Splitter.on(INPUT_ACTION_SET_ID_SEPARATOR)
.omitEmptyStrings()
.trimResults()
.split(setIds));
public ISClient(String isLookupUrl) {
isLookup = ISLookupClientFactory.getLookUpService(isLookupUrl);
}
return ids.stream()
.map(id -> isClient.getSet(isLookup, id))
.map(as -> as.getPathToLatest())
.collect(Collectors.toCollection(ArrayList::new));
public List<String> getLatestRawsetPaths(String setIds) {
List<String> ids = Lists
.newArrayList(
Splitter
.on(INPUT_ACTION_SET_ID_SEPARATOR)
.omitEmptyStrings()
.trimResults()
.split(setIds));
return ids
.stream()
.map(id -> getSet(isLookup, id))
.map(as -> as.getPathToLatest())
.collect(Collectors.toCollection(ArrayList::new));
}
private ActionManagerSet getSet(ISLookUpService isLookup, final String setId) {
final String q = "for $x in collection('/db/DRIVER/ActionManagerSetDSResources/ActionManagerSetDSResourceType') "
+ "where $x//SET/@id = '" + setId + "' return $x";
+ "where $x//SET/@id = '"
+ setId
+ "' return $x";
try {
final String basePath = getBasePathHDFS(isLookup);
@ -58,7 +71,8 @@ public class ISClient implements Serializable {
}
}
private ActionManagerSet getActionManagerSet(final String basePath, final String profile) throws ActionManagerException {
private ActionManagerSet getActionManagerSet(final String basePath, final String profile)
throws ActionManagerException {
final SAXReader reader = new SAXReader();
final ActionManagerSet set = new ActionManagerSet();
@ -68,13 +82,21 @@ public class ISClient implements Serializable {
set.setId(doc.valueOf("//SET/@id").trim());
set.setName(doc.valueOf("//SET").trim());
set.setImpact(ImpactTypes.valueOf(doc.valueOf("//IMPACT").trim()));
set.setLatest(doc.valueOf("//RAW_SETS/LATEST/@id"), doc.valueOf("//RAW_SETS/LATEST/@creationDate"), doc.valueOf("//RAW_SETS/LATEST/@lastUpdate"));
set
.setLatest(
doc.valueOf("//RAW_SETS/LATEST/@id"),
doc.valueOf("//RAW_SETS/LATEST/@creationDate"),
doc.valueOf("//RAW_SETS/LATEST/@lastUpdate"));
set.setDirectory(doc.valueOf("//SET/@directory"));
final List expiredNodes = doc.selectNodes("//RAW_SETS/EXPIRED");
if (expiredNodes != null) {
for (int i = 0; i < expiredNodes.size(); i++) {
Element ex = (Element) expiredNodes.get(i);
set.addExpired(ex.attributeValue("id"), ex.attributeValue("creationDate"), ex.attributeValue("lastUpdate"));
set
.addExpired(
ex.attributeValue("id"),
ex.attributeValue("creationDate"),
ex.attributeValue("lastUpdate"));
}
}
@ -96,9 +118,11 @@ public class ISClient implements Serializable {
return queryServiceProperty(isLookup, "basePath");
}
private String queryServiceProperty(ISLookUpService isLookup, final String propertyName) throws ActionManagerException {
private String queryServiceProperty(ISLookUpService isLookup, final String propertyName)
throws ActionManagerException {
final String q = "for $x in /RESOURCE_PROFILE[.//RESOURCE_TYPE/@value='ActionManagerServiceResourceType'] return $x//SERVICE_PROPERTIES/PROPERTY[./@ key='"
+ propertyName + "']/@value/string()";
+ propertyName
+ "']/@value/string()";
log.debug("quering for service property: " + q);
try {
final List<String> value = isLookup.quickSearchProfile(q);
@ -117,6 +141,4 @@ public class ISClient implements Serializable {
throw new ActionManagerException(msg, e);
}
}
}

69
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/LicenseComparator.java Normal file
View File

@ -0,0 +1,69 @@
package eu.dnetlib.dhp.actionmanager.migration;
import java.util.Comparator;
import eu.dnetlib.data.proto.FieldTypeProtos.Qualifier;
public class LicenseComparator implements Comparator<Qualifier> {
@Override
public int compare(Qualifier left, Qualifier right) {
if (left == null && right == null)
return 0;
if (left == null)
return 1;
if (right == null)
return -1;
String lClass = left.getClassid();
String rClass = right.getClassid();
if (lClass.equals(rClass))
return 0;
if (lClass.equals("OPEN SOURCE"))
return -1;
if (rClass.equals("OPEN SOURCE"))
return 1;
if (lClass.equals("OPEN"))
return -1;
if (rClass.equals("OPEN"))
return 1;
if (lClass.equals("6MONTHS"))
return -1;
if (rClass.equals("6MONTHS"))
return 1;
if (lClass.equals("12MONTHS"))
return -1;
if (rClass.equals("12MONTHS"))
return 1;
if (lClass.equals("EMBARGO"))
return -1;
if (rClass.equals("EMBARGO"))
return 1;
if (lClass.equals("RESTRICTED"))
return -1;
if (rClass.equals("RESTRICTED"))
return 1;
if (lClass.equals("CLOSED"))
return -1;
if (rClass.equals("CLOSED"))
return 1;
if (lClass.equals("UNKNOWN"))
return -1;
if (rClass.equals("UNKNOWN"))
return 1;
// Else (but unlikely), lexicographical ordering will do.
return lClass.compareTo(rClass);
}
}

194
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/MigrateActionSet.java Normal file
View File

@ -0,0 +1,194 @@
package eu.dnetlib.dhp.actionmanager.migration;
import java.io.File;
import java.io.FileOutputStream;
import java.io.OutputStream;
import java.util.ArrayList;
import java.util.LinkedList;
import java.util.List;
import java.util.Properties;
import java.util.stream.Collectors;
import org.apache.commons.io.IOUtils;
import org.apache.commons.lang3.StringUtils;
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.fs.FileSystem;
import org.apache.hadoop.fs.Path;
import org.apache.hadoop.tools.DistCp;
import org.apache.hadoop.tools.DistCpOptions;
import org.apache.hadoop.util.ToolRunner;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import com.google.common.base.Splitter;
import com.google.common.collect.Lists;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
public class MigrateActionSet {
private static final Logger log = LoggerFactory.getLogger(MigrateActionSet.class);
private static final String SEPARATOR = "/";
private static final String TARGET_PATHS = "target_paths";
private static final String RAWSET_PREFIX = "rawset_";
public static void main(String[] args) throws Exception {
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
IOUtils
.toString(
MigrateActionSet.class
.getResourceAsStream(
"/eu/dnetlib/dhp/actionmanager/migration/migrate_actionsets_parameters.json")));
parser.parseArgument(args);
new MigrateActionSet().run(parser);
}
private void run(ArgumentApplicationParser parser) throws Exception {
final String isLookupUrl = parser.get("isLookupUrl");
final String sourceNN = parser.get("sourceNameNode");
final String targetNN = parser.get("targetNameNode");
final String workDir = parser.get("workingDirectory");
final Integer distcp_num_maps = Integer.parseInt(parser.get("distcp_num_maps"));
final String distcp_memory_mb = parser.get("distcp_memory_mb");
final String distcp_task_timeout = parser.get("distcp_task_timeout");
final String transform_only_s = parser.get("transform_only");
log.info("transform only param: {}", transform_only_s);
final Boolean transformOnly = Boolean.valueOf(parser.get("transform_only"));
log.info("transform only: {}", transformOnly);
ISLookUpService isLookUp = ISLookupClientFactory.getLookUpService(isLookupUrl);
Configuration conf = getConfiguration(distcp_task_timeout, distcp_memory_mb, distcp_num_maps);
FileSystem targetFS = FileSystem.get(conf);
Configuration sourceConf = getConfiguration(distcp_task_timeout, distcp_memory_mb, distcp_num_maps);
sourceConf.set(FileSystem.FS_DEFAULT_NAME_KEY, sourceNN);
FileSystem sourceFS = FileSystem.get(sourceConf);
Properties props = new Properties();
List<Path> targetPaths = new ArrayList<>();
final List<Path> sourcePaths = getSourcePaths(sourceNN, isLookUp);
log
.info(
"paths to process:\n{}",
sourcePaths.stream().map(p -> p.toString()).collect(Collectors.joining("\n")));
for (Path source : sourcePaths) {
if (!sourceFS.exists(source)) {
log.warn("skipping unexisting path: {}", source);
} else {
LinkedList<String> pathQ = Lists.newLinkedList(Splitter.on(SEPARATOR).split(source.toUri().getPath()));
final String rawSet = pathQ.pollLast();
log.info("got RAWSET: {}", rawSet);
if (StringUtils.isNotBlank(rawSet) && rawSet.startsWith(RAWSET_PREFIX)) {
final String actionSetDirectory = pathQ.pollLast();
final Path targetPath = new Path(
targetNN + workDir + SEPARATOR + actionSetDirectory + SEPARATOR + rawSet);
log.info("using TARGET PATH: {}", targetPath);
if (!transformOnly) {
if (targetFS.exists(targetPath)) {
targetFS.delete(targetPath, true);
}
runDistcp(
distcp_num_maps, distcp_memory_mb, distcp_task_timeout, conf, source, targetPath);
}
targetPaths.add(targetPath);
}
}
}
props
.setProperty(
TARGET_PATHS, targetPaths.stream().map(p -> p.toString()).collect(Collectors.joining(",")));
File file = new File(System.getProperty("oozie.action.output.properties"));
try (OutputStream os = new FileOutputStream(file)) {
props.store(os, "");
}
System.out.println(file.getAbsolutePath());
}
private void runDistcp(
Integer distcp_num_maps,
String distcp_memory_mb,
String distcp_task_timeout,
Configuration conf,
Path source,
Path targetPath)
throws Exception {
final DistCpOptions op = new DistCpOptions(source, targetPath);
op.setMaxMaps(distcp_num_maps);
op.preserve(DistCpOptions.FileAttribute.BLOCKSIZE);
op.preserve(DistCpOptions.FileAttribute.REPLICATION);
op.preserve(DistCpOptions.FileAttribute.CHECKSUMTYPE);
int res = ToolRunner
.run(
new DistCp(conf, op),
new String[] {
"-Dmapred.task.timeout=" + distcp_task_timeout,
"-Dmapreduce.map.memory.mb=" + distcp_memory_mb,
"-pb",
"-m " + distcp_num_maps,
source.toString(),
targetPath.toString()
});
if (res != 0) {
throw new RuntimeException(String.format("distcp exited with code %s", res));
}
}
private Configuration getConfiguration(
String distcp_task_timeout, String distcp_memory_mb, Integer distcp_num_maps) {
final Configuration conf = new Configuration();
conf.set("dfs.webhdfs.socket.connect-timeout", distcp_task_timeout);
conf.set("dfs.webhdfs.socket.read-timeout", distcp_task_timeout);
conf.set("dfs.http.client.retry.policy.enabled", "true");
conf.set("mapred.task.timeout", distcp_task_timeout);
conf.set("mapreduce.map.memory.mb", distcp_memory_mb);
conf.set("mapred.map.tasks", String.valueOf(distcp_num_maps));
return conf;
}
private List<Path> getSourcePaths(String sourceNN, ISLookUpService isLookUp)
throws ISLookUpException {
String XQUERY = "distinct-values(\n"
+ "let $basePath := collection('/db/DRIVER/ServiceResources/ActionManagerServiceResourceType')//SERVICE_PROPERTIES/PROPERTY[@key = 'basePath']/@value/string()\n"
+ "for $x in collection('/db/DRIVER/ActionManagerSetDSResources/ActionManagerSetDSResourceType') \n"
+ "let $setDir := $x//SET/@directory/string()\n"
+ "let $rawSet := $x//RAW_SETS/LATEST/@id/string()\n"
+ "return concat($basePath, '/', $setDir, '/', $rawSet))";
log.info(String.format("running xquery:\n%s", XQUERY));
return isLookUp
.quickSearchProfile(XQUERY)
.stream()
.map(p -> sourceNN + p)
.map(Path::new)
.collect(Collectors.toList());
}
}

664
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/ProtoConverter.java Normal file
View File

@ -0,0 +1,664 @@
package eu.dnetlib.dhp.actionmanager.migration;
import static eu.dnetlib.data.proto.KindProtos.Kind.entity;
import static eu.dnetlib.data.proto.KindProtos.Kind.relation;
import static eu.dnetlib.data.proto.TypeProtos.*;
import static eu.dnetlib.data.proto.TypeProtos.Type.*;
import java.io.Serializable;
import java.util.List;
import java.util.Optional;
import java.util.stream.Collectors;
import org.apache.commons.lang3.StringUtils;
import com.google.common.collect.Lists;
import com.googlecode.protobuf.format.JsonFormat;
import eu.dnetlib.data.proto.*;
import eu.dnetlib.dhp.schema.oaf.*;
public class ProtoConverter implements Serializable {
public static final String UNKNOWN = "UNKNOWN";
public static final String NOT_AVAILABLE = "not available";
public static final String DNET_ACCESS_MODES = "dnet:access_modes";
public static Oaf convert(OafProtos.Oaf oaf) {
try {
switch (oaf.getKind()) {
case entity:
return convertEntity(oaf);
case relation:
return convertRelation(oaf);
default:
throw new IllegalArgumentException("invalid kind " + oaf.getKind());
}
} catch (Throwable e) {
throw new RuntimeException("error on getting " + JsonFormat.printToString(oaf), e);
}
}
private static Relation convertRelation(OafProtos.Oaf oaf) {
final OafProtos.OafRel r = oaf.getRel();
final Relation rel = new Relation();
rel.setDataInfo(mapDataInfo(oaf.getDataInfo()));
rel.setLastupdatetimestamp(oaf.getLastupdatetimestamp());
rel.setSource(r.getSource());
rel.setTarget(r.getTarget());
rel.setRelType(r.getRelType().toString());
rel.setSubRelType(r.getSubRelType().toString());
rel.setRelClass(r.getRelClass());
rel
.setCollectedfrom(
r.getCollectedfromCount() > 0
? r.getCollectedfromList().stream().map(kv -> mapKV(kv)).collect(Collectors.toList())
: null);
return rel;
}
private static OafEntity convertEntity(OafProtos.Oaf oaf) {
switch (oaf.getEntity().getType()) {
case result:
final Result r = convertResult(oaf);
r.setInstance(convertInstances(oaf));
return r;
case project:
return convertProject(oaf);
case datasource:
return convertDataSource(oaf);
case organization:
return convertOrganization(oaf);
default:
throw new RuntimeException("received unknown type");
}
}
private static List<Instance> convertInstances(OafProtos.Oaf oaf) {
final ResultProtos.Result r = oaf.getEntity().getResult();
if (r.getInstanceCount() > 0) {
return r.getInstanceList().stream().map(i -> convertInstance(i)).collect(Collectors.toList());
}
return Lists.newArrayList();
}
private static Instance convertInstance(ResultProtos.Result.Instance ri) {
final Instance i = new Instance();
i.setAccessright(mapQualifier(ri.getAccessright()));
i.setCollectedfrom(mapKV(ri.getCollectedfrom()));
i.setDateofacceptance(mapStringField(ri.getDateofacceptance()));
i.setDistributionlocation(ri.getDistributionlocation());
i.setHostedby(mapKV(ri.getHostedby()));
i.setInstancetype(mapQualifier(ri.getInstancetype()));
i.setLicense(mapStringField(ri.getLicense()));
i.setUrl(ri.getUrlList());
i.setRefereed(mapStringField(ri.getRefereed()));
i.setProcessingchargeamount(mapStringField(ri.getProcessingchargeamount()));
i.setProcessingchargecurrency(mapStringField(ri.getProcessingchargecurrency()));
return i;
}
private static Organization convertOrganization(OafProtos.Oaf oaf) {
final OrganizationProtos.Organization.Metadata m = oaf.getEntity().getOrganization().getMetadata();
final Organization org = setOaf(new Organization(), oaf);
setEntity(org, oaf);
org.setLegalshortname(mapStringField(m.getLegalshortname()));
org.setLegalname(mapStringField(m.getLegalname()));
org
.setAlternativeNames(
m
.getAlternativeNamesList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
org.setWebsiteurl(mapStringField(m.getWebsiteurl()));
org.setLogourl(mapStringField(m.getLogourl()));
org.setEclegalbody(mapStringField(m.getEclegalbody()));
org.setEclegalperson(mapStringField(m.getEclegalperson()));
org.setEcnonprofit(mapStringField(m.getEcnonprofit()));
org.setEcresearchorganization(mapStringField(m.getEcresearchorganization()));
org.setEchighereducation(mapStringField(m.getEchighereducation()));
org
.setEcinternationalorganizationeurinterests(
mapStringField(m.getEcinternationalorganizationeurinterests()));
org.setEcinternationalorganization(mapStringField(m.getEcinternationalorganization()));
org.setEcenterprise(mapStringField(m.getEcenterprise()));
org.setEcsmevalidated(mapStringField(m.getEcsmevalidated()));
org.setEcnutscode(mapStringField(m.getEcnutscode()));
org.setCountry(mapQualifier(m.getCountry()));
return org;
}
private static Datasource convertDataSource(OafProtos.Oaf oaf) {
final DatasourceProtos.Datasource.Metadata m = oaf.getEntity().getDatasource().getMetadata();
final Datasource datasource = setOaf(new Datasource(), oaf);
setEntity(datasource, oaf);
datasource
.setAccessinfopackage(
m
.getAccessinfopackageList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
datasource.setCertificates(mapStringField(m.getCertificates()));
datasource.setCitationguidelineurl(mapStringField(m.getCitationguidelineurl()));
datasource.setContactemail(mapStringField(m.getContactemail()));
datasource.setDatabaseaccessrestriction(mapStringField(m.getDatabaseaccessrestriction()));
datasource.setDatabaseaccesstype(mapStringField(m.getDatabaseaccesstype()));
datasource.setDataprovider(mapBoolField(m.getDataprovider()));
datasource.setDatasourcetype(mapQualifier(m.getDatasourcetype()));
datasource.setDatauploadrestriction(mapStringField(m.getDatauploadrestriction()));
datasource.setCitationguidelineurl(mapStringField(m.getCitationguidelineurl()));
datasource.setDatauploadtype(mapStringField(m.getDatauploadtype()));
datasource.setDateofvalidation(mapStringField(m.getDateofvalidation()));
datasource.setDescription(mapStringField(m.getDescription()));
datasource.setEnglishname(mapStringField(m.getEnglishname()));
datasource.setLatitude(mapStringField(m.getLatitude()));
datasource.setLongitude(mapStringField(m.getLongitude()));
datasource.setLogourl(mapStringField(m.getLogourl()));
datasource.setMissionstatementurl(mapStringField(m.getMissionstatementurl()));
datasource.setNamespaceprefix(mapStringField(m.getNamespaceprefix()));
datasource
.setOdcontenttypes(
m
.getOdcontenttypesList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
datasource
.setOdlanguages(
m
.getOdlanguagesList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
datasource.setOdnumberofitems(mapStringField(m.getOdnumberofitems()));
datasource.setOdnumberofitemsdate(mapStringField(m.getOdnumberofitemsdate()));
datasource.setOdpolicies(mapStringField(m.getOdpolicies()));
datasource.setOfficialname(mapStringField(m.getOfficialname()));
datasource.setOpenairecompatibility(mapQualifier(m.getOpenairecompatibility()));
datasource.setPidsystems(mapStringField(m.getPidsystems()));
datasource
.setPolicies(
m.getPoliciesList().stream().map(ProtoConverter::mapKV).collect(Collectors.toList()));
datasource.setQualitymanagementkind(mapStringField(m.getQualitymanagementkind()));
datasource.setReleaseenddate(mapStringField(m.getReleaseenddate()));
datasource.setServiceprovider(mapBoolField(m.getServiceprovider()));
datasource.setReleasestartdate(mapStringField(m.getReleasestartdate()));
datasource
.setSubjects(
m
.getSubjectsList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
datasource.setVersioning(mapBoolField(m.getVersioning()));
datasource.setWebsiteurl(mapStringField(m.getWebsiteurl()));
datasource.setJournal(mapJournal(m.getJournal()));
return datasource;
}
private static Project convertProject(OafProtos.Oaf oaf) {
final ProjectProtos.Project.Metadata m = oaf.getEntity().getProject().getMetadata();
final Project project = setOaf(new Project(), oaf);
setEntity(project, oaf);
project.setAcronym(mapStringField(m.getAcronym()));
project.setCallidentifier(mapStringField(m.getCallidentifier()));
project.setCode(mapStringField(m.getCode()));
project.setContactemail(mapStringField(m.getContactemail()));
project.setContactfax(mapStringField(m.getContactfax()));
project.setContactfullname(mapStringField(m.getContactfullname()));
project.setContactphone(mapStringField(m.getContactphone()));
project.setContracttype(mapQualifier(m.getContracttype()));
project.setCurrency(mapStringField(m.getCurrency()));
project.setDuration(mapStringField(m.getDuration()));
project.setEcarticle29_3(mapStringField(m.getEcarticle293()));
project.setEcsc39(mapStringField(m.getEcsc39()));
project.setOamandatepublications(mapStringField(m.getOamandatepublications()));
project.setStartdate(mapStringField(m.getStartdate()));
project.setEnddate(mapStringField(m.getEnddate()));
project.setFundedamount(m.getFundedamount());
project.setTotalcost(m.getTotalcost());
project.setKeywords(mapStringField(m.getKeywords()));
project
.setSubjects(
m
.getSubjectsList()
.stream()
.map(sp -> mapStructuredProperty(sp))
.collect(Collectors.toList()));
project.setTitle(mapStringField(m.getTitle()));
project.setWebsiteurl(mapStringField(m.getWebsiteurl()));
project
.setFundingtree(
m.getFundingtreeList().stream().map(f -> mapStringField(f)).collect(Collectors.toList()));
project.setJsonextrainfo(mapStringField(m.getJsonextrainfo()));
project.setSummary(mapStringField(m.getSummary()));
project.setOptional1(mapStringField(m.getOptional1()));
project.setOptional2(mapStringField(m.getOptional2()));
return project;
}
private static Result convertResult(OafProtos.Oaf oaf) {
switch (oaf.getEntity().getResult().getMetadata().getResulttype().getClassid()) {
case "dataset":
return createDataset(oaf);
case "publication":
return createPublication(oaf);
case "software":
return createSoftware(oaf);
case "other":
return createORP(oaf);
default:
Result result = setOaf(new Result(), oaf);
setEntity(result, oaf);
return setResult(result, oaf);
}
}
private static Software createSoftware(OafProtos.Oaf oaf) {
ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
Software software = setOaf(new Software(), oaf);
setEntity(software, oaf);
setResult(software, oaf);
software
.setDocumentationUrl(
m
.getDocumentationUrlList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
software
.setLicense(
m
.getLicenseList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
software.setCodeRepositoryUrl(mapStringField(m.getCodeRepositoryUrl()));
software.setProgrammingLanguage(mapQualifier(m.getProgrammingLanguage()));
return software;
}
private static OtherResearchProduct createORP(OafProtos.Oaf oaf) {
ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
OtherResearchProduct otherResearchProducts = setOaf(new OtherResearchProduct(), oaf);
setEntity(otherResearchProducts, oaf);
setResult(otherResearchProducts, oaf);
otherResearchProducts
.setContactperson(
m
.getContactpersonList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
otherResearchProducts
.setContactgroup(
m
.getContactgroupList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
otherResearchProducts
.setTool(
m.getToolList().stream().map(ProtoConverter::mapStringField).collect(Collectors.toList()));
return otherResearchProducts;
}
private static Publication createPublication(OafProtos.Oaf oaf) {
ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
Publication publication = setOaf(new Publication(), oaf);
setEntity(publication, oaf);
setResult(publication, oaf);
publication.setJournal(mapJournal(m.getJournal()));
return publication;
}
private static Dataset createDataset(OafProtos.Oaf oaf) {
ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
Dataset dataset = setOaf(new Dataset(), oaf);
setEntity(dataset, oaf);
setResult(dataset, oaf);
dataset.setStoragedate(mapStringField(m.getStoragedate()));
dataset.setDevice(mapStringField(m.getDevice()));
dataset.setSize(mapStringField(m.getSize()));
dataset.setVersion(mapStringField(m.getVersion()));
dataset.setLastmetadataupdate(mapStringField(m.getLastmetadataupdate()));
dataset.setMetadataversionnumber(mapStringField(m.getMetadataversionnumber()));
dataset
.setGeolocation(
m
.getGeolocationList()
.stream()
.map(ProtoConverter::mapGeolocation)
.collect(Collectors.toList()));
return dataset;
}
public static <T extends Oaf> T setOaf(T oaf, OafProtos.Oaf o) {
oaf.setDataInfo(mapDataInfo(o.getDataInfo()));
oaf.setLastupdatetimestamp(o.getLastupdatetimestamp());
return oaf;
}
public static <T extends OafEntity> T setEntity(T entity, OafProtos.Oaf oaf) {
// setting Entity fields
final OafProtos.OafEntity e = oaf.getEntity();
entity.setId(e.getId());
entity.setOriginalId(e.getOriginalIdList());
entity
.setCollectedfrom(
e.getCollectedfromList().stream().map(ProtoConverter::mapKV).collect(Collectors.toList()));
entity
.setPid(
e
.getPidList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity.setDateofcollection(e.getDateofcollection());
entity.setDateoftransformation(e.getDateoftransformation());
entity
.setExtraInfo(
e
.getExtraInfoList()
.stream()
.map(ProtoConverter::mapExtraInfo)
.collect(Collectors.toList()));
return entity;
}
public static <T extends Result> T setResult(T entity, OafProtos.Oaf oaf) {
// setting Entity fields
final ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
entity
.setAuthor(
m.getAuthorList().stream().map(ProtoConverter::mapAuthor).collect(Collectors.toList()));
entity.setResulttype(mapQualifier(m.getResulttype()));
entity.setLanguage(mapQualifier(m.getLanguage()));
entity
.setCountry(
m
.getCountryList()
.stream()
.map(ProtoConverter::mapQualifierAsCountry)
.collect(Collectors.toList()));
entity
.setSubject(
m
.getSubjectList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity
.setTitle(
m
.getTitleList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity
.setRelevantdate(
m
.getRelevantdateList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity
.setDescription(
m
.getDescriptionList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setDateofacceptance(mapStringField(m.getDateofacceptance()));
entity.setPublisher(mapStringField(m.getPublisher()));
entity.setEmbargoenddate(mapStringField(m.getEmbargoenddate()));
entity
.setSource(
m
.getSourceList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity
.setFulltext(
m
.getFulltextList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity
.setFormat(
m
.getFormatList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity
.setContributor(
m
.getContributorList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setResourcetype(mapQualifier(m.getResourcetype()));
entity
.setCoverage(
m
.getCoverageList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity
.setContext(
m.getContextList().stream().map(ProtoConverter::mapContext).collect(Collectors.toList()));
entity.setBestaccessright(getBestAccessRights(oaf.getEntity().getResult().getInstanceList()));
return entity;
}
private static Qualifier getBestAccessRights(List<ResultProtos.Result.Instance> instanceList) {
if (instanceList != null) {
final Optional<FieldTypeProtos.Qualifier> min = instanceList
.stream()
.map(i -> i.getAccessright())
.min(new LicenseComparator());
final Qualifier rights = min.isPresent() ? mapQualifier(min.get()) : new Qualifier();
if (StringUtils.isBlank(rights.getClassid())) {
rights.setClassid(UNKNOWN);
}
if (StringUtils.isBlank(rights.getClassname())
|| UNKNOWN.equalsIgnoreCase(rights.getClassname())) {
rights.setClassname(NOT_AVAILABLE);
}
if (StringUtils.isBlank(rights.getSchemeid())) {
rights.setSchemeid(DNET_ACCESS_MODES);
}
if (StringUtils.isBlank(rights.getSchemename())) {
rights.setSchemename(DNET_ACCESS_MODES);
}
return rights;
}
return null;
}
private static Context mapContext(ResultProtos.Result.Context context) {
final Context entity = new Context();
entity.setId(context.getId());
entity
.setDataInfo(
context
.getDataInfoList()
.stream()
.map(ProtoConverter::mapDataInfo)
.collect(Collectors.toList()));
return entity;
}
public static KeyValue mapKV(FieldTypeProtos.KeyValue kv) {
final KeyValue keyValue = new KeyValue();
keyValue.setKey(kv.getKey());
keyValue.setValue(kv.getValue());
keyValue.setDataInfo(mapDataInfo(kv.getDataInfo()));
return keyValue;
}
public static DataInfo mapDataInfo(FieldTypeProtos.DataInfo d) {
final DataInfo dataInfo = new DataInfo();
dataInfo.setDeletedbyinference(d.getDeletedbyinference());
dataInfo.setInferenceprovenance(d.getInferenceprovenance());
dataInfo.setInferred(d.getInferred());
dataInfo.setInvisible(d.getInvisible());
dataInfo.setProvenanceaction(mapQualifier(d.getProvenanceaction()));
dataInfo.setTrust(d.getTrust());
return dataInfo;
}
public static Qualifier mapQualifier(FieldTypeProtos.Qualifier q) {
final Qualifier qualifier = new Qualifier();
qualifier.setClassid(q.getClassid());
qualifier.setClassname(q.getClassname());
qualifier.setSchemeid(q.getSchemeid());
qualifier.setSchemename(q.getSchemename());
return qualifier;
}
public static Country mapQualifierAsCountry(FieldTypeProtos.Qualifier q) {
final Country c = new Country();
c.setClassid(q.getClassid());
c.setClassname(q.getClassname());
c.setSchemeid(q.getSchemeid());
c.setSchemename(q.getSchemename());
c.setDataInfo(mapDataInfo(q.getDataInfo()));
return c;
}
public static StructuredProperty mapStructuredProperty(FieldTypeProtos.StructuredProperty sp) {
final StructuredProperty structuredProperty = new StructuredProperty();
structuredProperty.setValue(sp.getValue());
structuredProperty.setQualifier(mapQualifier(sp.getQualifier()));
structuredProperty.setDataInfo(mapDataInfo(sp.getDataInfo()));
return structuredProperty;
}
public static ExtraInfo mapExtraInfo(FieldTypeProtos.ExtraInfo extraInfo) {
final ExtraInfo entity = new ExtraInfo();
entity.setName(extraInfo.getName());
entity.setTypology(extraInfo.getTypology());
entity.setProvenance(extraInfo.getProvenance());
entity.setTrust(extraInfo.getTrust());
entity.setValue(extraInfo.getValue());
return entity;
}
public static OAIProvenance mapOAIProvenance(FieldTypeProtos.OAIProvenance oaiProvenance) {
final OAIProvenance entity = new OAIProvenance();
entity.setOriginDescription(mapOriginalDescription(oaiProvenance.getOriginDescription()));
return entity;
}
public static OriginDescription mapOriginalDescription(
FieldTypeProtos.OAIProvenance.OriginDescription originDescription) {
final OriginDescription originDescriptionResult = new OriginDescription();
originDescriptionResult.setHarvestDate(originDescription.getHarvestDate());
originDescriptionResult.setAltered(originDescription.getAltered());
originDescriptionResult.setBaseURL(originDescription.getBaseURL());
originDescriptionResult.setIdentifier(originDescription.getIdentifier());
originDescriptionResult.setDatestamp(originDescription.getDatestamp());
originDescriptionResult.setMetadataNamespace(originDescription.getMetadataNamespace());
return originDescriptionResult;
}
public static Field<String> mapStringField(FieldTypeProtos.StringField s) {
final Field<String> stringField = new Field<>();
stringField.setValue(s.getValue());
stringField.setDataInfo(mapDataInfo(s.getDataInfo()));
return stringField;
}
public static Field<Boolean> mapBoolField(FieldTypeProtos.BoolField b) {
final Field<Boolean> booleanField = new Field<>();
booleanField.setValue(b.getValue());
booleanField.setDataInfo(mapDataInfo(b.getDataInfo()));
return booleanField;
}
public static Field<Integer> mapIntField(FieldTypeProtos.IntField b) {
final Field<Integer> entity = new Field<>();
entity.setValue(b.getValue());
entity.setDataInfo(mapDataInfo(b.getDataInfo()));
return entity;
}
public static Journal mapJournal(FieldTypeProtos.Journal j) {
final Journal journal = new Journal();
journal.setConferencedate(j.getConferencedate());
journal.setConferenceplace(j.getConferenceplace());
journal.setEdition(j.getEdition());
journal.setEp(j.getEp());
journal.setIss(j.getIss());
journal.setIssnLinking(j.getIssnLinking());
journal.setIssnOnline(j.getIssnOnline());
journal.setIssnPrinted(j.getIssnPrinted());
journal.setName(j.getName());
journal.setSp(j.getSp());
journal.setVol(j.getVol());
journal.setDataInfo(mapDataInfo(j.getDataInfo()));
return journal;
}
public static Author mapAuthor(FieldTypeProtos.Author author) {
final Author entity = new Author();
entity.setFullname(author.getFullname());
entity.setName(author.getName());
entity.setSurname(author.getSurname());
entity.setRank(author.getRank());
entity
.setPid(
author
.getPidList()
.stream()
.map(
kv -> {
final StructuredProperty sp = new StructuredProperty();
sp.setValue(kv.getValue());
final Qualifier q = new Qualifier();
q.setClassid(kv.getKey());
q.setClassname(kv.getKey());
sp.setQualifier(q);
return sp;
})
.collect(Collectors.toList()));
entity
.setAffiliation(
author
.getAffiliationList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
return entity;
}
public static GeoLocation mapGeolocation(ResultProtos.Result.GeoLocation geoLocation) {
final GeoLocation entity = new GeoLocation();
entity.setPoint(geoLocation.getPoint());
entity.setBox(geoLocation.getBox());
entity.setPlace(geoLocation.getPlace());
return entity;
}
}

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dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/TransformActions.java Normal file
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package eu.dnetlib.dhp.actionmanager.migration;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import java.io.IOException;
import java.io.Serializable;
import java.util.LinkedList;
import java.util.Objects;
import java.util.Optional;
import org.apache.commons.io.IOUtils;
import org.apache.commons.lang3.StringUtils;
import org.apache.hadoop.fs.FileSystem;
import org.apache.hadoop.fs.Path;
import org.apache.hadoop.io.Text;
import org.apache.hadoop.mapreduce.lib.output.SequenceFileOutputFormat;
import org.apache.spark.SparkConf;
import org.apache.spark.api.java.JavaSparkContext;
import org.apache.spark.sql.SparkSession;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import com.fasterxml.jackson.databind.ObjectMapper;
import com.google.common.base.Splitter;
import com.google.common.collect.Lists;
import com.google.protobuf.InvalidProtocolBufferException;
import eu.dnetlib.data.proto.OafProtos;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.schema.action.AtomicAction;
import eu.dnetlib.dhp.schema.oaf.*;
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
import scala.Tuple2;
public class TransformActions implements Serializable {
private static final Logger log = LoggerFactory.getLogger(TransformActions.class);
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static final String SEPARATOR = "/";
public static void main(String[] args) throws Exception {
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
IOUtils
.toString(
MigrateActionSet.class
.getResourceAsStream(
"/eu/dnetlib/dhp/actionmanager/migration/transform_actionsets_parameters.json")));
parser.parseArgument(args);
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
final String isLookupUrl = parser.get("isLookupUrl");
log.info("isLookupUrl: {}", isLookupUrl);
final String inputPaths = parser.get("inputPaths");
if (StringUtils.isBlank(inputPaths)) {
throw new RuntimeException("empty inputPaths");
}
log.info("inputPaths: {}", inputPaths);
final String targetBaseDir = getTargetBaseDir(isLookupUrl);
SparkConf conf = new SparkConf();
runWithSparkSession(
conf, isSparkSessionManaged, spark -> transformActions(inputPaths, targetBaseDir, spark));
}
private static void transformActions(String inputPaths, String targetBaseDir, SparkSession spark)
throws IOException {
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
final FileSystem fs = FileSystem.get(spark.sparkContext().hadoopConfiguration());
for (String sourcePath : Lists.newArrayList(Splitter.on(",").split(inputPaths))) {
LinkedList<String> pathQ = Lists.newLinkedList(Splitter.on(SEPARATOR).split(sourcePath));
final String rawset = pathQ.pollLast();
final String actionSetDirectory = pathQ.pollLast();
final Path targetDirectory = new Path(targetBaseDir + SEPARATOR + actionSetDirectory + SEPARATOR + rawset);
if (fs.exists(targetDirectory)) {
log.info("found target directory '{}", targetDirectory);
fs.delete(targetDirectory, true);
log.info("deleted target directory '{}", targetDirectory);
}
log.info("transforming actions from '{}' to '{}'", sourcePath, targetDirectory);
sc
.sequenceFile(sourcePath, Text.class, Text.class)
.map(a -> eu.dnetlib.actionmanager.actions.AtomicAction.fromJSON(a._2().toString()))
.map(TransformActions::doTransform)
.filter(Objects::nonNull)
.mapToPair(
a -> new Tuple2<>(a.getClazz().toString(), OBJECT_MAPPER.writeValueAsString(a)))
.mapToPair(t -> new Tuple2(new Text(t._1()), new Text(t._2())))
.saveAsNewAPIHadoopFile(
targetDirectory.toString(),
Text.class,
Text.class,
SequenceFileOutputFormat.class,
sc.hadoopConfiguration());
}
}
private static AtomicAction doTransform(eu.dnetlib.actionmanager.actions.AtomicAction aa)
throws InvalidProtocolBufferException {
// dedup similarity relations had empty target value, don't migrate them
if (aa.getTargetValue().length == 0) {
return null;
}
final OafProtos.Oaf proto_oaf = OafProtos.Oaf.parseFrom(aa.getTargetValue());
final Oaf oaf = ProtoConverter.convert(proto_oaf);
switch (proto_oaf.getKind()) {
case entity:
switch (proto_oaf.getEntity().getType()) {
case datasource:
return new AtomicAction<>(Datasource.class, (Datasource) oaf);
case organization:
return new AtomicAction<>(Organization.class, (Organization) oaf);
case project:
return new AtomicAction<>(Project.class, (Project) oaf);
case result:
final String resulttypeid = proto_oaf
.getEntity()
.getResult()
.getMetadata()
.getResulttype()
.getClassid();
switch (resulttypeid) {
case "publication":
return new AtomicAction<>(Publication.class, (Publication) oaf);
case "software":
return new AtomicAction<>(Software.class, (Software) oaf);
case "other":
return new AtomicAction<>(OtherResearchProduct.class, (OtherResearchProduct) oaf);
case "dataset":
return new AtomicAction<>(Dataset.class, (Dataset) oaf);
default:
// can be an update, where the resulttype is not specified
return new AtomicAction<>(Result.class, (Result) oaf);
}
default:
throw new IllegalArgumentException(
"invalid entity type: " + proto_oaf.getEntity().getType());
}
case relation:
return new AtomicAction<>(Relation.class, (Relation) oaf);
default:
throw new IllegalArgumentException("invalid kind: " + proto_oaf.getKind());
}
}
private static String getTargetBaseDir(String isLookupUrl) throws ISLookUpException {
ISLookUpService isLookUp = ISLookupClientFactory.getLookUpService(isLookupUrl);
String XQUERY = "collection('/db/DRIVER/ServiceResources/ActionManagerServiceResourceType')//SERVICE_PROPERTIES/PROPERTY[@key = 'basePath']/@value/string()";
return isLookUp.getResourceProfileByQuery(XQUERY);
}
}

204
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/partition/PartitionActionSetsByPayloadTypeJob.java
View File

@ -1,9 +1,13 @@
package eu.dnetlib.dhp.actionmanager.partition;
import eu.dnetlib.dhp.actionmanager.ISClient;
import eu.dnetlib.dhp.common.HdfsSupport;
import eu.dnetlib.dhp.actionmanager.promote.PromoteActionPayloadForGraphTableJob;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import static org.apache.spark.sql.functions.*;
import java.util.Arrays;
import java.util.List;
import java.util.Optional;
import org.apache.commons.io.IOUtils;
import org.apache.hadoop.io.Text;
import org.apache.spark.SparkConf;
@ -14,111 +18,127 @@ import org.apache.spark.sql.types.*;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import java.util.Arrays;
import java.util.Collections;
import java.util.List;
import java.util.Optional;
import eu.dnetlib.dhp.actionmanager.ISClient;
import eu.dnetlib.dhp.actionmanager.promote.PromoteActionPayloadForGraphTableJob;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.common.HdfsSupport;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import static org.apache.spark.sql.functions.*;
/**
* Partitions given set of action sets by payload type.
*/
/** Partitions given set of action sets by payload type. */
public class PartitionActionSetsByPayloadTypeJob {
private static final Logger logger = LoggerFactory.getLogger(PartitionActionSetsByPayloadTypeJob.class);
private static final Logger logger = LoggerFactory.getLogger(PartitionActionSetsByPayloadTypeJob.class);
private static final StructType KV_SCHEMA = StructType$.MODULE$.apply(
Arrays.asList(
StructField$.MODULE$.apply("key", DataTypes.StringType, false, Metadata.empty()),
StructField$.MODULE$.apply("value", DataTypes.StringType, false, Metadata.empty())
));
private static final StructType KV_SCHEMA = StructType$.MODULE$
.apply(
Arrays
.asList(
StructField$.MODULE$.apply("key", DataTypes.StringType, false, Metadata.empty()),
StructField$.MODULE$.apply("value", DataTypes.StringType, false, Metadata.empty())));
private static final StructType ATOMIC_ACTION_SCHEMA = StructType$.MODULE$.apply(
Arrays.asList(
StructField$.MODULE$.apply("clazz", DataTypes.StringType, false, Metadata.empty()),
StructField$.MODULE$.apply("payload", DataTypes.StringType, false, Metadata.empty())
));
private static final StructType ATOMIC_ACTION_SCHEMA = StructType$.MODULE$
.apply(
Arrays
.asList(
StructField$.MODULE$.apply("clazz", DataTypes.StringType, false, Metadata.empty()),
StructField$.MODULE$
.apply(
"payload", DataTypes.StringType, false, Metadata.empty())));
public static void main(String[] args) throws Exception {
String jsonConfiguration = IOUtils.toString(
PromoteActionPayloadForGraphTableJob.class
.getResourceAsStream("/eu/dnetlib/dhp/actionmanager/partition/partition_action_sets_by_payload_type_input_parameters.json"));
final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser.parseArgument(args);
private ISClient isClient;
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
public PartitionActionSetsByPayloadTypeJob(String isLookupUrl) {
this.isClient = new ISClient(isLookupUrl);
}
String inputActionSetIds = parser.get("inputActionSetIds");
logger.info("inputActionSetIds: {}", inputActionSetIds);
public PartitionActionSetsByPayloadTypeJob() {
}
String outputPath = parser.get("outputPath");
logger.info("outputPath: {}", outputPath);
public static void main(String[] args) throws Exception {
String jsonConfiguration = IOUtils
.toString(
PromoteActionPayloadForGraphTableJob.class
.getResourceAsStream(
"/eu/dnetlib/dhp/actionmanager/partition/partition_action_sets_by_payload_type_input_parameters.json"));
final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser.parseArgument(args);
String isLookupUrl = parser.get("isLookupUrl");
logger.info("isLookupUrl: {}", isLookupUrl);
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
List<String> inputActionSetPaths = ISClient.getLatestRawsetPaths(isLookupUrl, inputActionSetIds);
logger.info("inputActionSetPaths: {}", String.join(",", inputActionSetPaths));
String inputActionSetIds = parser.get("inputActionSetIds");
logger.info("inputActionSetIds: {}", inputActionSetIds);
SparkConf conf = new SparkConf();
conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
String outputPath = parser.get("outputPath");
logger.info("outputPath: {}", outputPath);
runWithSparkSession(conf, isSparkSessionManaged,
spark -> {
removeOutputDir(spark, outputPath);
readAndWriteActionSetsFromPaths(spark, inputActionSetPaths, outputPath);
});
}
String isLookupUrl = parser.get("isLookupUrl");
logger.info("isLookupUrl: {}", isLookupUrl);
private static void removeOutputDir(SparkSession spark,
String path) {
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
}
new PartitionActionSetsByPayloadTypeJob(isLookupUrl)
.run(isSparkSessionManaged, inputActionSetIds, outputPath);
}
private static void readAndWriteActionSetsFromPaths(SparkSession spark,
List<String> inputActionSetPaths,
String outputPath) {
inputActionSetPaths
.forEach(inputActionSetPath -> {
Dataset<Row> actionDS = readActionSetFromPath(spark, inputActionSetPath);
saveActions(actionDS, outputPath);
});
}
protected void run(Boolean isSparkSessionManaged, String inputActionSetIds, String outputPath) {
private static Dataset<Row> readActionSetFromPath(SparkSession spark,
String path) {
logger.info("Reading actions from path: {}", path);
List<String> inputActionSetPaths = getIsClient().getLatestRawsetPaths(inputActionSetIds);
logger.info("inputActionSetPaths: {}", String.join(",", inputActionSetPaths));
List<String> files = HdfsSupport.listFiles(path, spark.sparkContext().hadoopConfiguration());
logger.info("Found files: {}", String.join(",", files));
SparkConf conf = new SparkConf();
conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
return files
.stream()
.map(file -> {
JavaRDD<Row> rdd = sc
.sequenceFile(file, Text.class, Text.class)
.map(x -> RowFactory.create(x._1().toString(), x._2().toString()));
return spark.createDataFrame(rdd, KV_SCHEMA)
.withColumn("atomic_action", from_json(col("value"), ATOMIC_ACTION_SCHEMA))
.select(expr("atomic_action.*"));
})
.reduce(spark.createDataFrame(Collections.emptyList(), ATOMIC_ACTION_SCHEMA), Dataset::union);
}
runWithSparkSession(
conf,
isSparkSessionManaged,
spark -> {
removeOutputDir(spark, outputPath);
readAndWriteActionSetsFromPaths(spark, inputActionSetPaths, outputPath);
});
}
private static void saveActions(Dataset<Row> actionDS,
String path) {
logger.info("Saving actions to path: {}", path);
actionDS
.write()
.partitionBy("clazz")
.mode(SaveMode.Append)
.parquet(path);
}
private static void removeOutputDir(SparkSession spark, String path) {
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
}
private static void readAndWriteActionSetsFromPaths(
SparkSession spark, List<String> inputActionSetPaths, String outputPath) {
inputActionSetPaths
.stream()
.filter(path -> HdfsSupport.exists(path, spark.sparkContext().hadoopConfiguration()))
.forEach(
inputActionSetPath -> {
Dataset<Row> actionDS = readActionSetFromPath(spark, inputActionSetPath);
saveActions(actionDS, outputPath);
});
}
private static Dataset<Row> readActionSetFromPath(SparkSession spark, String path) {
logger.info("Reading actions from path: {}", path);
JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<Row> rdd = sc
.sequenceFile(path, Text.class, Text.class)
.map(x -> RowFactory.create(x._1().toString(), x._2().toString()));
return spark
.createDataFrame(rdd, KV_SCHEMA)
.withColumn("atomic_action", from_json(col("value"), ATOMIC_ACTION_SCHEMA))
.select(expr("atomic_action.*"));
}
private static void saveActions(Dataset<Row> actionDS, String path) {
logger.info("Saving actions to path: {}", path);
actionDS.write().partitionBy("clazz").mode(SaveMode.Append).parquet(path);
}
public ISClient getIsClient() {
return isClient;
}
public void setIsClient(ISClient isClient) {
this.isClient = isClient;
}
}

133
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/promote/MergeAndGet.java
View File

@ -1,74 +1,87 @@
package eu.dnetlib.dhp.actionmanager.promote;
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
import java.util.function.BiFunction;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
import eu.dnetlib.dhp.schema.oaf.Relation;
import java.util.function.BiFunction;
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
/**
* OAF model merging support.
*/
/** OAF model merging support. */
public class MergeAndGet {
private MergeAndGet() {
}
private MergeAndGet() {
}
/**
* Strategy for merging OAF model objects.
* <p>
* MERGE_FROM_AND_GET: use OAF 'mergeFrom' method
* SELECT_NEWER_AND_GET: use last update timestamp to return newer instance
*/
public enum Strategy {
MERGE_FROM_AND_GET, SELECT_NEWER_AND_GET
}
/**
* Strategy for merging OAF model objects.
* <p>
* MERGE_FROM_AND_GET: use OAF 'mergeFrom' method SELECT_NEWER_AND_GET: use last update timestamp to return newer
* instance
*/
public enum Strategy {
MERGE_FROM_AND_GET, SELECT_NEWER_AND_GET
}
/**
* Returns a function for merging OAF model objects.
*
* @param strategy Strategy to be used to merge objects
* @param <G> Graph table type
* @param <A> Action payload type
* @return BiFunction to be used to merge OAF objects
*/
public static <G extends Oaf, A extends Oaf> SerializableSupplier<BiFunction<G, A, G>> functionFor(Strategy strategy) {
switch (strategy) {
case MERGE_FROM_AND_GET:
return () -> MergeAndGet::mergeFromAndGet;
case SELECT_NEWER_AND_GET:
return () -> MergeAndGet::selectNewerAndGet;
}
throw new RuntimeException();
}
/**
* Returns a function for merging OAF model objects.
*
* @param strategy Strategy to be used to merge objects
* @param <G> Graph table type
* @param <A> Action payload type
* @return BiFunction to be used to merge OAF objects
*/
public static <G extends Oaf, A extends Oaf> SerializableSupplier<BiFunction<G, A, G>> functionFor(
Strategy strategy) {
switch (strategy) {
case MERGE_FROM_AND_GET:
return () -> MergeAndGet::mergeFromAndGet;
case SELECT_NEWER_AND_GET:
return () -> MergeAndGet::selectNewerAndGet;
}
throw new RuntimeException();
}
private static <G extends Oaf, A extends Oaf> G mergeFromAndGet(G x, A y) {
if (isSubClass(x, Relation.class) && isSubClass(y, Relation.class)) {
((Relation) x).mergeFrom((Relation) y);
return x;
} else if (isSubClass(x, OafEntity.class) && isSubClass(y, OafEntity.class) && isSubClass(x, y)) {
((OafEntity) x).mergeFrom((OafEntity) y);
return x;
}
throw new RuntimeException(String.format("MERGE_FROM_AND_GET incompatible types: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
private static <G extends Oaf, A extends Oaf> G mergeFromAndGet(G x, A y) {
if (isSubClass(x, Relation.class) && isSubClass(y, Relation.class)) {
((Relation) x).mergeFrom((Relation) y);
return x;
} else if (isSubClass(x, OafEntity.class)
&& isSubClass(y, OafEntity.class)
&& isSubClass(x, y)) {
((OafEntity) x).mergeFrom((OafEntity) y);
return x;
}
throw new RuntimeException(
String
.format(
"MERGE_FROM_AND_GET incompatible types: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
private static <G extends Oaf, A extends Oaf> G selectNewerAndGet(G x, A y) {
if (x.getClass().equals(y.getClass()) && x.getLastupdatetimestamp() > y.getLastupdatetimestamp()) {
return x;
} else if (x.getClass().equals(y.getClass()) && x.getLastupdatetimestamp() < y.getLastupdatetimestamp()) {
return (G) y;
} else if (isSubClass(x, y) && x.getLastupdatetimestamp() > y.getLastupdatetimestamp()) {
return x;
} else if (isSubClass(x, y) && x.getLastupdatetimestamp() < y.getLastupdatetimestamp()) {
throw new RuntimeException(String.format("SELECT_NEWER_AND_GET cannot return right type when it is not the same as left type: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
throw new RuntimeException(String.format("SELECT_NEWER_AND_GET cannot be used when left is not subtype of right: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
private static <G extends Oaf, A extends Oaf> G selectNewerAndGet(G x, A y) {
if (x.getClass().equals(y.getClass())
&& x.getLastupdatetimestamp() > y.getLastupdatetimestamp()) {
return x;
} else if (x.getClass().equals(y.getClass())
&& x.getLastupdatetimestamp() < y.getLastupdatetimestamp()) {
return (G) y;
} else if (isSubClass(x, y) && x.getLastupdatetimestamp() > y.getLastupdatetimestamp()) {
return x;
} else if (isSubClass(x, y) && x.getLastupdatetimestamp() < y.getLastupdatetimestamp()) {
throw new RuntimeException(
String
.format(
"SELECT_NEWER_AND_GET cannot return right type when it is not the same as left type: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
throw new RuntimeException(
String
.format(
"SELECT_NEWER_AND_GET cannot be used when left is not subtype of right: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
}

381
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/promote/PromoteActionPayloadForGraphTableJob.java
View File

@ -1,11 +1,14 @@
package eu.dnetlib.dhp.actionmanager.promote;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.common.HdfsSupport;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.schema.common.ModelSupport;
import eu.dnetlib.dhp.schema.oaf.*;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
import java.util.Objects;
import java.util.Optional;
import java.util.function.BiFunction;
import java.util.function.Function;
import org.apache.commons.io.IOUtils;
import org.apache.spark.SparkConf;
import org.apache.spark.api.java.function.MapFunction;
@ -16,231 +19,207 @@ import org.apache.spark.sql.SparkSession;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import java.util.Objects;
import java.util.Optional;
import java.util.function.BiFunction;
import java.util.function.Function;
import com.fasterxml.jackson.databind.ObjectMapper;
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.common.HdfsSupport;
import eu.dnetlib.dhp.schema.common.ModelSupport;
import eu.dnetlib.dhp.schema.oaf.*;
/**
* Applies a given action payload file to graph table of compatible type.
*/
/** Applies a given action payload file to graph table of compatible type. */
public class PromoteActionPayloadForGraphTableJob {
private static final Logger logger = LoggerFactory.getLogger(PromoteActionPayloadForGraphTableJob.class);
private static final Logger logger = LoggerFactory.getLogger(PromoteActionPayloadForGraphTableJob.class);
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
public static void main(String[] args) throws Exception {
String jsonConfiguration = IOUtils.toString(
PromoteActionPayloadForGraphTableJob.class
.getResourceAsStream("/eu/dnetlib/dhp/actionmanager/promote/promote_action_payload_for_graph_table_input_parameters.json"));
final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser.parseArgument(args);
public static void main(String[] args) throws Exception {
String jsonConfiguration = IOUtils
.toString(
PromoteActionPayloadForGraphTableJob.class
.getResourceAsStream(
"/eu/dnetlib/dhp/actionmanager/promote/promote_action_payload_for_graph_table_input_parameters.json"));
final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser.parseArgument(args);
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
String inputGraphTablePath = parser.get("inputGraphTablePath");
logger.info("inputGraphTablePath: {}", inputGraphTablePath);
String inputGraphTablePath = parser.get("inputGraphTablePath");
logger.info("inputGraphTablePath: {}", inputGraphTablePath);
String graphTableClassName = parser.get("graphTableClassName");
logger.info("graphTableClassName: {}", graphTableClassName);
String graphTableClassName = parser.get("graphTableClassName");
logger.info("graphTableClassName: {}", graphTableClassName);
String inputActionPayloadPath = parser.get("inputActionPayloadPath");
logger.info("inputActionPayloadPath: {}", inputActionPayloadPath);
String inputActionPayloadPath = parser.get("inputActionPayloadPath");
logger.info("inputActionPayloadPath: {}", inputActionPayloadPath);
String actionPayloadClassName = parser.get("actionPayloadClassName");
logger.info("actionPayloadClassName: {}", actionPayloadClassName);
String actionPayloadClassName = parser.get("actionPayloadClassName");
logger.info("actionPayloadClassName: {}", actionPayloadClassName);
String outputGraphTablePath = parser.get("outputGraphTablePath");
logger.info("outputGraphTablePath: {}", outputGraphTablePath);
String outputGraphTablePath = parser.get("outputGraphTablePath");
logger.info("outputGraphTablePath: {}", outputGraphTablePath);
MergeAndGet.Strategy strategy = MergeAndGet.Strategy.valueOf(parser.get("mergeAndGetStrategy").toUpperCase());
logger.info("strategy: {}", strategy);
MergeAndGet.Strategy strategy = MergeAndGet.Strategy.valueOf(parser.get("mergeAndGetStrategy").toUpperCase());
logger.info("strategy: {}", strategy);
Class<? extends Oaf> rowClazz = (Class<? extends Oaf>) Class.forName(graphTableClassName);
Class<? extends Oaf> actionPayloadClazz = (Class<? extends Oaf>) Class.forName(actionPayloadClassName);
Class<? extends Oaf> rowClazz = (Class<? extends Oaf>) Class.forName(graphTableClassName);
Class<? extends Oaf> actionPayloadClazz = (Class<? extends Oaf>) Class.forName(actionPayloadClassName);
throwIfGraphTableClassIsNotSubClassOfActionPayloadClass(rowClazz, actionPayloadClazz);
throwIfGraphTableClassIsNotSubClassOfActionPayloadClass(rowClazz, actionPayloadClazz);
SparkConf conf = new SparkConf();
conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
conf.registerKryoClasses(ModelSupport.getOafModelClasses());
SparkConf conf = new SparkConf();
conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
conf.registerKryoClasses(ModelSupport.getOafModelClasses());
runWithSparkSession(conf, isSparkSessionManaged,
spark -> {
removeOutputDir(spark, outputGraphTablePath);
promoteActionPayloadForGraphTable(spark,
inputGraphTablePath,
inputActionPayloadPath,
outputGraphTablePath,
strategy,
rowClazz,
actionPayloadClazz);
});
}
runWithSparkSession(
conf,
isSparkSessionManaged,
spark -> {
removeOutputDir(spark, outputGraphTablePath);
promoteActionPayloadForGraphTable(
spark,
inputGraphTablePath,
inputActionPayloadPath,
outputGraphTablePath,
strategy,
rowClazz,
actionPayloadClazz);
});
}
private static void throwIfGraphTableClassIsNotSubClassOfActionPayloadClass(Class<? extends Oaf> rowClazz,
Class<? extends Oaf> actionPayloadClazz) {
if (!isSubClass(rowClazz, actionPayloadClazz)) {
String msg = String.format("graph table class is not a subclass of action payload class: graph=%s, action=%s",
rowClazz.getCanonicalName(), actionPayloadClazz.getCanonicalName());
throw new RuntimeException(msg);
}
}
private static void throwIfGraphTableClassIsNotSubClassOfActionPayloadClass(
Class<? extends Oaf> rowClazz, Class<? extends Oaf> actionPayloadClazz) {
if (!isSubClass(rowClazz, actionPayloadClazz)) {
String msg = String
.format(
"graph table class is not a subclass of action payload class: graph=%s, action=%s",
rowClazz.getCanonicalName(), actionPayloadClazz.getCanonicalName());
throw new RuntimeException(msg);
}
}
private static void removeOutputDir(SparkSession spark,
String path) {
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
}
private static void removeOutputDir(SparkSession spark, String path) {
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
}
private static <G extends Oaf, A extends Oaf> void promoteActionPayloadForGraphTable(SparkSession spark,
String inputGraphTablePath,
String inputActionPayloadPath,
String outputGraphTablePath,
MergeAndGet.Strategy strategy,
Class<G> rowClazz,
Class<A> actionPayloadClazz) {
Dataset<G> rowDS = readGraphTable(spark, inputGraphTablePath, rowClazz);
Dataset<A> actionPayloadDS = readActionPayload(spark, inputActionPayloadPath, actionPayloadClazz);
private static <G extends Oaf, A extends Oaf> void promoteActionPayloadForGraphTable(
SparkSession spark,
String inputGraphTablePath,
String inputActionPayloadPath,
String outputGraphTablePath,
MergeAndGet.Strategy strategy,
Class<G> rowClazz,
Class<A> actionPayloadClazz) {
Dataset<G> rowDS = readGraphTable(spark, inputGraphTablePath, rowClazz);
Dataset<A> actionPayloadDS = readActionPayload(spark, inputActionPayloadPath, actionPayloadClazz);
Dataset<G> result = promoteActionPayloadForGraphTable(rowDS, actionPayloadDS, strategy, rowClazz, actionPayloadClazz)
.map((MapFunction<G, G>) value -> value, Encoders.bean(rowClazz));
Dataset<G> result = promoteActionPayloadForGraphTable(
rowDS, actionPayloadDS, strategy, rowClazz, actionPayloadClazz)
.map((MapFunction<G, G>) value -> value, Encoders.bean(rowClazz));
saveGraphTable(result, outputGraphTablePath);
}
saveGraphTable(result, outputGraphTablePath);
}
private static <G extends Oaf> Dataset<G> readGraphTable(SparkSession spark,
String path,
Class<G> rowClazz) {
logger.info("Reading graph table from path: {}", path);
return spark
.read()
.parquet(path)
.as(Encoders.bean(rowClazz));
}
private static <G extends Oaf> Dataset<G> readGraphTable(
SparkSession spark, String path, Class<G> rowClazz) {
logger.info("Reading graph table from path: {}", path);
private static <A extends Oaf> Dataset<A> readActionPayload(SparkSession spark,
String path,
Class<A> actionPayloadClazz) {
logger.info("Reading action payload from path: {}", path);
return spark
.read()
.parquet(path)
.map((MapFunction<Row, A>) value -> OBJECT_MAPPER.readValue(value.<String>getAs("payload"),
actionPayloadClazz), Encoders.bean(actionPayloadClazz));
}
return spark
.read()
.textFile(path)
.map(
(MapFunction<String, G>) value -> OBJECT_MAPPER.readValue(value, rowClazz),
Encoders.bean(rowClazz));
private static <G extends Oaf, A extends Oaf> Dataset<G> promoteActionPayloadForGraphTable(Dataset<G> rowDS,
Dataset<A> actionPayloadDS,
MergeAndGet.Strategy strategy,
Class<G> rowClazz,
Class<A> actionPayloadClazz) {
logger.info("Promoting action payload for graph table: payload={}, table={}", actionPayloadClazz.getSimpleName(), rowClazz.getSimpleName());
/*
* return spark .read() .parquet(path) .as(Encoders.bean(rowClazz));
*/
}
SerializableSupplier<Function<G, String>> rowIdFn = PromoteActionPayloadForGraphTableJob::idFn;
SerializableSupplier<Function<A, String>> actionPayloadIdFn = PromoteActionPayloadForGraphTableJob::idFn;
SerializableSupplier<BiFunction<G, A, G>> mergeRowWithActionPayloadAndGetFn = MergeAndGet.functionFor(strategy);
SerializableSupplier<BiFunction<G, G, G>> mergeRowsAndGetFn = MergeAndGet.functionFor(strategy);
SerializableSupplier<G> zeroFn = zeroFn(rowClazz);
SerializableSupplier<Function<G, Boolean>> isNotZeroFn = PromoteActionPayloadForGraphTableJob::isNotZeroFnUsingIdOrSource;
private static <A extends Oaf> Dataset<A> readActionPayload(
SparkSession spark, String path, Class<A> actionPayloadClazz) {
logger.info("Reading action payload from path: {}", path);
return spark
.read()
.parquet(path)
.map(
(MapFunction<Row, A>) value -> OBJECT_MAPPER
.readValue(value.<String> getAs("payload"), actionPayloadClazz),
Encoders.bean(actionPayloadClazz));
}
Dataset<G> joinedAndMerged = PromoteActionPayloadFunctions
.joinGraphTableWithActionPayloadAndMerge(
rowDS,
actionPayloadDS,
rowIdFn,
actionPayloadIdFn,
mergeRowWithActionPayloadAndGetFn,
rowClazz,
actionPayloadClazz);
private static <G extends Oaf, A extends Oaf> Dataset<G> promoteActionPayloadForGraphTable(
Dataset<G> rowDS,
Dataset<A> actionPayloadDS,
MergeAndGet.Strategy strategy,
Class<G> rowClazz,
Class<A> actionPayloadClazz) {
logger
.info(
"Promoting action payload for graph table: payload={}, table={}",
actionPayloadClazz.getSimpleName(),
rowClazz.getSimpleName());
return PromoteActionPayloadFunctions
.groupGraphTableByIdAndMerge(
joinedAndMerged,
rowIdFn,
mergeRowsAndGetFn,
zeroFn,
isNotZeroFn,
rowClazz);
}
SerializableSupplier<Function<G, String>> rowIdFn = ModelSupport::idFn;
SerializableSupplier<Function<A, String>> actionPayloadIdFn = ModelSupport::idFn;
SerializableSupplier<BiFunction<G, A, G>> mergeRowWithActionPayloadAndGetFn = MergeAndGet.functionFor(strategy);
SerializableSupplier<BiFunction<G, G, G>> mergeRowsAndGetFn = MergeAndGet.functionFor(strategy);
SerializableSupplier<G> zeroFn = zeroFn(rowClazz);
SerializableSupplier<Function<G, Boolean>> isNotZeroFn = PromoteActionPayloadForGraphTableJob::isNotZeroFnUsingIdOrSource;
private static <T extends Oaf> Function<T, String> idFn() {
return x -> {
if (isSubClass(x, Relation.class)) {
return idFnForRelation(x);
}
return idFnForOafEntity(x);
};
}
Dataset<G> joinedAndMerged = PromoteActionPayloadFunctions
.joinGraphTableWithActionPayloadAndMerge(
rowDS,
actionPayloadDS,
rowIdFn,
actionPayloadIdFn,
mergeRowWithActionPayloadAndGetFn,
rowClazz,
actionPayloadClazz);
private static <T extends Oaf> String idFnForRelation(T t) {
Relation r = (Relation) t;
return Optional.ofNullable(r.getSource())
.map(source -> Optional.ofNullable(r.getTarget())
.map(target -> Optional.ofNullable(r.getRelType())
.map(relType -> Optional.ofNullable(r.getSubRelType())
.map(subRelType -> Optional.ofNullable(r.getRelClass())
.map(relClass -> String.join(source, target, relType, subRelType, relClass))
.orElse(String.join(source, target, relType, subRelType))
)
.orElse(String.join(source, target, relType))
)
.orElse(String.join(source, target))
)
.orElse(source)
)
.orElse(null);
}
return PromoteActionPayloadFunctions
.groupGraphTableByIdAndMerge(
joinedAndMerged, rowIdFn, mergeRowsAndGetFn, zeroFn, isNotZeroFn, rowClazz);
}
private static <T extends Oaf> String idFnForOafEntity(T t) {
return ((OafEntity) t).getId();
}
private static <T extends Oaf> SerializableSupplier<T> zeroFn(Class<T> clazz) {
switch (clazz.getCanonicalName()) {
case "eu.dnetlib.dhp.schema.oaf.Dataset":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Dataset());
case "eu.dnetlib.dhp.schema.oaf.Datasource":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Datasource());
case "eu.dnetlib.dhp.schema.oaf.Organization":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Organization());
case "eu.dnetlib.dhp.schema.oaf.OtherResearchProduct":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.OtherResearchProduct());
case "eu.dnetlib.dhp.schema.oaf.Project":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Project());
case "eu.dnetlib.dhp.schema.oaf.Publication":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Publication());
case "eu.dnetlib.dhp.schema.oaf.Relation":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Relation());
case "eu.dnetlib.dhp.schema.oaf.Software":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Software());
default:
throw new RuntimeException("unknown class: " + clazz.getCanonicalName());
}
}
private static <T extends Oaf> SerializableSupplier<T> zeroFn(Class<T> clazz) {
switch (clazz.getCanonicalName()) {
case "eu.dnetlib.dhp.schema.oaf.Dataset":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Dataset());
case "eu.dnetlib.dhp.schema.oaf.Datasource":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Datasource());
case "eu.dnetlib.dhp.schema.oaf.Organization":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Organization());
case "eu.dnetlib.dhp.schema.oaf.OtherResearchProduct":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.OtherResearchProduct());
case "eu.dnetlib.dhp.schema.oaf.Project":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Project());
case "eu.dnetlib.dhp.schema.oaf.Publication":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Publication());
case "eu.dnetlib.dhp.schema.oaf.Relation":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Relation());
case "eu.dnetlib.dhp.schema.oaf.Software":
return () -> clazz.cast(new eu.dnetlib.dhp.schema.oaf.Software());
default:
throw new RuntimeException("unknown class: " + clazz.getCanonicalName());
}
}
private static <T extends Oaf> Function<T, Boolean> isNotZeroFnUsingIdOrSource() {
return t -> {
if (isSubClass(t, Relation.class)) {
return Objects.nonNull(((Relation) t).getSource());
}
return Objects.nonNull(((OafEntity) t).getId());
};
}
private static <T extends Oaf> Function<T, Boolean> isNotZeroFnUsingIdOrSource() {
return t -> {
if (isSubClass(t, Relation.class)) {
return Objects.nonNull(((Relation) t).getSource());
}
return Objects.nonNull(((OafEntity) t).getId());
};
}
private static <G extends Oaf> void saveGraphTable(Dataset<G> result,
String path) {
logger.info("Saving graph table to path: {}", path);
result
.toJSON()
.write()
.option("compression", "gzip")
.text(path);
}
private static <G extends Oaf> void saveGraphTable(Dataset<G> result, String path) {
logger.info("Saving graph table to path: {}", path);
result.toJSON().write().option("compression", "gzip").text(path);
}
}

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