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Merge branch 'doiboost' of https://code-repo.d4science.org/D-Net/dnet-hadoop into doiboost

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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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<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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@ -12,22 +12,29 @@
<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>

15
dhp-build/dhp-build-properties-maven-plugin/src/main/java/eu/dnetlib/maven/plugin/properties/GenerateOoziePropertiesMojo.java
View File

@ -1,8 +1,10 @@
package eu.dnetlib.maven.plugin.properties;
import java.io.File;
import java.util.ArrayList;
import java.util.List;
import org.apache.commons.lang.ArrayUtils;
import org.apache.commons.lang.StringUtils;
import org.apache.maven.plugin.AbstractMojo;
@ -20,20 +22,21 @@ 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"};
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(
String generatedSandboxName = generateSandboxName(
System.getProperties().getProperty(PROPERTY_NAME_WF_SOURCE_DIR));
if (generatedSandboxName != null) {
System.getProperties()
.setProperty(PROPERTY_NAME_SANDBOX_NAME, generatedSandboxName);
System.getProperties().setProperty(PROPERTY_NAME_SANDBOX_NAME, generatedSandboxName);
} else {
System.out.println(
System.out
.println(
"unable to generate sandbox name from path: "
+ System.getProperties().getProperty(PROPERTY_NAME_WF_SOURCE_DIR));
}

39
dhp-build/dhp-build-properties-maven-plugin/src/main/java/eu/dnetlib/maven/plugin/properties/WritePredefinedProjectProperties.java
View File

@ -9,9 +9,9 @@
* express or implied. See the License for the specific language governing permissions and
* limitations under the License.
*/
package eu.dnetlib.maven.plugin.properties;
import edu.umd.cs.findbugs.annotations.SuppressFBWarnings;
import java.io.File;
import java.io.FileInputStream;
import java.io.IOException;
@ -24,6 +24,7 @@ import java.util.List;
import java.util.Map.Entry;
import java.util.Properties;
import java.util.Set;
import org.apache.commons.io.FileUtils;
import org.apache.commons.io.IOUtils;
import org.apache.commons.lang.StringUtils;
@ -35,9 +36,11 @@ import org.springframework.core.io.DefaultResourceLoader;
import org.springframework.core.io.Resource;
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
* http://site.kuali.org/maven/plugins/properties-maven-plugin/2.0.1/write-project-properties-mojo.html
*
* @author mhorst
* @goal write-project-properties
@ -70,33 +73,31 @@ public class WritePredefinedProjectProperties extends AbstractMojo {
protected File outputFile;
/**
* If true, the plugin will silently ignore any non-existent properties files, and the build
* will continue
* 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.
* 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;
/**
* If true, the plugin will include system properties when writing the properties file. System
* properties override both environment variables and project properties.
* 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;
/**
* If true, the plugin will include environment variables when writing the properties file.
* Environment variables are prefixed with "env". Environment variables override project
* properties.
* 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"
*/
@ -110,18 +111,21 @@ public class WritePredefinedProjectProperties extends AbstractMojo {
private String exclude;
/**
* 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.
* 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;
/* (non-Javadoc)
/*
* (non-Javadoc)
* @see org.apache.maven.plugin.AbstractMojo#execute()
*/
@Override
@SuppressFBWarnings({"NP_UNWRITTEN_FIELD", "UWF_UNWRITTEN_FIELD"})
@SuppressFBWarnings({
"NP_UNWRITTEN_FIELD", "UWF_UNWRITTEN_FIELD"
})
public void execute() throws MojoExecutionException, MojoFailureException {
Properties properties = new Properties();
// Add project properties
@ -436,9 +440,8 @@ public class WritePredefinedProjectProperties extends AbstractMojo {
*/
public void setIncludePropertyKeysFromFiles(String[] includePropertyKeysFromFiles) {
if (includePropertyKeysFromFiles != null) {
this.includePropertyKeysFromFiles =
Arrays.copyOf(
includePropertyKeysFromFiles, includePropertyKeysFromFiles.length);
this.includePropertyKeysFromFiles = Arrays
.copyOf(includePropertyKeysFromFiles, includePropertyKeysFromFiles.length);
}
}
}

3
dhp-build/dhp-build-properties-maven-plugin/src/test/java/eu/dnetlib/maven/plugin/properties/GenerateOoziePropertiesMojoTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.maven.plugin.properties;
import static eu.dnetlib.maven.plugin.properties.GenerateOoziePropertiesMojo.PROPERTY_NAME_SANDBOX_NAME;
@ -10,7 +11,7 @@ import org.junit.jupiter.api.Test;
/** @author mhorst, claudio.atzori */
public class GenerateOoziePropertiesMojoTest {
private GenerateOoziePropertiesMojo mojo = new GenerateOoziePropertiesMojo();
private final GenerateOoziePropertiesMojo mojo = new GenerateOoziePropertiesMojo();
@BeforeEach
public void clearSystemProperties() {

50
dhp-build/dhp-build-properties-maven-plugin/src/test/java/eu/dnetlib/maven/plugin/properties/WritePredefinedProjectPropertiesTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.maven.plugin.properties;
import static eu.dnetlib.maven.plugin.properties.WritePredefinedProjectProperties.PROPERTY_PREFIX_ENV;
@ -7,6 +8,7 @@ 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.*;
@ -20,7 +22,8 @@ import org.mockito.junit.jupiter.MockitoExtension;
@ExtendWith(MockitoExtension.class)
public class WritePredefinedProjectPropertiesTest {
@Mock private MavenProject mavenProject;
@Mock
private MavenProject mavenProject;
private WritePredefinedProjectProperties mojo;
@ -81,8 +84,7 @@ public class WritePredefinedProjectPropertiesTest {
}
@Test
public void testExecuteWithProjectPropertiesExclusion(@TempDir File testFolder)
throws Exception {
public void testExecuteWithProjectPropertiesExclusion(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
@ -106,8 +108,7 @@ public class WritePredefinedProjectPropertiesTest {
}
@Test
public void testExecuteWithProjectPropertiesInclusion(@TempDir File testFolder)
throws Exception {
public void testExecuteWithProjectPropertiesInclusion(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
@ -131,8 +132,7 @@ public class WritePredefinedProjectPropertiesTest {
}
@Test
public void testExecuteIncludingPropertyKeysFromFile(@TempDir File testFolder)
throws Exception {
public void testExecuteIncludingPropertyKeysFromFile(@TempDir File testFolder) throws Exception {
// given
String key = "projectPropertyKey";
String value = "projectPropertyValue";
@ -148,8 +148,9 @@ public class WritePredefinedProjectPropertiesTest {
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.store(new FileWriter(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(
new String[] {includedPropertiesFile.getAbsolutePath()});
mojo.setIncludePropertyKeysFromFiles(new String[] {
includedPropertiesFile.getAbsolutePath()
});
// execute
mojo.execute();
@ -175,8 +176,11 @@ public class WritePredefinedProjectPropertiesTest {
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setIncludePropertyKeysFromFiles(
new String[] {"/eu/dnetlib/maven/plugin/properties/included.properties"});
mojo
.setIncludePropertyKeysFromFiles(
new String[] {
"/eu/dnetlib/maven/plugin/properties/included.properties"
});
// execute
mojo.execute();
@ -201,7 +205,9 @@ public class WritePredefinedProjectPropertiesTest {
projectProperties.setProperty(includedKey, includedValue);
doReturn(projectProperties).when(mavenProject).getProperties();
mojo.setIncludePropertyKeysFromFiles(new String[] {""});
mojo.setIncludePropertyKeysFromFiles(new String[] {
""
});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
@ -225,8 +231,9 @@ public class WritePredefinedProjectPropertiesTest {
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.storeToXML(new FileOutputStream(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(
new String[] {includedPropertiesFile.getAbsolutePath()});
mojo.setIncludePropertyKeysFromFiles(new String[] {
includedPropertiesFile.getAbsolutePath()
});
// execute
mojo.execute();
@ -257,8 +264,9 @@ public class WritePredefinedProjectPropertiesTest {
includedProperties.setProperty(includedKey, "irrelevantValue");
includedProperties.store(new FileOutputStream(includedPropertiesFile), null);
mojo.setIncludePropertyKeysFromFiles(
new String[] {includedPropertiesFile.getAbsolutePath()});
mojo.setIncludePropertyKeysFromFiles(new String[] {
includedPropertiesFile.getAbsolutePath()
});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
@ -268,7 +276,9 @@ public class WritePredefinedProjectPropertiesTest {
public void testExecuteWithQuietModeOn(@TempDir File testFolder) throws Exception {
// given
mojo.setQuiet(true);
mojo.setIncludePropertyKeysFromFiles(new String[] {"invalid location"});
mojo.setIncludePropertyKeysFromFiles(new String[] {
"invalid location"
});
// execute
mojo.execute();
@ -282,7 +292,9 @@ public class WritePredefinedProjectPropertiesTest {
@Test
public void testExecuteIncludingPropertyKeysFromInvalidFile() {
// given
mojo.setIncludePropertyKeysFromFiles(new String[] {"invalid location"});
mojo.setIncludePropertyKeysFromFiles(new String[] {
"invalid location"
});
// execute
Assertions.assertThrows(MojoExecutionException.class, () -> mojo.execute());
@ -354,7 +366,7 @@ public class WritePredefinedProjectPropertiesTest {
}
private Properties getStoredProperties(File testFolder)
throws FileNotFoundException, IOException {
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>

252
dhp-build/dhp-code-style/src/main/resources/eclipse/formatter_aosp.xml Normal file
View File

@ -0,0 +1,252 @@
<?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"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_allocation_expression" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_explicit_constructor_call" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_method_invocation" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_arguments_in_qualified_allocation_expression" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_assignment" value="0"/>
<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"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_selector_in_method_invocation" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superclass_in_type_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_enum_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration" value="16"/>
<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_throws_clause_in_method_declaration" value="16"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_imports" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_after_package" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_field" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_first_class_body_declaration" value="0"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_imports" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_member_type" value="1"/>
<setting id="org.eclipse.jdt.core.formatter.blank_lines_before_method" value="1"/>
<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"/>
<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_after_closing_brace_in_block" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_closing_paren_in_cast" value="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_after_colon_in_case" value="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_colon_in_for" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_colon_in_labeled_statement" 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_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"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_throws" value="insert"/>
<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"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_throws" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_invocation_arguments" value="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_after_comma_in_multiple_local_declarations" value="insert"/>
<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_after_comma_in_superinterfaces" 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_comma_in_type_parameters" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_ellipsis" 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_after_opening_angle_bracket_in_type_arguments" 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_after_opening_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_allocation_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_reference" value="do not insert"/>
<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_after_opening_paren_in_cast" 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_paren_in_constructor_declaration" value="do not insert"/>
<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.insert_space_after_opening_paren_in_for" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_if" value="do not insert"/>
<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_after_opening_paren_in_method_invocation" value="do not 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.insert_space_after_opening_paren_in_switch" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_synchronized" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_while" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_postfix_operator" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_prefix_operator" 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.insert_space_after_question_in_wildcard" 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.insert_space_after_unary_operator" 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_before_assignment_operator" value="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.insert_space_before_binary_operator" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_parameterized_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_arguments" value="do not insert"/>
<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_closing_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_allocation_expression" value="do not insert"/>
<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_space_before_closing_paren_in_annotation" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_cast" 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_closing_paren_in_constructor_declaration" value="do not insert"/>
<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.insert_space_before_closing_paren_in_for" value="do not 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_closing_paren_in_method_declaration" value="do not insert"/>
<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.insert_space_before_closing_paren_in_parenthesized_expression" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_switch" value="do not insert"/>
<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.insert_space_before_closing_paren_in_while" 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.insert_space_before_colon_in_case" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_colon_in_conditional" 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_colon_in_for" 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_space_before_comma_in_allocation_expression" value="do not 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.insert_space_before_comma_in_array_initializer" value="do not 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.insert_space_before_comma_in_constructor_declaration_throws" value="do not insert"/>
<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_comma_in_enum_declarations" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_explicitconstructorcall_arguments" value="do not 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.insert_space_before_comma_in_for_inits" value="do not 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_before_comma_in_method_declaration_throws" 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_comma_in_multiple_field_declarations" 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.insert_space_before_comma_in_parameterized_type_reference" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_comma_in_superinterfaces" 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_comma_in_type_parameters" value="do not 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_before_opening_angle_bracket_in_parameterized_type_reference" value="do not insert"/>
<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.insert_space_before_opening_angle_bracket_in_type_parameters" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_annotation_type_declaration" value="insert"/>
<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.insert_space_before_opening_brace_in_array_initializer" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_block" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_constructor_declaration" value="insert"/>
<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_before_opening_brace_in_enum_declaration" value="insert"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_method_declaration" 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_opening_brace_in_type_declaration" value="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_space_before_opening_bracket_in_array_reference" value="do not insert"/>
<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_space_before_opening_paren_in_annotation" value="do not insert"/>
<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.insert_space_before_opening_paren_in_catch" value="insert"/>
<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>

727
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"/>
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<setting id="org.eclipse.jdt.core.formatter.comment.format_html" 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"/>
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</profile>
</profiles>

337
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.insert_space_after_opening_brace_in_array_initializer" value="do not insert"/>
<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.insert_space_after_opening_paren_in_annotation" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_while" value="do not insert"/>
<setting id="org.eclipse.jdt.core.formatter.use_on_off_tags" value="true"/>
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<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_space_after_prefix_operator" value="do not insert"/>
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<setting id="org.eclipse.jdt.core.formatter.insert_space_after_ellipsis" value="insert"/>
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<setting id="org.eclipse.jdt.core.formatter.indent_breaks_compare_to_cases" value="true"/>
<setting id="org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation" value="do not insert"/>
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<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>

1
dhp-common/src/main/java/eu/dnetlib/collector/worker/model/ApiDescriptor.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.collector.worker.model;
import java.util.HashMap;

2
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStore.java
View File

@ -1,7 +1,9 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
import java.util.UUID;
import javax.persistence.Column;
import javax.persistence.Entity;
import javax.persistence.Id;

2
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStoreCurrentVersion.java
View File

@ -1,6 +1,8 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
import javax.persistence.Column;
import javax.persistence.Entity;
import javax.persistence.Id;

2
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStoreVersion.java
View File

@ -1,7 +1,9 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
import java.util.Date;
import javax.persistence.Column;
import javax.persistence.Entity;
import javax.persistence.Id;

2
dhp-common/src/main/java/eu/dnetlib/data/mdstore/manager/common/model/MDStoreWithInfo.java
View File

@ -1,7 +1,9 @@
package eu.dnetlib.data.mdstore.manager.common.model;
import java.io.Serializable;
import java.util.Date;
import javax.persistence.Column;
import javax.persistence.Entity;
import javax.persistence.Id;

22
dhp-common/src/main/java/eu/dnetlib/dhp/application/ArgumentApplicationParser.java
View File

@ -1,6 +1,6 @@
package eu.dnetlib.dhp.application;
import com.fasterxml.jackson.databind.ObjectMapper;
import java.io.ByteArrayInputStream;
import java.io.ByteArrayOutputStream;
import java.io.Serializable;
@ -8,10 +8,13 @@ import java.io.StringWriter;
import java.util.*;
import java.util.zip.GZIPInputStream;
import java.util.zip.GZIPOutputStream;
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();
@ -21,8 +24,7 @@ public class ArgumentApplicationParser implements Serializable {
public ArgumentApplicationParser(final String json_configuration) throws Exception {
final ObjectMapper mapper = new ObjectMapper();
final OptionsParameter[] configuration =
mapper.readValue(json_configuration, OptionsParameter[].class);
final OptionsParameter[] configuration = mapper.readValue(json_configuration, OptionsParameter[].class);
createOptionMap(configuration);
}
@ -32,12 +34,11 @@ public class ArgumentApplicationParser implements Serializable {
private void createOptionMap(final OptionsParameter[] configuration) {
Arrays.stream(configuration)
Arrays
.stream(configuration)
.map(
conf -> {
final Option o =
new Option(
conf.getParamName(), true, conf.getParamDescription());
final Option o = new Option(conf.getParamName(), true, conf.getParamDescription());
o.setLongOpt(conf.getParamLongName());
o.setRequired(conf.isParamRequired());
if (conf.isCompressed()) {
@ -76,10 +77,11 @@ public class ArgumentApplicationParser implements Serializable {
public void parseArgument(final String[] args) throws Exception {
CommandLineParser parser = new BasicParser();
CommandLine cmd = parser.parse(options, args);
Arrays.stream(cmd.getOptions())
Arrays
.stream(cmd.getOptions())
.forEach(
it ->
objectMap.put(
it -> objectMap
.put(
it.getLongOpt(),
compressedValues.contains(it.getLongOpt())
? decompressValue(it.getValue())

4
dhp-common/src/main/java/eu/dnetlib/dhp/application/OptionsParameter.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.application;
public class OptionsParameter {
@ -8,7 +9,8 @@ public class OptionsParameter {
private boolean paramRequired;
private boolean compressed;
public OptionsParameter() {}
public OptionsParameter() {
}
public String getParamName() {
return paramName;

11
dhp-common/src/main/java/eu/dnetlib/dhp/common/FunctionalInterfaceSupport.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.common;
import java.io.Serializable;
@ -6,16 +7,18 @@ import java.util.function.Supplier;
/** 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.
* 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 {}
public interface SerializableSupplier<T> extends Supplier<T>, Serializable {
}
/**
* Extension of consumer accepting functions throwing an exception.

9
dhp-common/src/main/java/eu/dnetlib/dhp/common/HdfsSupport.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.common;
import static eu.dnetlib.dhp.common.ThrowingSupport.rethrowAsRuntimeException;
@ -5,6 +6,7 @@ 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;
@ -16,7 +18,8 @@ import org.slf4j.LoggerFactory;
public class HdfsSupport {
private static final Logger logger = LoggerFactory.getLogger(HdfsSupport.class);
private HdfsSupport() {}
private HdfsSupport() {
}
/**
* Checks a path (file or dir) exists on HDFS.
@ -62,8 +65,8 @@ public class HdfsSupport {
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)))
() -> Arrays
.stream(FileSystem.get(configuration).listStatus(new Path(path)))
.filter(FileStatus::isDirectory)
.map(x -> x.getPath().toString())
.collect(Collectors.toList()));

36
dhp-common/src/main/java/eu/dnetlib/dhp/common/SparkSessionSupport.java
View File

@ -1,49 +1,44 @@
package eu.dnetlib.dhp.common;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
import java.util.Objects;
import java.util.function.Function;
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.
* 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) {
SparkConf conf, Boolean isSparkSessionManaged, ThrowingConsumer<SparkSession, Exception> fn) {
runWithSparkSession(
c -> SparkSession.builder().config(c).getOrCreate(),
conf,
isSparkSessionManaged,
fn);
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.
* 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) {
SparkConf conf, Boolean isSparkSessionManaged, ThrowingConsumer<SparkSession, Exception> fn) {
runWithSparkSession(
c -> SparkSession.builder().config(c).enableHiveSupport().getOrCreate(),
conf,
@ -52,9 +47,8 @@ public class SparkSessionSupport {
}
/**
* 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.
* 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

4
dhp-common/src/main/java/eu/dnetlib/dhp/common/ThrowingSupport.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.common;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingRunnable;
@ -6,7 +7,8 @@ import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingSupplier;
/** Exception handling utility methods. */
public class ThrowingSupport {
private ThrowingSupport() {}
private ThrowingSupport() {
}
/**
* Executes given runnable and rethrows any exceptions as RuntimeException.

7
dhp-common/src/main/java/eu/dnetlib/dhp/model/mdstore/MetadataRecord.java
View File

@ -1,8 +1,10 @@
package eu.dnetlib.dhp.model.mdstore;
import eu.dnetlib.dhp.utils.DHPUtils;
import java.io.Serializable;
import eu.dnetlib.dhp.utils.DHPUtils;
/** This class models a record inside the new Metadata store collection on HDFS * */
public class MetadataRecord implements Serializable {
@ -16,8 +18,7 @@ public class MetadataRecord implements Serializable {
private String encoding;
/**
* The information about the provenance of the record see @{@link Provenance} for the model of
* this information
* The information about the provenance of the record see @{@link Provenance} for the model of this information
*/
private Provenance provenance;

9
dhp-common/src/main/java/eu/dnetlib/dhp/model/mdstore/Provenance.java
View File

@ -1,11 +1,13 @@
package eu.dnetlib.dhp.model.mdstore;
import java.io.Serializable;
/**
* @author Sandro La Bruzzo
* <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
* <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 {
@ -15,7 +17,8 @@ public class Provenance implements Serializable {
private String nsPrefix;
public Provenance() {}
public Provenance() {
}
public Provenance(String datasourceId, String datasourceName, String nsPrefix) {
this.datasourceId = datasourceId;

1
dhp-common/src/main/java/eu/dnetlib/dhp/parser/utility/VtdException.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.parser.utility;
public class VtdException extends Exception {

18
dhp-common/src/main/java/eu/dnetlib/dhp/parser/utility/VtdUtilityParser.java
View File

@ -1,12 +1,14 @@
package eu.dnetlib.dhp.parser.utility;
import com.ximpleware.AutoPilot;
import com.ximpleware.VTDNav;
import java.util.ArrayList;
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. */
public class VtdUtilityParser {
@ -32,12 +34,12 @@ public class VtdUtilityParser {
}
}
private static Map<String, String> getAttributes(
final VTDNav vn, final List<String> attributes) {
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(
attributes
.forEach(
attributeKey -> {
try {
int attr = vn.getAttrVal(attributeKey);
@ -59,7 +61,8 @@ public class VtdUtilityParser {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
int t = vn.getText();
if (t > -1) results.add(vn.toNormalizedString(t));
if (t > -1)
results.add(vn.toNormalizedString(t));
}
return results;
} catch (Exception e) {
@ -73,7 +76,8 @@ public class VtdUtilityParser {
ap.selectXPath(xpath);
while (ap.evalXPath() != -1) {
int it = nav.getText();
if (it > -1) return nav.toNormalizedString(it);
if (it > -1)
return nav.toNormalizedString(it);
}
return null;
} catch (Exception e) {

13
dhp-common/src/main/java/eu/dnetlib/dhp/utils/DHPUtils.java
View File

@ -1,23 +1,27 @@
package eu.dnetlib.dhp.utils;
import com.jayway.jsonpath.JsonPath;
import java.io.ByteArrayInputStream;
import java.io.ByteArrayOutputStream;
import java.nio.charset.StandardCharsets;
import java.security.MessageDigest;
import java.util.zip.GZIPInputStream;
import java.util.zip.GZIPOutputStream;
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 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"));
md.update(s.getBytes(StandardCharsets.UTF_8));
return new String(Hex.encodeHex(md.digest()));
} catch (final Exception e) {
System.err.println("Error creating id");
@ -59,7 +63,8 @@ public class DHPUtils {
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 String)
return (String) o;
if (o instanceof JSONArray && ((JSONArray) o).size() > 0)
return (String) ((JSONArray) o).get(0);
return o.toString();

4
dhp-common/src/main/java/eu/dnetlib/dhp/utils/ISLookupClientFactory.java
View File

@ -1,10 +1,12 @@
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);

7
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;
@ -9,13 +10,11 @@ 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 Sequence doCall(XPathContext context, Sequence[] arguments) throws XPathException;
@Override
public StructuredQName getFunctionQName() {

10
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/ExtractYear.java
View File

@ -1,9 +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;
@ -13,7 +15,9 @@ import net.sf.saxon.value.StringValue;
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() {
@ -44,7 +48,9 @@ public class ExtractYear extends AbstractExtensionFunction {
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] {SequenceType.OPTIONAL_ITEM};
return new SequenceType[] {
SequenceType.OPTIONAL_ITEM
};
}
@Override

8
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/NormalizeDate.java
View File

@ -1,8 +1,10 @@
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;
@ -15,7 +17,7 @@ public class NormalizeDate extends AbstractExtensionFunction {
"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() {
@ -43,7 +45,9 @@ public class NormalizeDate extends AbstractExtensionFunction {
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] {SequenceType.OPTIONAL_ITEM};
return new SequenceType[] {
SequenceType.OPTIONAL_ITEM
};
}
@Override

11
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/PickFirst.java
View File

@ -1,12 +1,14 @@
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 {
@ -24,8 +26,7 @@ public class PickFirst extends AbstractExtensionFunction {
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 {
@ -50,7 +51,9 @@ public class PickFirst extends AbstractExtensionFunction {
@Override
public SequenceType[] getArgumentTypes() {
return new SequenceType[] {SequenceType.OPTIONAL_ITEM};
return new SequenceType[] {
SequenceType.OPTIONAL_ITEM
};
}
@Override

3
dhp-common/src/main/java/eu/dnetlib/dhp/utils/saxon/SaxonTransformerFactory.java
View File

@ -1,9 +1,12 @@
package eu.dnetlib.dhp.utils.saxon;
import java.io.StringReader;
import javax.xml.transform.Transformer;
import javax.xml.transform.TransformerException;
import javax.xml.transform.stream.StreamSource;
import net.sf.saxon.Configuration;
import net.sf.saxon.TransformerFactoryImpl;

9
dhp-common/src/main/java/eu/dnetlib/message/Message.java
View File

@ -1,9 +1,11 @@
package eu.dnetlib.message;
import java.io.IOException;
import java.util.Map;
import com.fasterxml.jackson.core.JsonProcessingException;
import com.fasterxml.jackson.databind.ObjectMapper;
import java.io.IOException;
import java.util.Map;
public class Message {
@ -20,7 +22,8 @@ public class Message {
return jsonMapper.readValue(json, Message.class);
}
public Message() {}
public Message() {
}
public Message(String workflowId, String jobName, MessageType type, Map<String, String> body) {
this.workflowId = workflowId;

8
dhp-common/src/main/java/eu/dnetlib/message/MessageConsumer.java
View File

@ -1,12 +1,14 @@
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 {

16
dhp-common/src/main/java/eu/dnetlib/message/MessageManager.java
View File

@ -1,14 +1,16 @@
package eu.dnetlib.message;
import com.rabbitmq.client.Channel;
import com.rabbitmq.client.Connection;
import com.rabbitmq.client.ConnectionFactory;
import java.io.IOException;
import java.util.HashMap;
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;
@ -19,7 +21,7 @@ public class MessageManager {
private Connection connection;
private Map<String, Channel> channels = new HashMap<>();
private final Map<String, Channel> channels = new HashMap<>();
private boolean durable;
@ -89,7 +91,8 @@ public class MessageManager {
}
public void close() throws IOException {
channels.values()
channels
.values()
.forEach(
ch -> {
try {
@ -125,8 +128,7 @@ public class MessageManager {
}
public void startConsumingMessage(
final String queueName, final boolean durable, final boolean autodelete)
throws Exception {
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));

4
dhp-common/src/main/java/eu/dnetlib/message/MessageType.java
View File

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

1
dhp-common/src/main/java/eu/dnetlib/scholexplorer/relation/RelInfo.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.scholexplorer.relation;
import java.io.Serializable;

8
dhp-common/src/main/java/eu/dnetlib/scholexplorer/relation/RelationMapper.java
View File

@ -1,16 +1,18 @@
package eu.dnetlib.scholexplorer.relation;
import com.fasterxml.jackson.databind.ObjectMapper;
import java.io.Serializable;
import java.util.HashMap;
import org.apache.commons.io.IOUtils;
import com.fasterxml.jackson.databind.ObjectMapper;
public class RelationMapper extends HashMap<String, RelInfo> implements Serializable {
public static RelationMapper load() throws Exception {
final String json =
IOUtils.toString(RelationMapper.class.getResourceAsStream("relations.json"));
final String json = IOUtils.toString(RelationMapper.class.getResourceAsStream("relations.json"));
ObjectMapper mapper = new ObjectMapper();
return mapper.readValue(json, RelationMapper.class);

11
dhp-common/src/test/java/eu/dnetlib/dhp/application/ArgumentApplicationParserTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.application;
import static org.junit.jupiter.api.Assertions.assertEquals;
@ -10,13 +11,13 @@ public class ArgumentApplicationParserTest {
@Test
public void testParseParameter() throws Exception {
final String jsonConfiguration =
IOUtils.toString(
this.getClass()
.getResourceAsStream("/eu/dnetlib/application/parameters.json"));
final String jsonConfiguration = IOUtils
.toString(
this.getClass().getResourceAsStream("/eu/dnetlib/application/parameters.json"));
assertNotNull(jsonConfiguration);
ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
parser.parseArgument(
parser
.parseArgument(
new String[] {
"-p",
"value0",

13
dhp-common/src/test/java/eu/dnetlib/dhp/common/HdfsSupportTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.common;
import static org.junit.jupiter.api.Assertions.*;
@ -8,6 +9,7 @@ import java.nio.file.Path;
import java.util.Arrays;
import java.util.List;
import java.util.stream.Collectors;
import org.apache.hadoop.conf.Configuration;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
@ -21,8 +23,7 @@ public class HdfsSupportTest {
@Test
public void shouldThrowARuntimeExceptionOnError() {
// when
assertThrows(
RuntimeException.class, () -> HdfsSupport.remove(null, new Configuration()));
assertThrows(RuntimeException.class, () -> HdfsSupport.remove(null, new Configuration()));
}
@Test
@ -53,8 +54,7 @@ public class HdfsSupportTest {
@Test
public void shouldThrowARuntimeExceptionOnError() {
// when
assertThrows(
RuntimeException.class, () -> HdfsSupport.listFiles(null, new Configuration()));
assertThrows(RuntimeException.class, () -> HdfsSupport.listFiles(null, new Configuration()));
}
@Test
@ -67,8 +67,9 @@ public class HdfsSupportTest {
// then
assertEquals(2, paths.size());
List<String> expecteds =
Arrays.stream(new String[] {subDir1.toString(), subDir2.toString()})
List<String> expecteds = Arrays.stream(new String[] {
subDir1.toString(), subDir2.toString()
})
.sorted()
.collect(Collectors.toList());
List<String> actuals = paths.stream().sorted().collect(Collectors.toList());

5
dhp-common/src/test/java/eu/dnetlib/dhp/common/SparkSessionSupportTest.java
View File

@ -1,14 +1,17 @@
package eu.dnetlib.dhp.common;
import static org.mockito.Mockito.*;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
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 eu.dnetlib.dhp.common.FunctionalInterfaceSupport.ThrowingConsumer;
public class SparkSessionSupportTest {
@Nested

1
dhp-common/src/test/java/eu/dnetlib/dhp/model/mdstore/MetadataRecordTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.model.mdstore;
import static org.junit.jupiter.api.Assertions.assertTrue;

9
dhp-common/src/test/java/eu/dnetlib/message/MessageTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.message;
import static org.junit.jupiter.api.Assertions.*;
@ -5,6 +6,7 @@ import static org.junit.jupiter.api.Assertions.*;
import java.io.IOException;
import java.util.HashMap;
import java.util.Map;
import org.junit.jupiter.api.Test;
public class MessageTest {
@ -27,16 +29,13 @@ public class MessageTest {
assertEquals(m1.getJobName(), m.getJobName());
assertNotNull(m1.getBody());
m1.getBody()
.keySet()
.forEach(it -> assertEquals(m1.getBody().get(it), m.getBody().get(it)));
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\"}}";
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);

1
dhp-common/src/test/java/eu/dnetlib/scholexplorer/relation/RelationMapperTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.scholexplorer.relation;
import org.junit.jupiter.api.Test;

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>

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/action/AtomicAction.java
View File

@ -1,9 +1,12 @@
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 {
@ -11,7 +14,8 @@ public class AtomicAction<T extends Oaf> implements Serializable {
private T payload;
public AtomicAction() {}
public AtomicAction() {
}
public AtomicAction(Class<T> clazz, T payload) {
this.clazz = clazz;

7
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/action/AtomicActionDeserializer.java
View File

@ -1,19 +1,22 @@
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;
public class AtomicActionDeserializer extends JsonDeserializer {
@Override
public Object deserialize(JsonParser jp, DeserializationContext ctxt)
throws IOException, JsonProcessingException {
throws IOException {
JsonNode node = jp.getCodec().readTree(jp);
String classTag = node.get("clazz").asText();
JsonNode payload = node.get("payload");

9
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/common/EntityType.java
View File

@ -1,16 +1,11 @@
package eu.dnetlib.dhp.schema.common;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
/** 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

6
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 */
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);
}
}

70
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/common/ModelSupport.java
View File

@ -1,14 +1,19 @@
package eu.dnetlib.dhp.schema.common;
import com.google.common.collect.Maps;
import eu.dnetlib.dhp.schema.oaf.*;
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.*;
/** 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();
private static final Map<EntityType, MainEntityType> entityMapping = Maps.newHashMap();
static {
entityMapping.put(EntityType.publication, MainEntityType.result);
@ -21,8 +26,7 @@ public class ModelSupport {
}
/**
* Defines the mapping between the actual entity types and the relative classes implementing
* them
* Defines the mapping between the actual entity types and the relative classes implementing them
*/
public static final Map<EntityType, Class> entityTypes = Maps.newHashMap();
@ -51,7 +55,8 @@ public class ModelSupport {
private static final String schemeTemplate = "dnet:%s_%s_relations";
private ModelSupport() {}
private ModelSupport() {
}
/**
* Checks subclass-superclass relationship.
@ -141,9 +146,60 @@ public class ModelSupport {
}
public static String getScheme(final String sourceType, final String targetType) {
return String.format(
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();
}
}

7
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;
@ -68,8 +69,10 @@ public class Author implements Serializable {
@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;
Author author = (Author) o;
return Objects.equals(fullname, author.fullname)
&& Objects.equals(name, author.name)

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Context.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -31,9 +32,12 @@ public class Context implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Context other = (Context) obj;

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Country.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.util.Objects;
@ -16,9 +17,12 @@ public class Country extends Qualifier {
@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;
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);
}

17
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/DataInfo.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -62,8 +63,10 @@ public class DataInfo implements Serializable {
@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;
DataInfo dataInfo = (DataInfo) o;
return Objects.equals(invisible, dataInfo.invisible)
&& Objects.equals(inferred, dataInfo.inferred)
@ -75,12 +78,8 @@ public class DataInfo implements Serializable {
@Override
public int hashCode() {
return Objects.hash(
invisible,
inferred,
deletedbyinference,
trust,
inferenceprovenance,
provenanceaction);
return Objects
.hash(
invisible, inferred, deletedbyinference, trust, inferenceprovenance, provenanceaction);
}
}

47
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Dataset.java
View File

@ -1,8 +1,10 @@
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 {
@ -20,6 +22,10 @@ public class Dataset extends Result implements Serializable {
private List<GeoLocation> geolocation;
public Dataset() {
setResulttype(ModelConstants.DATASET_DEFAULT_RESULTTYPE);
}
public Field<String> getStoragedate() {
return storagedate;
}
@ -86,10 +92,7 @@ public class Dataset extends Result implements Serializable {
final Dataset d = (Dataset) e;
storagedate =
d.getStoragedate() != null && compareTrust(this, e) < 0
? d.getStoragedate()
: storagedate;
storagedate = d.getStoragedate() != null && compareTrust(this, e) < 0 ? d.getStoragedate() : storagedate;
device = d.getDevice() != null && compareTrust(this, e) < 0 ? d.getDevice() : device;
@ -97,13 +100,11 @@ public class Dataset extends Result implements Serializable {
version = d.getVersion() != null && compareTrust(this, e) < 0 ? d.getVersion() : version;
lastmetadataupdate =
d.getLastmetadataupdate() != null && compareTrust(this, e) < 0
lastmetadataupdate = d.getLastmetadataupdate() != null && compareTrust(this, e) < 0
? d.getLastmetadataupdate()
: lastmetadataupdate;
metadataversionnumber =
d.getMetadataversionnumber() != null && compareTrust(this, e) < 0
metadataversionnumber = d.getMetadataversionnumber() != null && compareTrust(this, e) < 0
? d.getMetadataversionnumber()
: metadataversionnumber;
@ -111,32 +112,4 @@ public class Dataset extends Result implements Serializable {
mergeOAFDataInfo(d);
}
@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);
}
}

187
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Datasource.java
View File

@ -1,8 +1,8 @@
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 {
@ -373,136 +373,93 @@ public class Datasource extends OafEntity implements Serializable {
Datasource d = (Datasource) e;
datasourcetype =
d.getDatasourcetype() != null && compareTrust(this, e) < 0
datasourcetype = d.getDatasourcetype() != null && compareTrust(this, e) < 0
? d.getDatasourcetype()
: datasourcetype;
openairecompatibility =
d.getOpenairecompatibility() != null && compareTrust(this, e) < 0
openairecompatibility = d.getOpenairecompatibility() != null && compareTrust(this, e) < 0
? d.getOpenairecompatibility()
: openairecompatibility;
officialname =
d.getOfficialname() != null && compareTrust(this, e) < 0
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
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
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
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;
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
odnumberofitems = d.getOdnumberofitems() != null && compareTrust(this, e) < 0
? d.getOdnumberofitems()
: odnumberofitems;
odnumberofitemsdate =
d.getOdnumberofitemsdate() != null && compareTrust(this, e) < 0
odnumberofitemsdate = d.getOdnumberofitemsdate() != null && compareTrust(this, e) < 0
? d.getOdnumberofitemsdate()
: odnumberofitemsdate;
odpolicies =
d.getOdpolicies() != null && compareTrust(this, e) < 0
? d.getOdpolicies()
: odpolicies;
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
releasestartdate = d.getReleasestartdate() != null && compareTrust(this, e) < 0
? d.getReleasestartdate()
: releasestartdate;
releaseenddate =
d.getReleaseenddate() != null && compareTrust(this, e) < 0
releaseenddate = d.getReleaseenddate() != null && compareTrust(this, e) < 0
? d.getReleaseenddate()
: releaseenddate;
missionstatementurl =
d.getMissionstatementurl() != null && compareTrust(this, e) < 0
missionstatementurl = d.getMissionstatementurl() != null && compareTrust(this, e) < 0
? d.getMissionstatementurl()
: missionstatementurl;
dataprovider =
d.getDataprovider() != null && compareTrust(this, e) < 0
dataprovider = d.getDataprovider() != null && compareTrust(this, e) < 0
? d.getDataprovider()
: dataprovider;
serviceprovider =
d.getServiceprovider() != null && compareTrust(this, e) < 0
serviceprovider = d.getServiceprovider() != null && compareTrust(this, e) < 0
? d.getServiceprovider()
: serviceprovider;
// {open, restricted or closed}
databaseaccesstype =
d.getDatabaseaccesstype() != null && compareTrust(this, e) < 0
databaseaccesstype = d.getDatabaseaccesstype() != null && compareTrust(this, e) < 0
? d.getDatabaseaccesstype()
: databaseaccesstype;
// {open, restricted or closed}
datauploadtype =
d.getDatauploadtype() != null && compareTrust(this, e) < 0
datauploadtype = d.getDatauploadtype() != null && compareTrust(this, e) < 0
? d.getDatauploadtype()
: datauploadtype;
// {feeRequired, registration, other}
databaseaccessrestriction =
d.getDatabaseaccessrestriction() != null && compareTrust(this, e) < 0
databaseaccessrestriction = d.getDatabaseaccessrestriction() != null && compareTrust(this, e) < 0
? d.getDatabaseaccessrestriction()
: databaseaccessrestriction;
// {feeRequired, registration, other}
datauploadrestriction =
d.getDatauploadrestriction() != null && compareTrust(this, e) < 0
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
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
qualitymanagementkind = d.getQualitymanagementkind() != null && compareTrust(this, e) < 0
? d.getQualitymanagementkind()
: qualitymanagementkind;
pidsystems =
d.getPidsystems() != null && compareTrust(this, e) < 0
? d.getPidsystems()
: pidsystems;
pidsystems = d.getPidsystems() != null && compareTrust(this, e) < 0 ? d.getPidsystems() : pidsystems;
certificates =
d.getCertificates() != null && compareTrust(this, e) < 0
certificates = d.getCertificates() != null && compareTrust(this, e) < 0
? d.getCertificates()
: certificates;
@ -512,88 +469,4 @@ public class Datasource extends OafEntity implements Serializable {
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);
}
}

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/ExternalReference.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -94,8 +95,10 @@ public class ExternalReference implements Serializable {
@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;
ExternalReference that = (ExternalReference) o;
return Objects.equals(sitename, that.sitename)
&& Objects.equals(label, that.label)
@ -109,7 +112,8 @@ public class ExternalReference implements Serializable {
@Override
public int hashCode() {
return Objects.hash(
return Objects
.hash(
sitename, label, url, description, qualifier, refidentifier, query, dataInfo);
}
}

7
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/ExtraInfo.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -57,8 +58,10 @@ public class ExtraInfo implements Serializable {
@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;
ExtraInfo extraInfo = (ExtraInfo) o;
return Objects.equals(name, extraInfo.name)
&& Objects.equals(typology, extraInfo.typology)

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Field.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -31,9 +32,12 @@ public class Field<T> implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
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());
}

17
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/GeoLocation.java
View File

@ -1,9 +1,12 @@
package eu.dnetlib.dhp.schema.oaf;
import com.fasterxml.jackson.annotation.JsonIgnore;
import java.io.Serializable;
import org.apache.commons.lang3.StringUtils;
import com.fasterxml.jackson.annotation.JsonIgnore;
public class GeoLocation implements Serializable {
private String point;
@ -44,7 +47,8 @@ public class GeoLocation implements Serializable {
public String toComparableString() {
return isBlank()
? ""
: String.format(
: String
.format(
"%s::%s%s",
point != null ? point.toLowerCase() : "",
box != null ? box.toLowerCase() : "",
@ -58,9 +62,12 @@ public class GeoLocation implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
GeoLocation other = (GeoLocation) obj;

25
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;
@ -121,17 +122,12 @@ public class Instance implements Serializable {
}
public String toComparableString() {
return String.format(
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()
: "",
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 : "");
}
@ -142,9 +138,12 @@ public class Instance implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Instance other = (Instance) obj;

10
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;
@ -127,8 +128,10 @@ public class Journal implements Serializable {
@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;
Journal journal = (Journal) o;
return Objects.equals(name, journal.name)
&& Objects.equals(issnPrinted, journal.issnPrinted)
@ -146,7 +149,8 @@ public class Journal implements Serializable {
@Override
public int hashCode() {
return Objects.hash(
return Objects
.hash(
name,
issnPrinted,
issnOnline,

20
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/KeyValue.java
View File

@ -1,9 +1,12 @@
package eu.dnetlib.dhp.schema.oaf;
import com.fasterxml.jackson.annotation.JsonIgnore;
import java.io.Serializable;
import org.apache.commons.lang3.StringUtils;
import com.fasterxml.jackson.annotation.JsonIgnore;
public class KeyValue implements Serializable {
private String key;
@ -39,10 +42,10 @@ public class KeyValue implements Serializable {
public String toComparableString() {
return isBlank()
? ""
: String.format(
: String
.format(
"%s::%s",
key != null ? key.toLowerCase() : "",
value != null ? value.toLowerCase() : "");
key != null ? key.toLowerCase() : "", value != null ? value.toLowerCase() : "");
}
@JsonIgnore
@ -57,9 +60,12 @@ public class KeyValue implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
KeyValue other = (KeyValue) obj;

7
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OAIProvenance.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -17,8 +18,10 @@ public class OAIProvenance implements Serializable {
@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;
OAIProvenance that = (OAIProvenance) o;
return Objects.equals(originDescription, that.originDescription);
}

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Oaf.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -37,7 +38,8 @@ public abstract class Oaf implements Serializable {
}
public void mergeOAFDataInfo(Oaf e) {
if (e.getDataInfo() != null && compareTrust(this, e) < 0) dataInfo = e.getDataInfo();
if (e.getDataInfo() != null && compareTrust(this, e) < 0)
dataInfo = e.getDataInfo();
}
protected String extractTrust(Oaf e) {
@ -52,8 +54,10 @@ public abstract class Oaf implements Serializable {
@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;
Oaf oaf = (Oaf) o;
return Objects.equals(dataInfo, oaf.dataInfo)
&& Objects.equals(lastupdatetimestamp, oaf.lastupdatetimestamp);

36
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;
@ -78,7 +79,8 @@ public abstract class OafEntity extends Oaf implements Serializable {
public void mergeFrom(OafEntity e) {
if (e == null) return;
if (e == null)
return;
originalId = mergeLists(originalId, e.getOriginalId());
@ -100,7 +102,8 @@ public abstract class OafEntity extends Oaf implements Serializable {
protected <T> List<T> mergeLists(final List<T>... lists) {
return Arrays.stream(lists)
return Arrays
.stream(lists)
.filter(Objects::nonNull)
.flatMap(List::stream)
.distinct()
@ -109,31 +112,18 @@ public abstract class OafEntity extends Oaf implements Serializable {
@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;
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);
return Objects.equals(id, oafEntity.id);
}
@Override
public int hashCode() {
return Objects.hash(
super.hashCode(),
id,
originalId,
collectedfrom,
pid,
dateofcollection,
dateoftransformation,
extraInfo,
oaiprovenance);
return Objects.hash(super.hashCode(), id);
}
}

100
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Organization.java
View File

@ -1,8 +1,8 @@
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 {
@ -176,109 +176,39 @@ public class Organization extends OafEntity implements Serializable {
}
final Organization o = (Organization) e;
legalshortname =
o.getLegalshortname() != null && compareTrust(this, e) < 0
legalshortname = o.getLegalshortname() != null && compareTrust(this, e) < 0
? o.getLegalshortname()
: legalshortname;
legalname =
o.getLegalname() != null && compareTrust(this, e) < 0
? o.getLegalname()
: legalname;
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;
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
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
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
echighereducation = o.getEchighereducation() != null && compareTrust(this, e) < 0
? o.getEchighereducation()
: echighereducation;
ecinternationalorganizationeurinterests =
o.getEcinternationalorganizationeurinterests() != null && compareTrust(this, e) < 0
ecinternationalorganizationeurinterests = o.getEcinternationalorganizationeurinterests() != null
&& compareTrust(this, e) < 0
? o.getEcinternationalorganizationeurinterests()
: ecinternationalorganizationeurinterests;
ecinternationalorganization =
o.getEcinternationalorganization() != null && compareTrust(this, e) < 0
ecinternationalorganization = o.getEcinternationalorganization() != null && compareTrust(this, e) < 0
? o.getEcinternationalorganization()
: ecinternationalorganization;
ecenterprise =
o.getEcenterprise() != null && compareTrust(this, e) < 0
ecenterprise = o.getEcenterprise() != null && compareTrust(this, e) < 0
? o.getEcenterprise()
: ecenterprise;
ecsmevalidated =
o.getEcsmevalidated() != null && compareTrust(this, e) < 0
ecsmevalidated = o.getEcsmevalidated() != null && compareTrust(this, e) < 0
? o.getEcsmevalidated()
: ecsmevalidated;
ecnutscode =
o.getEcnutscode() != null && compareTrust(this, e) < 0
? o.getEcnutscode()
: ecnutscode;
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);
}
}

10
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;
@ -67,8 +68,10 @@ public class OriginDescription implements Serializable {
@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;
OriginDescription that = (OriginDescription) o;
return Objects.equals(harvestDate, that.harvestDate)
&& Objects.equals(altered, that.altered)
@ -80,7 +83,6 @@ public class OriginDescription implements Serializable {
@Override
public int hashCode() {
return Objects.hash(
harvestDate, altered, baseURL, identifier, datestamp, metadataNamespace);
return Objects.hash(harvestDate, altered, baseURL, identifier, datestamp, metadataNamespace);
}
}

24
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/OtherResearchProduct.java
View File

@ -1,8 +1,10 @@
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 {
@ -12,6 +14,10 @@ public class OtherResearchProduct extends Result implements Serializable {
private List<Field<String>> tool;
public OtherResearchProduct() {
setResulttype(ModelConstants.ORP_DEFAULT_RESULTTYPE);
}
public List<Field<String>> getContactperson() {
return contactperson;
}
@ -51,20 +57,4 @@ public class OtherResearchProduct extends Result implements Serializable {
tool = mergeLists(tool, o.getTool());
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;
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);
}
}

134
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Project.java
View File

@ -1,8 +1,8 @@
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 {
@ -276,146 +276,50 @@ public class Project extends OafEntity implements Serializable {
Project p = (Project) e;
websiteurl =
p.getWebsiteurl() != null && compareTrust(this, e) < 0
? p.getWebsiteurl()
: websiteurl;
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;
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
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;
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
oamandatepublications = p.getOamandatepublications() != null && compareTrust(this, e) < 0
? p.getOamandatepublications()
: oamandatepublications;
ecarticle29_3 =
p.getEcarticle29_3() != null && compareTrust(this, e) < 0
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
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
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
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
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
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
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);
}
}

25
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Publication.java
View File

@ -1,13 +1,19 @@
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;
public Publication() {
setResulttype(ModelConstants.PUBLICATION_DEFAULT_RESULTTYPE);
}
public Journal getJournal() {
return journal;
}
@ -26,21 +32,8 @@ public class Publication extends Result implements Serializable {
Publication p = (Publication) e;
if (p.getJournal() != null && compareTrust(this, e) < 0) journal = p.getJournal();
if (p.getJournal() != null && compareTrust(this, e) < 0)
journal = p.getJournal();
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;
Publication that = (Publication) o;
return Objects.equals(journal, that.journal);
}
@Override
public int hashCode() {
return Objects.hash(super.hashCode(), journal);
}
}

17
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Qualifier.java
View File

@ -1,9 +1,12 @@
package eu.dnetlib.dhp.schema.oaf;
import com.fasterxml.jackson.annotation.JsonIgnore;
import java.io.Serializable;
import org.apache.commons.lang3.StringUtils;
import com.fasterxml.jackson.annotation.JsonIgnore;
public class Qualifier implements Serializable {
private String classid;
@ -46,7 +49,8 @@ public class Qualifier implements Serializable {
public String toComparableString() {
return isBlank()
? ""
: String.format(
: String
.format(
"%s::%s::%s::%s",
classid != null ? classid : "",
classname != null ? classname : "",
@ -69,9 +73,12 @@ public class Qualifier implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
Qualifier other = (Qualifier) obj;

16
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Relation.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import static com.google.common.base.Preconditions.checkArgument;
@ -68,11 +69,14 @@ public class Relation extends Oaf {
checkArgument(Objects.equals(getRelClass(), r.getRelClass()), "relClass(es) must be equal");
setCollectedfrom(
Stream.concat(
Optional.ofNullable(getCollectedfrom())
Stream
.concat(
Optional
.ofNullable(getCollectedfrom())
.map(Collection::stream)
.orElse(Stream.empty()),
Optional.ofNullable(r.getCollectedfrom())
Optional
.ofNullable(r.getCollectedfrom())
.map(Collection::stream)
.orElse(Stream.empty()))
.distinct() // relies on KeyValue.equals
@ -81,8 +85,10 @@ public class Relation extends Oaf {
@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)

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

@ -1,9 +1,9 @@
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 {
@ -231,9 +231,14 @@ public class Result extends OafEntity implements Serializable {
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();
if (r.getLanguage() != null && compareTrust(this, r) < 0)
language = r.getLanguage();
country = mergeLists(country, r.getCountry());
@ -245,7 +250,8 @@ public class Result extends OafEntity implements Serializable {
description = longestLists(description, r.getDescription());
if (r.getPublisher() != null && compareTrust(this, r) < 0) publisher = r.getPublisher();
if (r.getPublisher() != null && compareTrust(this, r) < 0)
publisher = r.getPublisher();
if (r.getEmbargoenddate() != null && compareTrust(this, r) < 0)
embargoenddate = r.getEmbargoenddate();
@ -258,7 +264,8 @@ public class Result extends OafEntity implements Serializable {
contributor = mergeLists(contributor, r.getContributor());
if (r.getResourcetype() != null) resourcetype = r.getResourcetype();
if (r.getResourcetype() != null)
resourcetype = r.getResourcetype();
coverage = mergeLists(coverage, r.getCoverage());
@ -268,16 +275,17 @@ public class Result extends OafEntity implements Serializable {
}
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 == null || b == null)
return a == null ? b : a;
if (a.size() == b.size()) {
int msa =
a.stream()
int msa = a
.stream()
.filter(i -> i.getValue() != null)
.map(i -> i.getValue().length())
.max(Comparator.naturalOrder())
.orElse(0);
int msb =
b.stream()
int msb = b
.stream()
.filter(i -> i.getValue() != null)
.map(i -> i.getValue().length())
.max(Comparator.naturalOrder())
@ -286,60 +294,4 @@ public class Result extends OafEntity implements Serializable {
}
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);
}
}

36
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/Software.java
View File

@ -1,8 +1,10 @@
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 {
@ -14,6 +16,10 @@ public class Software extends Result implements Serializable {
private Qualifier programmingLanguage;
public Software() {
setResulttype(ModelConstants.SOFTWARE_DEFAULT_RESULTTYPE);
}
public List<Field<String>> getDocumentationUrl() {
return documentationUrl;
}
@ -59,38 +65,14 @@ public class Software extends Result implements Serializable {
license = mergeLists(license, s.getLicense());
codeRepositoryUrl =
s.getCodeRepositoryUrl() != null && compareTrust(this, s) < 0
codeRepositoryUrl = s.getCodeRepositoryUrl() != null && compareTrust(this, s) < 0
? s.getCodeRepositoryUrl()
: codeRepositoryUrl;
programmingLanguage =
s.getProgrammingLanguage() != null && compareTrust(this, s) < 0
programmingLanguage = s.getProgrammingLanguage() != null && compareTrust(this, s) < 0
? s.getProgrammingLanguage()
: programmingLanguage;
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;
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);
}
}

10
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/oaf/StructuredProperty.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.oaf;
import java.io.Serializable;
@ -45,9 +46,12 @@ public class StructuredProperty implements Serializable {
@Override
public boolean equals(Object obj) {
if (this == obj) return true;
if (obj == null) return false;
if (getClass() != obj.getClass()) return false;
if (this == obj)
return true;
if (obj == null)
return false;
if (getClass() != obj.getClass())
return false;
StructuredProperty other = (StructuredProperty) obj;

32
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIDataset.java
View File

@ -1,13 +1,16 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.Dataset;
import eu.dnetlib.dhp.schema.oaf.OafEntity;
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;
@ -46,7 +49,8 @@ public class DLIDataset extends Dataset {
DLIDataset p = (DLIDataset) e;
if (StringUtils.isBlank(completionStatus) && StringUtils.isNotBlank(p.completionStatus))
completionStatus = p.completionStatus;
if ("complete".equalsIgnoreCase(p.completionStatus)) completionStatus = "complete";
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
@ -54,14 +58,11 @@ public class DLIDataset extends Dataset {
final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a.forEach(
a
.forEach(
p -> {
if (p != null
&& StringUtils.isNotBlank(p.getId())
&& result.containsKey(p.getId())) {
if ("incomplete"
.equalsIgnoreCase(
result.get(p.getId()).getCompletionStatus())
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);
}
@ -70,14 +71,11 @@ public class DLIDataset extends Dataset {
result.put(p.getId(), p);
});
if (b != null)
b.forEach(
b
.forEach(
p -> {
if (p != null
&& StringUtils.isNotBlank(p.getId())
&& result.containsKey(p.getId())) {
if ("incomplete"
.equalsIgnoreCase(
result.get(p.getId()).getCompletionStatus())
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);
}

34
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIPublication.java
View File

@ -1,10 +1,13 @@
package eu.dnetlib.dhp.schema.scholexplorer;
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;
import java.io.Serializable;
import java.util.*;
import org.apache.commons.lang3.StringUtils;
public class DLIPublication extends Publication implements Serializable {
@ -44,7 +47,8 @@ public class DLIPublication extends Publication implements Serializable {
DLIPublication p = (DLIPublication) e;
if (StringUtils.isBlank(completionStatus) && StringUtils.isNotBlank(p.completionStatus))
completionStatus = p.completionStatus;
if ("complete".equalsIgnoreCase(p.completionStatus)) completionStatus = "complete";
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
@ -52,14 +56,11 @@ public class DLIPublication extends Publication implements Serializable {
final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a.forEach(
a
.forEach(
p -> {
if (p != null
&& StringUtils.isNotBlank(p.getId())
&& result.containsKey(p.getId())) {
if ("incomplete"
.equalsIgnoreCase(
result.get(p.getId()).getCompletionStatus())
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);
}
@ -68,14 +69,11 @@ public class DLIPublication extends Publication implements Serializable {
result.put(p.getId(), p);
});
if (b != null)
b.forEach(
b
.forEach(
p -> {
if (p != null
&& StringUtils.isNotBlank(p.getId())
&& result.containsKey(p.getId())) {
if ("incomplete"
.equalsIgnoreCase(
result.get(p.getId()).getCompletionStatus())
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);
}

1
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIRelation.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.Relation;

32
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/DLIUnknown.java
View File

@ -1,14 +1,17 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
import java.io.Serializable;
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.Oaf;
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
public class DLIUnknown extends Oaf implements Serializable {
private String id;
@ -72,7 +75,8 @@ public class DLIUnknown extends Oaf implements Serializable {
}
public void mergeFrom(DLIUnknown p) {
if ("complete".equalsIgnoreCase(p.completionStatus)) completionStatus = "complete";
if ("complete".equalsIgnoreCase(p.completionStatus))
completionStatus = "complete";
dlicollectedfrom = mergeProvenance(dlicollectedfrom, p.getDlicollectedfrom());
}
@ -80,14 +84,11 @@ public class DLIUnknown extends Oaf implements Serializable {
final List<ProvenaceInfo> a, final List<ProvenaceInfo> b) {
Map<String, ProvenaceInfo> result = new HashMap<>();
if (a != null)
a.forEach(
a
.forEach(
p -> {
if (p != null
&& StringUtils.isNotBlank(p.getId())
&& result.containsKey(p.getId())) {
if ("incomplete"
.equalsIgnoreCase(
result.get(p.getId()).getCompletionStatus())
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);
}
@ -96,14 +97,11 @@ public class DLIUnknown extends Oaf implements Serializable {
result.put(p.getId(), p);
});
if (b != null)
b.forEach(
b
.forEach(
p -> {
if (p != null
&& StringUtils.isNotBlank(p.getId())
&& result.containsKey(p.getId())) {
if ("incomplete"
.equalsIgnoreCase(
result.get(p.getId()).getCompletionStatus())
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);
}

1
dhp-schemas/src/main/java/eu/dnetlib/dhp/schema/scholexplorer/ProvenaceInfo.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.schema.scholexplorer;
import java.io.Serializable;

8
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/action/AtomicActionTest.java
View File

@ -1,13 +1,17 @@
package eu.dnetlib.dhp.schema.action;
import static org.junit.jupiter.api.Assertions.*;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.schema.oaf.Relation;
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 {

6
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/common/ModelSupportTest.java
View File

@ -1,13 +1,15 @@
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;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
public class ModelSupportTest {

2
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/oaf/MergeTest.java
View File

@ -1,9 +1,11 @@
package eu.dnetlib.dhp.schema.oaf;
import static org.junit.jupiter.api.Assertions.*;
import java.util.Arrays;
import java.util.List;
import org.junit.jupiter.api.BeforeEach;
import org.junit.jupiter.api.Test;

27
dhp-schemas/src/test/java/eu/dnetlib/dhp/schema/scholexplorer/DLItest.java
View File

@ -1,15 +1,19 @@
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;
import java.io.IOException;
import java.util.Arrays;
import java.util.Collections;
import org.junit.jupiter.api.Test;
public class DLItest {
@ -22,13 +26,17 @@ public class DLItest {
a1.setCompletionStatus("complete");
DLIPublication a = new DLIPublication();
a.setPid(
Arrays.asList(
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(
a
.setDlicollectedfrom(
Arrays
.asList(
createCollectedFrom("dct", "datacite", "complete"),
createCollectedFrom("dct", "datacite", "incomplete")));
a.setCompletionStatus("incomplete");
@ -42,8 +50,7 @@ public class DLItest {
@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\"}";
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);

53
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/ISClient.java
View File

@ -1,8 +1,23 @@
package eu.dnetlib.dhp.actionmanager;
import java.io.Serializable;
import java.io.StringReader;
import java.util.ArrayList;
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;
@ -10,26 +25,14 @@ import eu.dnetlib.dhp.actionmanager.partition.PartitionActionSetsByPayloadTypeJo
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
import java.io.Serializable;
import java.io.StringReader;
import java.util.ArrayList;
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;
public class ISClient implements Serializable {
private static final Logger log =
LoggerFactory.getLogger(PartitionActionSetsByPayloadTypeJob.class);
private static final Logger log = LoggerFactory.getLogger(PartitionActionSetsByPayloadTypeJob.class);
private static final String INPUT_ACTION_SET_ID_SEPARATOR = ",";
private ISLookUpService isLookup;
private final ISLookUpService isLookup;
public ISClient(String isLookupUrl) {
isLookup = ISLookupClientFactory.getLookUpService(isLookupUrl);
@ -37,14 +40,16 @@ public class ISClient implements Serializable {
public List<String> getLatestRawsetPaths(String setIds) {
List<String> ids =
Lists.newArrayList(
Splitter.on(INPUT_ACTION_SET_ID_SEPARATOR)
List<String> ids = Lists
.newArrayList(
Splitter
.on(INPUT_ACTION_SET_ID_SEPARATOR)
.omitEmptyStrings()
.trimResults()
.split(setIds));
return ids.stream()
return ids
.stream()
.map(id -> getSet(isLookup, id))
.map(as -> as.getPathToLatest())
.collect(Collectors.toCollection(ArrayList::new));
@ -52,8 +57,7 @@ public class ISClient implements Serializable {
private ActionManagerSet getSet(ISLookUpService isLookup, final String setId) {
final String q =
"for $x in collection('/db/DRIVER/ActionManagerSetDSResources/ActionManagerSetDSResourceType') "
final String q = "for $x in collection('/db/DRIVER/ActionManagerSetDSResources/ActionManagerSetDSResourceType') "
+ "where $x//SET/@id = '"
+ setId
+ "' return $x";
@ -78,7 +82,8 @@ 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(
set
.setLatest(
doc.valueOf("//RAW_SETS/LATEST/@id"),
doc.valueOf("//RAW_SETS/LATEST/@creationDate"),
doc.valueOf("//RAW_SETS/LATEST/@lastUpdate"));
@ -87,7 +92,8 @@ public class ISClient implements Serializable {
if (expiredNodes != null) {
for (int i = 0; i < expiredNodes.size(); i++) {
Element ex = (Element) expiredNodes.get(i);
set.addExpired(
set
.addExpired(
ex.attributeValue("id"),
ex.attributeValue("creationDate"),
ex.attributeValue("lastUpdate"));
@ -114,8 +120,7 @@ public class ISClient implements Serializable {
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='"
final String q = "for $x in /RESOURCE_PROFILE[.//RESOURCE_TYPE/@value='ActionManagerServiceResourceType'] return $x//SERVICE_PROPERTIES/PROPERTY[./@ key='"
+ propertyName
+ "']/@value/string()";
log.debug("quering for service property: " + q);

64
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/LicenseComparator.java
View File

@ -1,45 +1,67 @@
package eu.dnetlib.dhp.actionmanager.migration;
import eu.dnetlib.data.proto.FieldTypeProtos.Qualifier;
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;
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(rClass))
return 0;
if (lClass.equals("OPEN SOURCE")) return -1;
if (rClass.equals("OPEN SOURCE")) return 1;
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("OPEN"))
return -1;
if (rClass.equals("OPEN"))
return 1;
if (lClass.equals("6MONTHS")) return -1;
if (rClass.equals("6MONTHS")) 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("12MONTHS"))
return -1;
if (rClass.equals("12MONTHS"))
return 1;
if (lClass.equals("EMBARGO")) return -1;
if (rClass.equals("EMBARGO")) 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("RESTRICTED"))
return -1;
if (rClass.equals("RESTRICTED"))
return 1;
if (lClass.equals("CLOSED")) return -1;
if (rClass.equals("CLOSED")) 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;
if (lClass.equals("UNKNOWN"))
return -1;
if (rClass.equals("UNKNOWN"))
return 1;
// Else (but unlikely), lexicographical ordering will do.
return lClass.compareTo(rClass);

71
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/MigrateActionSet.java
View File

@ -1,11 +1,6 @@
package eu.dnetlib.dhp.actionmanager.migration;
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;
import java.io.File;
import java.io.FileOutputStream;
import java.io.OutputStream;
@ -14,6 +9,7 @@ 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;
@ -25,6 +21,14 @@ 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);
@ -34,10 +38,11 @@ public class MigrateActionSet {
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(
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
IOUtils
.toString(
MigrateActionSet.class
.getResourceAsStream(
"/eu/dnetlib/dhp/actionmanager/migration/migrate_actionsets_parameters.json")));
parser.parseArgument(args);
@ -65,12 +70,10 @@ public class MigrateActionSet {
ISLookUpService isLookUp = ISLookupClientFactory.getLookUpService(isLookupUrl);
Configuration conf =
getConfiguration(distcp_task_timeout, distcp_memory_mb, distcp_num_maps);
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);
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);
@ -79,7 +82,8 @@ public class MigrateActionSet {
List<Path> targetPaths = new ArrayList<>();
final List<Path> sourcePaths = getSourcePaths(sourceNN, isLookUp);
log.info(
log
.info(
"paths to process:\n{}",
sourcePaths.stream().map(p -> p.toString()).collect(Collectors.joining("\n")));
for (Path source : sourcePaths) {
@ -88,8 +92,7 @@ public class MigrateActionSet {
log.warn("skipping unexisting path: {}", source);
} else {
LinkedList<String> pathQ =
Lists.newLinkedList(Splitter.on(SEPARATOR).split(source.toUri().getPath()));
LinkedList<String> pathQ = Lists.newLinkedList(Splitter.on(SEPARATOR).split(source.toUri().getPath()));
final String rawSet = pathQ.pollLast();
log.info("got RAWSET: {}", rawSet);
@ -98,14 +101,8 @@ public class MigrateActionSet {
final String actionSetDirectory = pathQ.pollLast();
final Path targetPath =
new Path(
targetNN
+ workDir
+ SEPARATOR
+ actionSetDirectory
+ SEPARATOR
+ rawSet);
final Path targetPath = new Path(
targetNN + workDir + SEPARATOR + actionSetDirectory + SEPARATOR + rawSet);
log.info("using TARGET PATH: {}", targetPath);
@ -114,12 +111,7 @@ public class MigrateActionSet {
targetFS.delete(targetPath, true);
}
runDistcp(
distcp_num_maps,
distcp_memory_mb,
distcp_task_timeout,
conf,
source,
targetPath);
distcp_num_maps, distcp_memory_mb, distcp_task_timeout, conf, source, targetPath);
}
targetPaths.add(targetPath);
@ -127,9 +119,9 @@ public class MigrateActionSet {
}
}
props.setProperty(
TARGET_PATHS,
targetPaths.stream().map(p -> p.toString()).collect(Collectors.joining(",")));
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)) {
@ -153,8 +145,8 @@ public class MigrateActionSet {
op.preserve(DistCpOptions.FileAttribute.REPLICATION);
op.preserve(DistCpOptions.FileAttribute.CHECKSUMTYPE);
int res =
ToolRunner.run(
int res = ToolRunner
.run(
new DistCp(conf, op),
new String[] {
"-Dmapred.task.timeout=" + distcp_task_timeout,
@ -184,8 +176,7 @@ public class MigrateActionSet {
private List<Path> getSourcePaths(String sourceNN, ISLookUpService isLookUp)
throws ISLookUpException {
String XQUERY =
"distinct-values(\n"
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 := $x//SET/@directory/string()\n"
@ -193,7 +184,9 @@ public class MigrateActionSet {
+ "return concat($basePath, '/', $setDir, '/', $rawSet))";
log.info(String.format("running xquery:\n%s", XQUERY));
return isLookUp.quickSearchProfile(XQUERY).stream()
return isLookUp
.quickSearchProfile(XQUERY)
.stream()
.map(p -> sourceNN + p)
.map(Path::new)
.collect(Collectors.toList());

265
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/ProtoConverter.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.actionmanager.migration;
import static eu.dnetlib.data.proto.KindProtos.Kind.entity;
@ -5,16 +6,19 @@ 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 com.google.common.collect.Lists;
import com.googlecode.protobuf.format.JsonFormat;
import eu.dnetlib.data.proto.*;
import eu.dnetlib.dhp.schema.oaf.*;
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";
@ -46,11 +50,10 @@ public class ProtoConverter implements Serializable {
rel.setRelType(r.getRelType().toString());
rel.setSubRelType(r.getSubRelType().toString());
rel.setRelClass(r.getRelClass());
rel.setCollectedfrom(
rel
.setCollectedfrom(
r.getCollectedfromCount() > 0
? r.getCollectedfromList().stream()
.map(kv -> mapKV(kv))
.collect(Collectors.toList())
? r.getCollectedfromList().stream().map(kv -> mapKV(kv)).collect(Collectors.toList())
: null);
return rel;
}
@ -77,9 +80,7 @@ public class ProtoConverter implements Serializable {
final ResultProtos.Result r = oaf.getEntity().getResult();
if (r.getInstanceCount() > 0) {
return r.getInstanceList().stream()
.map(i -> convertInstance(i))
.collect(Collectors.toList());
return r.getInstanceList().stream().map(i -> convertInstance(i)).collect(Collectors.toList());
}
return Lists.newArrayList();
}
@ -101,14 +102,16 @@ public class ProtoConverter implements Serializable {
}
private static Organization convertOrganization(OafProtos.Oaf oaf) {
final OrganizationProtos.Organization.Metadata m =
oaf.getEntity().getOrganization().getMetadata();
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()
org
.setAlternativeNames(
m
.getAlternativeNamesList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
org.setWebsiteurl(mapStringField(m.getWebsiteurl()));
@ -118,7 +121,8 @@ public class ProtoConverter implements Serializable {
org.setEcnonprofit(mapStringField(m.getEcnonprofit()));
org.setEcresearchorganization(mapStringField(m.getEcresearchorganization()));
org.setEchighereducation(mapStringField(m.getEchighereducation()));
org.setEcinternationalorganizationeurinterests(
org
.setEcinternationalorganizationeurinterests(
mapStringField(m.getEcinternationalorganizationeurinterests()));
org.setEcinternationalorganization(mapStringField(m.getEcinternationalorganization()));
org.setEcenterprise(mapStringField(m.getEcenterprise()));
@ -130,12 +134,14 @@ public class ProtoConverter implements Serializable {
}
private static Datasource convertDataSource(OafProtos.Oaf oaf) {
final DatasourceProtos.Datasource.Metadata m =
oaf.getEntity().getDatasource().getMetadata();
final DatasourceProtos.Datasource.Metadata m = oaf.getEntity().getDatasource().getMetadata();
final Datasource datasource = setOaf(new Datasource(), oaf);
setEntity(datasource, oaf);
datasource.setAccessinfopackage(
m.getAccessinfopackageList().stream()
datasource
.setAccessinfopackage(
m
.getAccessinfopackageList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
datasource.setCertificates(mapStringField(m.getCertificates()));
@ -156,12 +162,18 @@ public class ProtoConverter implements Serializable {
datasource.setLogourl(mapStringField(m.getLogourl()));
datasource.setMissionstatementurl(mapStringField(m.getMissionstatementurl()));
datasource.setNamespaceprefix(mapStringField(m.getNamespaceprefix()));
datasource.setOdcontenttypes(
m.getOdcontenttypesList().stream()
datasource
.setOdcontenttypes(
m
.getOdcontenttypesList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
datasource.setOdlanguages(
m.getOdlanguagesList().stream()
datasource
.setOdlanguages(
m
.getOdlanguagesList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
datasource.setOdnumberofitems(mapStringField(m.getOdnumberofitems()));
@ -170,16 +182,18 @@ public class ProtoConverter implements Serializable {
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
.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()
datasource
.setSubjects(
m
.getSubjectsList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
datasource.setVersioning(mapBoolField(m.getVersioning()));
@ -211,16 +225,18 @@ public class ProtoConverter implements Serializable {
project.setFundedamount(m.getFundedamount());
project.setTotalcost(m.getTotalcost());
project.setKeywords(mapStringField(m.getKeywords()));
project.setSubjects(
m.getSubjectsList().stream()
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
.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()));
@ -251,12 +267,18 @@ public class ProtoConverter implements Serializable {
setEntity(software, oaf);
setResult(software, oaf);
software.setDocumentationUrl(
m.getDocumentationUrlList().stream()
software
.setDocumentationUrl(
m
.getDocumentationUrlList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
software.setLicense(
m.getLicenseList().stream()
software
.setLicense(
m
.getLicenseList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
software.setCodeRepositoryUrl(mapStringField(m.getCodeRepositoryUrl()));
@ -269,18 +291,23 @@ public class ProtoConverter implements Serializable {
OtherResearchProduct otherResearchProducts = setOaf(new OtherResearchProduct(), oaf);
setEntity(otherResearchProducts, oaf);
setResult(otherResearchProducts, oaf);
otherResearchProducts.setContactperson(
m.getContactpersonList().stream()
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()
otherResearchProducts
.setContactgroup(
m
.getContactgroupList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
otherResearchProducts
.setTool(
m.getToolList().stream().map(ProtoConverter::mapStringField).collect(Collectors.toList()));
return otherResearchProducts;
}
@ -307,8 +334,11 @@ public class ProtoConverter implements Serializable {
dataset.setVersion(mapStringField(m.getVersion()));
dataset.setLastmetadataupdate(mapStringField(m.getLastmetadataupdate()));
dataset.setMetadataversionnumber(mapStringField(m.getMetadataversionnumber()));
dataset.setGeolocation(
m.getGeolocationList().stream()
dataset
.setGeolocation(
m
.getGeolocationList()
.stream()
.map(ProtoConverter::mapGeolocation)
.collect(Collectors.toList()));
return dataset;
@ -325,18 +355,23 @@ public class ProtoConverter implements Serializable {
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()
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()
entity
.setExtraInfo(
e
.getExtraInfoList()
.stream()
.map(ProtoConverter::mapExtraInfo)
.collect(Collectors.toList()));
return entity;
@ -345,71 +380,100 @@ public class ProtoConverter implements Serializable {
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
.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()
entity
.setCountry(
m
.getCountryList()
.stream()
.map(ProtoConverter::mapQualifierAsCountry)
.collect(Collectors.toList()));
entity.setSubject(
m.getSubjectList().stream()
entity
.setSubject(
m
.getSubjectList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity.setTitle(
m.getTitleList().stream()
entity
.setTitle(
m
.getTitleList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity.setRelevantdate(
m.getRelevantdateList().stream()
entity
.setRelevantdate(
m
.getRelevantdateList()
.stream()
.map(ProtoConverter::mapStructuredProperty)
.collect(Collectors.toList()));
entity.setDescription(
m.getDescriptionList().stream()
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()
entity
.setSource(
m
.getSourceList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setFulltext(
m.getFulltextList().stream()
entity
.setFulltext(
m
.getFulltextList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setFormat(
m.getFormatList().stream()
entity
.setFormat(
m
.getFormatList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setContributor(
m.getContributorList().stream()
entity
.setContributor(
m
.getContributorList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setResourcetype(mapQualifier(m.getResourcetype()));
entity.setCoverage(
m.getCoverageList().stream()
entity
.setCoverage(
m
.getCoverageList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
entity.setContext(
m.getContextList().stream()
.map(ProtoConverter::mapContext)
.collect(Collectors.toList()));
entity
.setContext(
m.getContextList().stream().map(ProtoConverter::mapContext).collect(Collectors.toList()));
entity.setBestaccessright(
getBestAccessRights(oaf.getEntity().getResult().getInstanceList()));
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 Optional<FieldTypeProtos.Qualifier> min = instanceList
.stream()
.map(i -> i.getAccessright())
.min(new LicenseComparator());
final Qualifier rights = min.isPresent() ? mapQualifier(min.get()) : new Qualifier();
@ -436,8 +500,11 @@ public class ProtoConverter implements Serializable {
final Context entity = new Context();
entity.setId(context.getId());
entity.setDataInfo(
context.getDataInfoList().stream()
entity
.setDataInfo(
context
.getDataInfoList()
.stream()
.map(ProtoConverter::mapDataInfo)
.collect(Collectors.toList()));
return entity;
@ -561,8 +628,11 @@ public class ProtoConverter implements Serializable {
entity.setName(author.getName());
entity.setSurname(author.getSurname());
entity.setRank(author.getRank());
entity.setPid(
author.getPidList().stream()
entity
.setPid(
author
.getPidList()
.stream()
.map(
kv -> {
final StructuredProperty sp = new StructuredProperty();
@ -574,8 +644,11 @@ public class ProtoConverter implements Serializable {
return sp;
})
.collect(Collectors.toList()));
entity.setAffiliation(
author.getAffiliationList().stream()
entity
.setAffiliation(
author
.getAffiliationList()
.stream()
.map(ProtoConverter::mapStringField)
.collect(Collectors.toList()));
return entity;

75
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/migration/TransformActions.java
View File

@ -1,23 +1,14 @@
package eu.dnetlib.dhp.actionmanager.migration;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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 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;
@ -29,6 +20,19 @@ 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 {
@ -40,15 +44,16 @@ public class TransformActions implements Serializable {
private static final String SEPARATOR = "/";
public static void main(String[] args) throws Exception {
final ArgumentApplicationParser parser =
new ArgumentApplicationParser(
IOUtils.toString(
MigrateActionSet.class.getResourceAsStream(
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"))
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
@ -68,26 +73,22 @@ public class TransformActions implements Serializable {
SparkConf conf = new SparkConf();
runWithSparkSession(
conf,
isSparkSessionManaged,
spark -> transformActions(inputPaths, targetBaseDir, spark));
conf, isSparkSessionManaged, spark -> transformActions(inputPaths, targetBaseDir, spark));
}
private static void transformActions(
String inputPaths, String targetBaseDir, SparkSession spark) throws IOException {
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));
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);
final Path targetDirectory = new Path(targetBaseDir + SEPARATOR + actionSetDirectory + SEPARATOR + rawset);
if (fs.exists(targetDirectory)) {
log.info("found target directory '{}", targetDirectory);
@ -97,18 +98,13 @@ public class TransformActions implements Serializable {
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()))
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)))
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(),
@ -138,8 +134,7 @@ public class TransformActions implements Serializable {
case project:
return new AtomicAction<>(Project.class, (Project) oaf);
case result:
final String resulttypeid =
proto_oaf
final String resulttypeid = proto_oaf
.getEntity()
.getResult()
.getMetadata()
@ -151,8 +146,7 @@ public class TransformActions implements Serializable {
case "software":
return new AtomicAction<>(Software.class, (Software) oaf);
case "other":
return new AtomicAction<>(
OtherResearchProduct.class, (OtherResearchProduct) oaf);
return new AtomicAction<>(OtherResearchProduct.class, (OtherResearchProduct) oaf);
case "dataset":
return new AtomicAction<>(Dataset.class, (Dataset) oaf);
default:
@ -172,8 +166,7 @@ public class TransformActions implements Serializable {
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()";
String XQUERY = "collection('/db/DRIVER/ServiceResources/ActionManagerServiceResourceType')//SERVICE_PROPERTIES/PROPERTY[@key = 'basePath']/@value/string()";
return isLookUp.getResourceProfileByQuery(XQUERY);
}
}

72
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/partition/PartitionActionSetsByPayloadTypeJob.java
View File

@ -1,15 +1,13 @@
package eu.dnetlib.dhp.actionmanager.partition;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import static org.apache.spark.sql.functions.*;
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 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;
@ -20,26 +18,30 @@ import org.apache.spark.sql.types.*;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
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;
/** 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(
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 ISClient isClient;
@ -48,18 +50,20 @@ public class PartitionActionSetsByPayloadTypeJob {
this.isClient = new ISClient(isLookupUrl);
}
public PartitionActionSetsByPayloadTypeJob() {}
public PartitionActionSetsByPayloadTypeJob() {
}
public static void main(String[] args) throws Exception {
String jsonConfiguration =
IOUtils.toString(
PromoteActionPayloadForGraphTableJob.class.getResourceAsStream(
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);
Boolean isSparkSessionManaged =
Optional.ofNullable(parser.get("isSparkSessionManaged"))
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
@ -100,15 +104,12 @@ public class PartitionActionSetsByPayloadTypeJob {
private static void readAndWriteActionSetsFromPaths(
SparkSession spark, List<String> inputActionSetPaths, String outputPath) {
inputActionSetPaths.stream()
.filter(
path ->
HdfsSupport.exists(
path, spark.sparkContext().hadoopConfiguration()))
inputActionSetPaths
.stream()
.filter(path -> HdfsSupport.exists(path, spark.sparkContext().hadoopConfiguration()))
.forEach(
inputActionSetPath -> {
Dataset<Row> actionDS =
readActionSetFromPath(spark, inputActionSetPath);
Dataset<Row> actionDS = readActionSetFromPath(spark, inputActionSetPath);
saveActions(actionDS, outputPath);
});
}
@ -118,11 +119,12 @@ public class PartitionActionSetsByPayloadTypeJob {
JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<Row> rdd =
sc.sequenceFile(path, Text.class, Text.class)
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)
return spark
.createDataFrame(rdd, KV_SCHEMA)
.withColumn("atomic_action", from_json(col("value"), ATOMIC_ACTION_SCHEMA))
.select(expr("atomic_action.*"));
}

29
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/promote/MergeAndGet.java
View File

@ -1,27 +1,29 @@
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;
/** 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
* <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
MERGE_FROM_AND_GET, SELECT_NEWER_AND_GET
}
/**
@ -32,8 +34,8 @@ public class MergeAndGet {
* @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) {
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;
@ -54,7 +56,8 @@ public class MergeAndGet {
return x;
}
throw new RuntimeException(
String.format(
String
.format(
"MERGE_FROM_AND_GET incompatible types: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}
@ -70,12 +73,14 @@ public class MergeAndGet {
return x;
} else if (isSubClass(x, y) && x.getLastupdatetimestamp() < y.getLastupdatetimestamp()) {
throw new RuntimeException(
String.format(
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(
String
.format(
"SELECT_NEWER_AND_GET cannot be used when left is not subtype of right: %s, %s",
x.getClass().getCanonicalName(), y.getClass().getCanonicalName()));
}

150
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/promote/PromoteActionPayloadForGraphTableJob.java
View File

@ -1,18 +1,14 @@
package eu.dnetlib.dhp.actionmanager.promote;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
import com.fasterxml.jackson.databind.ObjectMapper;
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.*;
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;
@ -23,23 +19,31 @@ import org.apache.spark.sql.SparkSession;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import com.fasterxml.jackson.databind.ObjectMapper;
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. */
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();
public static void main(String[] args) throws Exception {
String jsonConfiguration =
IOUtils.toString(
PromoteActionPayloadForGraphTableJob.class.getResourceAsStream(
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"))
Boolean isSparkSessionManaged = Optional
.ofNullable(parser.get("isSparkSessionManaged"))
.map(Boolean::valueOf)
.orElse(Boolean.TRUE);
logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
@ -59,13 +63,11 @@ public class PromoteActionPayloadForGraphTableJob {
String outputGraphTablePath = parser.get("outputGraphTablePath");
logger.info("outputGraphTablePath: {}", outputGraphTablePath);
MergeAndGet.Strategy strategy =
MergeAndGet.Strategy.valueOf(parser.get("mergeAndGetStrategy").toUpperCase());
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> actionPayloadClazz = (Class<? extends Oaf>) Class.forName(actionPayloadClassName);
throwIfGraphTableClassIsNotSubClassOfActionPayloadClass(rowClazz, actionPayloadClazz);
@ -92,8 +94,8 @@ public class PromoteActionPayloadForGraphTableJob {
private static void throwIfGraphTableClassIsNotSubClassOfActionPayloadClass(
Class<? extends Oaf> rowClazz, Class<? extends Oaf> actionPayloadClazz) {
if (!isSubClass(rowClazz, actionPayloadClazz)) {
String msg =
String.format(
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);
@ -113,11 +115,9 @@ public class PromoteActionPayloadForGraphTableJob {
Class<G> rowClazz,
Class<A> actionPayloadClazz) {
Dataset<G> rowDS = readGraphTable(spark, inputGraphTablePath, rowClazz);
Dataset<A> actionPayloadDS =
readActionPayload(spark, inputActionPayloadPath, actionPayloadClazz);
Dataset<A> actionPayloadDS = readActionPayload(spark, inputActionPayloadPath, actionPayloadClazz);
Dataset<G> result =
promoteActionPayloadForGraphTable(
Dataset<G> result = promoteActionPayloadForGraphTable(
rowDS, actionPayloadDS, strategy, rowClazz, actionPayloadClazz)
.map((MapFunction<G, G>) value -> value, Encoders.bean(rowClazz));
@ -128,30 +128,27 @@ public class PromoteActionPayloadForGraphTableJob {
SparkSession spark, String path, Class<G> rowClazz) {
logger.info("Reading graph table from path: {}", path);
return spark.read()
return spark
.read()
.textFile(path)
.map(
(MapFunction<String, G>) value -> OBJECT_MAPPER.readValue(value, rowClazz),
Encoders.bean(rowClazz));
/*
return spark
.read()
.parquet(path)
.as(Encoders.bean(rowClazz));
* return spark .read() .parquet(path) .as(Encoders.bean(rowClazz));
*/
}
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()
return spark
.read()
.parquet(path)
.map(
(MapFunction<Row, A>)
value ->
OBJECT_MAPPER.readValue(
value.<String>getAs("payload"), actionPayloadClazz),
(MapFunction<Row, A>) value -> OBJECT_MAPPER
.readValue(value.<String> getAs("payload"), actionPayloadClazz),
Encoders.bean(actionPayloadClazz));
}
@ -161,25 +158,21 @@ public class PromoteActionPayloadForGraphTableJob {
MergeAndGet.Strategy strategy,
Class<G> rowClazz,
Class<A> actionPayloadClazz) {
logger.info(
logger
.info(
"Promoting action payload for graph table: payload={}, table={}",
actionPayloadClazz.getSimpleName(),
rowClazz.getSimpleName());
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<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;
SerializableSupplier<Function<G, Boolean>> isNotZeroFn = PromoteActionPayloadForGraphTableJob::isNotZeroFnUsingIdOrSource;
Dataset<G> joinedAndMerged =
PromoteActionPayloadFunctions.joinGraphTableWithActionPayloadAndMerge(
Dataset<G> joinedAndMerged = PromoteActionPayloadFunctions
.joinGraphTableWithActionPayloadAndMerge(
rowDS,
actionPayloadDS,
rowIdFn,
@ -188,72 +181,11 @@ public class PromoteActionPayloadForGraphTableJob {
rowClazz,
actionPayloadClazz);
return PromoteActionPayloadFunctions.groupGraphTableByIdAndMerge(
return PromoteActionPayloadFunctions
.groupGraphTableByIdAndMerge(
joinedAndMerged, rowIdFn, mergeRowsAndGetFn, zeroFn, isNotZeroFn, rowClazz);
}
private 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();
}
private static <T extends Oaf> SerializableSupplier<T> zeroFn(Class<T> clazz) {
switch (clazz.getCanonicalName()) {
case "eu.dnetlib.dhp.schema.oaf.Dataset":

72
dhp-workflows/dhp-actionmanager/src/main/java/eu/dnetlib/dhp/actionmanager/promote/PromoteActionPayloadFunctions.java
View File

@ -1,13 +1,13 @@
package eu.dnetlib.dhp.actionmanager.promote;
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import java.util.Objects;
import java.util.Optional;
import java.util.function.BiFunction;
import java.util.function.Function;
import org.apache.spark.api.java.function.FilterFunction;
import org.apache.spark.api.java.function.MapFunction;
import org.apache.spark.sql.Dataset;
@ -15,16 +15,19 @@ import org.apache.spark.sql.Encoder;
import org.apache.spark.sql.Encoders;
import org.apache.spark.sql.TypedColumn;
import org.apache.spark.sql.expressions.Aggregator;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.schema.oaf.Oaf;
import scala.Tuple2;
/** Promote action payload functions. */
public class PromoteActionPayloadFunctions {
private PromoteActionPayloadFunctions() {}
private PromoteActionPayloadFunctions() {
}
/**
* Joins dataset representing graph table with dataset representing action payload using
* supplied functions.
* Joins dataset representing graph table with dataset representing action payload using supplied functions.
*
* @param rowDS Dataset representing graph table
* @param actionPayloadDS Dataset representing action payload
@ -51,8 +54,8 @@ public class PromoteActionPayloadFunctions {
}
Dataset<Tuple2<String, G>> rowWithIdDS = mapToTupleWithId(rowDS, rowIdFn, rowClazz);
Dataset<Tuple2<String, A>> actionPayloadWithIdDS =
mapToTupleWithId(actionPayloadDS, actionPayloadIdFn, actionPayloadClazz);
Dataset<Tuple2<String, A>> actionPayloadWithIdDS = mapToTupleWithId(
actionPayloadDS, actionPayloadIdFn, actionPayloadClazz);
return rowWithIdDS
.joinWith(
@ -60,32 +63,19 @@ public class PromoteActionPayloadFunctions {
rowWithIdDS.col("_1").equalTo(actionPayloadWithIdDS.col("_1")),
"full_outer")
.map(
(MapFunction<Tuple2<Tuple2<String, G>, Tuple2<String, A>>, G>)
value -> {
Optional<G> rowOpt =
Optional.ofNullable(value._1()).map(Tuple2::_2);
Optional<A> actionPayloadOpt =
Optional.ofNullable(value._2()).map(Tuple2::_2);
return rowOpt.map(
row ->
actionPayloadOpt
(MapFunction<Tuple2<Tuple2<String, G>, Tuple2<String, A>>, G>) value -> {
Optional<G> rowOpt = Optional.ofNullable(value._1()).map(Tuple2::_2);
Optional<A> actionPayloadOpt = Optional.ofNullable(value._2()).map(Tuple2::_2);
return rowOpt
.map(
actionPayload ->
mergeAndGetFn
.get()
.apply(
row,
actionPayload))
row -> actionPayloadOpt
.map(
actionPayload -> mergeAndGetFn.get().apply(row, actionPayload))
.orElse(row))
.orElseGet(
() ->
actionPayloadOpt
() -> actionPayloadOpt
.filter(
actionPayload ->
actionPayload
.getClass()
.equals(
rowClazz))
actionPayload -> actionPayload.getClass().equals(rowClazz))
.map(rowClazz::cast)
.orElse(null));
},
@ -95,9 +85,9 @@ public class PromoteActionPayloadFunctions {
private static <T extends Oaf> Dataset<Tuple2<String, T>> mapToTupleWithId(
Dataset<T> ds, SerializableSupplier<Function<T, String>> idFn, Class<T> clazz) {
return ds.map(
(MapFunction<T, Tuple2<String, T>>)
value -> new Tuple2<>(idFn.get().apply(value), value),
return ds
.map(
(MapFunction<T, Tuple2<String, T>>) value -> new Tuple2<>(idFn.get().apply(value), value),
Encoders.tuple(Encoders.STRING(), Encoders.kryo(clazz)));
}
@ -120,10 +110,9 @@ public class PromoteActionPayloadFunctions {
SerializableSupplier<G> zeroFn,
SerializableSupplier<Function<G, Boolean>> isNotZeroFn,
Class<G> rowClazz) {
TypedColumn<G, G> aggregator =
new TableAggregator<>(zeroFn, mergeAndGetFn, isNotZeroFn, rowClazz).toColumn();
return rowDS.groupByKey(
(MapFunction<G, String>) x -> rowIdFn.get().apply(x), Encoders.STRING())
TypedColumn<G, G> aggregator = new TableAggregator<>(zeroFn, mergeAndGetFn, isNotZeroFn, rowClazz).toColumn();
return rowDS
.groupByKey((MapFunction<G, String>) x -> rowIdFn.get().apply(x), Encoders.STRING())
.agg(aggregator)
.map((MapFunction<Tuple2<String, G>, G>) Tuple2::_2, Encoders.kryo(rowClazz));
}
@ -134,10 +123,10 @@ public class PromoteActionPayloadFunctions {
* @param <G> Type of graph table row
*/
public static class TableAggregator<G extends Oaf> extends Aggregator<G, G, G> {
private SerializableSupplier<G> zeroFn;
private SerializableSupplier<BiFunction<G, G, G>> mergeAndGetFn;
private SerializableSupplier<Function<G, Boolean>> isNotZeroFn;
private Class<G> rowClazz;
private final SerializableSupplier<G> zeroFn;
private final SerializableSupplier<BiFunction<G, G, G>> mergeAndGetFn;
private final SerializableSupplier<Function<G, Boolean>> isNotZeroFn;
private final Class<G> rowClazz;
public TableAggregator(
SerializableSupplier<G> zeroFn,
@ -174,8 +163,7 @@ public class PromoteActionPayloadFunctions {
} else if (!isNotZero.apply(left) && isNotZero.apply(right)) {
return right;
}
throw new RuntimeException(
"internal aggregation error: left and right objects are zero");
throw new RuntimeException("internal aggregation error: left and right objects are zero");
}
@Override

132
dhp-workflows/dhp-actionmanager/src/test/java/eu/dnetlib/dhp/actionmanager/partition/PartitionActionSetsByPayloadTypeJobTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.actionmanager.partition;
import static eu.dnetlib.dhp.common.ThrowingSupport.rethrowAsRuntimeException;
@ -5,16 +6,13 @@ import static org.apache.spark.sql.functions.*;
import static org.junit.jupiter.api.Assertions.assertIterableEquals;
import static scala.collection.JavaConversions.mutableSeqAsJavaList;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.actionmanager.ISClient;
import eu.dnetlib.dhp.actionmanager.promote.PromoteActionPayloadForGraphTableJobTest;
import eu.dnetlib.dhp.schema.oaf.*;
import java.io.IOException;
import java.nio.file.Files;
import java.nio.file.Path;
import java.nio.file.Paths;
import java.util.*;
import java.util.stream.Collectors;
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.io.Text;
import org.apache.hadoop.mapreduce.Job;
@ -32,25 +30,31 @@ import org.junit.jupiter.api.io.TempDir;
import org.mockito.Mock;
import org.mockito.Mockito;
import org.mockito.junit.jupiter.MockitoExtension;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.actionmanager.ISClient;
import eu.dnetlib.dhp.actionmanager.promote.PromoteActionPayloadForGraphTableJobTest;
import eu.dnetlib.dhp.schema.oaf.*;
import scala.Tuple2;
import scala.collection.mutable.Seq;
@ExtendWith(MockitoExtension.class)
public class PartitionActionSetsByPayloadTypeJobTest {
private static final ClassLoader cl =
PartitionActionSetsByPayloadTypeJobTest.class.getClassLoader();
private static final ClassLoader cl = PartitionActionSetsByPayloadTypeJobTest.class.getClassLoader();
private static Configuration configuration;
private static SparkSession spark;
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static final StructType ATOMIC_ACTION_SCHEMA =
StructType$.MODULE$.apply(
Arrays.asList(
StructField$.MODULE$.apply(
"clazz", DataTypes.StringType, false, Metadata.empty()),
StructField$.MODULE$.apply(
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())));
@BeforeAll
@ -72,11 +76,11 @@ public class PartitionActionSetsByPayloadTypeJobTest {
@Nested
class Main {
@Mock private ISClient isClient;
@Mock
private ISClient isClient;
@Test
public void shouldPartitionActionSetsByPayloadType(@TempDir Path workingDir)
throws Exception {
public void shouldPartitionActionSetsByPayloadType(@TempDir Path workingDir) throws Exception {
// given
Path inputActionSetsBaseDir = workingDir.resolve("input").resolve("action_sets");
Path outputDir = workingDir.resolve("output");
@ -86,14 +90,18 @@ public class PartitionActionSetsByPayloadTypeJobTest {
List<String> inputActionSetsPaths = resolveInputActionSetPaths(inputActionSetsBaseDir);
// when
Mockito.when(isClient.getLatestRawsetPaths(Mockito.anyString()))
Mockito
.when(isClient.getLatestRawsetPaths(Mockito.anyString()))
.thenReturn(inputActionSetsPaths);
PartitionActionSetsByPayloadTypeJob job = new PartitionActionSetsByPayloadTypeJob();
job.setIsClient(isClient);
job.run(
job
.run(
Boolean.FALSE,
"", // it can be empty we're mocking the response from isClient to resolve the
"", // it can be empty we're mocking the response from isClient
// to
// resolve the
// paths
outputDir.toString());
@ -112,10 +120,10 @@ public class PartitionActionSetsByPayloadTypeJobTest {
}
}
private List<String> resolveInputActionSetPaths(Path inputActionSetsBaseDir)
throws IOException {
private List<String> resolveInputActionSetPaths(Path inputActionSetsBaseDir) throws IOException {
Path inputActionSetJsonDumpsDir = getInputActionSetJsonDumpsDir();
return Files.list(inputActionSetJsonDumpsDir)
return Files
.list(inputActionSetJsonDumpsDir)
.map(
path -> {
String inputActionSetId = path.getFileName().toString();
@ -129,39 +137,32 @@ public class PartitionActionSetsByPayloadTypeJobTest {
Path inputActionSetJsonDumpsDir = getInputActionSetJsonDumpsDir();
Map<String, List<String>> oafsByType = new HashMap<>();
Files.list(inputActionSetJsonDumpsDir)
Files
.list(inputActionSetJsonDumpsDir)
.forEach(
inputActionSetJsonDumpFile -> {
String inputActionSetId =
inputActionSetJsonDumpFile.getFileName().toString();
String inputActionSetId = inputActionSetJsonDumpFile.getFileName().toString();
Path inputActionSetDir = inputActionSetsDir.resolve(inputActionSetId);
Dataset<String> actionDS =
readActionsFromJsonDump(inputActionSetJsonDumpFile.toString())
.cache();
Dataset<String> actionDS = readActionsFromJsonDump(inputActionSetJsonDumpFile.toString()).cache();
writeActionsAsJobInput(
actionDS, inputActionSetId, inputActionSetDir.toString());
writeActionsAsJobInput(actionDS, inputActionSetId, inputActionSetDir.toString());
Map<String, List<String>> actionSetOafsByType =
actionDS
.withColumn(
"atomic_action",
from_json(col("value"), ATOMIC_ACTION_SCHEMA))
.select(expr("atomic_action.*")).groupBy(col("clazz"))
Map<String, List<String>> actionSetOafsByType = actionDS
.withColumn("atomic_action", from_json(col("value"), ATOMIC_ACTION_SCHEMA))
.select(expr("atomic_action.*"))
.groupBy(col("clazz"))
.agg(collect_list(col("payload")).as("payload_list"))
.collectAsList().stream()
.collectAsList()
.stream()
.map(
row ->
new AbstractMap.SimpleEntry<>(
row.<String>getAs("clazz"),
mutableSeqAsJavaList(
row.<Seq<String>>getAs(
"payload_list"))))
row -> new AbstractMap.SimpleEntry<>(
row.<String> getAs("clazz"),
mutableSeqAsJavaList(row.<Seq<String>> getAs("payload_list"))))
.collect(
Collectors.toMap(
AbstractMap.SimpleEntry::getKey,
AbstractMap.SimpleEntry::getValue));
Collectors
.toMap(
AbstractMap.SimpleEntry::getKey, AbstractMap.SimpleEntry::getValue));
actionSetOafsByType
.keySet()
@ -182,9 +183,10 @@ public class PartitionActionSetsByPayloadTypeJobTest {
}
private static Path getInputActionSetJsonDumpsDir() {
return Paths.get(
Objects.requireNonNull(
cl.getResource("eu/dnetlib/dhp/actionmanager/partition/input/"))
return Paths
.get(
Objects
.requireNonNull(cl.getResource("eu/dnetlib/dhp/actionmanager/partition/input/"))
.getFile());
}
@ -194,28 +196,24 @@ public class PartitionActionSetsByPayloadTypeJobTest {
private static void writeActionsAsJobInput(
Dataset<String> actionDS, String inputActionSetId, String path) {
actionDS.javaRDD()
actionDS
.javaRDD()
.mapToPair(json -> new Tuple2<>(new Text(inputActionSetId), new Text(json)))
.saveAsNewAPIHadoopFile(
path,
Text.class,
Text.class,
SequenceFileOutputFormat.class,
configuration);
path, Text.class, Text.class, SequenceFileOutputFormat.class, configuration);
}
private static <T extends Oaf> void assertForOafType(
Path outputDir, Map<String, List<String>> oafsByClassName, Class<T> clazz) {
Path outputDatasetDir =
outputDir.resolve(String.format("clazz=%s", clazz.getCanonicalName()));
Path outputDatasetDir = outputDir.resolve(String.format("clazz=%s", clazz.getCanonicalName()));
Files.exists(outputDatasetDir);
List<T> actuals =
readActionPayloadFromJobOutput(outputDatasetDir.toString(), clazz).collectAsList();
List<T> actuals = readActionPayloadFromJobOutput(outputDatasetDir.toString(), clazz).collectAsList();
actuals.sort(Comparator.comparingInt(Object::hashCode));
List<T> expecteds =
oafsByClassName.get(clazz.getCanonicalName()).stream()
List<T> expecteds = oafsByClassName
.get(clazz.getCanonicalName())
.stream()
.map(json -> mapToOaf(json, clazz))
.sorted(Comparator.comparingInt(Object::hashCode))
.collect(Collectors.toList());
@ -225,21 +223,19 @@ public class PartitionActionSetsByPayloadTypeJobTest {
private static <T extends Oaf> Dataset<T> readActionPayloadFromJobOutput(
String path, Class<T> clazz) {
return spark.read()
return spark
.read()
.parquet(path)
.map(
(MapFunction<Row, T>)
value ->
OBJECT_MAPPER.readValue(
value.<String>getAs("payload"), clazz),
(MapFunction<Row, T>) value -> OBJECT_MAPPER.readValue(value.<String> getAs("payload"), clazz),
Encoders.bean(clazz));
}
private static <T extends Oaf> T mapToOaf(String json, Class<T> clazz) {
return rethrowAsRuntimeException(
() -> OBJECT_MAPPER.readValue(json, clazz),
String.format(
"failed to map json to class: json=%s, class=%s",
json, clazz.getCanonicalName()));
String
.format(
"failed to map json to class: json=%s, class=%s", json, clazz.getCanonicalName()));
}
}

61
dhp-workflows/dhp-actionmanager/src/test/java/eu/dnetlib/dhp/actionmanager/promote/MergeAndGetTest.java
View File

@ -1,3 +1,4 @@
package eu.dnetlib.dhp.actionmanager.promote;
import static eu.dnetlib.dhp.actionmanager.promote.MergeAndGet.Strategy;
@ -5,12 +6,14 @@ import static eu.dnetlib.dhp.actionmanager.promote.MergeAndGet.functionFor;
import static org.junit.jupiter.api.Assertions.*;
import static org.mockito.Mockito.*;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.schema.oaf.*;
import java.util.function.BiFunction;
import org.junit.jupiter.api.Nested;
import org.junit.jupiter.api.Test;
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
import eu.dnetlib.dhp.schema.oaf.*;
public class MergeAndGetTest {
@Nested
@ -23,8 +26,7 @@ public class MergeAndGetTest {
Oaf b = mock(Oaf.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -37,8 +39,7 @@ public class MergeAndGetTest {
Relation b = mock(Relation.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -51,8 +52,7 @@ public class MergeAndGetTest {
OafEntity b = mock(OafEntity.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -65,8 +65,7 @@ public class MergeAndGetTest {
Oaf b = mock(Oaf.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -79,8 +78,7 @@ public class MergeAndGetTest {
OafEntity b = mock(OafEntity.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -93,8 +91,7 @@ public class MergeAndGetTest {
Relation b = mock(Relation.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
Oaf x = fn.get().apply(a, b);
@ -110,8 +107,7 @@ public class MergeAndGetTest {
Oaf b = mock(Oaf.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -124,8 +120,7 @@ public class MergeAndGetTest {
Relation b = mock(Relation.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -134,15 +129,16 @@ public class MergeAndGetTest {
@Test
public void shouldThrowForOafEntityAndOafEntityButNotSubclasses() {
// given
class OafEntitySub1 extends OafEntity {}
class OafEntitySub2 extends OafEntity {}
class OafEntitySub1 extends OafEntity {
}
class OafEntitySub2 extends OafEntity {
}
OafEntitySub1 a = mock(OafEntitySub1.class);
OafEntitySub2 b = mock(OafEntitySub2.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -155,8 +151,7 @@ public class MergeAndGetTest {
OafEntity b = mock(OafEntity.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.MERGE_FROM_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.MERGE_FROM_AND_GET);
// then
Oaf x = fn.get().apply(a, b);
@ -176,8 +171,7 @@ public class MergeAndGetTest {
Relation b = mock(Relation.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.SELECT_NEWER_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.SELECT_NEWER_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -190,8 +184,7 @@ public class MergeAndGetTest {
OafEntity b = mock(OafEntity.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.SELECT_NEWER_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.SELECT_NEWER_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -204,8 +197,7 @@ public class MergeAndGetTest {
Result b = mock(Result.class);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.SELECT_NEWER_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.SELECT_NEWER_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -222,8 +214,7 @@ public class MergeAndGetTest {
b.setLastupdatetimestamp(2L);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.SELECT_NEWER_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.SELECT_NEWER_AND_GET);
// then
assertThrows(RuntimeException.class, () -> fn.get().apply(a, b));
@ -238,8 +229,7 @@ public class MergeAndGetTest {
when(b.getLastupdatetimestamp()).thenReturn(2L);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.SELECT_NEWER_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.SELECT_NEWER_AND_GET);
// then
Oaf x = fn.get().apply(a, b);
@ -256,8 +246,7 @@ public class MergeAndGetTest {
when(b.getLastupdatetimestamp()).thenReturn(1L);
// when
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn =
functionFor(Strategy.SELECT_NEWER_AND_GET);
SerializableSupplier<BiFunction<Oaf, Oaf, Oaf>> fn = functionFor(Strategy.SELECT_NEWER_AND_GET);
// then
Oaf x = fn.get().apply(a, b);

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