#1 skeleton

DICE-UNC · Dec 28, 2017 · 4f17014 · 4f17014
1 parent 9a16c9c
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diff --git a/.gitignore b/.gitignore
@@ -0,0 +1,31 @@
+**/.classpath
+.DS_Store
+**/nb-configuration.xml
+**/.springBeans
+**/testing.properties
+**/*.eml
+**/Scripts
+.idea
+*.iml
+.project
+.idea
+.metadata
+.DS_Store
+Servers
+.settings
+.classpath
+target
+mvn-repo
+bin
+*.war
+*.log
+*/nbactions.xml  
+*.eml
+nbactions.xml
+testing.properties
+*/test-output
+JargonVersion.java
+**/${test.option.mount.basedir}
+**/*.*~
+*.*~
+.dbeaver*
diff --git a/eclipse-formatting.xml b/eclipse-formatting.xml
@@ -0,0 +1,56 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<profiles version="2">
+<profile kind="CleanUpProfile" name="jargon" version="2">
+<setting id="cleanup.remove_unused_private_fields" value="true"/>
+<setting id="cleanup.always_use_parentheses_in_expressions" value="false"/>
+<setting id="cleanup.never_use_blocks" value="false"/>
+<setting id="cleanup.remove_unused_private_methods" value="true"/>
+<setting id="cleanup.add_missing_deprecated_annotations" value="true"/>
+<setting id="cleanup.convert_to_enhanced_for_loop" value="true"/>
+<setting id="cleanup.remove_unnecessary_nls_tags" value="true"/>
+<setting id="cleanup.sort_members" value="false"/>
+<setting id="cleanup.remove_unused_local_variables" value="true"/>
+<setting id="cleanup.never_use_parentheses_in_expressions" value="true"/>
+<setting id="cleanup.remove_unused_private_members" value="false"/>
+<setting id="cleanup.remove_unnecessary_casts" value="true"/>
+<setting id="cleanup.make_parameters_final" value="true"/>
+<setting id="cleanup.use_this_for_non_static_field_access" value="true"/>
+<setting id="cleanup.remove_private_constructors" value="true"/>
+<setting id="cleanup.use_blocks" value="true"/>
+<setting id="cleanup.always_use_this_for_non_static_method_access" value="false"/>
+<setting id="cleanup.remove_trailing_whitespaces_all" value="true"/>
+<setting id="cleanup.always_use_this_for_non_static_field_access" value="false"/>
+<setting id="cleanup.use_this_for_non_static_field_access_only_if_necessary" value="true"/>
+<setting id="cleanup.add_default_serial_version_id" value="false"/>
+<setting id="cleanup.make_type_abstract_if_missing_method" value="false"/>
+<setting id="cleanup.qualify_static_member_accesses_through_subtypes_with_declaring_class" value="true"/>
+<setting id="cleanup.make_variable_declarations_final" value="true"/>
+<setting id="cleanup.add_missing_nls_tags" value="false"/>
+<setting id="cleanup.format_source_code" value="true"/>
+<setting id="cleanup.qualify_static_method_accesses_with_declaring_class" value="false"/>
+<setting id="cleanup.add_missing_override_annotations" value="true"/>
+<setting id="cleanup.remove_unused_private_types" value="true"/>
+<setting id="cleanup.add_missing_methods" value="false"/>
+<setting id="cleanup.make_local_variable_final" value="false"/>
+<setting id="cleanup.correct_indentation" value="true"/>
+<setting id="cleanup.add_missing_override_annotations_interface_methods" value="true"/>
+<setting id="cleanup.remove_unused_imports" value="true"/>
+<setting id="cleanup.remove_trailing_whitespaces_ignore_empty" value="false"/>
+<setting id="cleanup.make_private_fields_final" value="false"/>
+<setting id="cleanup.add_generated_serial_version_id" value="true"/>
+<setting id="cleanup.organize_imports" value="true"/>
+<setting id="cleanup.remove_trailing_whitespaces" value="true"/>
+<setting id="cleanup.sort_members_all" value="false"/>
+<setting id="cleanup.use_blocks_only_for_return_and_throw" value="false"/>
+<setting id="cleanup.add_missing_annotations" value="true"/>
+<setting id="cleanup.use_parentheses_in_expressions" value="false"/>
+<setting id="cleanup.qualify_static_field_accesses_with_declaring_class" value="false"/>
+<setting id="cleanup.use_this_for_non_static_method_access_only_if_necessary" value="true"/>
+<setting id="cleanup.use_this_for_non_static_method_access" value="true"/>
+<setting id="cleanup.qualify_static_member_accesses_through_instances_with_declaring_class" value="true"/>
+<setting id="cleanup.add_serial_version_id" value="true"/>
+<setting id="cleanup.format_source_code_changes_only" value="false"/>
+<setting id="cleanup.qualify_static_member_accesses_with_declaring_class" value="true"/>
+<setting id="cleanup.always_use_blocks" value="true"/>
+</profile>
+</profiles>
diff --git a/irodsext-data-profiler/.gitinclude b/irodsext-data-profiler/.gitinclude
diff --git a/irodsext-data-profiler/pom.xml b/irodsext-data-profiler/pom.xml
@@ -0,0 +1,83 @@
+<?xml version="1.0"?>
+<project
+	xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"
+	xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
+	<modelVersion>4.0.0</modelVersion>
+	<parent>
+		<artifactId>jargon-irods-ext</artifactId>
+		<groupId>org.irods.jargon</groupId>
+		<version>4.2.1.0-SNAPSHOT</version>
+	</parent>
+	<groupId>org.irods.jargon</groupId>
+	<artifactId>irodsext-data-profiler</artifactId>
+	<name>irodsext-data-profiler</name>
+	<dependencies>
+		<dependency>
+			<groupId>junit</groupId>
+			<artifactId>junit</artifactId>
+			<scope>compile</scope>
+		</dependency>
+		<dependency>
+			<groupId>org.irods.jargon</groupId>
+			<artifactId>jargon-core</artifactId>
+			<version>${project.version}</version>
+		</dependency>
+	</dependencies>
+	<description>Represents a high-level summary of a data object or collection, gathering metadata, ACL information, and other facets of a data object or collection, suitable for presentation in an interface.  This includes awareness of applicable special metadata types as well as any rules or operations associated with a collection or file</description>
+	<build>
+		<plugins>
+			<plugin>
+				<artifactId>maven-antrun-plugin</artifactId>
+				<executions>
+					<execution>
+						<id>0</id>
+						<phase>validate</phase>
+						<configuration>
+							<tasks>
+								<delete file="${basedir}/src/test/resources/testing.properties" />
+								<touch file="${basedir}/src/test/resources/testing.properties"
+									mkdirs="true" />
+								<echo file="${basedir}/src/test/resources/testing.properties"
+									append="true">
+									test.confirm=${jargon.test.confirm}
+									test.data.directory=${jargon.test.data.directory}
+									test.irods.admin=${jargon.test.irods.admin}
+									test.irods.admin.password=${jargon.test.irods.admin.password}
+									test.irods.user=${jargon.test.irods.user}
+									test.irods.password=${jargon.test.irods.password}
+									test.irods.resource=${jargon.test.irods.resource}
+									test2.irods.user=${jargon.test.irods.user2}
+									test2.irods.password=${jargon.test.irods.password2}
+									test2.irods.resource=${jargon.test.irods.resource2}
+									test3.irods.user=${jargon.test.irods.user3}
+									test3.irods.password=${jargon.test.irods.password3}
+									test3.irods.resource=${jargon.test.irods.resource3}
+									test.irods.host=${jargon.test.irods.host}
+									test.irods.port=${jargon.test.irods.port}
+									test.irods.zone=${jargon.test.irods.zone}
+									test.resource.group=${jargon.test.resource.group}
+									test.irods.userDN=${jargon.test.irods.userDN}
+									test.irods.scratch.subdir=${jargon.test.irods.scratch.subdir}
+									test.mac.icommand.path=${jargon.test.mac.icommand.path}
+									test.option.exercise.remoteexecstream=${jargon.test.option.exercise.remoteexecstream}
+								</echo>
+							</tasks>
+						</configuration>
+						<goals>
+							<goal>run</goal>
+						</goals>
+					</execution>
+				</executions>
+			</plugin>
+			<plugin>
+				<groupId>org.apache.maven.plugins</groupId>
+				<artifactId>maven-compiler-plugin</artifactId>
+				<version>2.3.2</version>
+				<configuration>
+					<debug>true</debug>
+				</configuration>
+			</plugin>
+		</plugins>
+	</build>
+
+</project>
diff --git a/irodsext-data-profiler/src/main/java/.gitinclude b/irodsext-data-profiler/src/main/java/.gitinclude
diff --git a/irodsext-data-profiler/src/main/resources/.gitinclude b/irodsext-data-profiler/src/main/resources/.gitinclude
diff --git a/irodsext-data-profiler/src/test/java/.gitinclude b/irodsext-data-profiler/src/test/java/.gitinclude
diff --git a/irodsext-data-profiler/src/test/resources/log4j.properties b/irodsext-data-profiler/src/test/resources/log4j.properties
@@ -0,0 +1,11 @@
+# Set root logger level to DEBUG and its only appender to A1.
+#log4j.rootLogger=ERROR, A1
+log4j.category.org.irods.jargon.core=INFO, A1
+log4j.category.org.irods.jargon.datautils=INFO, A1
+
+# A1 is set to be a ConsoleAppender.
+log4j.appender.A1=org.apache.log4j.ConsoleAppender
+
+# A1 uses PatternLayout.
+log4j.appender.A1.layout=org.apache.log4j.PatternLayout
+log4j.appender.A1.layout.ConversionPattern=%-4r [%t] %-5p %c %x - %m%n
diff --git a/irodsext-data-typer/.gitinclude b/irodsext-data-typer/.gitinclude
diff --git a/irodsext-data-typer/pom.xml b/irodsext-data-typer/pom.xml
@@ -0,0 +1,83 @@
+<?xml version="1.0"?>
+<project
+	xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"
+	xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
+	<modelVersion>4.0.0</modelVersion>
+	<parent>
+		<artifactId>jargon-irods-ext</artifactId>
+		<groupId>org.irods.jargon</groupId>
+		<version>4.2.1.0-SNAPSHOT</version>
+	</parent>
+	<groupId>org.irods.jargon</groupId>
+	<artifactId>irodsext-data-typer</artifactId>
+	<name>irodsext-data-typer</name>
+	<dependencies>
+		<dependency>
+			<groupId>junit</groupId>
+			<artifactId>junit</artifactId>
+			<scope>compile</scope>
+		</dependency>
+		<dependency>
+			<groupId>org.irods.jargon</groupId>
+			<artifactId>jargon-core</artifactId>
+			<version>${project.version}</version>
+		</dependency>
+	</dependencies>
+	<description>Tools for managing data type/format recognition</description>
+	<build>
+		<plugins>
+			<plugin>
+				<artifactId>maven-antrun-plugin</artifactId>
+				<executions>
+					<execution>
+						<id>0</id>
+						<phase>validate</phase>
+						<configuration>
+							<tasks>
+								<delete file="${basedir}/src/test/resources/testing.properties" />
+								<touch file="${basedir}/src/test/resources/testing.properties"
+									mkdirs="true" />
+								<echo file="${basedir}/src/test/resources/testing.properties"
+									append="true">
+									test.confirm=${jargon.test.confirm}
+									test.data.directory=${jargon.test.data.directory}
+									test.irods.admin=${jargon.test.irods.admin}
+									test.irods.admin.password=${jargon.test.irods.admin.password}
+									test.irods.user=${jargon.test.irods.user}
+									test.irods.password=${jargon.test.irods.password}
+									test.irods.resource=${jargon.test.irods.resource}
+									test2.irods.user=${jargon.test.irods.user2}
+									test2.irods.password=${jargon.test.irods.password2}
+									test2.irods.resource=${jargon.test.irods.resource2}
+									test3.irods.user=${jargon.test.irods.user3}
+									test3.irods.password=${jargon.test.irods.password3}
+									test3.irods.resource=${jargon.test.irods.resource3}
+									test.irods.host=${jargon.test.irods.host}
+									test.irods.port=${jargon.test.irods.port}
+									test.irods.zone=${jargon.test.irods.zone}
+									test.resource.group=${jargon.test.resource.group}
+									test.irods.userDN=${jargon.test.irods.userDN}
+									test.irods.scratch.subdir=${jargon.test.irods.scratch.subdir}
+									test.mac.icommand.path=${jargon.test.mac.icommand.path}
+									test.option.exercise.remoteexecstream=${jargon.test.option.exercise.remoteexecstream}
+								</echo>
+							</tasks>
+						</configuration>
+						<goals>
+							<goal>run</goal>
+						</goals>
+					</execution>
+				</executions>
+			</plugin>
+			<plugin>
+				<groupId>org.apache.maven.plugins</groupId>
+				<artifactId>maven-compiler-plugin</artifactId>
+				<version>2.3.2</version>
+				<configuration>
+					<debug>true</debug>
+				</configuration>
+			</plugin>
+		</plugins>
+	</build>
+
+</project>
diff --git a/irodsext-data-typer/src/main/java/.gitinclude b/irodsext-data-typer/src/main/java/.gitinclude
diff --git a/irodsext-data-typer/src/main/resources/.gitinclude b/irodsext-data-typer/src/main/resources/.gitinclude
diff --git a/irodsext-data-typer/src/test/java/.gitinclude b/irodsext-data-typer/src/test/java/.gitinclude
diff --git a/irodsext-data-typer/src/test/resources/log4j.properties b/irodsext-data-typer/src/test/resources/log4j.properties
@@ -0,0 +1,11 @@
+# Set root logger level to DEBUG and its only appender to A1.
+#log4j.rootLogger=ERROR, A1
+log4j.category.org.irods.jargon.core=INFO, A1
+log4j.category.org.irods.jargon.datautils=INFO, A1
+
+# A1 is set to be a ConsoleAppender.
+log4j.appender.A1=org.apache.log4j.ConsoleAppender
+
+# A1 uses PatternLayout.
+log4j.appender.A1.layout=org.apache.log4j.PatternLayout
+log4j.appender.A1.layout.ConversionPattern=%-4r [%t] %-5p %c %x - %m%n
diff --git a/pom.xml b/pom.xml
@@ -122,4 +122,8 @@
 			</build>
 		</profile>
 	</profiles>
+	<modules>
+		<module>irodsext-data-profiler</module>
+		<module>irodsext-data-typer</module>
+	</modules>
 </project>
diff --git a/target/jargon-irods-ext-4.2.1.0-SNAPSHOT.jar b/target/jargon-irods-ext-4.2.1.0-SNAPSHOT.jar