pax_global_header 0000666 0000000 0000000 00000000064 12657057427 0014531 g ustar 00root root 0000000 0000000 52 comment=6f1d3995960e5ce3e468b1e9e8cf202263c12ba7
elki-release0.7.1/ 0000775 0000000 0000000 00000000000 12657057427 0014023 5 ustar 00root root 0000000 0000000 elki-release0.7.1/.classpath 0000664 0000000 0000000 00000000744 12657057427 0016013 0 ustar 00root root 0000000 0000000
elki-release0.7.1/.gitignore 0000664 0000000 0000000 00000000077 12657057427 0016017 0 ustar 00root root 0000000 0000000 /target/
/local/
/**/target
/MiniGUI-saved-settings.txt
/**/*~
elki-release0.7.1/.project 0000664 0000000 0000000 00000001035 12657057427 0015471 0 ustar 00root root 0000000 0000000
elki-projectorg.eclipse.jdt.core.javabuilderorg.eclipse.m2e.core.maven2Builderorg.eclipse.m2e.core.maven2Natureorg.eclipse.jdt.core.javanature
elki-release0.7.1/.settings/ 0000775 0000000 0000000 00000000000 12657057427 0015741 5 ustar 00root root 0000000 0000000 elki-release0.7.1/.settings/org.eclipse.core.resources.prefs 0000664 0000000 0000000 00000000067 12657057427 0024157 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
encoding/=UTF-8
elki-release0.7.1/.settings/org.eclipse.jdt.core.prefs 0000664 0000000 0000000 00000056443 12657057427 0022737 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
org.eclipse.jdt.core.formatter.align_type_members_on_columns=false
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_allocation_expression=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_annotation=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_explicit_constructor_call=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_method_invocation=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_qualified_allocation_expression=0
org.eclipse.jdt.core.formatter.alignment_for_assignment=0
org.eclipse.jdt.core.formatter.alignment_for_binary_expression=0
org.eclipse.jdt.core.formatter.alignment_for_compact_if=0
org.eclipse.jdt.core.formatter.alignment_for_conditional_expression=0
org.eclipse.jdt.core.formatter.alignment_for_enum_constants=0
org.eclipse.jdt.core.formatter.alignment_for_expressions_in_array_initializer=0
org.eclipse.jdt.core.formatter.alignment_for_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_multiple_fields=16
org.eclipse.jdt.core.formatter.alignment_for_parameters_in_constructor_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_resources_in_try=80
org.eclipse.jdt.core.formatter.alignment_for_selector_in_method_invocation=0
org.eclipse.jdt.core.formatter.alignment_for_superclass_in_type_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_enum_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_constructor_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_union_type_in_multicatch=16
org.eclipse.jdt.core.formatter.blank_lines_after_imports=1
org.eclipse.jdt.core.formatter.blank_lines_after_package=1
org.eclipse.jdt.core.formatter.blank_lines_before_field=1
org.eclipse.jdt.core.formatter.blank_lines_before_first_class_body_declaration=0
org.eclipse.jdt.core.formatter.blank_lines_before_imports=1
org.eclipse.jdt.core.formatter.blank_lines_before_member_type=1
org.eclipse.jdt.core.formatter.blank_lines_before_method=1
org.eclipse.jdt.core.formatter.blank_lines_before_new_chunk=1
org.eclipse.jdt.core.formatter.blank_lines_before_package=0
org.eclipse.jdt.core.formatter.blank_lines_between_import_groups=1
org.eclipse.jdt.core.formatter.blank_lines_between_type_declarations=1
org.eclipse.jdt.core.formatter.brace_position_for_annotation_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_anonymous_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_array_initializer=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_block=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_block_in_case=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_constructor_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_enum_constant=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_enum_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_lambda_body=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_method_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_switch=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_block_comment=false
org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_javadoc_comment=false
org.eclipse.jdt.core.formatter.comment.format_block_comments=true
org.eclipse.jdt.core.formatter.comment.format_header=false
org.eclipse.jdt.core.formatter.comment.format_html=true
org.eclipse.jdt.core.formatter.comment.format_javadoc_comments=true
org.eclipse.jdt.core.formatter.comment.format_line_comments=true
org.eclipse.jdt.core.formatter.comment.format_source_code=true
org.eclipse.jdt.core.formatter.comment.indent_parameter_description=false
org.eclipse.jdt.core.formatter.comment.indent_root_tags=true
org.eclipse.jdt.core.formatter.comment.insert_new_line_before_root_tags=insert
org.eclipse.jdt.core.formatter.comment.insert_new_line_for_parameter=do not insert
org.eclipse.jdt.core.formatter.comment.line_length=80
org.eclipse.jdt.core.formatter.comment.new_lines_at_block_boundaries=true
org.eclipse.jdt.core.formatter.comment.new_lines_at_javadoc_boundaries=true
org.eclipse.jdt.core.formatter.comment.preserve_white_space_between_code_and_line_comments=false
org.eclipse.jdt.core.formatter.compact_else_if=true
org.eclipse.jdt.core.formatter.continuation_indentation=2
org.eclipse.jdt.core.formatter.continuation_indentation_for_array_initializer=2
org.eclipse.jdt.core.formatter.disabling_tag=@formatter\:off
org.eclipse.jdt.core.formatter.enabling_tag=@formatter\:on
org.eclipse.jdt.core.formatter.format_guardian_clause_on_one_line=false
org.eclipse.jdt.core.formatter.format_line_comment_starting_on_first_column=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_annotation_declaration_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_constant_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_declaration_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_type_header=true
org.eclipse.jdt.core.formatter.indent_breaks_compare_to_cases=true
org.eclipse.jdt.core.formatter.indent_empty_lines=false
org.eclipse.jdt.core.formatter.indent_statements_compare_to_block=true
org.eclipse.jdt.core.formatter.indent_statements_compare_to_body=true
org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_cases=true
org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_switch=false
org.eclipse.jdt.core.formatter.indentation.size=2
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_field=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_local_variable=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_method=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_package=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_parameter=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_type=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_label=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_after_opening_brace_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_after_type_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_at_end_of_file_if_missing=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_before_catch_in_try_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_closing_brace_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_before_else_in_if_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_finally_in_try_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_while_in_do_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_annotation_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_anonymous_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_block=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_constant=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_method_body=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_after_and_in_type_parameter=insert
org.eclipse.jdt.core.formatter.insert_space_after_assignment_operator=insert
org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation_type_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_binary_operator=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_brace_in_block=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_paren_in_cast=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_assert=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_case=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_labeled_statement=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_allocation_expression=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_annotation=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_throws=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_constant_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_explicitconstructorcall_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_increments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_inits=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_throws=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_invocation_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_field_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_local_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_parameterized_type_reference=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_superinterfaces=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_ellipsis=insert
org.eclipse.jdt.core.formatter.insert_space_after_lambda_arrow=insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_cast=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_try=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_postfix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_prefix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_question_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_after_question_in_wildcard=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_try_resources=insert
org.eclipse.jdt.core.formatter.insert_space_after_unary_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_and_in_type_parameter=insert
org.eclipse.jdt.core.formatter.insert_space_before_assignment_operator=insert
org.eclipse.jdt.core.formatter.insert_space_before_at_in_annotation_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_binary_operator=insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_cast=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_try=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_assert=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_case=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_default=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_labeled_statement=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_throws=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_constant_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_explicitconstructorcall_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_increments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_inits=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_throws=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_invocation_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_field_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_local_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_superinterfaces=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_ellipsis=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_lambda_arrow=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_annotation_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_anonymous_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_block=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_constructor_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_constant=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_method_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation_type_member_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_try=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_return=insert
org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_throw=insert
org.eclipse.jdt.core.formatter.insert_space_before_postfix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_prefix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_question_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_before_question_in_wildcard=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_try_resources=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_unary_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_brackets_in_array_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_braces_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_brackets_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_annotation_type_member_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.join_lines_in_comments=true
org.eclipse.jdt.core.formatter.join_wrapped_lines=true
org.eclipse.jdt.core.formatter.keep_else_statement_on_same_line=false
org.eclipse.jdt.core.formatter.keep_empty_array_initializer_on_one_line=false
org.eclipse.jdt.core.formatter.keep_imple_if_on_one_line=false
org.eclipse.jdt.core.formatter.keep_then_statement_on_same_line=false
org.eclipse.jdt.core.formatter.lineSplit=80
org.eclipse.jdt.core.formatter.never_indent_block_comments_on_first_column=false
org.eclipse.jdt.core.formatter.never_indent_line_comments_on_first_column=false
org.eclipse.jdt.core.formatter.number_of_blank_lines_at_beginning_of_method_body=0
org.eclipse.jdt.core.formatter.number_of_empty_lines_to_preserve=1
org.eclipse.jdt.core.formatter.put_empty_statement_on_new_line=true
org.eclipse.jdt.core.formatter.tabulation.char=space
org.eclipse.jdt.core.formatter.tabulation.size=2
org.eclipse.jdt.core.formatter.use_on_off_tags=false
org.eclipse.jdt.core.formatter.use_tabs_only_for_leading_indentations=false
org.eclipse.jdt.core.formatter.wrap_before_binary_operator=true
org.eclipse.jdt.core.formatter.wrap_before_or_operator_multicatch=true
org.eclipse.jdt.core.formatter.wrap_outer_expressions_when_nested=true
elki-release0.7.1/.settings/org.eclipse.jdt.ui.prefs 0000664 0000000 0000000 00000013670 12657057427 0022417 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
formatter_profile=_ELKI
formatter_settings_version=12
org.eclipse.jdt.ui.javadoc=false
org.eclipse.jdt.ui.text.custom_code_templates=/**\n * @return the ${bare_field_name}\n *//**\n * @param ${param} the ${bare_field_name} to set\n *//**\n * Constructor.\n *\n * ${tags}\n *//**\n * @author ${user}\n *\n * ${tags}\n *//**\n * \n *//**\n * ${tags}\n *//**\n * ${tags}\n * ${see_to_target}\n */${filecomment}\n${package_declaration}\n/*\n This file is part of ELKI\:\n Environment for Developing KDD-Applications Supported by Index-Structures\n\n Copyright (C) ${year}\n Ludwig-Maximilians-Universit\u00E4t M\u00FCnchen\n Lehr- und Forschungseinheit f\u00FCr Datenbanksysteme\n ELKI Development Team\n\n This program is free software\: you can redistribute it and/or modify\n it under the terms of the GNU Affero General Public License as published by\n the Free Software Foundation, either version 3 of the License, or\n (at your option) any later version.\n\n This program is distributed in the hope that it will be useful,\n but WITHOUT ANY WARRANTY; without even the implied warranty of\n MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\n GNU Affero General Public License for more details.\n\n You should have received a copy of the GNU Affero General Public License\n along with this program. If not, see <http\://www.gnu.org/licenses/>.\n */\n\n${typecomment}\n${type_declaration}\n\n\n\n// ${todo} Auto-generated catch block\nde.lmu.ifi.dbs.elki.logging.LoggingUtil.exception(${exception_var});// ${todo} Auto-generated method stub\n${body_statement}${body_statement}\n// ${todo} Auto-generated constructor stubreturn ${field};${field} \= ${param};
elki-release0.7.1/.settings/org.eclipse.m2e.core.prefs 0000664 0000000 0000000 00000000131 12657057427 0022620 0 ustar 00root root 0000000 0000000 activeProfiles=svg
eclipse.preferences.version=1
resolveWorkspaceProjects=true
version=1
elki-release0.7.1/.travis.yml 0000664 0000000 0000000 00000000375 12657057427 0016141 0 ustar 00root root 0000000 0000000 language: java
install: mvn -Psvg,tutorial,svm -DskipTests=true -Dmaven.javadoc.skip=true -B -V clean install
script: mvn -Pcodecov -DskipTests=false -Dmaven.javadoc.skip=true -B -V test
before_install: pip install --user codecov
after_success: codecov
elki-release0.7.1/README.md 0000664 0000000 0000000 00000021433 12657057427 0015305 0 ustar 00root root 0000000 0000000 # ELKI
##### Environment for Developing KDD-Applications Supported by Index-Structures
[](http://dblp.uni-trier.de/rec/bibtex/journals/pvldb/SchubertKEZSZ15)
[](http://elki.dbs.ifi.lmu.de/wiki/License)
[](https://travis-ci.org/elki-project/elki)
## Quick Summary
ELKI is an open source (AGPLv3) data mining software written in Java. The focus of ELKI is research in algorithms, with an emphasis on unsupervised methods in cluster analysis and outlier detection.
In order to achieve high performance and scalability, ELKI offers many data index structures such as the R*-tree that can provide major performance gains.
ELKI is designed to be easy to extend for researchers and students in this domain, and welcomes contributions in particular of new methods.
ELKI aims at providing a large collection of highly parameterizable algorithms, in order to allow easy and fair evaluation and benchmarking of algorithms.
## Background
Data mining research leads to many algorithms for similar tasks. A fair and useful comparison of these algorithms is difficult due to several reasons:
* Implementations of comparison partners are not at hand.
* If implementations of different authors are provided, an evaluation in terms of efficiency is biased to evaluate the efforts of different authors in efficient programming instead of evaluating algorithmic merits.
On the other hand, efficient data management tools like index-structures can show considerable impact on data mining tasks and are therefore useful for a broad variety of algorithms.
In ELKI, data mining algorithms and data management tasks are separated and allow for an independent evaluation. This separation makes ELKI unique among data mining frameworks like Weka or Rapidminer and frameworks for index structures like GiST. At the same time, ELKI is open to arbitrary data types, distance or similarity measures, or file formats. The fundamental approach is the independence of file parsers or database connections, data types, distances, distance functions, and data mining algorithms. Helper classes, e.g. for algebraic or analytic computations are available for all algorithms on equal terms.
With the development and publication of ELKI, we humbly hope to serve the data mining and database research community beneficially. The framework is **free** for scientific usage ("free" as in "open source", see [License](http://elki.dbs.ifi.lmu.de/wiki/License) for details). In case of application of ELKI in scientific publications, we would appreciate credit in form of a [citation](http://elki.dbs.ifi.lmu.de/wiki/Publications) of the appropriate publication (see [our list of publications](http://elki.dbs.ifi.lmu.de/wiki/Publications)), that is, the publication related to the release of ELKI you were using.
The people behind ELKI are documented on the [Team](http://elki.dbs.ifi.lmu.de/wiki/Team) page.
## The ELKI wiki: Tutorials, HowTos, Documentation
Beginners may want to start at the HowTo documents, [Examples](http://elki.dbs.ifi.lmu.de/wiki/Examples) and [Tutorials](http://elki.dbs.ifi.lmu.de/wiki/Tutorial) to help with difficult configuration scenarios and beginning with ELKI development.
This website serves as community development hub and task tracker for both [bug reports](http://elki.dbs.ifi.lmu.de/report/1), [Tutorials](http://elki.dbs.ifi.lmu.de/wiki/Tutorial), [FAQ](http://elki.dbs.ifi.lmu.de/wiki/FAQ), general issues and development tasks.
The most important documentation pages are: [Tutorial](http://elki.dbs.ifi.lmu.de/wiki/Tutorial), searchable [JavaDoc]((http://elki.dbs.ifi.lmu.de/wiki/JavaDoc)), [FAQ](http://elki.dbs.ifi.lmu.de/wiki/FAQ),
[InputFormat](http://elki.dbs.ifi.lmu.de/wiki/InputFormat), [DataTypes](http://elki.dbs.ifi.lmu.de/wiki/DataTypes), [DistanceFunctions](http://elki.dbs.ifi.lmu.de/wiki/DistanceFunctions), [DataSets](http://elki.dbs.ifi.lmu.de/wiki/DataSets), [Development](http://elki.dbs.ifi.lmu.de/wiki/Development), [Parameterization](http://elki.dbs.ifi.lmu.de/wiki/Parameterization),
[Visualization](http://elki.dbs.ifi.lmu.de/wiki/Visualization), [Benchmarking](http://elki.dbs.ifi.lmu.de/wiki/Benchmarking), and the
list of [Algorithms](http://elki.dbs.ifi.lmu.de/wiki/Algorithms) and [RelatedPublications](http://elki.dbs.ifi.lmu.de/wiki/RelatedPublications).
## Getting ELKI: Download and Citation Policy
You can download ELKI including source code on the [Releases](http://elki.dbs.ifi.lmu.de/wiki/Releases) page. ELKI uses the [AGPLv3 License](http://elki.dbs.ifi.lmu.de/wiki/License), a well-known open source license.
There is a list of [Publications](http://elki.dbs.ifi.lmu.de/wiki/Publications) that accompany the ELKI releases. When using ELKI in your scientific work, you should cite the publication corresponding to the ELKI release you are using, to give credit. This also helps to improve the repeatability of your experiments. We would also appreciate if you contributed your algorithm to ELKI to allow others to reproduce your results and compare with your algorithm (which in turn will likely get you citations). We try to document every publication used for implementing ELKI: the page [RelatedPublications](http://elki.dbs.ifi.lmu.de/wiki/RelatedPublications) is generated from the source code annotations.
## Efficiency Benchmarking with ELKI
ELKI is quite fast (see [some of our benchmark results](http://elki.dbs.ifi.lmu.de/wiki/Benchmarking)) but the focus lies on a *broad coverage of algorithms and variations*.
We discourage cross-platform benchmarking, because it is easy to produce misleading results by comparing apples and oranges. For fair comparability, you should implement all algorithms within ELKI, and use the same APIs. We have also observed Java JDK versions have a large impact on the runtime performance. To make your results reproducible, please [cite](http://elki.dbs.ifi.lmu.de/wiki/Publications) the version you have been using. See also [Benchmarking](http://elki.dbs.ifi.lmu.de/wiki/Benchmarking).
## Bug Reports and Contact
You can [browse the open bug reports](http://elki.dbs.ifi.lmu.de/report/1) or [create a new bug report](http://elki.dbs.ifi.lmu.de/newticket).
We also appreciate any comments, suggestions and code contributions. You can contact the core development team by e-mail: `elki () dbs ifi lmu de`
You can also [subscribe to the user mailing list](https://tools.rz.ifi.lmu.de/mailman/listinfo/elki-user) of ELKI, to exchange questions and ideas among other users or to get announcements (e.g., new releases, major changes) by the ELKI team.
Our primary "support" medium is this *community* mailing list. We appreciate if you share experiences and also success stories there that might help other users. This project makes a lot of progress, and information can get outdated rather quickly. If you prefer a web forum, you can *try* asking at [StackOverflow](http://www.stackoverflow.com/), but you should understand that this is a general (and third-party operated) programming community.
## Design Goals
* Extensibility - ELKI has a very modular design. We want to allow arbitrary combinations of data types, distance functions, algorithms, input formats, index structures and evaluations methods
* Contributions - ELKI grows only as fast as people contribute. By having a modular design that allows small contributions such as single distance functions and single algorithms, we can have students and external contributors participate in the progress of ELKI
* Completeness - for an exhaustive comparison of methods, we aim at covering as much published and credited work as we can
* Fairness - It is easy to do an unfair comparison by badly implementing a competitor. We try to implement every method as good as we can, and by publishing the source code allow for external improvements. We try to add all proposed improvements, such as index structures for faster range and kNN queries
* Performance - the modular architecture of ELKI allows optimized versions of algorithms and index structures for acceleration
* Progress - ELKI is changing with every release. To accomodate new features and enhance performance, API breakages are unavoidable. We hope to get a stable API with the 1.0 release, but we are not there yet.
## Building ELKI
ELKI is built using [Maven](https://maven.apache.org/):
mvn package
will produce an executable `jar` file named `elki/target/elki-.jar`.
To build the SVG based visualization add-on, use
mvn -P svg package
which produces an executable `jar` file named `addons/batikvis/target/elki-batik-visualization-.jar`
Required dependencies can be found in the folder `dependency` next to the `jar` file.
elki-release0.7.1/addons/ 0000775 0000000 0000000 00000000000 12657057427 0015273 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/ 0000775 0000000 0000000 00000000000 12657057427 0016124 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/.classpath 0000664 0000000 0000000 00000002253 12657057427 0020111 0 ustar 00root root 0000000 0000000
elki-release0.7.1/addons/3dpc/.gitignore 0000664 0000000 0000000 00000000011 12657057427 0020104 0 ustar 00root root 0000000 0000000 /target/
elki-release0.7.1/addons/3dpc/.project 0000664 0000000 0000000 00000001032 12657057427 0017567 0 ustar 00root root 0000000 0000000
elki-3dpcorg.eclipse.jdt.core.javabuilderorg.eclipse.m2e.core.maven2Builderorg.eclipse.jdt.core.javanatureorg.eclipse.m2e.core.maven2Nature
elki-release0.7.1/addons/3dpc/.settings/ 0000775 0000000 0000000 00000000000 12657057427 0020042 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/.settings/org.eclipse.core.resources.prefs 0000664 0000000 0000000 00000000170 12657057427 0026253 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
encoding//src/main/java=UTF-8
encoding//src/main/resources=UTF-8
encoding/=UTF-8
elki-release0.7.1/addons/3dpc/.settings/org.eclipse.jdt.core.prefs 0000664 0000000 0000000 00000056763 12657057427 0025045 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
org.eclipse.jdt.core.compiler.codegen.targetPlatform=1.7
org.eclipse.jdt.core.compiler.compliance=1.7
org.eclipse.jdt.core.compiler.problem.forbiddenReference=warning
org.eclipse.jdt.core.compiler.source=1.7
org.eclipse.jdt.core.formatter.align_type_members_on_columns=false
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_allocation_expression=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_annotation=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_explicit_constructor_call=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_method_invocation=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_qualified_allocation_expression=0
org.eclipse.jdt.core.formatter.alignment_for_assignment=0
org.eclipse.jdt.core.formatter.alignment_for_binary_expression=0
org.eclipse.jdt.core.formatter.alignment_for_compact_if=0
org.eclipse.jdt.core.formatter.alignment_for_conditional_expression=0
org.eclipse.jdt.core.formatter.alignment_for_enum_constants=0
org.eclipse.jdt.core.formatter.alignment_for_expressions_in_array_initializer=0
org.eclipse.jdt.core.formatter.alignment_for_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_multiple_fields=16
org.eclipse.jdt.core.formatter.alignment_for_parameters_in_constructor_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_resources_in_try=80
org.eclipse.jdt.core.formatter.alignment_for_selector_in_method_invocation=0
org.eclipse.jdt.core.formatter.alignment_for_superclass_in_type_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_enum_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_constructor_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_union_type_in_multicatch=16
org.eclipse.jdt.core.formatter.blank_lines_after_imports=1
org.eclipse.jdt.core.formatter.blank_lines_after_package=1
org.eclipse.jdt.core.formatter.blank_lines_before_field=1
org.eclipse.jdt.core.formatter.blank_lines_before_first_class_body_declaration=0
org.eclipse.jdt.core.formatter.blank_lines_before_imports=1
org.eclipse.jdt.core.formatter.blank_lines_before_member_type=1
org.eclipse.jdt.core.formatter.blank_lines_before_method=1
org.eclipse.jdt.core.formatter.blank_lines_before_new_chunk=1
org.eclipse.jdt.core.formatter.blank_lines_before_package=0
org.eclipse.jdt.core.formatter.blank_lines_between_import_groups=1
org.eclipse.jdt.core.formatter.blank_lines_between_type_declarations=1
org.eclipse.jdt.core.formatter.brace_position_for_annotation_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_anonymous_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_array_initializer=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_block=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_block_in_case=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_constructor_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_enum_constant=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_enum_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_lambda_body=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_method_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_switch=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_block_comment=false
org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_javadoc_comment=false
org.eclipse.jdt.core.formatter.comment.format_block_comments=true
org.eclipse.jdt.core.formatter.comment.format_header=false
org.eclipse.jdt.core.formatter.comment.format_html=true
org.eclipse.jdt.core.formatter.comment.format_javadoc_comments=true
org.eclipse.jdt.core.formatter.comment.format_line_comments=true
org.eclipse.jdt.core.formatter.comment.format_source_code=true
org.eclipse.jdt.core.formatter.comment.indent_parameter_description=false
org.eclipse.jdt.core.formatter.comment.indent_root_tags=true
org.eclipse.jdt.core.formatter.comment.insert_new_line_before_root_tags=insert
org.eclipse.jdt.core.formatter.comment.insert_new_line_for_parameter=do not insert
org.eclipse.jdt.core.formatter.comment.line_length=80
org.eclipse.jdt.core.formatter.comment.new_lines_at_block_boundaries=true
org.eclipse.jdt.core.formatter.comment.new_lines_at_javadoc_boundaries=true
org.eclipse.jdt.core.formatter.comment.preserve_white_space_between_code_and_line_comments=false
org.eclipse.jdt.core.formatter.compact_else_if=true
org.eclipse.jdt.core.formatter.continuation_indentation=2
org.eclipse.jdt.core.formatter.continuation_indentation_for_array_initializer=2
org.eclipse.jdt.core.formatter.disabling_tag=@formatter\:off
org.eclipse.jdt.core.formatter.enabling_tag=@formatter\:on
org.eclipse.jdt.core.formatter.format_guardian_clause_on_one_line=false
org.eclipse.jdt.core.formatter.format_line_comment_starting_on_first_column=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_annotation_declaration_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_constant_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_declaration_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_type_header=true
org.eclipse.jdt.core.formatter.indent_breaks_compare_to_cases=true
org.eclipse.jdt.core.formatter.indent_empty_lines=false
org.eclipse.jdt.core.formatter.indent_statements_compare_to_block=true
org.eclipse.jdt.core.formatter.indent_statements_compare_to_body=true
org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_cases=true
org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_switch=false
org.eclipse.jdt.core.formatter.indentation.size=2
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_field=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_local_variable=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_method=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_package=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_parameter=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_type=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_label=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_after_opening_brace_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_after_type_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_at_end_of_file_if_missing=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_before_catch_in_try_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_closing_brace_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_before_else_in_if_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_finally_in_try_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_while_in_do_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_annotation_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_anonymous_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_block=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_constant=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_method_body=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_after_and_in_type_parameter=insert
org.eclipse.jdt.core.formatter.insert_space_after_assignment_operator=insert
org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation_type_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_binary_operator=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_brace_in_block=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_paren_in_cast=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_assert=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_case=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_labeled_statement=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_allocation_expression=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_annotation=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_throws=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_constant_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_explicitconstructorcall_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_increments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_inits=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_throws=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_invocation_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_field_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_local_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_parameterized_type_reference=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_superinterfaces=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_ellipsis=insert
org.eclipse.jdt.core.formatter.insert_space_after_lambda_arrow=insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_cast=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_try=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_postfix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_prefix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_question_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_after_question_in_wildcard=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_try_resources=insert
org.eclipse.jdt.core.formatter.insert_space_after_unary_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_and_in_type_parameter=insert
org.eclipse.jdt.core.formatter.insert_space_before_assignment_operator=insert
org.eclipse.jdt.core.formatter.insert_space_before_at_in_annotation_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_binary_operator=insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_cast=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_try=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_assert=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_case=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_default=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_labeled_statement=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_throws=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_constant_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_explicitconstructorcall_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_increments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_inits=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_throws=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_invocation_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_field_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_local_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_superinterfaces=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_ellipsis=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_lambda_arrow=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_annotation_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_anonymous_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_block=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_constructor_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_constant=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_method_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation_type_member_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_try=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_return=insert
org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_throw=insert
org.eclipse.jdt.core.formatter.insert_space_before_postfix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_prefix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_question_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_before_question_in_wildcard=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_try_resources=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_unary_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_brackets_in_array_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_braces_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_brackets_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_annotation_type_member_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.join_lines_in_comments=true
org.eclipse.jdt.core.formatter.join_wrapped_lines=true
org.eclipse.jdt.core.formatter.keep_else_statement_on_same_line=false
org.eclipse.jdt.core.formatter.keep_empty_array_initializer_on_one_line=false
org.eclipse.jdt.core.formatter.keep_imple_if_on_one_line=false
org.eclipse.jdt.core.formatter.keep_then_statement_on_same_line=false
org.eclipse.jdt.core.formatter.lineSplit=80
org.eclipse.jdt.core.formatter.never_indent_block_comments_on_first_column=false
org.eclipse.jdt.core.formatter.never_indent_line_comments_on_first_column=false
org.eclipse.jdt.core.formatter.number_of_blank_lines_at_beginning_of_method_body=0
org.eclipse.jdt.core.formatter.number_of_empty_lines_to_preserve=1
org.eclipse.jdt.core.formatter.put_empty_statement_on_new_line=true
org.eclipse.jdt.core.formatter.tabulation.char=space
org.eclipse.jdt.core.formatter.tabulation.size=2
org.eclipse.jdt.core.formatter.use_on_off_tags=false
org.eclipse.jdt.core.formatter.use_tabs_only_for_leading_indentations=false
org.eclipse.jdt.core.formatter.wrap_before_binary_operator=true
org.eclipse.jdt.core.formatter.wrap_before_or_operator_multicatch=true
org.eclipse.jdt.core.formatter.wrap_outer_expressions_when_nested=true
elki-release0.7.1/addons/3dpc/.settings/org.eclipse.jdt.ui.prefs 0000664 0000000 0000000 00000013670 12657057427 0024520 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
formatter_profile=_ELKI
formatter_settings_version=12
org.eclipse.jdt.ui.javadoc=false
org.eclipse.jdt.ui.text.custom_code_templates=/**\n * @return the ${bare_field_name}\n *//**\n * @param ${param} the ${bare_field_name} to set\n *//**\n * Constructor.\n *\n * ${tags}\n *//**\n * @author ${user}\n *\n * ${tags}\n *//**\n * \n *//**\n * ${tags}\n *//**\n * ${tags}\n * ${see_to_target}\n */${filecomment}\n${package_declaration}\n/*\n This file is part of ELKI\:\n Environment for Developing KDD-Applications Supported by Index-Structures\n\n Copyright (C) ${year}\n Ludwig-Maximilians-Universit\u00E4t M\u00FCnchen\n Lehr- und Forschungseinheit f\u00FCr Datenbanksysteme\n ELKI Development Team\n\n This program is free software\: you can redistribute it and/or modify\n it under the terms of the GNU Affero General Public License as published by\n the Free Software Foundation, either version 3 of the License, or\n (at your option) any later version.\n\n This program is distributed in the hope that it will be useful,\n but WITHOUT ANY WARRANTY; without even the implied warranty of\n MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\n GNU Affero General Public License for more details.\n\n You should have received a copy of the GNU Affero General Public License\n along with this program. If not, see <http\://www.gnu.org/licenses/>.\n */\n\n${typecomment}\n${type_declaration}\n\n\n\n// ${todo} Auto-generated catch block\nde.lmu.ifi.dbs.elki.logging.LoggingUtil.exception(${exception_var});// ${todo} Auto-generated method stub\n${body_statement}${body_statement}\n// ${todo} Auto-generated constructor stubreturn ${field};${field} \= ${param};
elki-release0.7.1/addons/3dpc/.settings/org.eclipse.m2e.core.prefs 0000664 0000000 0000000 00000000126 12657057427 0024725 0 ustar 00root root 0000000 0000000 activeProfiles=
eclipse.preferences.version=1
resolveWorkspaceProjects=true
version=1
elki-release0.7.1/addons/3dpc/pom.xml 0000664 0000000 0000000 00000002763 12657057427 0017451 0 ustar 00root root 0000000 0000000
4.0.0de.lmu.ifi.dbs.elki0.7.1elki-project../../elki-3dpcjarELKI Data Mining Framework - 3D Parallel Coordinate Trees VisualizationGNU Affero General Public License (AGPL) version 3.0http://www.gnu.org/licenses/agpl-3.0.txtUTF-8de.lmu.ifi.dbs.elkielki${project.version}org.jogamp.jogljogl-all-main2.1.5-01org.jogamp.gluegengluegen-rt-main2.1.5-01de.lmu.ifi.dbs.elkielki-batik-visualization${project.version}
elki-release0.7.1/addons/3dpc/src/ 0000775 0000000 0000000 00000000000 12657057427 0016713 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/ 0000775 0000000 0000000 00000000000 12657057427 0017637 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/ 0000775 0000000 0000000 00000000000 12657057427 0020560 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/ 0000775 0000000 0000000 00000000000 12657057427 0021150 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ 0000775 0000000 0000000 00000000000 12657057427 0021745 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/ 0000775 0000000 0000000 00000000000 12657057427 0022514 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/ 0000775 0000000 0000000 00000000000 12657057427 0023264 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/ 0000775 0000000 0000000 00000000000 12657057427 0024210 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/ 0000775 0000000 0000000 00000000000 12657057427 0027111 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/ 0000775 0000000 0000000 00000000000 12657057427 0031134 5 ustar 00root root 0000000 0000000 OpenGL3DParallelCoordinates.java 0000664 0000000 0000000 00000050700 12657057427 0037105 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d package de.lmu.ifi.dbs.elki.visualization.parallel3d;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.awt.Font;
import java.awt.event.MouseAdapter;
import java.awt.event.MouseEvent;
import java.awt.event.WindowAdapter;
import java.awt.event.WindowEvent;
import java.util.ArrayList;
import java.util.List;
import javax.media.opengl.DebugGL2;
import javax.media.opengl.GL;
import javax.media.opengl.GL2;
import javax.media.opengl.GLAutoDrawable;
import javax.media.opengl.GLCapabilities;
import javax.media.opengl.GLEventListener;
import javax.media.opengl.GLProfile;
import javax.media.opengl.awt.GLCanvas;
import javax.media.opengl.glu.GLU;
import javax.swing.JFrame;
import javax.swing.SwingUtilities;
import com.jogamp.opengl.util.awt.TextRenderer;
import de.lmu.ifi.dbs.elki.data.Clustering;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.data.model.Model;
import de.lmu.ifi.dbs.elki.data.type.TypeUtil;
import de.lmu.ifi.dbs.elki.data.type.VectorFieldTypeInformation;
import de.lmu.ifi.dbs.elki.database.Database;
import de.lmu.ifi.dbs.elki.database.relation.Relation;
import de.lmu.ifi.dbs.elki.database.relation.RelationUtil;
import de.lmu.ifi.dbs.elki.logging.Logging;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarityMatrix;
import de.lmu.ifi.dbs.elki.result.Result;
import de.lmu.ifi.dbs.elki.result.ResultHandler;
import de.lmu.ifi.dbs.elki.result.ResultHierarchy;
import de.lmu.ifi.dbs.elki.result.ResultUtil;
import de.lmu.ifi.dbs.elki.result.ScalesResult;
import de.lmu.ifi.dbs.elki.utilities.Alias;
import de.lmu.ifi.dbs.elki.utilities.ClassGenericsUtil;
import de.lmu.ifi.dbs.elki.utilities.ELKIServiceRegistry;
import de.lmu.ifi.dbs.elki.utilities.documentation.Reference;
import de.lmu.ifi.dbs.elki.utilities.exceptions.AbortException;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.AbstractParameterizer;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.OptionID;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.EmptyParameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.ListParameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.Parameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.ObjectParameter;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.Layout;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.Layouter3DPC;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.SimilarityBasedLayouter3DPC;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.SimpleCircularMSTLayout3DPC;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.util.Arcball1DOFAdapter;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.util.Simple1DOFCamera;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.util.Simple1DOFCamera.CameraListener;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.util.SimpleMenuOverlay;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.util.SimpleMessageOverlay;
import de.lmu.ifi.dbs.elki.visualization.projections.ProjectionParallel;
import de.lmu.ifi.dbs.elki.visualization.projections.SimpleParallel;
import de.lmu.ifi.dbs.elki.visualization.style.ClusterStylingPolicy;
import de.lmu.ifi.dbs.elki.visualization.style.PropertiesBasedStyleLibrary;
import de.lmu.ifi.dbs.elki.visualization.style.StyleLibrary;
import de.lmu.ifi.dbs.elki.visualization.style.StylingPolicy;
/**
* Simple JOGL2 based parallel coordinates visualization.
*
* Reference:
*
* Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek:
* Interactive Data Mining with 3D-Parallel-Coordinate-Trees.
* Proceedings of the 2013 ACM International Conference on Management of Data
* (SIGMOD), New York City, NY, 2013.
*
*
* TODO: Improve generics of Layout3DPC.
*
* TODO: Generalize to multiple relations and non-numeric feature vectors.
*
* FIXME: proper depth-sorting of edges. It's not that simple, unfortunately.
*
* @author Erich Schubert
* @since 0.6.0
*
* @param Object type
*/
@Alias({ "3dpc", "3DPC" })
@Reference(authors = "Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek", title = "Interactive Data Mining with 3D-Parallel-Coordinate-Trees", booktitle = "Proc. of the 2013 ACM International Conference on Management of Data (SIGMOD)", url = "http://dx.doi.org/10.1145/2463676.2463696")
public class OpenGL3DParallelCoordinates implements ResultHandler {
/**
* Logging class.
*/
private static final Logging LOG = Logging.getLogger(OpenGL3DParallelCoordinates.class);
/**
* Settings
*/
Settings settings = new Settings<>();
/**
* Constructor.
*
* @param layout Layout
*/
public OpenGL3DParallelCoordinates(Layouter3DPC layout) {
settings.layout = layout;
}
@Override
public void processNewResult(ResultHierarchy hier, Result newResult) {
boolean nonefound = true;
List> rels = ResultUtil.getRelations(newResult);
for(Relation rel : rels) {
if(!TypeUtil.NUMBER_VECTOR_FIELD.isAssignableFromType(rel.getDataTypeInformation())) {
continue;
}
@SuppressWarnings("unchecked")
Relation vrel = (Relation) rel;
ScalesResult scales = ResultUtil.getScalesResult(vrel);
ProjectionParallel proj = new SimpleParallel(null, scales.getScales());
PropertiesBasedStyleLibrary stylelib = new PropertiesBasedStyleLibrary();
StylingPolicy stylepol = getStylePolicy(hier, stylelib);
new Instance<>(vrel, proj, settings, stylepol, stylelib).run();
nonefound = false;
}
if(nonefound && hier.equals(newResult)) {
LOG.warning("3DPC did not find a number vector field relation to visualize!");
}
}
/**
* Hack: Get/Create the style result.
*
* @return Style result
*/
public StylingPolicy getStylePolicy(ResultHierarchy hier, StyleLibrary stylelib) {
Database db = ResultUtil.findDatabase(hier);
ResultUtil.ensureClusteringResult(db, db);
List> clusterings = ResultUtil.getClusteringResults(db);
if(clusterings.size() > 0) {
return new ClusterStylingPolicy(clusterings.get(0), stylelib);
}
else {
throw new AbortException("No clustering result generated?!?");
}
}
/**
* Class keeping the visualizer settings.
*
* @author Erich Schubert
*
* @param Object type
*/
public static class Settings {
/**
* Similarity measure in use.
*/
public DimensionSimilarity sim;
/**
* Layouting method.
*/
public Layouter3DPC layout;
/**
* Line width.
*/
public float linewidth = 2f;
/**
* Texture width.
*/
public int texwidth = 1 << 8;
/**
* Texture height.
*/
public int texheight = 1 << 10;
/**
* Number of additional mipmaps to generate.
*/
public int mipmaps = 1;
}
/**
* Visualizer instance.
*
* @author Erich Schubert
*
* @param Object type
*/
public static class Instance implements GLEventListener {
/**
* Flag to enable debug rendering.
*/
static final boolean DEBUG = false;
/**
* Frame
*/
JFrame frame = null;
/**
* GLU utility class.
*/
GLU glu;
/**
* 3D parallel coordinates renderer.
*/
private Parallel3DRenderer prenderer;
/**
* The OpenGL canvas
*/
GLCanvas canvas;
/**
* Arcball controller.
*/
Arcball1DOFAdapter arcball;
/**
* Menu overlay.
*/
SimpleMenuOverlay menuOverlay;
/**
* Message overlay.
*/
SimpleMessageOverlay messageOverlay;
/**
* Handler to open the menu.
*/
MouseAdapter menuStarter;
/**
* Current state.
*/
State state = State.PREPARATION;
/**
* States of the UI.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
protected static enum State { //
PREPARATION, // Preparation phase
EXPLORE, // Exploration phase (rotate etc.)
MENU, // Menu open
}
/**
* Shared data for visualization modules.
*
* @author Erich Schubert
*
* @param Relation data type
*/
protected static class Shared {
/**
* Dimensionality.
*/
int dim;
/**
* Relation to visualize
*/
Relation rel;
/**
* Axis labels
*/
String[] labels;
/**
* Projection
*/
ProjectionParallel proj;
/**
* Style result
*/
StylingPolicy stylepol;
/**
* Style library
*/
StyleLibrary stylelib;
/**
* Layout
*/
Layout layout;
/**
* Settings
*/
Settings settings;
/**
* Camera handling class
*/
Simple1DOFCamera camera;
/**
* Text renderer
*/
TextRenderer textrenderer;
/**
* Current similarity matrix.
*/
DimensionSimilarityMatrix mat;
};
Shared shared = new Shared<>();
/**
* Constructor.
*
* @param rel Relation
* @param proj Projection
* @param settings Settings
* @param style Style result
*/
public Instance(Relation rel, ProjectionParallel proj, Settings settings, StylingPolicy stylepol, StyleLibrary stylelib) {
super();
this.shared.dim = RelationUtil.dimensionality(rel);
this.shared.rel = rel;
this.shared.proj = proj;
this.shared.stylelib = stylelib;
this.shared.stylepol = stylepol;
this.shared.settings = settings;
// Labels:
this.shared.labels = new String[this.shared.dim];
{
VectorFieldTypeInformation vrel = RelationUtil.assumeVectorField(rel);
for(int i = 0; i < this.shared.dim; i++) {
this.shared.labels[i] = vrel.getLabel(i);
}
}
this.prenderer = new Parallel3DRenderer<>(shared);
this.menuOverlay = new SimpleMenuOverlay() {
@Override
public void menuItemClicked(int item) {
if(item < 0) {
switchState(State.EXPLORE);
return;
}
final String name = menuOverlay.getOptions().get(item);
if(name == null) {
switchState(State.EXPLORE);
return;
}
LOG.debug("Relayout chosen: " + name);
relayout(name);
}
};
this.menuStarter = new MouseAdapter() {
@Override
public void mouseClicked(MouseEvent e) {
if(State.EXPLORE.equals(state)) {
if(e.getButton() == MouseEvent.BUTTON3) {
switchState(State.MENU);
// e.consume();
}
}
}
};
this.messageOverlay = new SimpleMessageOverlay();
// Init menu for SIGMOD demo. TODO: make more flexible.
{
ArrayList options = menuOverlay.getOptions();
for(Class clz : ELKIServiceRegistry.findAllImplementations(Layouter3DPC.class)) {
options.add(clz.getSimpleName());
}
if(options.size() > 0) {
options.add(null); // Spacer.
}
for(Class clz : ELKIServiceRegistry.findAllImplementations(DimensionSimilarity.class)) {
options.add(clz.getSimpleName());
}
}
GLProfile glp = GLProfile.getDefault();
GLCapabilities caps = new GLCapabilities(glp);
caps.setDoubleBuffered(true);
canvas = new GLCanvas(caps);
canvas.addGLEventListener(this);
frame = new JFrame("ELKI 3D Parallel Coordinate Visualization");
frame.setSize(600, 600);
frame.add(canvas);
}
void initLabels() {
// Labels:
shared.labels = new String[shared.dim];
for(int i = 0; i < shared.dim; i++) {
shared.labels[i] = RelationUtil.getColumnLabel(shared.rel, i);
}
}
@SuppressWarnings("unchecked")
protected void relayout(String parname) {
try {
final Class layoutc = ELKIServiceRegistry.findImplementation(Layouter3DPC.class, parname);
if(layoutc != null) {
ListParameterization params = new ListParameterization();
if(shared.settings.sim != null) {
params.addParameter(SimilarityBasedLayouter3DPC.SIM_ID, shared.settings.sim);
}
shared.settings.layout = ClassGenericsUtil.tryInstantiate(Layouter3DPC.class, layoutc, params);
switchState(State.PREPARATION);
startLayoutThread();
return;
}
}
catch(Exception e) {
LOG.exception(e);
// Try with Dimension Similarity instead.
}
try {
final Class simc = ELKIServiceRegistry.findImplementation(DimensionSimilarity.class, parname);
if(simc != null) {
shared.settings.sim = ClassGenericsUtil.tryInstantiate(DimensionSimilarity.class, simc, new EmptyParameterization());
if(!(shared.settings.layout instanceof SimilarityBasedLayouter3DPC)) {
ListParameterization params = new ListParameterization();
params.addParameter(SimilarityBasedLayouter3DPC.SIM_ID, shared.settings.sim);
shared.settings.layout = ClassGenericsUtil.tryInstantiate(Layouter3DPC.class, SimpleCircularMSTLayout3DPC.class, params);
}
// Clear similarity matrix:
shared.mat = null;
switchState(State.PREPARATION);
startLayoutThread();
return;
}
}
catch(Exception e) {
LOG.exception(e);
}
// TODO: improve menu, to allow pretty names and map name -> class.
LOG.warning("Menu parameter did not map to a class name - wrong package?");
}
private void startLayoutThread() {
new Thread() {
@Override
public void run() {
messageOverlay.setMessage("Computing axis similarities and layout...");
if(shared.settings.sim != null && shared.settings.layout instanceof SimilarityBasedLayouter3DPC) {
@SuppressWarnings("unchecked")
final SimilarityBasedLayouter3DPC layouter = (SimilarityBasedLayouter3DPC) shared.settings.layout;
if(shared.mat == null) {
messageOverlay.setMessage("Recomputing similarity matrix.");
shared.mat = DimensionSimilarityMatrix.make(shared.dim);
shared.settings.sim.computeDimensionSimilarites(shared.rel, shared.rel.getDBIDs(), shared.mat);
}
messageOverlay.setMessage("Recomputing layout using similarity matrix.");
final Layout newlayout = layouter.layout(shared.dim, shared.mat);
setLayout(newlayout);
}
else {
messageOverlay.setMessage("Recomputing layout.");
final Layout newlayout = shared.settings.layout.layout(shared.rel);
setLayout(newlayout);
}
}
}.start();
}
public void run() {
assert (frame != null);
frame.setVisible(true);
frame.setDefaultCloseOperation(JFrame.DISPOSE_ON_CLOSE);
frame.addWindowListener(new WindowAdapter() {
@Override
public void windowClosed(WindowEvent e) {
stop();
}
});
startLayoutThread();
}
public void stop() {
frame = null;
}
@Override
public void init(GLAutoDrawable drawable) {
GL2 gl = drawable.getGL().getGL2();
if(DEBUG) {
gl = new DebugGL2(gl);
drawable.setGL(gl);
}
// As we aren't really rendering models, but just drawing,
// We do not need to set up a lot.
gl.glClearColor(1f, 1f, 1f, 1f);
gl.glDisable(GL.GL_DEPTH_TEST);
gl.glDisable(GL.GL_CULL_FACE);
glu = new GLU();
shared.camera = new Simple1DOFCamera(glu);
shared.camera.addCameraListener(new CameraListener() {
@Override
public void cameraChanged() {
canvas.display();
}
});
// Setup arcball:
arcball = new Arcball1DOFAdapter(shared.camera);
shared.textrenderer = new TextRenderer(new Font(Font.SANS_SERIF, Font.BOLD, 36));
// Ensure listeners.
switchState(state);
}
/**
* Switch the current state.
*
* @param newstate State to switch to.
*/
void switchState(State newstate) {
// Reset mouse listeners
canvas.removeMouseListener(menuStarter);
canvas.removeMouseListener(menuOverlay);
canvas.removeMouseListener(arcball);
canvas.removeMouseMotionListener(arcball);
canvas.removeMouseWheelListener(arcball);
switch(newstate){
case EXPLORE: {
canvas.addMouseListener(menuStarter);
canvas.addMouseListener(arcball);
canvas.addMouseMotionListener(arcball);
canvas.addMouseWheelListener(arcball);
break;
}
case MENU: {
canvas.addMouseListener(menuOverlay);
break;
}
case PREPARATION: {
// No listeners.
break;
}
}
if(state != newstate) {
this.state = newstate;
canvas.repaint();
}
}
@Override
public void reshape(GLAutoDrawable drawable, int x, int y, int width, int height) {
shared.camera.setRatio(width / (double) height);
messageOverlay.setSize(width, height);
menuOverlay.setSize(width, height);
}
@Override
public void display(GLAutoDrawable drawable) {
GL2 gl = drawable.getGL().getGL2();
gl.glClear(GL.GL_COLOR_BUFFER_BIT /* | GL.GL_DEPTH_BUFFER_BIT */);
if(shared.layout != null) {
int res = prenderer.prepare(gl);
if(res == 1) {
// Request a repaint, to generate the next texture.
canvas.repaint();
}
if(res == 2) {
messageOverlay.setMessage("Texture rendering completed.");
switchState(State.EXPLORE);
}
}
shared.camera.apply(gl);
if(shared.layout != null) {
prenderer.drawParallelPlot(drawable, gl);
}
if(DEBUG) {
arcball.debugRender(gl);
}
if(State.MENU.equals(state)) {
menuOverlay.render(gl);
}
if(State.PREPARATION.equals(state)) {
messageOverlay.render(gl);
}
}
/**
* Callback from layouting thread.
*
* @param newlayout New layout.
*/
protected void setLayout(final Layout newlayout) {
SwingUtilities.invokeLater(new Runnable() {
@Override
public void run() {
shared.layout = newlayout;
prenderer.forgetTextures(null);
messageOverlay.setMessage("Rendering Textures.");
canvas.repaint();
}
});
}
@Override
public void dispose(GLAutoDrawable drawable) {
GL gl = drawable.getGL();
prenderer.forgetTextures(gl);
}
}
/**
* Parameterization class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*
* @param Object type
*/
public static class Parameterizer extends AbstractParameterizer {
/**
* Option for layouting method
*/
public static final OptionID LAYOUT_ID = new OptionID("parallel3d.layout", "Layouting method for 3DPC.");
/**
* Similarity measure
*/
Layouter3DPC layout;
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter> layoutP = new ObjectParameter<>(LAYOUT_ID, Layouter3DPC.class, SimpleCircularMSTLayout3DPC.class);
if(config.grab(layoutP)) {
layout = layoutP.instantiateClass(config);
}
}
@Override
protected OpenGL3DParallelCoordinates makeInstance() {
return new OpenGL3DParallelCoordinates<>(layout);
}
}
}
Parallel3DRenderer.java 0000664 0000000 0000000 00000046307 12657057427 0035344 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d package de.lmu.ifi.dbs.elki.visualization.parallel3d;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.awt.Color;
import java.awt.geom.Rectangle2D;
import java.nio.ByteBuffer;
import java.nio.ByteOrder;
import java.nio.FloatBuffer;
import java.util.Arrays;
import javax.media.opengl.GL;
import javax.media.opengl.GL2;
import javax.media.opengl.GLAutoDrawable;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.database.ids.DBIDIter;
import de.lmu.ifi.dbs.elki.logging.Logging;
import de.lmu.ifi.dbs.elki.math.MathUtil;
import de.lmu.ifi.dbs.elki.math.scales.LinearScale;
import de.lmu.ifi.dbs.elki.utilities.documentation.Reference;
import de.lmu.ifi.dbs.elki.utilities.io.ByteArrayUtil;
import de.lmu.ifi.dbs.elki.utilities.pairs.DoubleIntPair;
import de.lmu.ifi.dbs.elki.utilities.pairs.IntIntPair;
import de.lmu.ifi.dbs.elki.visualization.colors.ColorLibrary;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.OpenGL3DParallelCoordinates.Instance.Shared;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.Layout;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.Layout.Node;
import de.lmu.ifi.dbs.elki.visualization.style.ClassStylingPolicy;
import de.lmu.ifi.dbs.elki.visualization.style.StyleLibrary;
import de.lmu.ifi.dbs.elki.visualization.style.StylingPolicy;
import de.lmu.ifi.dbs.elki.visualization.svg.SVGUtil;
/**
* Renderer for 3D parallel plots.
*
* The tricky part here is the vertex buffer layout. We are drawing lines, so we
* need two vertices for each macro edge (edge between axes in the plot). We
* furthermore need the following properties: we need to draw edges sorted by
* depth to allow alpha and smoothing to work, and we need to be able to have
* different colors for clusters. An efficient batch therefore will consist of
* one edge-color combination. The input data comes in color-object ordering, so
* we need to seek through the edges when writing the buffer.
*
* In total, we have 2 * obj.size * edges.size vertices.
*
* Where obj.size = sum(col.sizes)
*
* Reference:
*
* Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek:
* Interactive Data Mining with 3D-Parallel-Coordinate-Trees.
* Proceedings of the 2013 ACM International Conference on Management of Data
* (SIGMOD), New York City, NY, 2013.
*
*
* TODO: generalize to non-numeric features and scales.
*
* @author Erich Schubert
* @since 0.6.0
*
* @param Object type
*/
@Reference(authors = "Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek", title = "Interactive Data Mining with 3D-Parallel-Coordinate-Trees", booktitle = "Proc. of the 2013 ACM International Conference on Management of Data (SIGMOD)", url = "http://dx.doi.org/10.1145/2463676.2463696")
public class Parallel3DRenderer {
/**
* Logging class.
*/
private static final Logging LOG = Logging.getLogger(Parallel3DRenderer.class);
/**
* Shared data.
*/
Shared shared;
/**
* Prerendered textures.
*/
private int[] textures;
/**
* Number of completely rendered textures.
*/
private int completedTextures = 0;
/**
* Depth indexes of axes.
*/
private int[] dindex;
/**
* Color table.
*/
float[] colors;
/**
* Axes sorting array.
*/
DoubleIntPair[] axes;
/**
* Vertex buffer.
*/
int[] vbi = new int[] { -1 };
/**
* Framebuffer for render-to-texture
*/
int[] frameBufferID = new int[] { -1 };
/**
* Constructor.
*
* @param shared Shared data.
*/
protected Parallel3DRenderer(Shared shared) {
super();
this.shared = shared;
this.dindex = new int[shared.dim];
axes = new DoubleIntPair[shared.dim];
for (int i = 0; i < shared.dim; i++) {
axes[i] = new DoubleIntPair(0.0, 0);
}
}
protected int prepare(GL2 gl) {
if (completedTextures < 0) {
if (textures != null) {
gl.glDeleteTextures(textures.length, textures, 0);
textures = null;
}
completedTextures = 0;
}
if (completedTextures >= shared.layout.edges.size()) {
return 0;
}
if (!LOG.isDebugging()) {
renderTexture(gl, completedTextures);
} else {
long start = System.nanoTime();
renderTexture(gl, completedTextures);
long end = System.nanoTime();
LOG.debug("Time to render texture: " + (end - start) / 1e6 + " ms.");
}
return (completedTextures < shared.layout.edges.size()) ? 1 : 2;
}
protected void drawParallelPlot(GLAutoDrawable drawable, GL2 gl) {
// Sort axes by sq. distance from camera, front-to-back:
sortAxes();
// Sort edges by the maximum (foreground) index.
IntIntPair[] edgesort = sortEdges(dindex);
if (textures != null) {
gl.glShadeModel(GL2.GL_FLAT);
// Render spider web:
gl.glLineWidth(shared.settings.linewidth); // outside glBegin!
gl.glBegin(GL.GL_LINES);
gl.glColor4f(0f, 0f, 0f, 1f);
for (Layout.Edge edge : shared.layout.edges) {
Node n1 = shared.layout.getNode(edge.dim1), n2 = shared.layout.getNode(edge.dim2);
gl.glVertex3d(n1.getX(), n1.getY(), 0f);
gl.glVertex3d(n2.getX(), n2.getY(), 0f);
}
gl.glEnd();
// Draw axes and 3DPC:
for (int i = 0; i < shared.dim; i++) {
final int d = axes[i].second;
final Node node1 = shared.layout.getNode(d);
// Draw edge textures
for (IntIntPair pair : edgesort) {
// Not yet available?
if (pair.second >= completedTextures) {
continue;
}
// Other axis must have a smaller index.
if (pair.first >= i) {
continue;
}
Layout.Edge edge = shared.layout.edges.get(pair.second);
// Must involve the current axis.
if (edge.dim1 != d && edge.dim2 != d) {
continue;
}
int od = axes[pair.first].second;
gl.glEnable(GL.GL_TEXTURE_2D);
gl.glColor4f(1f, 1f, 1f, 1f);
final Node node2 = shared.layout.getNode(od);
gl.glBindTexture(GL.GL_TEXTURE_2D, textures[pair.second]);
gl.glBegin(GL2.GL_QUADS);
gl.glTexCoord2d((edge.dim1 == d) ? 0f : 1f, 0f);
gl.glVertex3d(node1.getX(), node1.getY(), 0f);
gl.glTexCoord2d((edge.dim1 == d) ? 0f : 1f, 1f);
gl.glVertex3d(node1.getX(), node1.getY(), 1f);
gl.glTexCoord2d((edge.dim1 != d) ? 0f : 1f, 1f);
gl.glVertex3d(node2.getX(), node2.getY(), 1f);
gl.glTexCoord2d((edge.dim1 != d) ? 0f : 1f, 0f);
gl.glVertex3d(node2.getX(), node2.getY(), 0f);
gl.glEnd();
gl.glDisable(GL.GL_TEXTURE_2D);
}
// Draw axis
gl.glLineWidth(shared.settings.linewidth); // outside glBegin!
gl.glBegin(GL.GL_LINES);
gl.glColor4f(0f, 0f, 0f, 1f);
gl.glVertex3d(node1.getX(), node1.getY(), 0f);
gl.glVertex3d(node1.getX(), node1.getY(), 1f);
gl.glEnd();
// Draw ticks.
LinearScale scale = shared.proj.getAxisScale(d);
gl.glPointSize(shared.settings.linewidth * 2f);
gl.glBegin(GL.GL_POINTS);
for (double tick = scale.getMin(); tick <= scale.getMax() + scale.getRes() / 10; tick += scale.getRes()) {
gl.glVertex3d(node1.getX(), node1.getY(), scale.getScaled(tick));
}
gl.glEnd();
}
}
// Render labels
renderLabels(gl, edgesort);
}
void renderTexture(GL2 gl, int edge) {
assert (edge == completedTextures);
// Setup color table:
prepareColors(shared.stylepol);
// Setup buffer IDs:
if (vbi[0] < 0) {
gl.glGenBuffers(1, vbi, 0);
// Buffer for coordinates.
gl.glBindBuffer(GL.GL_ARRAY_BUFFER, vbi[0]);
gl.glBufferData(GL.GL_ARRAY_BUFFER, shared.rel.size() // Number of lines *
* 2 // 2 Points *
* 5 // 2 coordinates + 3 color
* ByteArrayUtil.SIZE_FLOAT, null, GL2.GL_DYNAMIC_DRAW);
} else {
gl.glBindBuffer(GL.GL_ARRAY_BUFFER, vbi[0]);
}
// Generate textures:
if (textures == null) {
textures = new int[shared.layout.edges.size()];
gl.glGenTextures(textures.length, textures, 0);
}
// Get a framebuffer:
if (frameBufferID[0] < 0) {
gl.glGenFramebuffers(1, frameBufferID, 0);
}
gl.glPushAttrib(GL2.GL_TEXTURE_BIT | GL2.GL_VIEWPORT_BIT);
gl.glPushMatrix();
gl.glBindFramebuffer(GL2.GL_FRAMEBUFFER, frameBufferID[0]);
{
Layout.Edge e = shared.layout.edges.get(edge);
gl.glBindTexture(GL.GL_TEXTURE_2D, textures[edge]);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_WRAP_S, GL2.GL_CLAMP_TO_EDGE);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_WRAP_T, GL2.GL_CLAMP_TO_EDGE);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_MIN_FILTER, GL2.GL_LINEAR);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_MAG_FILTER, GL2.GL_LINEAR);
gl.glTexEnvi(GL2.GL_TEXTURE_ENV, GL2.GL_TEXTURE_ENV_MODE, GL2.GL_MODULATE);
// Reserve texture image data:
gl.glTexImage2D(GL.GL_TEXTURE_2D, 0, GL2.GL_RGBA16, //
shared.settings.texwidth, shared.settings.texheight, 0, // Size
GL2.GL_RGBA, GL2.GL_FLOAT, null);
gl.glViewport(0, 0, shared.settings.texwidth, shared.settings.texheight);
// Attach 2D texture to this FBO
gl.glFramebufferTexture2D(GL2.GL_FRAMEBUFFER, GL2.GL_COLOR_ATTACHMENT0, //
GL.GL_TEXTURE_2D, textures[edge], 0);
if (gl.glCheckFramebufferStatus(GL2.GL_FRAMEBUFFER) != GL2.GL_FRAMEBUFFER_COMPLETE) {
LOG.warning("glCheckFramebufferStatus: " + gl.glCheckFramebufferStatus(GL2.GL_FRAMEBUFFER));
}
gl.glDisable(GL2.GL_LIGHTING);
gl.glDisable(GL.GL_CULL_FACE);
gl.glDisable(GL.GL_DEPTH_TEST);
gl.glMatrixMode(GL2.GL_PROJECTION);
gl.glLoadIdentity();
gl.glOrtho(0f, 1f, 0f, StyleLibrary.SCALE, -1, 1);
gl.glMatrixMode(GL2.GL_MODELVIEW);
gl.glLoadIdentity();
gl.glClearColor(1f, 1f, 1f, .0f);
gl.glClear(GL2.GL_COLOR_BUFFER_BIT);
gl.glShadeModel(GL2.GL_SMOOTH);
gl.glBlendFunc(GL.GL_SRC_ALPHA, GL.GL_ONE_MINUS_SRC_ALPHA);
gl.glEnable(GL.GL_BLEND);
gl.glEnable(GL.GL_LINE_SMOOTH);
gl.glLineWidth(shared.settings.linewidth);
if (shared.stylepol instanceof ClassStylingPolicy) {
ClassStylingPolicy csp = (ClassStylingPolicy) shared.stylepol;
final int mincolor = csp.getMinStyle();
ByteBuffer vbytebuffer = gl.glMapBuffer(GL.GL_ARRAY_BUFFER, GL2.GL_WRITE_ONLY);
FloatBuffer vertices = vbytebuffer.order(ByteOrder.nativeOrder()).asFloatBuffer();
int p = 0;
for (DBIDIter it = shared.rel.iterDBIDs(); it.valid(); it.advance(), p += 2) {
final O vec = shared.rel.get(it);
final int c = (csp.getStyleForDBID(it) - mincolor) * 3;
final float v1 = (float) shared.proj.fastProjectDataToRenderSpace(vec.doubleValue(e.dim1), e.dim1);
final float v2 = (float) shared.proj.fastProjectDataToRenderSpace(vec.doubleValue(e.dim2), e.dim2);
vertices.put(0.f);
vertices.put(v1);
vertices.put(colors[c]);
vertices.put(colors[c + 1]);
vertices.put(colors[c + 2]);
vertices.put(1.f);
vertices.put(v2);
vertices.put(colors[c]);
vertices.put(colors[c + 1]);
vertices.put(colors[c + 2]);
}
vertices.flip();
gl.glUnmapBuffer(GL.GL_ARRAY_BUFFER);
gl.glColor4f(1f, 1f, 1f, 1f);
gl.glBindBuffer(GL.GL_ARRAY_BUFFER, vbi[0]);
gl.glVertexPointer(2, GL.GL_FLOAT, 5 * ByteArrayUtil.SIZE_FLOAT, 0);
gl.glEnableClientState(GL2.GL_VERTEX_ARRAY);
gl.glColorPointer(3, GL.GL_FLOAT, 5 * ByteArrayUtil.SIZE_FLOAT, 2 * ByteArrayUtil.SIZE_FLOAT);
gl.glEnableClientState(GL2.GL_COLOR_ARRAY);
gl.glDrawArrays(GL.GL_LINES, 0, p);
gl.glDisableClientState(GL2.GL_COLOR_ARRAY);
gl.glDisableClientState(GL2.GL_VERTEX_ARRAY);
} else {
ByteBuffer vbytebuffer = gl.glMapBuffer(GL.GL_ARRAY_BUFFER, GL2.GL_WRITE_ONLY);
FloatBuffer vertices = vbytebuffer.order(ByteOrder.nativeOrder()).asFloatBuffer();
int p = 0;
for (DBIDIter it = shared.rel.iterDBIDs(); it.valid(); it.advance(), p += 2) {
final O vec = shared.rel.get(it);
final float v1 = (float) shared.proj.fastProjectDataToRenderSpace(vec.doubleValue(e.dim1), e.dim1);
final float v2 = (float) shared.proj.fastProjectDataToRenderSpace(vec.doubleValue(e.dim2), e.dim2);
vertices.put(0.f);
vertices.put(v1);
vertices.put(1.f);
vertices.put(v2);
}
vertices.flip();
gl.glUnmapBuffer(GL.GL_ARRAY_BUFFER);
gl.glBindBuffer(GL.GL_ARRAY_BUFFER, vbi[0]);
gl.glEnableClientState(GL2.GL_VERTEX_ARRAY);
gl.glVertexPointer(2, GL.GL_FLOAT, 0, 0);
gl.glColor3f(colors[0], colors[1], colors[2]);
gl.glDrawArrays(GL.GL_LINES, 0, p);
gl.glDisableClientState(GL2.GL_VERTEX_ARRAY);
}
if (shared.settings.mipmaps > 0) {
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_BASE_LEVEL, 0);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_MAX_LEVEL, shared.settings.mipmaps);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_MAG_FILTER, GL2.GL_LINEAR);
gl.glTexParameteri(GL.GL_TEXTURE_2D, GL2.GL_TEXTURE_MIN_FILTER, GL2.GL_LINEAR_MIPMAP_LINEAR);
gl.glHint(GL.GL_GENERATE_MIPMAP_HINT, GL.GL_NICEST);
gl.glGenerateMipmap(GL.GL_TEXTURE_2D);
}
gl.glBindTexture(GL.GL_TEXTURE_2D, 0);
if (!gl.glIsTexture(textures[0])) {
LOG.warning("Generating texture failed!");
}
}
// Switch back to the default framebuffer.
gl.glBindFramebuffer(GL2.GL_FRAMEBUFFER, 0);
gl.glPopMatrix();
gl.glPopAttrib();
++completedTextures;
if (completedTextures == shared.layout.edges.size()) {
// Free vertex buffer
gl.glDeleteBuffers(vbi.length, vbi, 0);
vbi[0] = -1;
// Free framebuffer
gl.glDeleteFramebuffers(1, frameBufferID, 0);
frameBufferID[0] = -1;
}
}
private void prepareColors(final StylingPolicy sp) {
if (colors == null) {
final ColorLibrary cols = shared.stylelib.getColorSet(StyleLibrary.PLOT);
if (sp instanceof ClassStylingPolicy) {
ClassStylingPolicy csp = (ClassStylingPolicy) sp;
final int maxStyle = csp.getMaxStyle();
colors = new float[maxStyle * 3];
for (int c = 0, s = csp.getMinStyle(); s < maxStyle; c += 3, s++) {
Color col = SVGUtil.stringToColor(cols.getColor(s));
colors[c + 0] = col.getRed() / 255.f;
colors[c + 1] = col.getGreen() / 255.f;
colors[c + 2] = col.getBlue() / 255.f;
}
} else {
// Render in black.
colors = new float[] { 0f, 0f, 0f };
}
}
}
protected void forgetTextures(GL gl) {
if (gl == null) {
completedTextures = -1;
} else {
if (textures != null) {
gl.glDeleteTextures(textures.length, textures, 0);
textures = null;
}
completedTextures = 0;
}
}
/**
* Depth-sort the axes.
*
* @param axes Sorted list of (depth, axis)
*/
private void sortAxes() {
for (int d = 0; d < shared.dim; d++) {
double dist = shared.camera.squaredDistanceFromCamera(shared.layout.getNode(d).getX(), shared.layout.getNode(d).getY());
axes[d].first = -dist;
axes[d].second = d;
}
Arrays.sort(axes);
for (int i = 0; i < shared.dim; i++) {
dindex[axes[i].second] = i;
}
}
/**
* Sort the edges for rendering.
*
* FIXME: THIS STILL HAS ERRORS SOMETIME!
*
* @param dindex depth index of axes.
* @return Sorted array of (minaxis, edgeid)
*/
private IntIntPair[] sortEdges(int[] dindex) {
IntIntPair[] edgesort = new IntIntPair[shared.layout.edges.size()];
int e = 0;
for (Layout.Edge edge : shared.layout.edges) {
int i1 = dindex[edge.dim1], i2 = dindex[edge.dim2];
edgesort[e] = new IntIntPair(Math.min(i1, i2), e);
e++;
}
Arrays.sort(edgesort);
return edgesort;
}
private void renderLabels(GL2 gl, IntIntPair[] edgesort) {
shared.textrenderer.begin3DRendering();
// UNDO the camera rotation. This will mess up text orientation!
gl.glRotatef((float) MathUtil.rad2deg(shared.camera.getRotationZ()), 0.f, 0.f, 1.f);
// Rotate to have the text face the camera direction, which looks +Y
// While the text will be visible from +Z and +Y is baseline.
gl.glRotatef(90.f, 1.f, 0.f, 0.f);
// HalfPI: 180 degree extra rotation, for text orientation.
double cos = Math.cos(shared.camera.getRotationZ()), sin = Math.sin(shared.camera.getRotationZ());
shared.textrenderer.setColor(0.0f, 0.0f, 0.0f, 1.0f);
float defaultscale = .01f / (float) Math.sqrt(shared.dim);
final float targetwidth = .2f; // TODO: div depth?
final float minratio = 8.f; // Assume all text is at least this width
for (int i = 0; i < shared.dim; i++) {
if (shared.labels[i] != null) {
Rectangle2D b = shared.textrenderer.getBounds(shared.labels[i]);
float scale = defaultscale;
if (Math.max(b.getWidth(), b.getHeight() * minratio) * scale > targetwidth) {
scale = targetwidth / (float) Math.max(b.getWidth(), b.getHeight() * minratio);
}
float w = (float) b.getWidth() * scale;
// Rotate manually, in x-z plane
float x = (float) (cos * shared.layout.getNode(i).getX() + sin * shared.layout.getNode(i).getY());
float y = (float) (-sin * shared.layout.getNode(i).getX() + cos * shared.layout.getNode(i).getY());
shared.textrenderer.draw3D(shared.labels[i], (x - w * .5f), 1.01f, -y, scale);
}
}
// Show depth indexes on debug:
if (OpenGL3DParallelCoordinates.Instance.DEBUG) {
shared.textrenderer.setColor(1f, 0f, 0f, 1f);
for (IntIntPair pair : edgesort) {
Layout.Edge edge = shared.layout.edges.get(pair.second);
final Node node1 = shared.layout.getNode(edge.dim1);
final Node node2 = shared.layout.getNode(edge.dim2);
final double mx = 0.5 * (node1.getX() + node2.getX());
final double my = 0.5 * (node1.getY() + node2.getY());
// Rotate manually, in x-z plane
float x = (float) (cos * mx + sin * my);
float y = (float) (-sin * mx + cos * my);
shared.textrenderer.draw3D(Integer.toString(pair.first), (x - defaultscale * .5f), 1.01f, -y, .5f * defaultscale);
}
}
shared.textrenderer.end3DRendering();
}
}
elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout/ 0000775 0000000 0000000 00000000000 12657057427 0032451 5 ustar 00root root 0000000 0000000 AbstractLayout3DPC.java 0000664 0000000 0000000 00000017667 12657057427 0036631 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.List;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.database.relation.Relation;
import de.lmu.ifi.dbs.elki.database.relation.RelationUtil;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.CovarianceDimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarityMatrix;
import de.lmu.ifi.dbs.elki.math.geometry.PrimsMinimumSpanningTree;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.AbstractParameterizer;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.Parameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.ObjectParameter;
import de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.Layout.Edge;
/**
* Abstract class for dimension similarity based layouters.
*
* @author Erich Schubert
* @since 0.6.0
*/
public abstract class AbstractLayout3DPC implements SimilarityBasedLayouter3DPC {
/**
* Similarity measure
*/
DimensionSimilarity sim = CovarianceDimensionSimilarity.STATIC;
/**
* Constructor.
*
* @param sim Similarity measure
*/
public AbstractLayout3DPC(DimensionSimilarity sim) {
super();
this.sim = sim;
}
@Override
public DimensionSimilarity getSimilarity() {
return sim;
}
@Override
public Layout layout(Relation rel) {
int dim = RelationUtil.dimensionality(rel);
DimensionSimilarityMatrix mat = DimensionSimilarityMatrix.make(dim);
sim.computeDimensionSimilarites(rel, rel.getDBIDs(), mat);
return layout(dim, mat);
}
@Override
public abstract Layout layout(final int dim, DimensionSimilarityMatrix mat);
/**
* Build the minimum spanning tree.
*
* @param mat Similarity matrix
* @param layout Layout to write to
* @return Root node id
*/
protected N buildSpanningTree(DimensionSimilarityMatrix mat, Layout layout) {
assert(layout.edges == null || layout.edges.size() == 0);
int[] iedges = PrimsMinimumSpanningTree.processDense(mat, DimensionSimilarityMatrix.PRIM_ADAPTER);
int root = findOptimalRoot(iedges);
// Convert edges:
ArrayList edges = new ArrayList<>(iedges.length >> 1);
for(int i = 0; i < iedges.length; i += 2) {
edges.add(new Edge(iedges[i], iedges[i + 1]));
}
layout.edges = edges;
// Prefill nodes array with nulls.
ArrayList nodes = new ArrayList<>(mat.size());
for(int i = 0; i < mat.size(); i++) {
nodes.add(null);
}
layout.nodes = nodes;
N rootnode = buildTree(iedges, root, -1, nodes);
return rootnode;
}
abstract N makeNode(int dim, List children);
/**
* Recursive tree build method.
*
* @param msg Minimum spanning graph
* @param cur Current node
* @param parent Parent node
* @param nodes Nodes array to fill - must be preinitialized with nulls!
* @return Tree of nodes
*/
protected N buildTree(int[] msg, int cur, int parent, ArrayList nodes) {
// Count the number of children:
int c = 0;
for(int i = 0; i < msg.length; i += 2) {
if(msg[i] == cur && msg[i + 1] != parent) {
c++;
}
if(msg[i + 1] == cur && msg[i] != parent) {
c++;
}
}
// Build children:
List children;
if(c > 0) {
children = new ArrayList<>(c);
}
else {
children = Collections.emptyList();
}
for(int i = 0; i < msg.length; i += 2) {
if(msg[i] == cur && msg[i + 1] != parent) {
c--;
children.add(buildTree(msg, msg[i + 1], cur, nodes));
}
if(msg[i + 1] == cur && msg[i] != parent) {
c--;
children.add(buildTree(msg, msg[i], cur, nodes));
}
}
assert(c == 0);
N node = makeNode(cur, children);
nodes.set(cur, node);
return node;
}
/**
* Compute the depth of the graph.
*
* @param node Current node
* @return Depth
*/
protected int maxDepth(Layout.Node node) {
int depth = 0;
for(int i = 0; i < node.numChildren(); i++) {
Layout.Node child = node.getChild(i);
depth = Math.max(depth, maxDepth(child));
}
return depth + 1;
}
/**
* Abstract node implementation.
*
* @author Erich Schubert
*
* @param Final node type
*/
public static class AbstractNode> implements Layout.Node {
/**
* Dimension represented by this node.
*/
public int dim;
/**
* Coordinates
*/
public double x, y;
/**
* Children
*/
public List children;
/**
* Constructor.
*
* @param dim Dimension number
* @param children Children
*/
public AbstractNode(int dim, List children) {
this.dim = dim;
this.children = children;
}
@Override
public int getDim() {
return dim;
}
@Override
public double getX() {
return x;
}
@Override
public double getY() {
return y;
}
@Override
public N getChild(int off) {
return children.get(off);
}
@Override
public int numChildren() {
return children.size();
}
}
/**
* Find the "optimal" root of a spanning tree. Optimal in the sense of: one of
* the most central nodes.
*
* This uses a simple message passing approach. Every node that has only one
* unset neighbor will emit a message to this neighbor. The node last to emit
* wins.
*
* @param msg Minimum spanning graph.
* @return
*/
public static int findOptimalRoot(int[] msg) {
final int size = (msg.length >> 1) + 1;
int[] depth = new int[size];
int[] missing = new int[size];
// We shouldn't need more iterations in any case ever.
int root = -1;
for(int i = 1; i < size; i++) {
boolean active = false;
for(int e = 0; e < msg.length; e += 2) {
if(depth[msg[e]] == 0) {
missing[msg[e + 1]]++;
}
if(depth[msg[e + 1]] == 0) {
missing[msg[e]]++;
}
}
for(int n = 0; n < size; n++) {
if(depth[n] == 0 && missing[n] <= 1) {
depth[n] = i;
root = n;
active = true;
}
}
if(!active) {
break;
}
Arrays.fill(missing, 0); // Clean up.
}
return root;
}
/**
* Parameterization class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public abstract static class Parameterizer extends AbstractParameterizer {
/**
* Similarity measure
*/
DimensionSimilarity sim;
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
ObjectParameter> simP = new ObjectParameter<>(SIM_ID, DimensionSimilarity.class, CovarianceDimensionSimilarity.class);
if(config.grab(simP)) {
sim = simP.instantiateClass(config);
}
}
}
}
CompactCircularMSTLayout3DPC.java 0000664 0000000 0000000 00000011472 12657057427 0040511 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.util.List;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.math.MathUtil;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarityMatrix;
import de.lmu.ifi.dbs.elki.utilities.documentation.Reference;
/**
* Simple circular layout based on the minimum spanning tree.
*
* Reference:
*
* Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek:
* Interactive Data Mining with 3D-Parallel-Coordinate-Trees.
* Proceedings of the 2013 ACM International Conference on Management of Data
* (SIGMOD), New York City, NY, 2013.
*
*
* @author Erich Schubert
* @since 0.6.0
*/
@Reference(authors = "Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek", title = "Interactive Data Mining with 3D-Parallel-Coordinate-Trees", booktitle = "Proc. of the 2013 ACM International Conference on Management of Data (SIGMOD)", url = "http://dx.doi.org/10.1145/2463676.2463696")
public class CompactCircularMSTLayout3DPC extends AbstractLayout3DPC {
/**
* Constructor.
*
* @param sim Similarity measure
*/
public CompactCircularMSTLayout3DPC(DimensionSimilarity sim) {
super(sim);
}
/**
* Node class for this layout.
*
* @author Erich Schubert
*/
public static class Node extends AbstractLayout3DPC.AbstractNode {
/**
* Weight (fanout needed)
*/
public int weight;
/**
* Constructor.
*
* @param dim Dimensionality
* @param children Number of children
*/
public Node(int dim, List children) {
super(dim, children);
}
}
@Override
public Layout layout(int dim, DimensionSimilarityMatrix mat) {
Layout l = new Layout();
Node rootnode = buildSpanningTree(mat, l);
int maxdepth = maxDepth(rootnode);
computeWeights(rootnode);
computePositions(rootnode, 0, 0, MathUtil.TWOPI, 0.0, 1.0 / (maxdepth - 1));
return l;
}
/**
* Recursively assign node weights.
*
* @param node Node to start with.
*/
private void computeWeights(Node node) {
int wsum = 0;
for (Node child : node.children) {
computeWeights(child);
wsum += child.weight;
}
node.weight = Math.max(1, wsum);
}
/**
* Compute the layout positions
*
* @param node Node to start with
* @param depth Depth of the node
* @param aoff Angular offset
* @param awid Angular width
* @param radius Current radius
* @param radiusinc Radius per depth step
*/
public static void computePositions(Node node, int depth, double aoff, double awid, double radius, double radiusinc) {
node.x = Math.sin(aoff) * radius;
node.y = Math.cos(aoff) * radius;
// Angular width per weight
double cwid = awid / node.weight;
// Avoid overly wide angles - shrink radius if necessary.
double div = 1;
if (node.weight > 1) {
double s = Math.sin(awid * .5), c = Math.cos(awid * .5);
double dx = s * (depth + 1), dy = c * (depth + 1) - depth;
double d = Math.sqrt(dx * dx + dy * dy) / MathUtil.SQRT2;
div = Math.max(div, d);
}
// Angular position of current child:
double cang = aoff - awid * .5 / div;
final double adjwid = cwid / div;
for (Node c : node.children) {
computePositions(c, depth + 1, cang + adjwid * c.weight * .5, adjwid * c.weight, radius + radiusinc, radiusinc);
cang += adjwid * c.weight;
}
}
@Override
Node makeNode(int dim, List children) {
return new Node(dim, children);
}
/**
* Parameteriation class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public static class Parameterizer extends AbstractLayout3DPC.Parameterizer {
@Override
protected CompactCircularMSTLayout3DPC makeInstance() {
return new CompactCircularMSTLayout3DPC(sim);
}
}
}
Layout.java 0000664 0000000 0000000 00000004667 12657057427 0034527 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.util.List;
/**
* Layout class.
*
* @author Erich Schubert
* @since 0.6.0
*/
public class Layout {
/**
* Edge class
*
* @author Erich Schubert
*/
public static class Edge {
/**
* The two dimensions connected by this edge.
*/
public int dim1, dim2;
/**
* Constructor.
*
* @param dim1 First dimension
* @param dim2 Second dimension
*/
public Edge(int dim1, int dim2) {
super();
this.dim1 = dim1;
this.dim2 = dim2;
}
}
/**
* Node of the layout tree.
*
* @author Erich Schubert
*/
public interface Node {
/**
* Get the dimension represented by this node.
*
* @return Dimension
*/
int getDim();
/**
* Get layout X position.
*
* @return X position
*/
double getX();
/**
* Get layout Y position.
*
* @return Y position
*/
double getY();
/**
* Get a child node.
*
* @param off offset
* @return Child node.
*/
Node getChild(int off);
/**
* Get the number of children.
*
* @return Number of children
*/
int numChildren();
}
/**
* Nodes
*/
public List nodes;
/**
* Edges
*/
public List edges;
// TODO: add support for triangles.
/**
* Get the node for the given dimension.
*
* @param dim Dimension
* @return Node
*/
public Node getNode(int dim) {
return nodes.get(dim);
}
}
Layouter3DPC.java 0000664 0000000 0000000 00000002552 12657057427 0035457 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import de.lmu.ifi.dbs.elki.database.relation.Relation;
/**
* Arrange parallel coordinates on a 2D plane, for 3D parallel coordinates.
*
* @author Erich Schubert
* @since 0.6.0
*
* @param Object type
*/
public interface Layouter3DPC {
/**
* Run the layouting algorithm.
*
* @param rel Relation to use
*
* @return Layout, nodes indexed by dimension.
*/
Layout layout(Relation rel);
}
MultidimensionalScalingMSTLayout3DPC.java 0000664 0000000 0000000 00000012060 12657057427 0042246 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.util.List;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarityMatrix;
import de.lmu.ifi.dbs.elki.math.linearalgebra.Matrix;
import de.lmu.ifi.dbs.elki.math.linearalgebra.SingularValueDecomposition;
import de.lmu.ifi.dbs.elki.utilities.documentation.Reference;
/**
* Layout the axes by multi-dimensional scaling.
*
* Reference:
*
* Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek:
* Interactive Data Mining with 3D-Parallel-Coordinate-Trees.
* Proceedings of the 2013 ACM International Conference on Management of Data
* (SIGMOD), New York City, NY, 2013.
*
*
* @author Erich Schubert
* @since 0.6.0
*/
@Reference(authors = "Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek", title = "Interactive Data Mining with 3D-Parallel-Coordinate-Trees", booktitle = "Proc. of the 2013 ACM International Conference on Management of Data (SIGMOD)", url = "http://dx.doi.org/10.1145/2463676.2463696")
public class MultidimensionalScalingMSTLayout3DPC extends AbstractLayout3DPC {
/**
* Constructor.
*
* @param sim Similarity measure
*/
public MultidimensionalScalingMSTLayout3DPC(DimensionSimilarity sim) {
super(sim);
}
/**
* Node class for this layout.
*
* @author Erich Schubert
*/
public static class Node extends AbstractLayout3DPC.AbstractNode {
/**
* Constructor.
*
* @param dim Dimensionality
* @param children Number of children
*/
public Node(int dim, List children) {
super(dim, children);
}
}
@Override
Node makeNode(int dim, List children) {
return new Node(dim, children);
}
@Override
public Layout layout(int dim, DimensionSimilarityMatrix mat) {
// Find maximum of |cij|
double max = 0;
for (int i = 0; i < dim; i++) {
for (int j = i + 1; j < dim; j++) {
double v = Math.abs(mat.get(j, i));
if (v > max) {
max = v;
}
}
}
// Assume that "max - |cij|" is now a distance.
// We use sqrt(v) instead of v*v, since this makes the method
// less aggressive overall, and we are not using euclidean anyway.
double means[] = new double[dim];
double mean = 0.0;
for (int i = 0; i < dim; i++) {
for (int j = i + 1; j < dim; j++) {
double v = max - Math.abs(mat.get(i, j));
v = -.5 * Math.sqrt(v);
means[i] += v;
means[j] += v;
mean += 2 * v;
}
}
for (int i = 0; i < dim; i++) {
means[i] /= dim;
}
mean /= (dim * dim);
// Build double centered matrix:
Matrix d = new Matrix(dim, dim);
for (int i = 0; i < dim; i++) {
d.set(i, i, -2 * means[i] + mean);
for (int j = i + 1; j < dim; j++) {
double v = max - Math.abs(mat.get(i, j));
v = -.5 * Math.sqrt(v) - means[i] - means[j] + mean;
d.set(i, j, v);
d.set(j, i, v);
}
}
SingularValueDecomposition svd = new SingularValueDecomposition(d);
Matrix u = svd.getU();
double[] lambda = svd.getSingularValues();
lambda[0] = Math.sqrt(Math.abs(lambda[0]));
lambda[1] = Math.sqrt(Math.abs(lambda[1]));
Layout l = new Layout();
buildSpanningTree(mat, l);
double maxabs = 0;
for (int i = 0; i < dim; i++) {
Node n = (Node) l.getNode(i);
n.x = u.get(i, 0) * lambda[0];
n.y = u.get(i, 1) * lambda[1];
double v = n.x * n.x + n.y * n.y;
if (v > maxabs) {
maxabs = v;
}
}
maxabs = 1. / Math.sqrt(maxabs);
for (int i = 0; i < dim; i++) {
Node n = (Node) l.getNode(i);
n.x *= maxabs;
n.y *= maxabs;
}
return l;
}
/**
* Parameteriation class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public static class Parameterizer extends AbstractLayout3DPC.Parameterizer {
@Override
protected MultidimensionalScalingMSTLayout3DPC makeInstance() {
return new MultidimensionalScalingMSTLayout3DPC(sim);
}
}
}
SimilarityBasedLayouter3DPC.java 0000664 0000000 0000000 00000003511 12657057427 0040461 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarityMatrix;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.OptionID;
/**
* Similarity based layouting algorithms.
*
* @author Erich Schubert
* @since 0.6.0
*
* @param Data type
*/
public interface SimilarityBasedLayouter3DPC extends Layouter3DPC {
/**
* Option for similarity measure.
*/
public static final OptionID SIM_ID = new OptionID("parallel3d.sim", "Similarity measure for spanning tree.");
/**
* Get the similarity measure to use.
*
* @return Similarity measure.
*/
DimensionSimilarity getSimilarity();
/**
* Main analysis method.
*
* @param dim Dimensionality
* @param mat Similarity matrix
* @return Layout
*/
Layout layout(final int dim, DimensionSimilarityMatrix mat);
}
SimpleCircularMSTLayout3DPC.java 0000664 0000000 0000000 00000010465 12657057427 0040355 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.util.List;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.math.MathUtil;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarity;
import de.lmu.ifi.dbs.elki.math.dimensionsimilarity.DimensionSimilarityMatrix;
import de.lmu.ifi.dbs.elki.utilities.documentation.Reference;
/**
* Simple circular layout based on the minimum spanning tree.
*
* Reference:
*
* Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek:
* Interactive Data Mining with 3D-Parallel-Coordinate-Trees.
* Proceedings of the 2013 ACM International Conference on Management of Data
* (SIGMOD), New York City, NY, 2013.
*
*
* @author Erich Schubert
* @since 0.6.0
*/
@Reference(authors = "Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek", title = "Interactive Data Mining with 3D-Parallel-Coordinate-Trees", booktitle = "Proc. of the 2013 ACM International Conference on Management of Data (SIGMOD)", url = "http://dx.doi.org/10.1145/2463676.2463696")
public class SimpleCircularMSTLayout3DPC extends AbstractLayout3DPC {
/**
* Constructor.
*
* @param sim Similarity measure
*/
public SimpleCircularMSTLayout3DPC(DimensionSimilarity sim) {
super(sim);
}
/**
* Node class for this layout.
*
* @author Erich Schubert
*/
public static class Node extends AbstractLayout3DPC.AbstractNode {
/**
* Weight (fanout needed)
*/
public int weight;
/**
* Constructor.
*
* @param dim Dimensionality
* @param children Number of children
*/
public Node(int dim, List children) {
super(dim, children);
}
}
@Override
public Layout layout(int dim, DimensionSimilarityMatrix mat) {
Layout l = new Layout();
Node rootnode = buildSpanningTree(mat, l);
int maxdepth = maxDepth(rootnode);
computeWeights(rootnode);
computePositions(rootnode, 0, 0, MathUtil.TWOPI, maxdepth);
return l;
}
/**
* Recursively assign node weights.
*
* @param node Node to start with.
*/
private void computeWeights(Node node) {
int wsum = 0;
for (Node child : node.children) {
computeWeights(child);
wsum += child.weight;
}
node.weight = Math.max(1, wsum);
}
/**
* Compute the layout positions
*
* @param node Node to start with
* @param depth Depth of the node
* @param aoff Angular offset
* @param awid Angular width
* @param maxdepth Maximum depth (used for radius computations)
*/
public static void computePositions(Node node, int depth, double aoff, double awid, int maxdepth) {
double r = depth / (maxdepth - 1.);
node.x = Math.sin(aoff + awid * .5) * r;
node.y = Math.cos(aoff + awid * .5) * r;
double cpos = aoff;
double cwid = awid / node.weight;
for (Node c : node.children) {
computePositions(c, depth + 1, cpos, cwid * c.weight, maxdepth);
cpos += cwid * c.weight;
}
}
@Override
Node makeNode(int dim, List children) {
return new Node(dim, children);
}
/**
* Parameteriation class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public static class Parameterizer extends AbstractLayout3DPC.Parameterizer {
@Override
protected SimpleCircularMSTLayout3DPC makeInstance() {
return new SimpleCircularMSTLayout3DPC(sim);
}
}
}
package-info.java 0000664 0000000 0000000 00000002030 12657057427 0035554 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/layout /**
* Layouting algorithms for 3D parallel coordinate plots.
*
* @author Erich Schubert
*/
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
package de.lmu.ifi.dbs.elki.visualization.parallel3d.layout; package-info.java 0000664 0000000 0000000 00000002700 12657057427 0034243 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d /**
* 3DPC: 3D parallel coordinate plot visualization for ELKI.
*
* This is an add-on module. Details were published as:
*
* Reference:
*
* Elke Achtert, Hans-Peter Kriegel, Erich Schubert, Arthur Zimek:
* Interactive Data Mining with 3D-Parallel-Coordinate-Trees.
* Proceedings of the 2013 ACM International Conference on Management of Data (SIGMOD), New York City, NY, 2013.
*
*
* For further information, visit also: http://elki.dbs.ifi.lmu.de/wiki/3DPC
*
* @author Erich Schubert
*/
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
package de.lmu.ifi.dbs.elki.visualization.parallel3d; elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util/ 0000775 0000000 0000000 00000000000 12657057427 0032111 5 ustar 00root root 0000000 0000000 AbstractSimpleOverlay.java 0000664 0000000 0000000 00000004400 12657057427 0037152 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util package de.lmu.ifi.dbs.elki.visualization.parallel3d.util;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import javax.media.opengl.GL2;
/**
* Renderer for simple overlays.
*
* TODO: make color configurable?
*
* @author Erich Schubert
* @since 0.6.0
*/
public abstract class AbstractSimpleOverlay {
/**
* Screen ratio.
*/
int width = 100;
/**
* Screen ratio.
*/
int height = 100;
/**
* Main render method
*
* @param gl GL context
*/
public final void render(GL2 gl) {
gl.glMatrixMode(GL2.GL_PROJECTION);
gl.glPushMatrix();
gl.glLoadIdentity();
gl.glMatrixMode(GL2.GL_MODELVIEW);
gl.glPushMatrix();
gl.glLoadIdentity();
gl.glOrtho(0, width, 0, height, -1, +1);
gl.glColor4f(0f, 0f, 0f, .5f);
// Fade background:
gl.glBegin(GL2.GL_QUADS);
gl.glVertex2f(0f, 0f);
gl.glVertex2f(width, 0f);
gl.glVertex2f(width, height);
gl.glVertex2f(0f, height);
gl.glEnd();
renderContents(gl);
gl.glMatrixMode(GL2.GL_PROJECTION);
gl.glPopMatrix();
gl.glMatrixMode(GL2.GL_MODELVIEW);
gl.glPopMatrix();
}
/**
* Render the actual overlay contents.
*
* @param gl GL context
*/
abstract void renderContents(GL2 gl);
/**
* Set screen ratio.
*
* @param width Screen width
* @param height Screen height
*/
public void setSize(int width, int height) {
this.width = width;
this.height = height;
}
}
Arcball1DOFAdapter.java 0000664 0000000 0000000 00000010570 12657057427 0036153 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util package de.lmu.ifi.dbs.elki.visualization.parallel3d.util;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.awt.Point;
import java.awt.event.MouseEvent;
import java.awt.event.MouseWheelEvent;
import javax.media.opengl.GL;
import javax.media.opengl.GL2;
import javax.swing.event.MouseInputAdapter;
import de.lmu.ifi.dbs.elki.math.linearalgebra.VMath;
/**
* Arcball style helper.
*
* @author Erich Schubert
* @since 0.6.0
*
* @apiviz.uses Simple1DOFCamera
*/
public class Arcball1DOFAdapter extends MouseInputAdapter {
/**
* Debug flag.
*/
private static final boolean DEBUG = false;
/**
* The true camera.
*/
private final Simple1DOFCamera camera;
/**
* Starting point of drag.
*/
private double[] startvec = new double[3];
/**
* Ending point of drag.
*/
private double[] endvec = new double[3];
/**
* Temp buffer we use for computations.
*/
private double[] near = new double[3], far = new double[3];
/**
* Starting angle for dragging.
*/
double startangle;
/**
* Camera that was in use when the drag started.
*/
private Simple1DOFCamera startcamera;
/**
* Constructor.
*
* @param camera Scene camera
*/
public Arcball1DOFAdapter(Simple1DOFCamera camera) {
super();
this.camera = camera;
}
@Override
public void mouseWheelMoved(MouseWheelEvent e) {
int s = e.getWheelRotation();
double distance = camera.getDistance();
for (; s >= 1; s--) {
distance += .1;
}
for (; s <= -1; s++) {
if (distance > .15) {
distance -= .1;
}
}
camera.setDistance(distance);
}
@Override
public void mousePressed(MouseEvent e) {
// Start drag.
startcamera = new Simple1DOFCamera(camera);
Point startPoint = e.getPoint();
mapMouseToPlane(startcamera, startPoint, startvec);
startangle = Math.atan2(startvec[1], startvec[0]);
}
/**
* Map the coordinates. Note: vec will be overwritten!
*
* @param camera Camera
* @param point2d Input point
* @param vec Output vector
*/
private void mapMouseToPlane(Simple1DOFCamera camera, Point point2d, double[] vec) {
// Far plane
camera.unproject(point2d.x, point2d.y, -100., far);
// Near plane
camera.unproject(point2d.x, point2d.y, 1., near);
// Delta vector: far -= near.
VMath.minusEquals(far, near);
// Intersection with z=0 plane:
// far.z - a * near.z = 0 -> a = far.z / near.z
if (near[2] < 0 || near[2] > 0) {
double a = far[2] / near[2];
vec[0] = far[0] - a * near[0];
vec[1] = far[1] - a * near[1];
vec[2] = 0;
}
}
@Override
public void mouseDragged(MouseEvent e) {
mapMouseToPlane(startcamera, e.getPoint(), endvec);
double upangle = Math.atan2(endvec[1], endvec[0]);
camera.setRotationZ(startcamera.getRotationZ() + (upangle - startangle));
// TODO: add full arcball support?
}
/**
* Render a debugging hint for the arcball tool.
*
* @param gl GL class for rendering-
*/
@SuppressWarnings("unused")
public void debugRender(GL2 gl) {
if (!DEBUG || (startcamera == null)) {
return;
}
gl.glLineWidth(3f);
gl.glColor4f(1.f, 0.f, 0.f, .66f);
gl.glBegin(GL.GL_LINES);
gl.glVertex3f(0.f, 0.f, 0.f);
double rot = startangle - startcamera.getRotationZ();
gl.glVertex3f((float) Math.cos(rot) * 4.f, (float) -Math.sin(rot) * 4.f, 0.f);
gl.glVertex3f((float) Math.cos(rot) * 1.f, (float) -Math.sin(rot) * 1.f, 0.f);
gl.glVertex3f((float) Math.cos(rot) * 1.f, (float) -Math.sin(rot) * 1.f, 1.f);
gl.glEnd();
}
} Simple1DOFCamera.java 0000664 0000000 0000000 00000017014 12657057427 0035654 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util package de.lmu.ifi.dbs.elki.visualization.parallel3d.util;
import java.util.ArrayList;
import javax.media.opengl.GL;
import javax.media.opengl.GL2;
import javax.media.opengl.fixedfunc.GLMatrixFunc;
import javax.media.opengl.glu.GLU;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
/**
* Class for a simple camera. Restricted: always looks at 0,0,0 from a position
* defined by rotationX, distance and height.
*
* For rotationX = 0, the camera will be at y=distance, x=0, so that the default
* view will have the usual X/Y plane on the ground.
*
* @author Erich Schubert
* @since 0.6.0
*
* @apiviz.uses CameraListener
*/
public class Simple1DOFCamera {
/**
* Rotation on X axis.
*/
private double rotationZ = 0.;
/**
* Distance
*/
private double distance = 3;
/**
* Height
*/
private double height = 1.5;
/**
* Screen ratio
*/
private double ratio = 1.0;
/**
* GLU viewport storage
*/
private int[] viewp = new int[4];
/**
* GLU model view matrix
*/
private double[] modelview = new double[16];
/**
* GLU projection matrix
*/
private double[] projection = new double[16];
/**
* GLU utility
*/
private GLU glu;
/**
* Cache the Z rotation cosine
*/
private double cosZ;
/**
* Cache the Z rotation sine
*/
private double sinZ;
/**
* Camera listener list.
*/
ArrayList listeners;
/**
* Constructor.
*
* @param glu GLU utility class
*/
public Simple1DOFCamera(GLU glu) {
super();
this.glu = glu;
viewp = new int[4];
modelview = new double[16];
projection = new double[16];
// Initial angle:
rotationZ = 0;
cosZ = 1.0;
sinZ = 0.0;
listeners = new ArrayList<>(5);
}
/**
* Copy constructor, for freezing a camera position.
*
* Note: listeners will not be copied.
*
* @param other Existing camera
*/
public Simple1DOFCamera(Simple1DOFCamera other) {
super();
this.rotationZ = other.rotationZ;
this.distance = other.distance;
this.height = other.height;
this.ratio = other.ratio;
this.viewp = other.viewp.clone();
this.modelview = other.modelview.clone();
this.projection = other.projection.clone();
this.glu = other.glu;
this.listeners = null; // Do NOT copy listeners
}
/**
* Get the distance
*
* @return Distance
*/
public double getDistance() {
return distance;
}
/**
* Set camera distance
*
* @param distance Distance
*/
public void setDistance(double distance) {
this.distance = distance;
fireCameraChangedEvent();
}
/**
* Get camera height
*
* @return Camera height
*/
public double getHeight() {
return height;
}
/**
* Set camera height
*
* @param height Camera height
*/
public void setHeight(double height) {
this.height = height;
fireCameraChangedEvent();
}
/**
* Get screen ratio.
*
* @return Screen ratio
*/
public double getRatio() {
return ratio;
}
/**
* Set screen ratio.
*
* @param ratio Screen ratio
*/
public void setRatio(double ratio) {
this.ratio = ratio;
// As this will be triggered by the canvas only,
// Do not fire an event.
}
/**
* Get the Z rotation in radians.
*
* @return Z rotation angle (radians)
*/
public double getRotationZ() {
return rotationZ;
}
/**
* Set the z rotation angle in radians.
*
* @param rotationZ Z rotation angle.
*/
public void setRotationZ(double rotationZ) {
this.rotationZ = rotationZ;
this.cosZ = Math.cos(rotationZ);
this.sinZ = Math.sin(rotationZ);
fireCameraChangedEvent();
}
/**
* Apply the camera to a GL context.
*
* @param gl GL context.
*/
public void apply(GL2 gl) {
// 3D projection
gl.glMatrixMode(GL2.GL_PROJECTION);
gl.glLoadIdentity();
// Perspective.
glu.gluPerspective(35, ratio, 1, 1000);
glu.gluLookAt(distance * sinZ, distance * -cosZ, height, // pos
0, 0, .5, // center
0, 0, 1 // up
);
// Change back to model view matrix.
gl.glMatrixMode(GL2.GL_MODELVIEW);
gl.glLoadIdentity();
// Store the matrixes for reference.
gl.glGetIntegerv(GL.GL_VIEWPORT, viewp, 0);
gl.glGetDoublev(GLMatrixFunc.GL_MODELVIEW_MATRIX, modelview, 0);
gl.glGetDoublev(GLMatrixFunc.GL_PROJECTION_MATRIX, projection, 0);
}
/**
* Unproject a screen coordinate (at depth 0) to 3D model coordinates.
*
* @param x X
* @param y Y
* @return model coordinates
*/
public double[] unproject(double x, double y, double z) {
double[] out = new double[3];
unproject(x, y, z, out);
return out;
}
/**
* Unproject a screen coordinate (at depth 0) to 3D model coordinates.
*
* @param x X
* @param y Y
* @param Out output buffer
*/
public void unproject(double x, double y, double z, double[] out) {
glu.gluUnProject(x, y, z, modelview, 0, projection, 0, viewp, 0, out, 0);
}
/**
* Project a coordinate
*
* @param vec Input vector buffer
* @param Out output buffer
*/
public void project(double x, double y, double z, double[] out) {
glu.gluProject(x, y, z, modelview, 0, projection, 0, viewp, 0, out, 0);
}
/**
* Distance from camera
*
* @param x X position
* @param y Y position
* @return Squared distance
*/
public double squaredDistanceFromCamera(double x, double y) {
double dx = (distance * sinZ) - x;
double dy = (distance * -cosZ) - y;
return dx * dx + dy * dy;
}
/**
* Distance from camera
*
* @param x X position
* @param y Y position
* @param z Z position
* @return Squared distance
*/
public double squaredDistanceFromCamera(double x, double y, double z) {
double dx = (distance * sinZ) - x;
double dy = (distance * -cosZ) - y;
double dz = height - z;
return dx * dx + dy * dy + dz * dz;
}
/**
* Add a camera listener.
*
* @param lis Listener
*/
public void addCameraListener(CameraListener lis) {
if (listeners == null) {
listeners = new ArrayList<>(5);
}
listeners.add(lis);
}
/**
* Remove a camera listener.
*
* @param lis Listener
*/
public void removeCameraListener(CameraListener lis) {
if (listeners == null) {
return;
}
listeners.remove(lis);
}
/**
* Fire the camera changed event.
*/
protected void fireCameraChangedEvent() {
if (listeners != null) {
for (CameraListener list : listeners) {
list.cameraChanged();
}
}
}
/**
* Camera Listener class
*
* @author Erich Schubert
*/
public static interface CameraListener {
/**
* Camera changed.
*/
public void cameraChanged();
}
}
SimpleMenuOverlay.java 0000664 0000000 0000000 00000013074 12657057427 0036322 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util package de.lmu.ifi.dbs.elki.visualization.parallel3d.util;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.awt.Font;
import java.awt.event.MouseEvent;
import java.awt.event.MouseListener;
import java.awt.geom.Rectangle2D;
import java.util.ArrayList;
import javax.media.opengl.GL2;
import com.jogamp.opengl.util.awt.TextRenderer;
/**
* Simple menu overlay.
*
* TODO: Hover effects?
*
* @author Erich Schubert
* @since 0.6.0
*/
public abstract class SimpleMenuOverlay extends AbstractSimpleOverlay implements MouseListener {
/**
* Text renderer
*/
TextRenderer renderer;
/**
* Options to display.
*/
private ArrayList options = new ArrayList<>();
/**
* Font size.
*/
int fontsize;
/**
* Constructor.
*/
public SimpleMenuOverlay() {
super();
fontsize = 18;
renderer = new TextRenderer(new Font(Font.SANS_SERIF, Font.PLAIN, fontsize));
}
@Override
void renderContents(GL2 gl) {
final int numopt = getOptions().size();
double maxwidth = 0.;
Rectangle2D[] bounds = new Rectangle2D[numopt];
for (int i = 0; i < numopt; i++) {
final String string = getOptions().get(i);
if (string != null) {
bounds[i] = renderer.getBounds(string);
maxwidth = Math.max(bounds[i].getWidth(), maxwidth);
}
}
final double padding = .5 * fontsize;
final double margin = padding * .3;
final float bx1 = (float) (.5 * (width - maxwidth - padding));
final float bx2 = (float) (.5 * (width + maxwidth + padding));
double totalheight = numopt * fontsize + (numopt - 1) * padding;
// Render background buttons:
gl.glBegin(GL2.GL_QUADS);
gl.glColor4f(0f, 0f, 0f, .75f);
for (int i = 0; i < numopt; i++) {
if (bounds[numopt - i - 1] == null) {
continue;
}
final double pos = (height - totalheight) * .5 + fontsize * i + padding * i;
// Render a background button:
gl.glVertex2f(bx1, (float) (pos - margin));
gl.glVertex2f(bx1, (float) (pos + fontsize + margin));
gl.glVertex2f(bx2, (float) (pos + fontsize + margin));
gl.glVertex2f(bx2, (float) (pos - margin));
}
gl.glEnd();
// Render text labels:
renderer.beginRendering(width, height);
renderer.setColor(1f, 1f, 1f, 1f);
// NOTE: renderer uses (0,0) as BOTTOM left!
for (int j = 0; j < numopt; j++) {
if (bounds[j] == null) {
continue;
}
final int i = numopt - j - 1;
// Extra offset .17 * fontsize because of text baseline!
final double pos = (height - totalheight) * .5 + fontsize * i + padding * i + .17 * fontsize;
renderer.setColor(1f, 1f, 1f, 1f);
renderer.draw(getOptions().get(j), (width - (int) bounds[j].getWidth()) >> 1, (int) pos);
}
renderer.endRendering();
}
@Override
public void mouseClicked(MouseEvent e) {
// close with right mouse button:
if (e.getButton() == MouseEvent.BUTTON3) {
menuItemClicked(-1);
}
if (e.getButton() != MouseEvent.BUTTON1) {
return;
}
final int mx = e.getX(), my = e.getY();
final int numopt = getOptions().size();
double maxwidth = 0.;
for (int i = 0; i < numopt; i++) {
final String string = getOptions().get(i);
if (string != null) {
Rectangle2D bounds = renderer.getBounds(string);
maxwidth = Math.max(bounds.getWidth(), maxwidth);
}
}
final double padding = .5 * fontsize;
final double margin = padding * .3;
final float bx1 = (float) (.5 * (width - maxwidth - padding));
final float bx2 = (float) (.5 * (width + maxwidth + padding));
if (mx < bx1 || mx > bx2) {
menuItemClicked(-1);
return;
}
double totalheight = numopt * fontsize + (numopt - 1) * padding;
for (int i = 0; i < numopt; i++) {
final double pos = (height - totalheight) * .5 + fontsize * i + padding * i;
if (my < pos - margin) {
menuItemClicked(-1);
return;
}
if (my < pos + fontsize + margin) {
menuItemClicked(i);
return;
}
}
// Otherwise, close.
menuItemClicked(-1);
}
/**
* Callback when a menu item was clicked.
*
* @param item Item number that was clicked.
*/
public abstract void menuItemClicked(int item);
@Override
public void mousePressed(MouseEvent e) {
// Ignore
}
@Override
public void mouseReleased(MouseEvent e) {
// Ignore
}
@Override
public void mouseEntered(MouseEvent e) {
// Ignore
}
@Override
public void mouseExited(MouseEvent e) {
// Ignore
}
/**
* @return the options
*/
public ArrayList getOptions() {
return options;
}
/**
* @param options the options to set
*/
public void setOptions(ArrayList options) {
this.options = options;
}
}
SimpleMessageOverlay.java 0000664 0000000 0000000 00000005253 12657057427 0037002 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util package de.lmu.ifi.dbs.elki.visualization.parallel3d.util;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.awt.Font;
import java.awt.geom.Rectangle2D;
import javax.media.opengl.GL2;
import com.jogamp.opengl.util.awt.TextRenderer;
/**
* Simple menu overlay.
*
* @author Erich Schubert
* @since 0.6.0
*/
public class SimpleMessageOverlay extends AbstractSimpleOverlay {
/**
* Text renderer
*/
TextRenderer renderer;
/**
* Message to display.
*/
private String message = "";
/**
* Font size.
*/
int fontsize;
/**
* Constructor.
*/
public SimpleMessageOverlay() {
super();
fontsize = 18;
renderer = new TextRenderer(new Font(Font.SANS_SERIF, Font.PLAIN, fontsize));
}
@Override
void renderContents(GL2 gl) {
// Get text bounds.
Rectangle2D bounds = renderer.getBounds(getMessage());
// Render message background:
final float bx1 = .45f * (float) (width - bounds.getWidth());
final float bx2 = .55f * (float) (width + bounds.getWidth());
final float by1 = .45f * (float) (height - bounds.getHeight());
final float by2 = .55f * (float) (height + bounds.getHeight());
gl.glBegin(GL2.GL_QUADS);
gl.glColor4f(0f, 0f, 0f, .75f);
gl.glVertex2f(bx1, by1);
gl.glVertex2f(bx1, by2);
gl.glVertex2f(bx2, by2);
gl.glVertex2f(bx2, by1);
gl.glEnd();
// Render message
renderer.beginRendering(width, height);
renderer.setColor(1f, 1f, 1f, 1f);
renderer.setColor(1f, 1f, 1f, 1f);
renderer.draw(getMessage(), (width - (int) bounds.getWidth()) >> 1, (height - (int) bounds.getHeight()) >> 1);
renderer.endRendering();
}
/**
* @return the message
*/
public String getMessage() {
return message;
}
/**
* @param message the message to set
*/
public void setMessage(String message) {
this.message = message;
}
}
package-info.java 0000664 0000000 0000000 00000002020 12657057427 0035213 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/java/de/lmu/ifi/dbs/elki/visualization/parallel3d/util /**
* Utility classes (primarily rendering utilities).
*
* @author Erich Schubert
*/
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
package de.lmu.ifi.dbs.elki.visualization.parallel3d.util; elki-release0.7.1/addons/3dpc/src/main/resources/ 0000775 0000000 0000000 00000000000 12657057427 0021651 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/resources/3dpc.CMD 0000664 0000000 0000000 00000002124 12657057427 0023026 0 ustar 00root root 0000000 0000000 @ECHO OFF
REM Windows batch file for running ELKI with 3DPC add-on.
REM You will need the following files:
REM elki.jar, 3dpc.jar, JOGL2 jars (gluegen-rt, jogl-all, natives)
REM
REM You can put them into the same folder, or into a "lib" directory
REM Build classpath
SETLOCAL enabledelayedexpansion
SET CP=
FOR %%F IN ("*.jar" "lib\*.jar") DO (
SET CP=!CP!;%%F%
)
REM Locate Java. Honor JAVA_HOME variable
IF DEFINED JAVA_HOME (
SET JAVA="%JAVA_HOME%\bin\java.exe"
)
REM Try in windows path
IF "%JAVA%" == "" (
FOR /f %%j IN ("java.exe") DO (
SET JAVA=%%~dpn$PATH:j
)
)
REM Guess typical installation directories for java 7.
IF "%JAVA%" == "" (
FOR /d %%i IN ("%ProgramFiles%\Java\jdk7*" "%ProgramFiles%\Java\jre7*" "%ProgramFiles%(x86)\Java\jdk7*" "%ProgramFiles(x86)%\Java\jre7*") DO (
SET JAVA=%%i\bin\java.exe
)
)
REM Fail if still no java found
IF "%JAVA%" == "" (
ECHO CANNOT LOCATE JAVA. Try setting JAVA_HOME, or modify the
ECHO Launcher script with your path.
PAUSE
EXIT
)
REM Launch ELKI:
"%JAVA%" -Xmx1G ^
-cp "%CP%" ^
de.lmu.ifi.dbs.elki.application.ELKILauncher
elki-release0.7.1/addons/3dpc/src/main/resources/LICENSE.txt 0000664 0000000 0000000 00000106045 12657057427 0023502 0 ustar 00root root 0000000 0000000 ELKI: Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2013 Lehr- und Forschungseinheit für Datenbanksysteme, Ludwig-Maximilians-Universität München
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
You can contact the authors at:
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
Oettingenstraße 67
80538 München
GERMANY
or via email at elki@dbs.ifi.lmu.de
Disclaimer:
This license applies only to the software developed by the authors named above
in the "de.lmu.ifi.dbs.elki" Java namespace. You could have received this code
as part of a bundle that also contains code by other authors where other
license terms apply, and it is up to you to verify this is the correct file.
---
GNU AFFERO GENERAL PUBLIC LICENSE
Version 3, 19 November 2007
Copyright (C) 2007 Free Software Foundation, Inc.
Everyone is permitted to copy and distribute verbatim copies
of this license document, but changing it is not allowed.
Preamble
The GNU Affero General Public License is a free, copyleft license for
software and other kinds of works, specifically designed to ensure
cooperation with the community in the case of network server software.
The licenses for most software and other practical works are designed
to take away your freedom to share and change the works. By contrast,
our General Public Licenses are intended to guarantee your freedom to
share and change all versions of a program--to make sure it remains free
software for all its users.
When we speak of free software, we are referring to freedom, not
price. Our General Public Licenses are designed to make sure that you
have the freedom to distribute copies of free software (and charge for
them if you wish), that you receive source code or can get it if you
want it, that you can change the software or use pieces of it in new
free programs, and that you know you can do these things.
Developers that use our General Public Licenses protect your rights
with two steps: (1) assert copyright on the software, and (2) offer
you this License which gives you legal permission to copy, distribute
and/or modify the software.
A secondary benefit of defending all users' freedom is that
improvements made in alternate versions of the program, if they
receive widespread use, become available for other developers to
incorporate. Many developers of free software are heartened and
encouraged by the resulting cooperation. However, in the case of
software used on network servers, this result may fail to come about.
The GNU General Public License permits making a modified version and
letting the public access it on a server without ever releasing its
source code to the public.
The GNU Affero General Public License is designed specifically to
ensure that, in such cases, the modified source code becomes available
to the community. It requires the operator of a network server to
provide the source code of the modified version running there to the
users of that server. Therefore, public use of a modified version, on
a publicly accessible server, gives the public access to the source
code of the modified version.
An older license, called the Affero General Public License and
published by Affero, was designed to accomplish similar goals. This is
a different license, not a version of the Affero GPL, but Affero has
released a new version of the Affero GPL which permits relicensing under
this license.
The precise terms and conditions for copying, distribution and
modification follow.
TERMS AND CONDITIONS
0. Definitions.
"This License" refers to version 3 of the GNU Affero General Public License.
"Copyright" also means copyright-like laws that apply to other kinds of
works, such as semiconductor masks.
"The Program" refers to any copyrightable work licensed under this
License. Each licensee is addressed as "you". "Licensees" and
"recipients" may be individuals or organizations.
To "modify" a work means to copy from or adapt all or part of the work
in a fashion requiring copyright permission, other than the making of an
exact copy. The resulting work is called a "modified version" of the
earlier work or a work "based on" the earlier work.
A "covered work" means either the unmodified Program or a work based
on the Program.
To "propagate" a work means to do anything with it that, without
permission, would make you directly or secondarily liable for
infringement under applicable copyright law, except executing it on a
computer or modifying a private copy. Propagation includes copying,
distribution (with or without modification), making available to the
public, and in some countries other activities as well.
To "convey" a work means any kind of propagation that enables other
parties to make or receive copies. Mere interaction with a user through
a computer network, with no transfer of a copy, is not conveying.
An interactive user interface displays "Appropriate Legal Notices"
to the extent that it includes a convenient and prominently visible
feature that (1) displays an appropriate copyright notice, and (2)
tells the user that there is no warranty for the work (except to the
extent that warranties are provided), that licensees may convey the
work under this License, and how to view a copy of this License. If
the interface presents a list of user commands or options, such as a
menu, a prominent item in the list meets this criterion.
1. Source Code.
The "source code" for a work means the preferred form of the work
for making modifications to it. "Object code" means any non-source
form of a work.
A "Standard Interface" means an interface that either is an official
standard defined by a recognized standards body, or, in the case of
interfaces specified for a particular programming language, one that
is widely used among developers working in that language.
The "System Libraries" of an executable work include anything, other
than the work as a whole, that (a) is included in the normal form of
packaging a Major Component, but which is not part of that Major
Component, and (b) serves only to enable use of the work with that
Major Component, or to implement a Standard Interface for which an
implementation is available to the public in source code form. A
"Major Component", in this context, means a major essential component
(kernel, window system, and so on) of the specific operating system
(if any) on which the executable work runs, or a compiler used to
produce the work, or an object code interpreter used to run it.
The "Corresponding Source" for a work in object code form means all
the source code needed to generate, install, and (for an executable
work) run the object code and to modify the work, including scripts to
control those activities. However, it does not include the work's
System Libraries, or general-purpose tools or generally available free
programs which are used unmodified in performing those activities but
which are not part of the work. For example, Corresponding Source
includes interface definition files associated with source files for
the work, and the source code for shared libraries and dynamically
linked subprograms that the work is specifically designed to require,
such as by intimate data communication or control flow between those
subprograms and other parts of the work.
The Corresponding Source need not include anything that users
can regenerate automatically from other parts of the Corresponding
Source.
The Corresponding Source for a work in source code form is that
same work.
2. Basic Permissions.
All rights granted under this License are granted for the term of
copyright on the Program, and are irrevocable provided the stated
conditions are met. This License explicitly affirms your unlimited
permission to run the unmodified Program. The output from running a
covered work is covered by this License only if the output, given its
content, constitutes a covered work. This License acknowledges your
rights of fair use or other equivalent, as provided by copyright law.
You may make, run and propagate covered works that you do not
convey, without conditions so long as your license otherwise remains
in force. You may convey covered works to others for the sole purpose
of having them make modifications exclusively for you, or provide you
with facilities for running those works, provided that you comply with
the terms of this License in conveying all material for which you do
not control copyright. Those thus making or running the covered works
for you must do so exclusively on your behalf, under your direction
and control, on terms that prohibit them from making any copies of
your copyrighted material outside their relationship with you.
Conveying under any other circumstances is permitted solely under
the conditions stated below. Sublicensing is not allowed; section 10
makes it unnecessary.
3. Protecting Users' Legal Rights From Anti-Circumvention Law.
No covered work shall be deemed part of an effective technological
measure under any applicable law fulfilling obligations under article
11 of the WIPO copyright treaty adopted on 20 December 1996, or
similar laws prohibiting or restricting circumvention of such
measures.
When you convey a covered work, you waive any legal power to forbid
circumvention of technological measures to the extent such circumvention
is effected by exercising rights under this License with respect to
the covered work, and you disclaim any intention to limit operation or
modification of the work as a means of enforcing, against the work's
users, your or third parties' legal rights to forbid circumvention of
technological measures.
4. Conveying Verbatim Copies.
You may convey verbatim copies of the Program's source code as you
receive it, in any medium, provided that you conspicuously and
appropriately publish on each copy an appropriate copyright notice;
keep intact all notices stating that this License and any
non-permissive terms added in accord with section 7 apply to the code;
keep intact all notices of the absence of any warranty; and give all
recipients a copy of this License along with the Program.
You may charge any price or no price for each copy that you convey,
and you may offer support or warranty protection for a fee.
5. Conveying Modified Source Versions.
You may convey a work based on the Program, or the modifications to
produce it from the Program, in the form of source code under the
terms of section 4, provided that you also meet all of these conditions:
a) The work must carry prominent notices stating that you modified
it, and giving a relevant date.
b) The work must carry prominent notices stating that it is
released under this License and any conditions added under section
7. This requirement modifies the requirement in section 4 to
"keep intact all notices".
c) You must license the entire work, as a whole, under this
License to anyone who comes into possession of a copy. This
License will therefore apply, along with any applicable section 7
additional terms, to the whole of the work, and all its parts,
regardless of how they are packaged. This License gives no
permission to license the work in any other way, but it does not
invalidate such permission if you have separately received it.
d) If the work has interactive user interfaces, each must display
Appropriate Legal Notices; however, if the Program has interactive
interfaces that do not display Appropriate Legal Notices, your
work need not make them do so.
A compilation of a covered work with other separate and independent
works, which are not by their nature extensions of the covered work,
and which are not combined with it such as to form a larger program,
in or on a volume of a storage or distribution medium, is called an
"aggregate" if the compilation and its resulting copyright are not
used to limit the access or legal rights of the compilation's users
beyond what the individual works permit. Inclusion of a covered work
in an aggregate does not cause this License to apply to the other
parts of the aggregate.
6. Conveying Non-Source Forms.
You may convey a covered work in object code form under the terms
of sections 4 and 5, provided that you also convey the
machine-readable Corresponding Source under the terms of this License,
in one of these ways:
a) Convey the object code in, or embodied in, a physical product
(including a physical distribution medium), accompanied by the
Corresponding Source fixed on a durable physical medium
customarily used for software interchange.
b) Convey the object code in, or embodied in, a physical product
(including a physical distribution medium), accompanied by a
written offer, valid for at least three years and valid for as
long as you offer spare parts or customer support for that product
model, to give anyone who possesses the object code either (1) a
copy of the Corresponding Source for all the software in the
product that is covered by this License, on a durable physical
medium customarily used for software interchange, for a price no
more than your reasonable cost of physically performing this
conveying of source, or (2) access to copy the
Corresponding Source from a network server at no charge.
c) Convey individual copies of the object code with a copy of the
written offer to provide the Corresponding Source. This
alternative is allowed only occasionally and noncommercially, and
only if you received the object code with such an offer, in accord
with subsection 6b.
d) Convey the object code by offering access from a designated
place (gratis or for a charge), and offer equivalent access to the
Corresponding Source in the same way through the same place at no
further charge. You need not require recipients to copy the
Corresponding Source along with the object code. If the place to
copy the object code is a network server, the Corresponding Source
may be on a different server (operated by you or a third party)
that supports equivalent copying facilities, provided you maintain
clear directions next to the object code saying where to find the
Corresponding Source. Regardless of what server hosts the
Corresponding Source, you remain obligated to ensure that it is
available for as long as needed to satisfy these requirements.
e) Convey the object code using peer-to-peer transmission, provided
you inform other peers where the object code and Corresponding
Source of the work are being offered to the general public at no
charge under subsection 6d.
A separable portion of the object code, whose source code is excluded
from the Corresponding Source as a System Library, need not be
included in conveying the object code work.
A "User Product" is either (1) a "consumer product", which means any
tangible personal property which is normally used for personal, family,
or household purposes, or (2) anything designed or sold for incorporation
into a dwelling. In determining whether a product is a consumer product,
doubtful cases shall be resolved in favor of coverage. For a particular
product received by a particular user, "normally used" refers to a
typical or common use of that class of product, regardless of the status
of the particular user or of the way in which the particular user
actually uses, or expects or is expected to use, the product. A product
is a consumer product regardless of whether the product has substantial
commercial, industrial or non-consumer uses, unless such uses represent
the only significant mode of use of the product.
"Installation Information" for a User Product means any methods,
procedures, authorization keys, or other information required to install
and execute modified versions of a covered work in that User Product from
a modified version of its Corresponding Source. The information must
suffice to ensure that the continued functioning of the modified object
code is in no case prevented or interfered with solely because
modification has been made.
If you convey an object code work under this section in, or with, or
specifically for use in, a User Product, and the conveying occurs as
part of a transaction in which the right of possession and use of the
User Product is transferred to the recipient in perpetuity or for a
fixed term (regardless of how the transaction is characterized), the
Corresponding Source conveyed under this section must be accompanied
by the Installation Information. But this requirement does not apply
if neither you nor any third party retains the ability to install
modified object code on the User Product (for example, the work has
been installed in ROM).
The requirement to provide Installation Information does not include a
requirement to continue to provide support service, warranty, or updates
for a work that has been modified or installed by the recipient, or for
the User Product in which it has been modified or installed. Access to a
network may be denied when the modification itself materially and
adversely affects the operation of the network or violates the rules and
protocols for communication across the network.
Corresponding Source conveyed, and Installation Information provided,
in accord with this section must be in a format that is publicly
documented (and with an implementation available to the public in
source code form), and must require no special password or key for
unpacking, reading or copying.
7. Additional Terms.
"Additional permissions" are terms that supplement the terms of this
License by making exceptions from one or more of its conditions.
Additional permissions that are applicable to the entire Program shall
be treated as though they were included in this License, to the extent
that they are valid under applicable law. If additional permissions
apply only to part of the Program, that part may be used separately
under those permissions, but the entire Program remains governed by
this License without regard to the additional permissions.
When you convey a copy of a covered work, you may at your option
remove any additional permissions from that copy, or from any part of
it. (Additional permissions may be written to require their own
removal in certain cases when you modify the work.) You may place
additional permissions on material, added by you to a covered work,
for which you have or can give appropriate copyright permission.
Notwithstanding any other provision of this License, for material you
add to a covered work, you may (if authorized by the copyright holders of
that material) supplement the terms of this License with terms:
a) Disclaiming warranty or limiting liability differently from the
terms of sections 15 and 16 of this License; or
b) Requiring preservation of specified reasonable legal notices or
author attributions in that material or in the Appropriate Legal
Notices displayed by works containing it; or
c) Prohibiting misrepresentation of the origin of that material, or
requiring that modified versions of such material be marked in
reasonable ways as different from the original version; or
d) Limiting the use for publicity purposes of names of licensors or
authors of the material; or
e) Declining to grant rights under trademark law for use of some
trade names, trademarks, or service marks; or
f) Requiring indemnification of licensors and authors of that
material by anyone who conveys the material (or modified versions of
it) with contractual assumptions of liability to the recipient, for
any liability that these contractual assumptions directly impose on
those licensors and authors.
All other non-permissive additional terms are considered "further
restrictions" within the meaning of section 10. If the Program as you
received it, or any part of it, contains a notice stating that it is
governed by this License along with a term that is a further
restriction, you may remove that term. If a license document contains
a further restriction but permits relicensing or conveying under this
License, you may add to a covered work material governed by the terms
of that license document, provided that the further restriction does
not survive such relicensing or conveying.
If you add terms to a covered work in accord with this section, you
must place, in the relevant source files, a statement of the
additional terms that apply to those files, or a notice indicating
where to find the applicable terms.
Additional terms, permissive or non-permissive, may be stated in the
form of a separately written license, or stated as exceptions;
the above requirements apply either way.
8. Termination.
You may not propagate or modify a covered work except as expressly
provided under this License. Any attempt otherwise to propagate or
modify it is void, and will automatically terminate your rights under
this License (including any patent licenses granted under the third
paragraph of section 11).
However, if you cease all violation of this License, then your
license from a particular copyright holder is reinstated (a)
provisionally, unless and until the copyright holder explicitly and
finally terminates your license, and (b) permanently, if the copyright
holder fails to notify you of the violation by some reasonable means
prior to 60 days after the cessation.
Moreover, your license from a particular copyright holder is
reinstated permanently if the copyright holder notifies you of the
violation by some reasonable means, this is the first time you have
received notice of violation of this License (for any work) from that
copyright holder, and you cure the violation prior to 30 days after
your receipt of the notice.
Termination of your rights under this section does not terminate the
licenses of parties who have received copies or rights from you under
this License. If your rights have been terminated and not permanently
reinstated, you do not qualify to receive new licenses for the same
material under section 10.
9. Acceptance Not Required for Having Copies.
You are not required to accept this License in order to receive or
run a copy of the Program. Ancillary propagation of a covered work
occurring solely as a consequence of using peer-to-peer transmission
to receive a copy likewise does not require acceptance. However,
nothing other than this License grants you permission to propagate or
modify any covered work. These actions infringe copyright if you do
not accept this License. Therefore, by modifying or propagating a
covered work, you indicate your acceptance of this License to do so.
10. Automatic Licensing of Downstream Recipients.
Each time you convey a covered work, the recipient automatically
receives a license from the original licensors, to run, modify and
propagate that work, subject to this License. You are not responsible
for enforcing compliance by third parties with this License.
An "entity transaction" is a transaction transferring control of an
organization, or substantially all assets of one, or subdividing an
organization, or merging organizations. If propagation of a covered
work results from an entity transaction, each party to that
transaction who receives a copy of the work also receives whatever
licenses to the work the party's predecessor in interest had or could
give under the previous paragraph, plus a right to possession of the
Corresponding Source of the work from the predecessor in interest, if
the predecessor has it or can get it with reasonable efforts.
You may not impose any further restrictions on the exercise of the
rights granted or affirmed under this License. For example, you may
not impose a license fee, royalty, or other charge for exercise of
rights granted under this License, and you may not initiate litigation
(including a cross-claim or counterclaim in a lawsuit) alleging that
any patent claim is infringed by making, using, selling, offering for
sale, or importing the Program or any portion of it.
11. Patents.
A "contributor" is a copyright holder who authorizes use under this
License of the Program or a work on which the Program is based. The
work thus licensed is called the contributor's "contributor version".
A contributor's "essential patent claims" are all patent claims
owned or controlled by the contributor, whether already acquired or
hereafter acquired, that would be infringed by some manner, permitted
by this License, of making, using, or selling its contributor version,
but do not include claims that would be infringed only as a
consequence of further modification of the contributor version. For
purposes of this definition, "control" includes the right to grant
patent sublicenses in a manner consistent with the requirements of
this License.
Each contributor grants you a non-exclusive, worldwide, royalty-free
patent license under the contributor's essential patent claims, to
make, use, sell, offer for sale, import and otherwise run, modify and
propagate the contents of its contributor version.
In the following three paragraphs, a "patent license" is any express
agreement or commitment, however denominated, not to enforce a patent
(such as an express permission to practice a patent or covenant not to
sue for patent infringement). To "grant" such a patent license to a
party means to make such an agreement or commitment not to enforce a
patent against the party.
If you convey a covered work, knowingly relying on a patent license,
and the Corresponding Source of the work is not available for anyone
to copy, free of charge and under the terms of this License, through a
publicly available network server or other readily accessible means,
then you must either (1) cause the Corresponding Source to be so
available, or (2) arrange to deprive yourself of the benefit of the
patent license for this particular work, or (3) arrange, in a manner
consistent with the requirements of this License, to extend the patent
license to downstream recipients. "Knowingly relying" means you have
actual knowledge that, but for the patent license, your conveying the
covered work in a country, or your recipient's use of the covered work
in a country, would infringe one or more identifiable patents in that
country that you have reason to believe are valid.
If, pursuant to or in connection with a single transaction or
arrangement, you convey, or propagate by procuring conveyance of, a
covered work, and grant a patent license to some of the parties
receiving the covered work authorizing them to use, propagate, modify
or convey a specific copy of the covered work, then the patent license
you grant is automatically extended to all recipients of the covered
work and works based on it.
A patent license is "discriminatory" if it does not include within
the scope of its coverage, prohibits the exercise of, or is
conditioned on the non-exercise of one or more of the rights that are
specifically granted under this License. You may not convey a covered
work if you are a party to an arrangement with a third party that is
in the business of distributing software, under which you make payment
to the third party based on the extent of your activity of conveying
the work, and under which the third party grants, to any of the
parties who would receive the covered work from you, a discriminatory
patent license (a) in connection with copies of the covered work
conveyed by you (or copies made from those copies), or (b) primarily
for and in connection with specific products or compilations that
contain the covered work, unless you entered into that arrangement,
or that patent license was granted, prior to 28 March 2007.
Nothing in this License shall be construed as excluding or limiting
any implied license or other defenses to infringement that may
otherwise be available to you under applicable patent law.
12. No Surrender of Others' Freedom.
If conditions are imposed on you (whether by court order, agreement or
otherwise) that contradict the conditions of this License, they do not
excuse you from the conditions of this License. If you cannot convey a
covered work so as to satisfy simultaneously your obligations under this
License and any other pertinent obligations, then as a consequence you may
not convey it at all. For example, if you agree to terms that obligate you
to collect a royalty for further conveying from those to whom you convey
the Program, the only way you could satisfy both those terms and this
License would be to refrain entirely from conveying the Program.
13. Remote Network Interaction; Use with the GNU General Public License.
Notwithstanding any other provision of this License, if you modify the
Program, your modified version must prominently offer all users
interacting with it remotely through a computer network (if your version
supports such interaction) an opportunity to receive the Corresponding
Source of your version by providing access to the Corresponding Source
from a network server at no charge, through some standard or customary
means of facilitating copying of software. This Corresponding Source
shall include the Corresponding Source for any work covered by version 3
of the GNU General Public License that is incorporated pursuant to the
following paragraph.
Notwithstanding any other provision of this License, you have
permission to link or combine any covered work with a work licensed
under version 3 of the GNU General Public License into a single
combined work, and to convey the resulting work. The terms of this
License will continue to apply to the part which is the covered work,
but the work with which it is combined will remain governed by version
3 of the GNU General Public License.
14. Revised Versions of this License.
The Free Software Foundation may publish revised and/or new versions of
the GNU Affero General Public License from time to time. Such new versions
will be similar in spirit to the present version, but may differ in detail to
address new problems or concerns.
Each version is given a distinguishing version number. If the
Program specifies that a certain numbered version of the GNU Affero General
Public License "or any later version" applies to it, you have the
option of following the terms and conditions either of that numbered
version or of any later version published by the Free Software
Foundation. If the Program does not specify a version number of the
GNU Affero General Public License, you may choose any version ever published
by the Free Software Foundation.
If the Program specifies that a proxy can decide which future
versions of the GNU Affero General Public License can be used, that proxy's
public statement of acceptance of a version permanently authorizes you
to choose that version for the Program.
Later license versions may give you additional or different
permissions. However, no additional obligations are imposed on any
author or copyright holder as a result of your choosing to follow a
later version.
15. Disclaimer of Warranty.
THERE IS NO WARRANTY FOR THE PROGRAM, TO THE EXTENT PERMITTED BY
APPLICABLE LAW. EXCEPT WHEN OTHERWISE STATED IN WRITING THE COPYRIGHT
HOLDERS AND/OR OTHER PARTIES PROVIDE THE PROGRAM "AS IS" WITHOUT WARRANTY
OF ANY KIND, EITHER EXPRESSED OR IMPLIED, INCLUDING, BUT NOT LIMITED TO,
THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
PURPOSE. THE ENTIRE RISK AS TO THE QUALITY AND PERFORMANCE OF THE PROGRAM
IS WITH YOU. SHOULD THE PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF
ALL NECESSARY SERVICING, REPAIR OR CORRECTION.
16. Limitation of Liability.
IN NO EVENT UNLESS REQUIRED BY APPLICABLE LAW OR AGREED TO IN WRITING
WILL ANY COPYRIGHT HOLDER, OR ANY OTHER PARTY WHO MODIFIES AND/OR CONVEYS
THE PROGRAM AS PERMITTED ABOVE, BE LIABLE TO YOU FOR DAMAGES, INCLUDING ANY
GENERAL, SPECIAL, INCIDENTAL OR CONSEQUENTIAL DAMAGES ARISING OUT OF THE
USE OR INABILITY TO USE THE PROGRAM (INCLUDING BUT NOT LIMITED TO LOSS OF
DATA OR DATA BEING RENDERED INACCURATE OR LOSSES SUSTAINED BY YOU OR THIRD
PARTIES OR A FAILURE OF THE PROGRAM TO OPERATE WITH ANY OTHER PROGRAMS),
EVEN IF SUCH HOLDER OR OTHER PARTY HAS BEEN ADVISED OF THE POSSIBILITY OF
SUCH DAMAGES.
17. Interpretation of Sections 15 and 16.
If the disclaimer of warranty and limitation of liability provided
above cannot be given local legal effect according to their terms,
reviewing courts shall apply local law that most closely approximates
an absolute waiver of all civil liability in connection with the
Program, unless a warranty or assumption of liability accompanies a
copy of the Program in return for a fee.
END OF TERMS AND CONDITIONS
How to Apply These Terms to Your New Programs
If you develop a new program, and you want it to be of the greatest
possible use to the public, the best way to achieve this is to make it
free software which everyone can redistribute and change under these terms.
To do so, attach the following notices to the program. It is safest
to attach them to the start of each source file to most effectively
state the exclusion of warranty; and each file should have at least
the "copyright" line and a pointer to where the full notice is found.
Copyright (C)
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
Also add information on how to contact you by electronic and paper mail.
If your software can interact with users remotely through a computer
network, you should also make sure that it provides a way for users to
get its source. For example, if your program is a web application, its
interface could display a "Source" link that leads users to an archive
of the code. There are many ways you could offer source, and different
solutions will be better for different programs; see section 13 for the
specific requirements.
You should also get your employer (if you work as a programmer) or school,
if any, to sign a "copyright disclaimer" for the program, if necessary.
For more information on this, and how to apply and follow the GNU AGPL, see
. elki-release0.7.1/addons/3dpc/src/main/resources/META-INF/ 0000775 0000000 0000000 00000000000 12657057427 0023011 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/resources/META-INF/elki/ 0000775 0000000 0000000 00000000000 12657057427 0023735 5 ustar 00root root 0000000 0000000 de.lmu.ifi.dbs.elki.result.ResultHandler 0000664 0000000 0000000 00000000111 12657057427 0033306 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/resources/META-INF/elki de.lmu.ifi.dbs.elki.visualization.parallel3d.OpenGL3DParallelCoordinates
de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.Layouter3DPC 0000664 0000000 0000000 00000000372 12657057427 0037702 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/3dpc/src/main/resources/META-INF/elki de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.SimpleCircularMSTLayout3DPC
de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.CompactCircularMSTLayout3DPC
de.lmu.ifi.dbs.elki.visualization.parallel3d.layout.MultidimensionalScalingMSTLayout3DPC
elki-release0.7.1/addons/batikvis/ 0000775 0000000 0000000 00000000000 12657057427 0017107 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/.classpath 0000664 0000000 0000000 00000002253 12657057427 0021074 0 ustar 00root root 0000000 0000000
elki-release0.7.1/addons/batikvis/.gitignore 0000664 0000000 0000000 00000000011 12657057427 0021067 0 ustar 00root root 0000000 0000000 /target/
elki-release0.7.1/addons/batikvis/.project 0000664 0000000 0000000 00000001051 12657057427 0020553 0 ustar 00root root 0000000 0000000
elki-batik-visualizationorg.eclipse.jdt.core.javabuilderorg.eclipse.m2e.core.maven2Builderorg.eclipse.jdt.core.javanatureorg.eclipse.m2e.core.maven2Nature
elki-release0.7.1/addons/batikvis/.settings/ 0000775 0000000 0000000 00000000000 12657057427 0021025 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/.settings/org.eclipse.core.resources.prefs 0000664 0000000 0000000 00000000170 12657057427 0027236 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
encoding//src/main/java=UTF-8
encoding//src/main/resources=UTF-8
encoding/=UTF-8
elki-release0.7.1/addons/batikvis/.settings/org.eclipse.jdt.core.prefs 0000664 0000000 0000000 00000056763 12657057427 0026030 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
org.eclipse.jdt.core.compiler.codegen.targetPlatform=1.7
org.eclipse.jdt.core.compiler.compliance=1.7
org.eclipse.jdt.core.compiler.problem.forbiddenReference=warning
org.eclipse.jdt.core.compiler.source=1.7
org.eclipse.jdt.core.formatter.align_type_members_on_columns=false
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_allocation_expression=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_annotation=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_enum_constant=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_explicit_constructor_call=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_method_invocation=0
org.eclipse.jdt.core.formatter.alignment_for_arguments_in_qualified_allocation_expression=0
org.eclipse.jdt.core.formatter.alignment_for_assignment=0
org.eclipse.jdt.core.formatter.alignment_for_binary_expression=0
org.eclipse.jdt.core.formatter.alignment_for_compact_if=0
org.eclipse.jdt.core.formatter.alignment_for_conditional_expression=0
org.eclipse.jdt.core.formatter.alignment_for_enum_constants=0
org.eclipse.jdt.core.formatter.alignment_for_expressions_in_array_initializer=0
org.eclipse.jdt.core.formatter.alignment_for_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_multiple_fields=16
org.eclipse.jdt.core.formatter.alignment_for_parameters_in_constructor_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_parameters_in_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_resources_in_try=80
org.eclipse.jdt.core.formatter.alignment_for_selector_in_method_invocation=0
org.eclipse.jdt.core.formatter.alignment_for_superclass_in_type_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_enum_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_superinterfaces_in_type_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_constructor_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_throws_clause_in_method_declaration=0
org.eclipse.jdt.core.formatter.alignment_for_union_type_in_multicatch=16
org.eclipse.jdt.core.formatter.blank_lines_after_imports=1
org.eclipse.jdt.core.formatter.blank_lines_after_package=1
org.eclipse.jdt.core.formatter.blank_lines_before_field=1
org.eclipse.jdt.core.formatter.blank_lines_before_first_class_body_declaration=0
org.eclipse.jdt.core.formatter.blank_lines_before_imports=1
org.eclipse.jdt.core.formatter.blank_lines_before_member_type=1
org.eclipse.jdt.core.formatter.blank_lines_before_method=1
org.eclipse.jdt.core.formatter.blank_lines_before_new_chunk=1
org.eclipse.jdt.core.formatter.blank_lines_before_package=0
org.eclipse.jdt.core.formatter.blank_lines_between_import_groups=1
org.eclipse.jdt.core.formatter.blank_lines_between_type_declarations=1
org.eclipse.jdt.core.formatter.brace_position_for_annotation_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_anonymous_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_array_initializer=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_block=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_block_in_case=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_constructor_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_enum_constant=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_enum_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_lambda_body=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_method_declaration=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_switch=end_of_line
org.eclipse.jdt.core.formatter.brace_position_for_type_declaration=end_of_line
org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_block_comment=false
org.eclipse.jdt.core.formatter.comment.clear_blank_lines_in_javadoc_comment=false
org.eclipse.jdt.core.formatter.comment.format_block_comments=true
org.eclipse.jdt.core.formatter.comment.format_header=false
org.eclipse.jdt.core.formatter.comment.format_html=true
org.eclipse.jdt.core.formatter.comment.format_javadoc_comments=true
org.eclipse.jdt.core.formatter.comment.format_line_comments=true
org.eclipse.jdt.core.formatter.comment.format_source_code=true
org.eclipse.jdt.core.formatter.comment.indent_parameter_description=false
org.eclipse.jdt.core.formatter.comment.indent_root_tags=true
org.eclipse.jdt.core.formatter.comment.insert_new_line_before_root_tags=insert
org.eclipse.jdt.core.formatter.comment.insert_new_line_for_parameter=do not insert
org.eclipse.jdt.core.formatter.comment.line_length=80
org.eclipse.jdt.core.formatter.comment.new_lines_at_block_boundaries=true
org.eclipse.jdt.core.formatter.comment.new_lines_at_javadoc_boundaries=true
org.eclipse.jdt.core.formatter.comment.preserve_white_space_between_code_and_line_comments=false
org.eclipse.jdt.core.formatter.compact_else_if=true
org.eclipse.jdt.core.formatter.continuation_indentation=2
org.eclipse.jdt.core.formatter.continuation_indentation_for_array_initializer=2
org.eclipse.jdt.core.formatter.disabling_tag=@formatter\:off
org.eclipse.jdt.core.formatter.enabling_tag=@formatter\:on
org.eclipse.jdt.core.formatter.format_guardian_clause_on_one_line=false
org.eclipse.jdt.core.formatter.format_line_comment_starting_on_first_column=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_annotation_declaration_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_constant_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_enum_declaration_header=true
org.eclipse.jdt.core.formatter.indent_body_declarations_compare_to_type_header=true
org.eclipse.jdt.core.formatter.indent_breaks_compare_to_cases=true
org.eclipse.jdt.core.formatter.indent_empty_lines=false
org.eclipse.jdt.core.formatter.indent_statements_compare_to_block=true
org.eclipse.jdt.core.formatter.indent_statements_compare_to_body=true
org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_cases=true
org.eclipse.jdt.core.formatter.indent_switchstatements_compare_to_switch=false
org.eclipse.jdt.core.formatter.indentation.size=2
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_field=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_local_variable=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_method=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_package=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_parameter=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_annotation_on_type=insert
org.eclipse.jdt.core.formatter.insert_new_line_after_label=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_after_opening_brace_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_after_type_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_at_end_of_file_if_missing=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_before_catch_in_try_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_closing_brace_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_new_line_before_else_in_if_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_finally_in_try_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_before_while_in_do_statement=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_annotation_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_anonymous_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_block=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_constant=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_enum_declaration=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_method_body=insert
org.eclipse.jdt.core.formatter.insert_new_line_in_empty_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_after_and_in_type_parameter=insert
org.eclipse.jdt.core.formatter.insert_space_after_assignment_operator=insert
org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_at_in_annotation_type_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_binary_operator=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_angle_bracket_in_type_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_brace_in_block=insert
org.eclipse.jdt.core.formatter.insert_space_after_closing_paren_in_cast=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_assert=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_case=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_after_colon_in_labeled_statement=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_allocation_expression=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_annotation=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_constructor_declaration_throws=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_constant_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_enum_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_explicitconstructorcall_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_increments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_for_inits=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_declaration_throws=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_method_invocation_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_field_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_multiple_local_declarations=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_parameterized_type_reference=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_superinterfaces=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_arguments=insert
org.eclipse.jdt.core.formatter.insert_space_after_comma_in_type_parameters=insert
org.eclipse.jdt.core.formatter.insert_space_after_ellipsis=insert
org.eclipse.jdt.core.formatter.insert_space_after_lambda_arrow=insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_cast=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_try=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_opening_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_postfix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_prefix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_question_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_after_question_in_wildcard=do not insert
org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_after_semicolon_in_try_resources=insert
org.eclipse.jdt.core.formatter.insert_space_after_unary_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_and_in_type_parameter=insert
org.eclipse.jdt.core.formatter.insert_space_before_assignment_operator=insert
org.eclipse.jdt.core.formatter.insert_space_before_at_in_annotation_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_binary_operator=insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_cast=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_try=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_closing_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_assert=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_case=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_default=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_for=insert
org.eclipse.jdt.core.formatter.insert_space_before_colon_in_labeled_statement=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_constructor_declaration_throws=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_constant_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_enum_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_explicitconstructorcall_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_increments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_for_inits=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_declaration_throws=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_method_invocation_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_field_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_multiple_local_declarations=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_superinterfaces=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_comma_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_ellipsis=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_lambda_arrow=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_parameterized_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_arguments=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_angle_bracket_in_type_parameters=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_annotation_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_anonymous_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_array_initializer=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_block=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_constructor_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_constant=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_enum_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_method_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_brace_in_type_declaration=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_bracket_in_array_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_annotation_type_member_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_catch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_if=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_parenthesized_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_switch=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_synchronized=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_try=insert
org.eclipse.jdt.core.formatter.insert_space_before_opening_paren_in_while=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_return=insert
org.eclipse.jdt.core.formatter.insert_space_before_parenthesized_expression_in_throw=insert
org.eclipse.jdt.core.formatter.insert_space_before_postfix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_prefix_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_question_in_conditional=insert
org.eclipse.jdt.core.formatter.insert_space_before_question_in_wildcard=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_for=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_semicolon_in_try_resources=do not insert
org.eclipse.jdt.core.formatter.insert_space_before_unary_operator=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_brackets_in_array_type_reference=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_braces_in_array_initializer=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_brackets_in_array_allocation_expression=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_annotation_type_member_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_constructor_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_enum_constant=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_declaration=do not insert
org.eclipse.jdt.core.formatter.insert_space_between_empty_parens_in_method_invocation=do not insert
org.eclipse.jdt.core.formatter.join_lines_in_comments=true
org.eclipse.jdt.core.formatter.join_wrapped_lines=true
org.eclipse.jdt.core.formatter.keep_else_statement_on_same_line=false
org.eclipse.jdt.core.formatter.keep_empty_array_initializer_on_one_line=false
org.eclipse.jdt.core.formatter.keep_imple_if_on_one_line=false
org.eclipse.jdt.core.formatter.keep_then_statement_on_same_line=false
org.eclipse.jdt.core.formatter.lineSplit=80
org.eclipse.jdt.core.formatter.never_indent_block_comments_on_first_column=false
org.eclipse.jdt.core.formatter.never_indent_line_comments_on_first_column=false
org.eclipse.jdt.core.formatter.number_of_blank_lines_at_beginning_of_method_body=0
org.eclipse.jdt.core.formatter.number_of_empty_lines_to_preserve=1
org.eclipse.jdt.core.formatter.put_empty_statement_on_new_line=true
org.eclipse.jdt.core.formatter.tabulation.char=space
org.eclipse.jdt.core.formatter.tabulation.size=2
org.eclipse.jdt.core.formatter.use_on_off_tags=false
org.eclipse.jdt.core.formatter.use_tabs_only_for_leading_indentations=false
org.eclipse.jdt.core.formatter.wrap_before_binary_operator=true
org.eclipse.jdt.core.formatter.wrap_before_or_operator_multicatch=true
org.eclipse.jdt.core.formatter.wrap_outer_expressions_when_nested=true
elki-release0.7.1/addons/batikvis/.settings/org.eclipse.jdt.ui.prefs 0000664 0000000 0000000 00000013670 12657057427 0025503 0 ustar 00root root 0000000 0000000 eclipse.preferences.version=1
formatter_profile=_ELKI
formatter_settings_version=12
org.eclipse.jdt.ui.javadoc=false
org.eclipse.jdt.ui.text.custom_code_templates=/**\n * @return the ${bare_field_name}\n *//**\n * @param ${param} the ${bare_field_name} to set\n *//**\n * Constructor.\n *\n * ${tags}\n *//**\n * @author ${user}\n *\n * ${tags}\n *//**\n * \n *//**\n * ${tags}\n *//**\n * ${tags}\n * ${see_to_target}\n */${filecomment}\n${package_declaration}\n/*\n This file is part of ELKI\:\n Environment for Developing KDD-Applications Supported by Index-Structures\n\n Copyright (C) ${year}\n Ludwig-Maximilians-Universit\u00E4t M\u00FCnchen\n Lehr- und Forschungseinheit f\u00FCr Datenbanksysteme\n ELKI Development Team\n\n This program is free software\: you can redistribute it and/or modify\n it under the terms of the GNU Affero General Public License as published by\n the Free Software Foundation, either version 3 of the License, or\n (at your option) any later version.\n\n This program is distributed in the hope that it will be useful,\n but WITHOUT ANY WARRANTY; without even the implied warranty of\n MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\n GNU Affero General Public License for more details.\n\n You should have received a copy of the GNU Affero General Public License\n along with this program. If not, see <http\://www.gnu.org/licenses/>.\n */\n\n${typecomment}\n${type_declaration}\n\n\n\n// ${todo} Auto-generated catch block\nde.lmu.ifi.dbs.elki.logging.LoggingUtil.exception(${exception_var});// ${todo} Auto-generated method stub\n${body_statement}${body_statement}\n// ${todo} Auto-generated constructor stubreturn ${field};${field} \= ${param};
elki-release0.7.1/addons/batikvis/.settings/org.eclipse.m2e.core.prefs 0000664 0000000 0000000 00000000126 12657057427 0025710 0 ustar 00root root 0000000 0000000 activeProfiles=
eclipse.preferences.version=1
resolveWorkspaceProjects=true
version=1
elki-release0.7.1/addons/batikvis/pom.xml 0000664 0000000 0000000 00000010040 12657057427 0020417 0 ustar 00root root 0000000 0000000
4.0.0de.lmu.ifi.dbs.elki0.7.1elki-project../../elki-batik-visualizationjarELKI Data Mining Framework - Batik VisualizationGNU Affero General Public License (AGPL) version 3.0http://www.gnu.org/licenses/agpl-3.0.txt${basedir}/../..maven-jar-plugin${elki.projdir}/elki/src/main/resources/META-INF/MANIFEST.MFtruede.lmu.ifi.dbs.elki.application.ELKILauncherdependency/maven-antrun-plugincreateJavadocDirprepare-packagerunorg.codehaus.mojoexec-maven-plugingenerate-javadoc-parametersprepare-packageexecjava-cpde.lmu.ifi.dbs.elki.application.internal.DocumentParameters${project.build.directory}/apidocs/parameters-byclass-vis.html${project.build.directory}/apidocs/parameters-byopt-vis.htmlgenerate-javadoc-referencesprepare-packageexecjava-cpde.lmu.ifi.dbs.elki.application.internal.DocumentReferences${project.build.directory}/apidocs/references-vis.html${project.build.directory}/apidocs/references-vis.tracnet.sf.trove4jtrove4jorg.apache.xmlgraphicsbatik-swingorg.apache.xmlgraphicsbatik-rasterizerorg.apache.xmlgraphicsbatik-extorg.apache.xmlgraphicsbatik-codecorg.apache.xmlgraphicsxmlgraphics-commonsde.lmu.ifi.dbs.elkielki${project.version}
elki-release0.7.1/addons/batikvis/src/ 0000775 0000000 0000000 00000000000 12657057427 0017676 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/ 0000775 0000000 0000000 00000000000 12657057427 0020622 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/ 0000775 0000000 0000000 00000000000 12657057427 0021543 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/ 0000775 0000000 0000000 00000000000 12657057427 0022133 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ 0000775 0000000 0000000 00000000000 12657057427 0022730 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/ 0000775 0000000 0000000 00000000000 12657057427 0023477 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/ 0000775 0000000 0000000 00000000000 12657057427 0024247 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/ 0000775 0000000 0000000 00000000000 12657057427 0025173 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/application/ 0000775 0000000 0000000 00000000000 12657057427 0027476 5 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/application/greedyensemble/ 0000775 0000000 0000000 00000000000 12657057427 0032470 5 ustar 00root root 0000000 0000000 VisualizePairwiseGainMatrix.java 0000664 0000000 0000000 00000031243 12657057427 0040722 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/application/greedyensemble package de.lmu.ifi.dbs.elki.application.greedyensemble;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.awt.image.BufferedImage;
import org.apache.batik.util.SVGConstants;
import de.lmu.ifi.dbs.elki.application.AbstractApplication;
import de.lmu.ifi.dbs.elki.data.NumberVector;
import de.lmu.ifi.dbs.elki.data.type.TypeUtil;
import de.lmu.ifi.dbs.elki.database.Database;
import de.lmu.ifi.dbs.elki.database.ids.ArrayModifiableDBIDs;
import de.lmu.ifi.dbs.elki.database.ids.DBID;
import de.lmu.ifi.dbs.elki.database.ids.DBIDArrayIter;
import de.lmu.ifi.dbs.elki.database.ids.DBIDIter;
import de.lmu.ifi.dbs.elki.database.ids.DBIDUtil;
import de.lmu.ifi.dbs.elki.database.relation.Relation;
import de.lmu.ifi.dbs.elki.database.relation.RelationUtil;
import de.lmu.ifi.dbs.elki.evaluation.scores.ROCEvaluation;
import de.lmu.ifi.dbs.elki.evaluation.scores.adapter.DecreasingVectorIter;
import de.lmu.ifi.dbs.elki.evaluation.scores.adapter.VectorNonZero;
import de.lmu.ifi.dbs.elki.evaluation.similaritymatrix.ComputeSimilarityMatrixImage;
import de.lmu.ifi.dbs.elki.evaluation.similaritymatrix.ComputeSimilarityMatrixImage.SimilarityMatrix;
import de.lmu.ifi.dbs.elki.logging.Logging;
import de.lmu.ifi.dbs.elki.logging.progress.FiniteProgress;
import de.lmu.ifi.dbs.elki.math.DoubleMinMax;
import de.lmu.ifi.dbs.elki.math.linearalgebra.Vector;
import de.lmu.ifi.dbs.elki.result.ResultHierarchy;
import de.lmu.ifi.dbs.elki.utilities.DatabaseUtil;
import de.lmu.ifi.dbs.elki.utilities.datastructures.hierarchy.Hierarchy;
import de.lmu.ifi.dbs.elki.utilities.documentation.Reference;
import de.lmu.ifi.dbs.elki.utilities.ensemble.EnsembleVoting;
import de.lmu.ifi.dbs.elki.utilities.ensemble.EnsembleVotingMean;
import de.lmu.ifi.dbs.elki.utilities.exceptions.AbortException;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.Parameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.ObjectParameter;
import de.lmu.ifi.dbs.elki.utilities.scaling.LinearScaling;
import de.lmu.ifi.dbs.elki.utilities.scaling.ScalingFunction;
import de.lmu.ifi.dbs.elki.visualization.VisualizationTask;
import de.lmu.ifi.dbs.elki.visualization.VisualizationTree;
import de.lmu.ifi.dbs.elki.visualization.VisualizerContext;
import de.lmu.ifi.dbs.elki.visualization.VisualizerParameterizer;
import de.lmu.ifi.dbs.elki.visualization.gui.SimpleSVGViewer;
import de.lmu.ifi.dbs.elki.visualization.gui.VisualizationPlot;
import de.lmu.ifi.dbs.elki.visualization.visualizers.Visualization;
import de.lmu.ifi.dbs.elki.visualization.visualizers.visunproj.SimilarityMatrixVisualizer;
import de.lmu.ifi.dbs.elki.workflow.InputStep;
/**
* Class to load an outlier detection summary file, as produced by
* {@link ComputeKNNOutlierScores}, and compute a matrix with the pairwise
* gains. It will have one column / row obtained for each combination.
*
* The gain is always computed in relation to the better of the two input
* methods. Green colors indicate the result has improved, red indicate it
* became worse.
*
* Reference:
*
* E. Schubert, R. Wojdanowski, A. Zimek, H.-P. Kriegel
* On Evaluation of Outlier Rankings and Outlier Scores
* In Proceedings of the 12th SIAM International Conference on Data Mining
* (SDM), Anaheim, CA, 2012.
*
*
* @author Erich Schubert
* @since 0.5.0
*
* @apiviz.composedOf VisualizerParameterizer
* @apiviz.composedOf SimilarityMatrixVisualizer
*/
@Reference(authors = "E. Schubert, R. Wojdanowski, A. Zimek, H.-P. Kriegel", //
title = "On Evaluation of Outlier Rankings and Outlier Scores", //
booktitle = "Proc. 12th SIAM International Conference on Data Mining (SDM), Anaheim, CA, 2012.", //
url = "http://dx.doi.org/10.1137/1.9781611972825.90")
public class VisualizePairwiseGainMatrix extends AbstractApplication {
/**
* Get static logger.
*/
private static final Logging LOG = Logging.getLogger(VisualizePairwiseGainMatrix.class);
/**
* The data input part.
*/
private InputStep inputstep;
/**
* Parameterizer for visualizers.
*/
private VisualizerParameterizer vispar;
/**
* Outlier scaling to apply during preprocessing.
*/
private ScalingFunction prescaling;
/**
* Ensemble voting function.
*/
private EnsembleVoting voting;
/**
* Constructor.
*
* @param inputstep Input step
* @param prescaling Scaling function for input scores.
* @param voting Voting function
* @param vispar Visualizer parameterizer
*/
public VisualizePairwiseGainMatrix(InputStep inputstep, ScalingFunction prescaling, EnsembleVoting voting, VisualizerParameterizer vispar) {
super();
this.inputstep = inputstep;
this.prescaling = prescaling;
this.voting = voting;
this.vispar = vispar;
}
@Override
public void run() {
final Database database = inputstep.getDatabase();
ResultHierarchy hier = database.getHierarchy();
Relation relation = database.getRelation(TypeUtil.NUMBER_VECTOR_FIELD);
final Relation labels = DatabaseUtil.guessLabelRepresentation(database);
final DBID firstid = DBIDUtil.deref(labels.iterDBIDs());
final String firstlabel = labels.get(firstid);
if(!firstlabel.matches(".*by.?label.*")) {
throw new AbortException("No 'by label' reference outlier found, which is needed for weighting!");
}
relation = GreedyEnsembleExperiment.applyPrescaling(prescaling, relation, firstid);
// Dimensionality and reference vector
final int dim = RelationUtil.dimensionality(relation);
final NumberVector refvec = relation.get(firstid);
// Build the truth vector
VectorNonZero pos = new VectorNonZero(refvec);
ArrayModifiableDBIDs ids = DBIDUtil.newArray(relation.getDBIDs());
ids.remove(firstid);
ids.sort();
final int size = ids.size();
double[][] data = new double[size][size];
DoubleMinMax minmax = new DoubleMinMax(), commax = new DoubleMinMax();
{
FiniteProgress prog = LOG.isVerbose() ? new FiniteProgress("Computing ensemble gain.", size * (size + 1) >> 1, LOG) : null;
double[] buf = new double[2]; // Vote combination buffer.
int a = 0;
for(DBIDIter id = ids.iter(); id.valid(); id.advance(), a++) {
final NumberVector veca = relation.get(id);
// Direct AUC score:
{
double auc = ROCEvaluation.computeROCAUC(pos, new DecreasingVectorIter(veca));
data[a][a] = auc;
// minmax.put(auc);
LOG.incrementProcessed(prog);
}
// Compare to others, exploiting symmetry
DBIDArrayIter id2 = ids.iter();
id2.seek(a + 1);
for(int b = a + 1; b < size; b++, id2.advance()) {
final NumberVector vecb = relation.get(id2);
double[] combined = new double[dim];
for(int d = 0; d < dim; d++) {
buf[0] = veca.doubleValue(d);
buf[1] = vecb.doubleValue(d);
combined[d] = voting.combine(buf);
}
double auc = ROCEvaluation.computeROCAUC(pos, new DecreasingVectorIter(new Vector(combined)));
// logger.verbose(auc + " " + labels.get(ids.get(a)) + " " +
// labels.get(ids.get(b)));
data[a][b] = auc;
data[b][a] = auc;
commax.put(data[a][b]);
// minmax.put(auc);
LOG.incrementProcessed(prog);
}
}
LOG.ensureCompleted(prog);
}
for(int a = 0; a < size; a++) {
for(int b = a + 1; b < size; b++) {
double ref = Math.max(data[a][a], data[b][b]);
data[a][b] = (data[a][b] - ref) / (1 - ref);
data[b][a] = (data[b][a] - ref) / (1 - ref);
// logger.verbose(data[a][b] + " " + labels.get(ids.get(a)) + " " +
// labels.get(ids.get(b)));
minmax.put(data[a][b]);
}
}
for(int a = 0; a < size; a++) {
data[a][a] = 0;
}
LOG.verbose("Gain: " + minmax.toString() + " AUC: " + commax.toString());
boolean hasneg = (minmax.getMin() < -1E-3);
LinearScaling scale;
if(!hasneg) {
scale = LinearScaling.fromMinMax(0., minmax.getMax());
}
else {
scale = LinearScaling.fromMinMax(0.0, Math.max(minmax.getMax(), -minmax.getMin()));
}
scale = LinearScaling.fromMinMax(0., .5);
BufferedImage img = new BufferedImage(size, size, BufferedImage.TYPE_INT_RGB);
for(int x = 0; x < size; x++) {
for(int y = x; y < size; y++) {
double val = data[x][y];
val = Math.max(-1, Math.min(1., scale.getScaled(val)));
// Compute color:
final int col;
{
if(val >= 0) {
int ival = 0xFF & (int) (255 * val);
col = 0xff000000 | (ival << 8);
}
else {
int ival = 0xFF & (int) (255 * -val);
col = 0xff000000 | (ival << 16);
}
}
img.setRGB(x, y, col);
img.setRGB(y, x, col);
}
}
SimilarityMatrix smat = new ComputeSimilarityMatrixImage.SimilarityMatrix(img, relation, ids);
hier.add(database, smat);
VisualizerContext context = vispar.newContext(hier, smat);
// Attach visualizers to results
SimilarityMatrixVisualizer factory = new SimilarityMatrixVisualizer();
factory.processNewResult(context, database);
Hierarchy.Iter it = VisualizationTree.filter(context, VisualizationTask.class);
for(; it.valid(); it.advance()) {
VisualizationTask task = it.get();
if(task.getFactory() == factory) {
showVisualization(context, factory, task);
}
}
}
/**
* Show a single visualization.
*
* @param context Visualization context
* @param factory Visualizer factory
* @param task Visualization task
*/
private void showVisualization(VisualizerContext context, SimilarityMatrixVisualizer factory, VisualizationTask task) {
VisualizationPlot plot = new VisualizationPlot();
Visualization vis = factory.makeVisualization(task, plot, 1.0, 1.0, null);
plot.getRoot().appendChild(vis.getLayer());
plot.getRoot().setAttribute(SVGConstants.SVG_WIDTH_ATTRIBUTE, "20cm");
plot.getRoot().setAttribute(SVGConstants.SVG_HEIGHT_ATTRIBUTE, "20cm");
plot.getRoot().setAttribute(SVGConstants.SVG_VIEW_BOX_ATTRIBUTE, "0 0 1 1");
plot.updateStyleElement();
(new SimpleSVGViewer()).setPlot(plot);
}
/**
* Parameterization class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public static class Parameterizer extends AbstractApplication.Parameterizer {
/**
* Data source.
*/
private InputStep inputstep;
/**
* Parameterizer for visualizers.
*/
private VisualizerParameterizer vispar;
/**
* Outlier scaling to apply during preprocessing.
*/
private ScalingFunction prescaling;
/**
* Voring function.
*/
private EnsembleVoting voting;
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
// Data input
inputstep = config.tryInstantiate(InputStep.class);
// Visualization options
vispar = config.tryInstantiate(VisualizerParameterizer.class);
// Prescaling
ObjectParameter prescalingP = new ObjectParameter<>(GreedyEnsembleExperiment.Parameterizer.PRESCALING_ID, ScalingFunction.class);
prescalingP.setOptional(true);
if(config.grab(prescalingP)) {
prescaling = prescalingP.instantiateClass(config);
}
ObjectParameter votingP = new ObjectParameter<>(GreedyEnsembleExperiment.Parameterizer.VOTING_ID, EnsembleVoting.class, EnsembleVotingMean.class);
if(config.grab(votingP)) {
voting = votingP.instantiateClass(config);
}
}
@Override
protected VisualizePairwiseGainMatrix makeInstance() {
return new VisualizePairwiseGainMatrix(inputstep, prescaling, voting, vispar);
}
}
/**
* Main method.
*
* @param args Command line parameters.
*/
public static void main(String[] args) {
runCLIApplication(VisualizePairwiseGainMatrix.class, args);
}
}
elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/result/ 0000775 0000000 0000000 00000000000 12657057427 0026511 5 ustar 00root root 0000000 0000000 AutomaticVisualization.java 0000664 0000000 0000000 00000012633 12657057427 0034012 0 ustar 00root root 0000000 0000000 elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/result package de.lmu.ifi.dbs.elki.result;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2016
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import javax.swing.JFrame;
import de.lmu.ifi.dbs.elki.gui.GUIUtil;
import de.lmu.ifi.dbs.elki.logging.Logging;
import de.lmu.ifi.dbs.elki.result.Result;
import de.lmu.ifi.dbs.elki.result.ResultHandler;
import de.lmu.ifi.dbs.elki.result.ResultHierarchy;
import de.lmu.ifi.dbs.elki.result.ResultUtil;
import de.lmu.ifi.dbs.elki.utilities.Alias;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.AbstractParameterizer;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.OptionID;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.Parameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.Flag;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.StringParameter;
import de.lmu.ifi.dbs.elki.visualization.VisualizerContext;
import de.lmu.ifi.dbs.elki.visualization.VisualizerParameterizer;
import de.lmu.ifi.dbs.elki.visualization.gui.ResultWindow;
/**
* Handler to process and visualize a Result.
*
* @author Erich Schubert
* @author Remigius Wojdanowski
* @since 0.3
*
* @apiviz.composedOf VisualizerParameterizer
* @apiviz.uses ResultWindow oneway
*/
@Alias({ "visualizer", "vis", "ResultVisualizer", "de.lmu.ifi.dbs.elki.visualization.gui.ResultVisualizer" })
public class AutomaticVisualization implements ResultHandler {
/**
* Get a logger for this class.
*/
private static final Logging LOG = Logging.getLogger(AutomaticVisualization.class);
/**
* Stores the set title.
*/
String title;
/**
* Default title
*/
protected static final String DEFAULT_TITLE = "ELKI Result Visualization";
/**
* Visualization manager.
*/
VisualizerParameterizer manager;
/**
* Single view mode
*/
boolean single;
/**
* Current result window.
*/
ResultWindow window;
/**
* Constructor.
*
* @param title Window title
* @param manager Parameterization manager for visualizers
* @param single Flag to indicat single-view mode.
*/
public AutomaticVisualization(String title, VisualizerParameterizer manager, boolean single) {
super();
this.title = title;
this.manager = manager;
this.single = single;
}
@Override
public void processNewResult(final ResultHierarchy hier, final Result result) {
if(window == null) {
if(title == null) {
title = VisualizerParameterizer.getTitle(ResultUtil.findDatabase(hier), result);
if(title == null) {
title = DEFAULT_TITLE;
}
}
GUIUtil.setLookAndFeel();
VisualizerContext context = manager.newContext(hier, result);
window = new ResultWindow(title, context, single);
}
javax.swing.SwingUtilities.invokeLater(new Runnable() {
@Override
public void run() {
try {
window.setVisible(true);
window.setExtendedState(window.getExtendedState() | JFrame.MAXIMIZED_BOTH);
}
catch(Throwable e) {
LOG.exception("Error in starting visualizer window.", e);
}
}
});
}
/**
* Parameterization class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public static class Parameterizer extends AbstractParameterizer {
/**
* Parameter to specify the window title
*
* Key: {@code -vis.window.title}
*
*
* Default value: "ELKI Result Visualization"
*
*/
public static final OptionID WINDOW_TITLE_ID = new OptionID("vis.window.title", "Title to use for visualization window.");
/**
* Flag to set single display
*
*
* Key: -vis.single
*
*/
public static final OptionID SINGLE_ID = new OptionID("vis.window.single", "Embed visualizers in a single window, not using thumbnails and detail views.");
/**
* Stores the set title.
*/
String title;
/**
* Visualization manager.
*/
VisualizerParameterizer manager;
/**
* Single view mode.
*/
boolean single = false;
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
StringParameter titleP = new StringParameter(WINDOW_TITLE_ID);
titleP.setOptional(true);
if(config.grab(titleP)) {
title = titleP.getValue();
}
Flag singleF = new Flag(SINGLE_ID);
if(config.grab(singleF)) {
single = singleF.isTrue();
}
manager = config.tryInstantiate(VisualizerParameterizer.class);
}
@Override
protected AutomaticVisualization makeInstance() {
return new AutomaticVisualization(title, manager, single);
}
}
}
elki-release0.7.1/addons/batikvis/src/main/java/de/lmu/ifi/dbs/elki/result/ExportVisualizations.java0000664 0000000 0000000 00000022517 12657057427 0033611 0 ustar 00root root 0000000 0000000 package de.lmu.ifi.dbs.elki.result;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2015
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see .
*/
import java.io.File;
import java.util.ArrayList;
import java.util.Collection;
import java.util.HashMap;
import java.util.Iterator;
import java.util.Map;
import org.apache.batik.util.SVGConstants;
import de.lmu.ifi.dbs.elki.logging.Logging;
import de.lmu.ifi.dbs.elki.result.Result;
import de.lmu.ifi.dbs.elki.result.ResultHandler;
import de.lmu.ifi.dbs.elki.result.ResultHierarchy;
import de.lmu.ifi.dbs.elki.utilities.Alias;
import de.lmu.ifi.dbs.elki.utilities.datastructures.hierarchy.Hierarchy;
import de.lmu.ifi.dbs.elki.utilities.exceptions.AbortException;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.AbstractParameterizer;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.OptionID;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.constraints.CommonConstraints;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.Parameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.DoubleParameter;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.FileParameter;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.FileParameter.FileType;
import de.lmu.ifi.dbs.elki.visualization.VisualizationTask;
import de.lmu.ifi.dbs.elki.visualization.VisualizerContext;
import de.lmu.ifi.dbs.elki.visualization.VisualizerParameterizer;
import de.lmu.ifi.dbs.elki.visualization.gui.VisualizationPlot;
import de.lmu.ifi.dbs.elki.visualization.gui.overview.PlotItem;
import de.lmu.ifi.dbs.elki.visualization.projector.Projector;
import de.lmu.ifi.dbs.elki.visualization.visualizers.Visualization;
/**
* Class that automatically generates all visualizations and exports them into
* SVG files. To configure the export, you will want to configure the
* {@link VisualizerParameterizer}, in particular the pattern for choosing which
* visualizers to run.
*
* @author Erich Schubert
* @since 0.5.0
*
* @apiviz.composedOf VisualizerParameterizer
*/
@Alias("de.lmu.ifi.dbs.elki.visualization.ExportVisualizations")
public class ExportVisualizations implements ResultHandler {
/**
* Get a logger for this class.
*/
private static final Logging LOG = Logging.getLogger(ExportVisualizations.class);
/**
* Output folder
*/
File output;
/**
* Visualization manager.
*/
VisualizerParameterizer manager;
/**
* Ratio for canvas
*/
double ratio;
/**
* Base result
*/
Result baseResult = null;
/**
* Visualizer context
*/
VisualizerContext context = null;
/**
* Output counter.
*/
Map counter = new HashMap<>();
/**
* Constructor.
*
* @param output Output folder
* @param manager Parameterizer
* @param ratio Canvas ratio
*/
public ExportVisualizations(File output, VisualizerParameterizer manager, double ratio) {
super();
this.output = output;
this.manager = manager;
this.ratio = ratio;
}
@Override
public void processNewResult(ResultHierarchy hier, Result newResult) {
if(output.isFile()) {
throw new AbortException("Output folder cannot be an existing file.");
}
if(!output.exists()) {
if(!output.mkdirs()) {
throw new AbortException("Could not create output directory.");
}
}
if(this.baseResult == null) {
this.baseResult = newResult;
context = null;
counter = new HashMap<>();
LOG.warning("Note: Reusing visualization exporter for more than one result is untested.");
}
if(context == null) {
context = manager.newContext(hier, baseResult);
}
// Projected visualizations
Hierarchy