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-rw-r--r--lemon/doc/CMakeLists.txt74
-rw-r--r--lemon/doc/Doxyfile291
-rw-r--r--lemon/doc/Doxyfile.in291
-rw-r--r--lemon/doc/DoxygenLayout.xml182
-rw-r--r--lemon/doc/Makefile.am123
-rw-r--r--lemon/doc/coding_style.dox127
-rw-r--r--lemon/doc/dirs.dox77
-rw-r--r--lemon/doc/groups.dox702
-rw-r--r--lemon/doc/images/bipartite_matching.eps586
-rw-r--r--lemon/doc/images/bipartite_partitions.eps114
-rw-r--r--lemon/doc/images/connected_components.eps159
-rw-r--r--lemon/doc/images/edge_biconnected_components.eps159
-rw-r--r--lemon/doc/images/grid_graph.eps286
-rw-r--r--lemon/doc/images/matching.eps130
-rw-r--r--lemon/doc/images/node_biconnected_components.eps159
-rw-r--r--lemon/doc/images/nodeshape_0.eps57
-rw-r--r--lemon/doc/images/nodeshape_1.eps57
-rw-r--r--lemon/doc/images/nodeshape_2.eps57
-rw-r--r--lemon/doc/images/nodeshape_3.eps77
-rw-r--r--lemon/doc/images/nodeshape_4.eps77
-rw-r--r--lemon/doc/images/planar.eps181
-rw-r--r--lemon/doc/images/strongly_connected_components.eps180
-rw-r--r--lemon/doc/lgf.dox118
-rw-r--r--lemon/doc/license.dox25
-rw-r--r--lemon/doc/mainpage.dox61
-rw-r--r--lemon/doc/mainpage.dox.in61
-rw-r--r--lemon/doc/migration.dox145
-rw-r--r--lemon/doc/min_cost_flow.dox153
-rw-r--r--lemon/doc/named-param.dox119
-rw-r--r--lemon/doc/namespaces.dox30
30 files changed, 4858 insertions, 0 deletions
diff --git a/lemon/doc/CMakeLists.txt b/lemon/doc/CMakeLists.txt
new file mode 100644
index 0000000..68a690e
--- /dev/null
+++ b/lemon/doc/CMakeLists.txt
@@ -0,0 +1,74 @@
+SET(PACKAGE_NAME ${PROJECT_NAME})
+SET(PACKAGE_VERSION ${PROJECT_VERSION})
+SET(abs_top_srcdir ${PROJECT_SOURCE_DIR})
+SET(abs_top_builddir ${PROJECT_BINARY_DIR})
+
+SET(LEMON_DOC_SOURCE_BROWSER "NO" CACHE STRING "Include source into the doc (YES/NO).")
+
+CONFIGURE_FILE(
+ ${PROJECT_SOURCE_DIR}/doc/Doxyfile.in
+ ${PROJECT_BINARY_DIR}/doc/Doxyfile
+ @ONLY
+)
+
+CONFIGURE_FILE(
+ ${PROJECT_SOURCE_DIR}/doc/mainpage.dox.in
+ ${PROJECT_BINARY_DIR}/doc/mainpage.dox
+ @ONLY
+)
+
+IF(DOXYGEN_EXECUTABLE AND PYTHONINTERP_FOUND AND GHOSTSCRIPT_EXECUTABLE)
+ FILE(MAKE_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/html/)
+ SET(GHOSTSCRIPT_OPTIONS -dNOPAUSE -dBATCH -q -dEPSCrop -dTextAlphaBits=4 -dGraphicsAlphaBits=4 -sDEVICE=pngalpha)
+ ADD_CUSTOM_TARGET(html
+ COMMAND ${CMAKE_COMMAND} -E remove_directory gen-images
+ COMMAND ${CMAKE_COMMAND} -E make_directory gen-images
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/bipartite_matching.png ${CMAKE_CURRENT_SOURCE_DIR}/images/bipartite_matching.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/bipartite_partitions.png ${CMAKE_CURRENT_SOURCE_DIR}/images/bipartite_partitions.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/connected_components.png ${CMAKE_CURRENT_SOURCE_DIR}/images/connected_components.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/edge_biconnected_components.png ${CMAKE_CURRENT_SOURCE_DIR}/images/edge_biconnected_components.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/grid_graph.png ${CMAKE_CURRENT_SOURCE_DIR}/images/grid_graph.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/matching.png ${CMAKE_CURRENT_SOURCE_DIR}/images/matching.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/node_biconnected_components.png ${CMAKE_CURRENT_SOURCE_DIR}/images/node_biconnected_components.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/nodeshape_0.png ${CMAKE_CURRENT_SOURCE_DIR}/images/nodeshape_0.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/nodeshape_1.png ${CMAKE_CURRENT_SOURCE_DIR}/images/nodeshape_1.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/nodeshape_2.png ${CMAKE_CURRENT_SOURCE_DIR}/images/nodeshape_2.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/nodeshape_3.png ${CMAKE_CURRENT_SOURCE_DIR}/images/nodeshape_3.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/nodeshape_4.png ${CMAKE_CURRENT_SOURCE_DIR}/images/nodeshape_4.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/planar.png ${CMAKE_CURRENT_SOURCE_DIR}/images/planar.eps
+ COMMAND ${GHOSTSCRIPT_EXECUTABLE} ${GHOSTSCRIPT_OPTIONS} -r18 -sOutputFile=gen-images/strongly_connected_components.png ${CMAKE_CURRENT_SOURCE_DIR}/images/strongly_connected_components.eps
+ COMMAND ${CMAKE_COMMAND} -E remove_directory html
+ COMMAND ${PYTHON_EXECUTABLE} ${PROJECT_SOURCE_DIR}/scripts/bib2dox.py ${CMAKE_CURRENT_SOURCE_DIR}/references.bib >references.dox
+ COMMAND ${DOXYGEN_EXECUTABLE} Doxyfile
+ WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}
+ )
+
+ SET_TARGET_PROPERTIES(html PROPERTIES PROJECT_LABEL BUILD_DOC)
+
+ IF(UNIX)
+ INSTALL(
+ DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/html/
+ DESTINATION share/doc/lemon/html
+ COMPONENT html_documentation
+ )
+ ELSEIF(WIN32)
+ INSTALL(
+ DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/html/
+ DESTINATION doc
+ COMPONENT html_documentation
+ )
+ ENDIF()
+
+ENDIF()
+
+IF(WGET_FOUND)
+ADD_CUSTOM_TARGET(update-external-tags
+ COMMAND ${CMAKE_COMMAND} -E make_directory dl
+ # COMMAND ${CMAKE_COMMAND} -E copy libstdc++.tag dl
+ COMMAND ${WGET_EXECUTABLE} wget -P dl -N libstdc++.tag.tmp http://gcc.gnu.org/onlinedocs/libstdc++/latest-doxygen/libstdc++.tag
+ COMMAND ${CMAKE_COMMAND} -E rename dl/libstdc++.tag libstdc++.tag
+ COMMAND ${CMAKE_COMMAND} -E remove dl/libstdc++.tag
+ COMMAND ${CMAKE_COMMAND} -E remove_directory dl
+ WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}
+ )
+ENDIF()
diff --git a/lemon/doc/Doxyfile b/lemon/doc/Doxyfile
new file mode 100644
index 0000000..a53c7a4
--- /dev/null
+++ b/lemon/doc/Doxyfile
@@ -0,0 +1,291 @@
+# Doxyfile 1.7.3
+
+#---------------------------------------------------------------------------
+# Project related configuration options
+#---------------------------------------------------------------------------
+DOXYFILE_ENCODING = UTF-8
+PROJECT_NAME =
+PROJECT_NUMBER =
+PROJECT_BRIEF =
+PROJECT_LOGO =
+OUTPUT_DIRECTORY =
+CREATE_SUBDIRS = NO
+OUTPUT_LANGUAGE = English
+BRIEF_MEMBER_DESC = YES
+REPEAT_BRIEF = NO
+ABBREVIATE_BRIEF =
+ALWAYS_DETAILED_SEC = NO
+INLINE_INHERITED_MEMB = NO
+FULL_PATH_NAMES = YES
+STRIP_FROM_PATH = "/home/carlo/honours/lemon"
+STRIP_FROM_INC_PATH = "/home/carlo/honours/lemon"
+SHORT_NAMES = YES
+JAVADOC_AUTOBRIEF = NO
+QT_AUTOBRIEF = NO
+MULTILINE_CPP_IS_BRIEF = NO
+INHERIT_DOCS = NO
+SEPARATE_MEMBER_PAGES = NO
+TAB_SIZE = 8
+ALIASES =
+OPTIMIZE_OUTPUT_FOR_C = NO
+OPTIMIZE_OUTPUT_JAVA = NO
+OPTIMIZE_FOR_FORTRAN = NO
+OPTIMIZE_OUTPUT_VHDL = NO
+EXTENSION_MAPPING =
+BUILTIN_STL_SUPPORT = YES
+CPP_CLI_SUPPORT = NO
+SIP_SUPPORT = NO
+IDL_PROPERTY_SUPPORT = YES
+DISTRIBUTE_GROUP_DOC = NO
+SUBGROUPING = YES
+TYPEDEF_HIDES_STRUCT = NO
+SYMBOL_CACHE_SIZE = 0
+#---------------------------------------------------------------------------
+# Build related configuration options
+#---------------------------------------------------------------------------
+EXTRACT_ALL = NO
+EXTRACT_PRIVATE = YES
+EXTRACT_STATIC = YES
+EXTRACT_LOCAL_CLASSES = NO
+EXTRACT_LOCAL_METHODS = NO
+EXTRACT_ANON_NSPACES = NO
+HIDE_UNDOC_MEMBERS = YES
+HIDE_UNDOC_CLASSES = YES
+HIDE_FRIEND_COMPOUNDS = NO
+HIDE_IN_BODY_DOCS = NO
+INTERNAL_DOCS = NO
+CASE_SENSE_NAMES = YES
+HIDE_SCOPE_NAMES = YES
+SHOW_INCLUDE_FILES = YES
+FORCE_LOCAL_INCLUDES = NO
+INLINE_INFO = YES
+SORT_MEMBER_DOCS = NO
+SORT_BRIEF_DOCS = NO
+SORT_MEMBERS_CTORS_1ST = NO
+SORT_GROUP_NAMES = NO
+SORT_BY_SCOPE_NAME = NO
+STRICT_PROTO_MATCHING = NO
+GENERATE_TODOLIST = YES
+GENERATE_TESTLIST = YES
+GENERATE_BUGLIST = YES
+GENERATE_DEPRECATEDLIST= YES
+ENABLED_SECTIONS =
+MAX_INITIALIZER_LINES = 5
+SHOW_USED_FILES = NO
+SHOW_DIRECTORIES = YES
+SHOW_FILES = YES
+SHOW_NAMESPACES = YES
+FILE_VERSION_FILTER =
+LAYOUT_FILE = "/home/carlo/honours/lemon/doc/DoxygenLayout.xml"
+#---------------------------------------------------------------------------
+# configuration options related to warning and progress messages
+#---------------------------------------------------------------------------
+QUIET = NO
+WARNINGS = YES
+WARN_IF_UNDOCUMENTED = YES
+WARN_IF_DOC_ERROR = YES
+WARN_NO_PARAMDOC = NO
+WARN_FORMAT = "$file:$line: $text"
+WARN_LOGFILE = doxygen.log
+#---------------------------------------------------------------------------
+# configuration options related to the input files
+#---------------------------------------------------------------------------
+INPUT = "/home/carlo/honours/lemon/doc" \
+ "/home/carlo/honours/lemon/lemon" \
+ "/home/carlo/honours/lemon/lemon/bits" \
+ "/home/carlo/honours/lemon/lemon/concepts" \
+ "/home/carlo/honours/lemon/demo" \
+ "/home/carlo/honours/lemon/tools" \
+ "/home/carlo/honours/lemon/test/test_tools.h" \
+ "/home/carlo/honours/lemon/doc/mainpage.dox" \
+ "/home/carlo/honours/lemon/doc/references.dox"
+INPUT_ENCODING = UTF-8
+FILE_PATTERNS = *.h \
+ *.cc \
+ *.dox
+RECURSIVE = NO
+EXCLUDE =
+EXCLUDE_SYMLINKS = NO
+EXCLUDE_PATTERNS =
+EXCLUDE_SYMBOLS =
+EXAMPLE_PATH = "/home/carlo/honours/lemon/demo" \
+ "/home/carlo/honours/lemon/LICENSE" \
+ "/home/carlo/honours/lemon/doc"
+EXAMPLE_PATTERNS =
+EXAMPLE_RECURSIVE = NO
+IMAGE_PATH = "/home/carlo/honours/lemon/doc/images" \
+ "/home/carlo/honours/lemon/doc/gen-images"
+INPUT_FILTER =
+FILTER_PATTERNS =
+FILTER_SOURCE_FILES = NO
+FILTER_SOURCE_PATTERNS =
+#---------------------------------------------------------------------------
+# configuration options related to source browsing
+#---------------------------------------------------------------------------
+SOURCE_BROWSER = @LEMON_DOC_SOURCE_BROWSER@
+INLINE_SOURCES = NO
+STRIP_CODE_COMMENTS = YES
+REFERENCED_BY_RELATION = NO
+REFERENCES_RELATION = NO
+REFERENCES_LINK_SOURCE = YES
+USE_HTAGS = NO
+VERBATIM_HEADERS = NO
+#---------------------------------------------------------------------------
+# configuration options related to the alphabetical class index
+#---------------------------------------------------------------------------
+ALPHABETICAL_INDEX = YES
+COLS_IN_ALPHA_INDEX = 2
+IGNORE_PREFIX =
+#---------------------------------------------------------------------------
+# configuration options related to the HTML output
+#---------------------------------------------------------------------------
+GENERATE_HTML = YES
+HTML_OUTPUT = html
+HTML_FILE_EXTENSION = .html
+HTML_HEADER =
+HTML_FOOTER =
+HTML_STYLESHEET =
+HTML_COLORSTYLE_HUE = 220
+HTML_COLORSTYLE_SAT = 100
+HTML_COLORSTYLE_GAMMA = 80
+HTML_TIMESTAMP = YES
+HTML_ALIGN_MEMBERS = YES
+HTML_DYNAMIC_SECTIONS = YES
+GENERATE_DOCSET = NO
+DOCSET_FEEDNAME = "Doxygen generated docs"
+DOCSET_BUNDLE_ID = org.doxygen.Project
+DOCSET_PUBLISHER_ID = org.doxygen.Publisher
+DOCSET_PUBLISHER_NAME = Publisher
+GENERATE_HTMLHELP = NO
+CHM_FILE =
+HHC_LOCATION =
+GENERATE_CHI = NO
+CHM_INDEX_ENCODING =
+BINARY_TOC = NO
+TOC_EXPAND = NO
+GENERATE_QHP = NO
+QCH_FILE =
+QHP_NAMESPACE = org.doxygen.Project
+QHP_VIRTUAL_FOLDER = doc
+QHP_CUST_FILTER_NAME =
+QHP_CUST_FILTER_ATTRS =
+QHP_SECT_FILTER_ATTRS =
+QHG_LOCATION =
+GENERATE_ECLIPSEHELP = NO
+ECLIPSE_DOC_ID = org.doxygen.Project
+DISABLE_INDEX = NO
+ENUM_VALUES_PER_LINE = 4
+GENERATE_TREEVIEW = NO
+USE_INLINE_TREES = NO
+TREEVIEW_WIDTH = 250
+EXT_LINKS_IN_WINDOW = NO
+FORMULA_FONTSIZE = 10
+FORMULA_TRANSPARENT = YES
+USE_MATHJAX = NO
+MATHJAX_RELPATH = http://www.mathjax.org/mathjax
+SEARCHENGINE = YES
+SERVER_BASED_SEARCH = NO
+#---------------------------------------------------------------------------
+# configuration options related to the LaTeX output
+#---------------------------------------------------------------------------
+GENERATE_LATEX = NO
+LATEX_OUTPUT = latex
+LATEX_CMD_NAME = latex
+MAKEINDEX_CMD_NAME = makeindex
+COMPACT_LATEX = YES
+PAPER_TYPE = a4wide
+EXTRA_PACKAGES = amsmath \
+ amssymb
+LATEX_HEADER =
+PDF_HYPERLINKS = YES
+USE_PDFLATEX = YES
+LATEX_BATCHMODE = NO
+LATEX_HIDE_INDICES = NO
+LATEX_SOURCE_CODE = NO
+#---------------------------------------------------------------------------
+# configuration options related to the RTF output
+#---------------------------------------------------------------------------
+GENERATE_RTF = NO
+RTF_OUTPUT = rtf
+COMPACT_RTF = NO
+RTF_HYPERLINKS = NO
+RTF_STYLESHEET_FILE =
+RTF_EXTENSIONS_FILE =
+#---------------------------------------------------------------------------
+# configuration options related to the man page output
+#---------------------------------------------------------------------------
+GENERATE_MAN = NO
+MAN_OUTPUT = man
+MAN_EXTENSION = .3
+MAN_LINKS = NO
+#---------------------------------------------------------------------------
+# configuration options related to the XML output
+#---------------------------------------------------------------------------
+GENERATE_XML = NO
+XML_OUTPUT = xml
+XML_SCHEMA =
+XML_DTD =
+XML_PROGRAMLISTING = YES
+#---------------------------------------------------------------------------
+# configuration options for the AutoGen Definitions output
+#---------------------------------------------------------------------------
+GENERATE_AUTOGEN_DEF = NO
+#---------------------------------------------------------------------------
+# configuration options related to the Perl module output
+#---------------------------------------------------------------------------
+GENERATE_PERLMOD = NO
+PERLMOD_LATEX = NO
+PERLMOD_PRETTY = YES
+PERLMOD_MAKEVAR_PREFIX =
+#---------------------------------------------------------------------------
+# Configuration options related to the preprocessor
+#---------------------------------------------------------------------------
+ENABLE_PREPROCESSING = YES
+MACRO_EXPANSION = NO
+EXPAND_ONLY_PREDEF = NO
+SEARCH_INCLUDES = YES
+INCLUDE_PATH =
+INCLUDE_FILE_PATTERNS =
+PREDEFINED = DOXYGEN
+EXPAND_AS_DEFINED =
+SKIP_FUNCTION_MACROS = YES
+#---------------------------------------------------------------------------
+# Configuration::additions related to external references
+#---------------------------------------------------------------------------
+TAGFILES = "/home/carlo/honours/lemon/doc/libstdc++.tag = http://gcc.gnu.org/onlinedocs/libstdc++/latest-doxygen/ "
+GENERATE_TAGFILE = html/lemon.tag
+ALLEXTERNALS = NO
+EXTERNAL_GROUPS = NO
+PERL_PATH = /usr/bin/perl
+#---------------------------------------------------------------------------
+# Configuration options related to the dot tool
+#---------------------------------------------------------------------------
+CLASS_DIAGRAMS = YES
+MSCGEN_PATH =
+HIDE_UNDOC_RELATIONS = YES
+HAVE_DOT = YES
+DOT_NUM_THREADS = 0
+DOT_FONTNAME = FreeSans
+DOT_FONTSIZE = 10
+DOT_FONTPATH =
+CLASS_GRAPH = YES
+COLLABORATION_GRAPH = NO
+GROUP_GRAPHS = NO
+UML_LOOK = NO
+TEMPLATE_RELATIONS = NO
+INCLUDE_GRAPH = NO
+INCLUDED_BY_GRAPH = NO
+CALL_GRAPH = NO
+CALLER_GRAPH = NO
+GRAPHICAL_HIERARCHY = NO
+DIRECTORY_GRAPH = NO
+DOT_IMAGE_FORMAT = png
+DOT_PATH =
+DOTFILE_DIRS =
+MSCFILE_DIRS =
+DOT_GRAPH_MAX_NODES = 50
+MAX_DOT_GRAPH_DEPTH = 0
+DOT_TRANSPARENT = NO
+DOT_MULTI_TARGETS = NO
+GENERATE_LEGEND = YES
+DOT_CLEANUP = YES
diff --git a/lemon/doc/Doxyfile.in b/lemon/doc/Doxyfile.in
new file mode 100644
index 0000000..e4dcaf8
--- /dev/null
+++ b/lemon/doc/Doxyfile.in
@@ -0,0 +1,291 @@
+# Doxyfile 1.7.3
+
+#---------------------------------------------------------------------------
+# Project related configuration options
+#---------------------------------------------------------------------------
+DOXYFILE_ENCODING = UTF-8
+PROJECT_NAME =
+PROJECT_NUMBER =
+PROJECT_BRIEF =
+PROJECT_LOGO =
+OUTPUT_DIRECTORY =
+CREATE_SUBDIRS = NO
+OUTPUT_LANGUAGE = English
+BRIEF_MEMBER_DESC = YES
+REPEAT_BRIEF = NO
+ABBREVIATE_BRIEF =
+ALWAYS_DETAILED_SEC = NO
+INLINE_INHERITED_MEMB = NO
+FULL_PATH_NAMES = YES
+STRIP_FROM_PATH = "@abs_top_srcdir@"
+STRIP_FROM_INC_PATH = "@abs_top_srcdir@"
+SHORT_NAMES = YES
+JAVADOC_AUTOBRIEF = NO
+QT_AUTOBRIEF = NO
+MULTILINE_CPP_IS_BRIEF = NO
+INHERIT_DOCS = NO
+SEPARATE_MEMBER_PAGES = NO
+TAB_SIZE = 8
+ALIASES =
+OPTIMIZE_OUTPUT_FOR_C = NO
+OPTIMIZE_OUTPUT_JAVA = NO
+OPTIMIZE_FOR_FORTRAN = NO
+OPTIMIZE_OUTPUT_VHDL = NO
+EXTENSION_MAPPING =
+BUILTIN_STL_SUPPORT = YES
+CPP_CLI_SUPPORT = NO
+SIP_SUPPORT = NO
+IDL_PROPERTY_SUPPORT = YES
+DISTRIBUTE_GROUP_DOC = NO
+SUBGROUPING = YES
+TYPEDEF_HIDES_STRUCT = NO
+SYMBOL_CACHE_SIZE = 0
+#---------------------------------------------------------------------------
+# Build related configuration options
+#---------------------------------------------------------------------------
+EXTRACT_ALL = NO
+EXTRACT_PRIVATE = YES
+EXTRACT_STATIC = YES
+EXTRACT_LOCAL_CLASSES = NO
+EXTRACT_LOCAL_METHODS = NO
+EXTRACT_ANON_NSPACES = NO
+HIDE_UNDOC_MEMBERS = YES
+HIDE_UNDOC_CLASSES = YES
+HIDE_FRIEND_COMPOUNDS = NO
+HIDE_IN_BODY_DOCS = NO
+INTERNAL_DOCS = NO
+CASE_SENSE_NAMES = YES
+HIDE_SCOPE_NAMES = YES
+SHOW_INCLUDE_FILES = YES
+FORCE_LOCAL_INCLUDES = NO
+INLINE_INFO = YES
+SORT_MEMBER_DOCS = NO
+SORT_BRIEF_DOCS = NO
+SORT_MEMBERS_CTORS_1ST = NO
+SORT_GROUP_NAMES = NO
+SORT_BY_SCOPE_NAME = NO
+STRICT_PROTO_MATCHING = NO
+GENERATE_TODOLIST = YES
+GENERATE_TESTLIST = YES
+GENERATE_BUGLIST = YES
+GENERATE_DEPRECATEDLIST= YES
+ENABLED_SECTIONS =
+MAX_INITIALIZER_LINES = 5
+SHOW_USED_FILES = NO
+SHOW_DIRECTORIES = YES
+SHOW_FILES = YES
+SHOW_NAMESPACES = YES
+FILE_VERSION_FILTER =
+LAYOUT_FILE = "@abs_top_srcdir@/doc/DoxygenLayout.xml"
+#---------------------------------------------------------------------------
+# configuration options related to warning and progress messages
+#---------------------------------------------------------------------------
+QUIET = NO
+WARNINGS = YES
+WARN_IF_UNDOCUMENTED = YES
+WARN_IF_DOC_ERROR = YES
+WARN_NO_PARAMDOC = NO
+WARN_FORMAT = "$file:$line: $text"
+WARN_LOGFILE = doxygen.log
+#---------------------------------------------------------------------------
+# configuration options related to the input files
+#---------------------------------------------------------------------------
+INPUT = "@abs_top_srcdir@/doc" \
+ "@abs_top_srcdir@/lemon" \
+ "@abs_top_srcdir@/lemon/bits" \
+ "@abs_top_srcdir@/lemon/concepts" \
+ "@abs_top_srcdir@/demo" \
+ "@abs_top_srcdir@/tools" \
+ "@abs_top_srcdir@/test/test_tools.h" \
+ "@abs_top_builddir@/doc/mainpage.dox" \
+ "@abs_top_builddir@/doc/references.dox"
+INPUT_ENCODING = UTF-8
+FILE_PATTERNS = *.h \
+ *.cc \
+ *.dox
+RECURSIVE = NO
+EXCLUDE =
+EXCLUDE_SYMLINKS = NO
+EXCLUDE_PATTERNS =
+EXCLUDE_SYMBOLS =
+EXAMPLE_PATH = "@abs_top_srcdir@/demo" \
+ "@abs_top_srcdir@/LICENSE" \
+ "@abs_top_srcdir@/doc"
+EXAMPLE_PATTERNS =
+EXAMPLE_RECURSIVE = NO
+IMAGE_PATH = "@abs_top_srcdir@/doc/images" \
+ "@abs_top_builddir@/doc/gen-images"
+INPUT_FILTER =
+FILTER_PATTERNS =
+FILTER_SOURCE_FILES = NO
+FILTER_SOURCE_PATTERNS =
+#---------------------------------------------------------------------------
+# configuration options related to source browsing
+#---------------------------------------------------------------------------
+SOURCE_BROWSER = @LEMON_DOC_SOURCE_BROWSER@
+INLINE_SOURCES = NO
+STRIP_CODE_COMMENTS = YES
+REFERENCED_BY_RELATION = NO
+REFERENCES_RELATION = NO
+REFERENCES_LINK_SOURCE = YES
+USE_HTAGS = NO
+VERBATIM_HEADERS = NO
+#---------------------------------------------------------------------------
+# configuration options related to the alphabetical class index
+#---------------------------------------------------------------------------
+ALPHABETICAL_INDEX = YES
+COLS_IN_ALPHA_INDEX = 2
+IGNORE_PREFIX =
+#---------------------------------------------------------------------------
+# configuration options related to the HTML output
+#---------------------------------------------------------------------------
+GENERATE_HTML = YES
+HTML_OUTPUT = html
+HTML_FILE_EXTENSION = .html
+HTML_HEADER =
+HTML_FOOTER =
+HTML_STYLESHEET =
+HTML_COLORSTYLE_HUE = 220
+HTML_COLORSTYLE_SAT = 100
+HTML_COLORSTYLE_GAMMA = 80
+HTML_TIMESTAMP = YES
+HTML_ALIGN_MEMBERS = YES
+HTML_DYNAMIC_SECTIONS = YES
+GENERATE_DOCSET = NO
+DOCSET_FEEDNAME = "Doxygen generated docs"
+DOCSET_BUNDLE_ID = org.doxygen.Project
+DOCSET_PUBLISHER_ID = org.doxygen.Publisher
+DOCSET_PUBLISHER_NAME = Publisher
+GENERATE_HTMLHELP = NO
+CHM_FILE =
+HHC_LOCATION =
+GENERATE_CHI = NO
+CHM_INDEX_ENCODING =
+BINARY_TOC = NO
+TOC_EXPAND = NO
+GENERATE_QHP = NO
+QCH_FILE =
+QHP_NAMESPACE = org.doxygen.Project
+QHP_VIRTUAL_FOLDER = doc
+QHP_CUST_FILTER_NAME =
+QHP_CUST_FILTER_ATTRS =
+QHP_SECT_FILTER_ATTRS =
+QHG_LOCATION =
+GENERATE_ECLIPSEHELP = NO
+ECLIPSE_DOC_ID = org.doxygen.Project
+DISABLE_INDEX = NO
+ENUM_VALUES_PER_LINE = 4
+GENERATE_TREEVIEW = NO
+USE_INLINE_TREES = NO
+TREEVIEW_WIDTH = 250
+EXT_LINKS_IN_WINDOW = NO
+FORMULA_FONTSIZE = 10
+FORMULA_TRANSPARENT = YES
+USE_MATHJAX = NO
+MATHJAX_RELPATH = http://www.mathjax.org/mathjax
+SEARCHENGINE = YES
+SERVER_BASED_SEARCH = NO
+#---------------------------------------------------------------------------
+# configuration options related to the LaTeX output
+#---------------------------------------------------------------------------
+GENERATE_LATEX = NO
+LATEX_OUTPUT = latex
+LATEX_CMD_NAME = latex
+MAKEINDEX_CMD_NAME = makeindex
+COMPACT_LATEX = YES
+PAPER_TYPE = a4wide
+EXTRA_PACKAGES = amsmath \
+ amssymb
+LATEX_HEADER =
+PDF_HYPERLINKS = YES
+USE_PDFLATEX = YES
+LATEX_BATCHMODE = NO
+LATEX_HIDE_INDICES = NO
+LATEX_SOURCE_CODE = NO
+#---------------------------------------------------------------------------
+# configuration options related to the RTF output
+#---------------------------------------------------------------------------
+GENERATE_RTF = NO
+RTF_OUTPUT = rtf
+COMPACT_RTF = NO
+RTF_HYPERLINKS = NO
+RTF_STYLESHEET_FILE =
+RTF_EXTENSIONS_FILE =
+#---------------------------------------------------------------------------
+# configuration options related to the man page output
+#---------------------------------------------------------------------------
+GENERATE_MAN = NO
+MAN_OUTPUT = man
+MAN_EXTENSION = .3
+MAN_LINKS = NO
+#---------------------------------------------------------------------------
+# configuration options related to the XML output
+#---------------------------------------------------------------------------
+GENERATE_XML = NO
+XML_OUTPUT = xml
+XML_SCHEMA =
+XML_DTD =
+XML_PROGRAMLISTING = YES
+#---------------------------------------------------------------------------
+# configuration options for the AutoGen Definitions output
+#---------------------------------------------------------------------------
+GENERATE_AUTOGEN_DEF = NO
+#---------------------------------------------------------------------------
+# configuration options related to the Perl module output
+#---------------------------------------------------------------------------
+GENERATE_PERLMOD = NO
+PERLMOD_LATEX = NO
+PERLMOD_PRETTY = YES
+PERLMOD_MAKEVAR_PREFIX =
+#---------------------------------------------------------------------------
+# Configuration options related to the preprocessor
+#---------------------------------------------------------------------------
+ENABLE_PREPROCESSING = YES
+MACRO_EXPANSION = NO
+EXPAND_ONLY_PREDEF = NO
+SEARCH_INCLUDES = YES
+INCLUDE_PATH =
+INCLUDE_FILE_PATTERNS =
+PREDEFINED = DOXYGEN
+EXPAND_AS_DEFINED =
+SKIP_FUNCTION_MACROS = YES
+#---------------------------------------------------------------------------
+# Configuration::additions related to external references
+#---------------------------------------------------------------------------
+TAGFILES = "@abs_top_builddir@/doc/libstdc++.tag = http://gcc.gnu.org/onlinedocs/libstdc++/latest-doxygen/ "
+GENERATE_TAGFILE = html/lemon.tag
+ALLEXTERNALS = NO
+EXTERNAL_GROUPS = NO
+PERL_PATH = /usr/bin/perl
+#---------------------------------------------------------------------------
+# Configuration options related to the dot tool
+#---------------------------------------------------------------------------
+CLASS_DIAGRAMS = YES
+MSCGEN_PATH =
+HIDE_UNDOC_RELATIONS = YES
+HAVE_DOT = YES
+DOT_NUM_THREADS = 0
+DOT_FONTNAME = FreeSans
+DOT_FONTSIZE = 10
+DOT_FONTPATH =
+CLASS_GRAPH = YES
+COLLABORATION_GRAPH = NO
+GROUP_GRAPHS = NO
+UML_LOOK = NO
+TEMPLATE_RELATIONS = NO
+INCLUDE_GRAPH = NO
+INCLUDED_BY_GRAPH = NO
+CALL_GRAPH = NO
+CALLER_GRAPH = NO
+GRAPHICAL_HIERARCHY = NO
+DIRECTORY_GRAPH = NO
+DOT_IMAGE_FORMAT = png
+DOT_PATH =
+DOTFILE_DIRS =
+MSCFILE_DIRS =
+DOT_GRAPH_MAX_NODES = 50
+MAX_DOT_GRAPH_DEPTH = 0
+DOT_TRANSPARENT = NO
+DOT_MULTI_TARGETS = NO
+GENERATE_LEGEND = YES
+DOT_CLEANUP = YES
diff --git a/lemon/doc/DoxygenLayout.xml b/lemon/doc/DoxygenLayout.xml
new file mode 100644
index 0000000..7085f8a
--- /dev/null
+++ b/lemon/doc/DoxygenLayout.xml
@@ -0,0 +1,182 @@
+<doxygenlayout version="1.0">
+ <!-- Navigation index tabs for HTML output -->
+ <navindex>
+ <tab type="mainpage" visible="yes" title=""/>
+ <tab type="modules" visible="yes" title="" intro=""/>
+ <tab type="classes" visible="yes" title="">
+ <tab type="classes" visible="yes" title="" intro=""/>
+ <tab type="classindex" visible="$ALPHABETICAL_INDEX" title=""/>
+ <tab type="hierarchy" visible="yes" title="" intro=""/>
+ <tab type="classmembers" visible="yes" title="" intro=""/>
+ </tab>
+ <tab type="namespaces" visible="yes" title="">
+ <tab type="namespaces" visible="yes" title="" intro=""/>
+ <tab type="namespacemembers" visible="yes" title="" intro=""/>
+ </tab>
+ <tab type="files" visible="yes" title="">
+ <tab type="files" visible="yes" title="" intro=""/>
+ <tab type="globals" visible="yes" title="" intro=""/>
+ </tab>
+ <tab type="dirs" visible="yes" title="" intro=""/>
+ <tab type="examples" visible="yes" title="" intro=""/>
+ <tab type="pages" visible="yes" title="" intro=""/>
+ </navindex>
+
+ <!-- Layout definition for a class page -->
+ <class>
+ <briefdescription visible="no"/>
+ <detaileddescription title=""/>
+ <includes visible="$SHOW_INCLUDE_FILES"/>
+ <inheritancegraph visible="$CLASS_GRAPH"/>
+ <collaborationgraph visible="$COLLABORATION_GRAPH"/>
+ <allmemberslink visible="yes"/>
+ <memberdecl>
+ <membergroups visible="yes"/>
+ <nestedclasses visible="yes" title=""/>
+ <publictypes title=""/>
+ <publicslots title=""/>
+ <signals title=""/>
+ <publicmethods title=""/>
+ <publicstaticmethods title=""/>
+ <publicattributes title=""/>
+ <publicstaticattributes title=""/>
+ <protectedtypes title=""/>
+ <protectedslots title=""/>
+ <protectedmethods title=""/>
+ <protectedstaticmethods title=""/>
+ <protectedattributes title=""/>
+ <protectedstaticattributes title=""/>
+ <packagetypes title=""/>
+ <packagemethods title=""/>
+ <packagestaticmethods title=""/>
+ <packageattributes title=""/>
+ <packagestaticattributes title=""/>
+ <properties title=""/>
+ <events title=""/>
+ <privatetypes title=""/>
+ <privateslots title=""/>
+ <privatemethods title=""/>
+ <privatestaticmethods title=""/>
+ <privateattributes title=""/>
+ <privatestaticattributes title=""/>
+ <friends title=""/>
+ <related title="" subtitle=""/>
+ </memberdecl>
+ <memberdef>
+ <typedefs title=""/>
+ <enums title=""/>
+ <constructors title=""/>
+ <functions title=""/>
+ <related title=""/>
+ <variables title=""/>
+ <properties title=""/>
+ <events title=""/>
+ </memberdef>
+ <usedfiles visible="$SHOW_USED_FILES"/>
+ <authorsection visible="yes"/>
+ </class>
+
+ <!-- Layout definition for a namespace page -->
+ <namespace>
+ <briefdescription visible="no"/>
+ <detaileddescription title=""/>
+ <memberdecl>
+ <nestednamespaces visible="yes" title=""/>
+ <classes visible="yes" title=""/>
+ <membergroups visible="yes"/>
+ <typedefs title=""/>
+ <enums title=""/>
+ <functions title=""/>
+ <variables title=""/>
+ </memberdecl>
+ <memberdef>
+ <typedefs title=""/>
+ <enums title=""/>
+ <functions title=""/>
+ <variables title=""/>
+ </memberdef>
+ <authorsection visible="yes"/>
+ </namespace>
+
+ <!-- Layout definition for a file page -->
+ <file>
+ <briefdescription visible="no"/>
+ <detaileddescription title=""/>
+ <includes visible="$SHOW_INCLUDE_FILES"/>
+ <includegraph visible="$INCLUDE_GRAPH"/>
+ <includedbygraph visible="$INCLUDED_BY_GRAPH"/>
+ <sourcelink visible="yes"/>
+ <memberdecl>
+ <classes visible="yes" title=""/>
+ <namespaces visible="yes" title=""/>
+ <defines title=""/>
+ <typedefs title=""/>
+ <enums title=""/>
+ <functions title=""/>
+ <variables title=""/>
+ </memberdecl>
+ <memberdef>
+ <defines title=""/>
+ <typedefs title=""/>
+ <enums title=""/>
+ <functions title=""/>
+ <variables title=""/>
+ </memberdef>
+ <authorsection/>
+ </file>
+
+ <!-- Layout definition for a group page -->
+ <group>
+ <briefdescription visible="no"/>
+ <detaileddescription title=""/>
+ <groupgraph visible="$GROUP_GRAPHS"/>
+ <memberdecl>
+ <classes visible="yes" title=""/>
+ <namespaces visible="yes" title=""/>
+ <dirs visible="yes" title=""/>
+ <nestedgroups visible="yes" title=""/>
+ <files visible="yes" title=""/>
+ <defines title=""/>
+ <typedefs title=""/>
+ <enums title=""/>
+ <enumvalues title=""/>
+ <functions title=""/>
+ <variables title=""/>
+ <signals title=""/>
+ <publicslots title=""/>
+ <protectedslots title=""/>
+ <privateslots title=""/>
+ <events title=""/>
+ <properties title=""/>
+ <friends title=""/>
+ </memberdecl>
+ <memberdef>
+ <pagedocs/>
+ <defines title=""/>
+ <typedefs title=""/>
+ <enums title=""/>
+ <enumvalues title=""/>
+ <functions title=""/>
+ <variables title=""/>
+ <signals title=""/>
+ <publicslots title=""/>
+ <protectedslots title=""/>
+ <privateslots title=""/>
+ <events title=""/>
+ <properties title=""/>
+ <friends title=""/>
+ </memberdef>
+ <authorsection visible="yes"/>
+ </group>
+
+ <!-- Layout definition for a directory page -->
+ <directory>
+ <briefdescription visible="no"/>
+ <detaileddescription title=""/>
+ <directorygraph visible="yes"/>
+ <memberdecl>
+ <dirs visible="yes"/>
+ <files visible="yes"/>
+ </memberdecl>
+ </directory>
+</doxygenlayout>
diff --git a/lemon/doc/Makefile.am b/lemon/doc/Makefile.am
new file mode 100644
index 0000000..ee02e50
--- /dev/null
+++ b/lemon/doc/Makefile.am
@@ -0,0 +1,123 @@
+EXTRA_DIST += \
+ doc/Doxyfile.in \
+ doc/DoxygenLayout.xml \
+ doc/coding_style.dox \
+ doc/dirs.dox \
+ doc/groups.dox \
+ doc/lgf.dox \
+ doc/license.dox \
+ doc/mainpage.dox \
+ doc/migration.dox \
+ doc/min_cost_flow.dox \
+ doc/named-param.dox \
+ doc/namespaces.dox \
+ doc/html \
+ doc/CMakeLists.txt
+
+DOC_EPS_IMAGES18 = \
+ grid_graph.eps \
+ nodeshape_0.eps \
+ nodeshape_1.eps \
+ nodeshape_2.eps \
+ nodeshape_3.eps \
+ nodeshape_4.eps
+
+DOC_EPS_IMAGES27 = \
+ bipartite_matching.eps \
+ bipartite_partitions.eps \
+ connected_components.eps \
+ edge_biconnected_components.eps \
+ matching.eps \
+ node_biconnected_components.eps \
+ planar.eps \
+ strongly_connected_components.eps
+
+DOC_EPS_IMAGES = \
+ $(DOC_EPS_IMAGES18) \
+ $(DOC_EPS_IMAGES27)
+
+DOC_PNG_IMAGES = \
+ $(DOC_EPS_IMAGES:%.eps=doc/gen-images/%.png)
+
+EXTRA_DIST += $(DOC_EPS_IMAGES:%=doc/images/%)
+
+doc/html:
+ $(MAKE) $(AM_MAKEFLAGS) html
+
+GS_COMMAND=gs -dNOPAUSE -dBATCH -q -dEPSCrop -dTextAlphaBits=4 -dGraphicsAlphaBits=4
+
+$(DOC_EPS_IMAGES18:%.eps=doc/gen-images/%.png): doc/gen-images/%.png: doc/images/%.eps
+ -mkdir doc/gen-images
+ if test ${gs_found} = yes; then \
+ $(GS_COMMAND) -sDEVICE=pngalpha -r18 -sOutputFile=$@ $<; \
+ else \
+ echo; \
+ echo "Ghostscript not found."; \
+ echo; \
+ exit 1; \
+ fi
+
+$(DOC_EPS_IMAGES27:%.eps=doc/gen-images/%.png): doc/gen-images/%.png: doc/images/%.eps
+ -mkdir doc/gen-images
+ if test ${gs_found} = yes; then \
+ $(GS_COMMAND) -sDEVICE=pngalpha -r27 -sOutputFile=$@ $<; \
+ else \
+ echo; \
+ echo "Ghostscript not found."; \
+ echo; \
+ exit 1; \
+ fi
+
+references.dox: doc/references.bib
+ if test ${python_found} = yes; then \
+ cd doc; \
+ python @abs_top_srcdir@/scripts/bib2dox.py @abs_top_builddir@/$< >$@; \
+ cd ..; \
+ else \
+ echo; \
+ echo "Python not found."; \
+ echo; \
+ exit 1; \
+ fi
+
+html-local: $(DOC_PNG_IMAGES) references.dox
+ if test ${doxygen_found} = yes; then \
+ cd doc; \
+ doxygen Doxyfile; \
+ cd ..; \
+ else \
+ echo; \
+ echo "Doxygen not found."; \
+ echo; \
+ exit 1; \
+ fi
+
+clean-local:
+ -rm -rf doc/html
+ -rm -f doc/doxygen.log
+ -rm -f $(DOC_PNG_IMAGES)
+ -rm -rf doc/gen-images
+
+update-external-tags:
+ wget -O doc/libstdc++.tag.tmp http://gcc.gnu.org/onlinedocs/libstdc++/latest-doxygen/libstdc++.tag && \
+ mv doc/libstdc++.tag.tmp doc/libstdc++.tag || \
+ rm doc/libstdc++.tag.tmp
+
+install-html-local: doc/html
+ @$(NORMAL_INSTALL)
+ $(mkinstalldirs) $(DESTDIR)$(htmldir)/html
+ for p in doc/html/*.{html,css,png,map,gif,tag} ; do \
+ f="`echo $$p | sed -e 's|^.*/||'`"; \
+ echo " $(INSTALL_DATA) $$p $(DESTDIR)$(htmldir)/html/$$f"; \
+ $(INSTALL_DATA) $$p $(DESTDIR)$(htmldir)/html/$$f; \
+ done
+
+uninstall-local:
+ @$(NORMAL_UNINSTALL)
+ for p in doc/html/*.{html,css,png,map,gif,tag} ; do \
+ f="`echo $$p | sed -e 's|^.*/||'`"; \
+ echo " rm -f $(DESTDIR)$(htmldir)/html/$$f"; \
+ rm -f $(DESTDIR)$(htmldir)/html/$$f; \
+ done
+
+.PHONY: update-external-tags
diff --git a/lemon/doc/coding_style.dox b/lemon/doc/coding_style.dox
new file mode 100644
index 0000000..5c6af26
--- /dev/null
+++ b/lemon/doc/coding_style.dox
@@ -0,0 +1,127 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2009
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/*!
+
+\page coding_style LEMON Coding Style
+
+\section naming_conv Naming Conventions
+
+In order to make development easier we have made some conventions
+according to coding style. These include names of types, classes,
+functions, variables, constants and exceptions. If these conventions
+are met in one's code then it is easier to read and maintain
+it. Please comply with these conventions if you want to contribute
+developing LEMON library.
+
+\note When the coding style requires the capitalization of an abbreviation,
+only the first letter should be upper case.
+
+\code
+XmlReader
+\endcode
+
+
+\warning In some cases we diverge from these rules.
+This is primary done because STL uses different naming convention and
+in certain cases
+it is beneficial to provide STL compatible interface.
+
+\subsection cs-files File Names
+
+The header file names should look like the following.
+
+\code
+header_file.h
+\endcode
+
+Note that all standard LEMON headers are located in the \c lemon subdirectory,
+so you should include them from C++ source like this:
+
+\code
+#include <lemon/header_file.h>
+\endcode
+
+The source code files use the same style and they have '.cc' extension.
+
+\code
+source_code.cc
+\endcode
+
+\subsection cs-class Classes and other types
+
+The name of a class or any type should look like the following.
+
+\code
+AllWordsCapitalizedWithoutUnderscores
+\endcode
+
+\subsection cs-func Methods and other functions
+
+The name of a function should look like the following.
+
+\code
+firstWordLowerCaseRestCapitalizedWithoutUnderscores
+\endcode
+
+\subsection cs-funcs Constants, Macros
+
+The names of constants and macros should look like the following.
+
+\code
+ALL_UPPER_CASE_WITH_UNDERSCORES
+\endcode
+
+\subsection cs-loc-var Class and instance member variables, auto variables
+
+The names of class and instance member variables and auto variables
+(=variables used locally in methods) should look like the following.
+
+\code
+all_lower_case_with_underscores
+\endcode
+
+\subsection pri-loc-var Private member variables
+
+Private member variables should start with underscore
+
+\code
+_start_with_underscores
+\endcode
+
+\subsection cs-excep Exceptions
+
+When writing exceptions please comply the following naming conventions.
+
+\code
+ClassNameEndsWithException
+\endcode
+
+or
+
+\code
+ClassNameEndsWithError
+\endcode
+
+\section header-template Template Header File
+
+Each LEMON header file should look like this:
+
+\include template.h
+
+*/
diff --git a/lemon/doc/dirs.dox b/lemon/doc/dirs.dox
new file mode 100644
index 0000000..c242fb2
--- /dev/null
+++ b/lemon/doc/dirs.dox
@@ -0,0 +1,77 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2009
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/**
+\dir demo
+\brief A collection of demo applications.
+
+This directory contains several simple demo applications, mainly
+for educational purposes.
+*/
+
+/**
+\dir doc
+\brief Auxiliary (and the whole generated) documentation.
+
+This directory contains some auxiliary pages and the whole generated
+documentation.
+*/
+
+/**
+\dir test
+\brief Test programs.
+
+This directory contains several test programs that check the consistency
+of the code.
+*/
+
+/**
+\dir tools
+\brief Some useful executables.
+
+This directory contains the sources of some useful complete executables.
+*/
+
+/**
+\dir lemon
+\brief Base include directory of LEMON.
+
+This is the base directory of LEMON includes, so each include file must be
+prefixed with this, e.g.
+\code
+#include<lemon/list_graph.h>
+#include<lemon/dijkstra.h>
+\endcode
+*/
+
+/**
+\dir concepts
+\brief Concept descriptors and checking classes.
+
+This directory contains the concept descriptors and concept checking tools.
+For more information see the \ref concept "Concepts" module.
+*/
+
+/**
+\dir bits
+\brief Auxiliary tools for implementation.
+
+This directory contains some auxiliary classes for implementing graphs,
+maps and some other classes.
+As a user you typically don't have to deal with these files.
+*/
diff --git a/lemon/doc/groups.dox b/lemon/doc/groups.dox
new file mode 100644
index 0000000..7400979
--- /dev/null
+++ b/lemon/doc/groups.dox
@@ -0,0 +1,702 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2010
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+namespace lemon {
+
+/**
+@defgroup datas Data Structures
+This group contains the several data structures implemented in LEMON.
+*/
+
+/**
+@defgroup graphs Graph Structures
+@ingroup datas
+\brief Graph structures implemented in LEMON.
+
+The implementation of combinatorial algorithms heavily relies on
+efficient graph implementations. LEMON offers data structures which are
+planned to be easily used in an experimental phase of implementation studies,
+and thereafter the program code can be made efficient by small modifications.
+
+The most efficient implementation of diverse applications require the
+usage of different physical graph implementations. These differences
+appear in the size of graph we require to handle, memory or time usage
+limitations or in the set of operations through which the graph can be
+accessed. LEMON provides several physical graph structures to meet
+the diverging requirements of the possible users. In order to save on
+running time or on memory usage, some structures may fail to provide
+some graph features like arc/edge or node deletion.
+
+Alteration of standard containers need a very limited number of
+operations, these together satisfy the everyday requirements.
+In the case of graph structures, different operations are needed which do
+not alter the physical graph, but gives another view. If some nodes or
+arcs have to be hidden or the reverse oriented graph have to be used, then
+this is the case. It also may happen that in a flow implementation
+the residual graph can be accessed by another algorithm, or a node-set
+is to be shrunk for another algorithm.
+LEMON also provides a variety of graphs for these requirements called
+\ref graph_adaptors "graph adaptors". Adaptors cannot be used alone but only
+in conjunction with other graph representations.
+
+You are free to use the graph structure that fit your requirements
+the best, most graph algorithms and auxiliary data structures can be used
+with any graph structure.
+
+<b>See also:</b> \ref graph_concepts "Graph Structure Concepts".
+*/
+
+/**
+@defgroup graph_adaptors Adaptor Classes for Graphs
+@ingroup graphs
+\brief Adaptor classes for digraphs and graphs
+
+This group contains several useful adaptor classes for digraphs and graphs.
+
+The main parts of LEMON are the different graph structures, generic
+graph algorithms, graph concepts, which couple them, and graph
+adaptors. While the previous notions are more or less clear, the
+latter one needs further explanation. Graph adaptors are graph classes
+which serve for considering graph structures in different ways.
+
+A short example makes this much clearer. Suppose that we have an
+instance \c g of a directed graph type, say ListDigraph and an algorithm
+\code
+template <typename Digraph>
+int algorithm(const Digraph&);
+\endcode
+is needed to run on the reverse oriented graph. It may be expensive
+(in time or in memory usage) to copy \c g with the reversed
+arcs. In this case, an adaptor class is used, which (according
+to LEMON \ref concepts::Digraph "digraph concepts") works as a digraph.
+The adaptor uses the original digraph structure and digraph operations when
+methods of the reversed oriented graph are called. This means that the adaptor
+have minor memory usage, and do not perform sophisticated algorithmic
+actions. The purpose of it is to give a tool for the cases when a
+graph have to be used in a specific alteration. If this alteration is
+obtained by a usual construction like filtering the node or the arc set or
+considering a new orientation, then an adaptor is worthwhile to use.
+To come back to the reverse oriented graph, in this situation
+\code
+template<typename Digraph> class ReverseDigraph;
+\endcode
+template class can be used. The code looks as follows
+\code
+ListDigraph g;
+ReverseDigraph<ListDigraph> rg(g);
+int result = algorithm(rg);
+\endcode
+During running the algorithm, the original digraph \c g is untouched.
+This techniques give rise to an elegant code, and based on stable
+graph adaptors, complex algorithms can be implemented easily.
+
+In flow, circulation and matching problems, the residual
+graph is of particular importance. Combining an adaptor implementing
+this with shortest path algorithms or minimum mean cycle algorithms,
+a range of weighted and cardinality optimization algorithms can be
+obtained. For other examples, the interested user is referred to the
+detailed documentation of particular adaptors.
+
+The behavior of graph adaptors can be very different. Some of them keep
+capabilities of the original graph while in other cases this would be
+meaningless. This means that the concepts that they meet depend
+on the graph adaptor, and the wrapped graph.
+For example, if an arc of a reversed digraph is deleted, this is carried
+out by deleting the corresponding arc of the original digraph, thus the
+adaptor modifies the original digraph.
+However in case of a residual digraph, this operation has no sense.
+
+Let us stand one more example here to simplify your work.
+ReverseDigraph has constructor
+\code
+ReverseDigraph(Digraph& digraph);
+\endcode
+This means that in a situation, when a <tt>const %ListDigraph&</tt>
+reference to a graph is given, then it have to be instantiated with
+<tt>Digraph=const %ListDigraph</tt>.
+\code
+int algorithm1(const ListDigraph& g) {
+ ReverseDigraph<const ListDigraph> rg(g);
+ return algorithm2(rg);
+}
+\endcode
+*/
+
+/**
+@defgroup maps Maps
+@ingroup datas
+\brief Map structures implemented in LEMON.
+
+This group contains the map structures implemented in LEMON.
+
+LEMON provides several special purpose maps and map adaptors that e.g. combine
+new maps from existing ones.
+
+<b>See also:</b> \ref map_concepts "Map Concepts".
+*/
+
+/**
+@defgroup graph_maps Graph Maps
+@ingroup maps
+\brief Special graph-related maps.
+
+This group contains maps that are specifically designed to assign
+values to the nodes and arcs/edges of graphs.
+
+If you are looking for the standard graph maps (\c NodeMap, \c ArcMap,
+\c EdgeMap), see the \ref graph_concepts "Graph Structure Concepts".
+*/
+
+/**
+\defgroup map_adaptors Map Adaptors
+\ingroup maps
+\brief Tools to create new maps from existing ones
+
+This group contains map adaptors that are used to create "implicit"
+maps from other maps.
+
+Most of them are \ref concepts::ReadMap "read-only maps".
+They can make arithmetic and logical operations between one or two maps
+(negation, shifting, addition, multiplication, logical 'and', 'or',
+'not' etc.) or e.g. convert a map to another one of different Value type.
+
+The typical usage of this classes is passing implicit maps to
+algorithms. If a function type algorithm is called then the function
+type map adaptors can be used comfortable. For example let's see the
+usage of map adaptors with the \c graphToEps() function.
+\code
+ Color nodeColor(int deg) {
+ if (deg >= 2) {
+ return Color(0.5, 0.0, 0.5);
+ } else if (deg == 1) {
+ return Color(1.0, 0.5, 1.0);
+ } else {
+ return Color(0.0, 0.0, 0.0);
+ }
+ }
+
+ Digraph::NodeMap<int> degree_map(graph);
+
+ graphToEps(graph, "graph.eps")
+ .coords(coords).scaleToA4().undirected()
+ .nodeColors(composeMap(functorToMap(nodeColor), degree_map))
+ .run();
+\endcode
+The \c functorToMap() function makes an \c int to \c Color map from the
+\c nodeColor() function. The \c composeMap() compose the \c degree_map
+and the previously created map. The composed map is a proper function to
+get the color of each node.
+
+The usage with class type algorithms is little bit harder. In this
+case the function type map adaptors can not be used, because the
+function map adaptors give back temporary objects.
+\code
+ Digraph graph;
+
+ typedef Digraph::ArcMap<double> DoubleArcMap;
+ DoubleArcMap length(graph);
+ DoubleArcMap speed(graph);
+
+ typedef DivMap<DoubleArcMap, DoubleArcMap> TimeMap;
+ TimeMap time(length, speed);
+
+ Dijkstra<Digraph, TimeMap> dijkstra(graph, time);
+ dijkstra.run(source, target);
+\endcode
+We have a length map and a maximum speed map on the arcs of a digraph.
+The minimum time to pass the arc can be calculated as the division of
+the two maps which can be done implicitly with the \c DivMap template
+class. We use the implicit minimum time map as the length map of the
+\c Dijkstra algorithm.
+*/
+
+/**
+@defgroup paths Path Structures
+@ingroup datas
+\brief %Path structures implemented in LEMON.
+
+This group contains the path structures implemented in LEMON.
+
+LEMON provides flexible data structures to work with paths.
+All of them have similar interfaces and they can be copied easily with
+assignment operators and copy constructors. This makes it easy and
+efficient to have e.g. the Dijkstra algorithm to store its result in
+any kind of path structure.
+
+\sa \ref concepts::Path "Path concept"
+*/
+
+/**
+@defgroup heaps Heap Structures
+@ingroup datas
+\brief %Heap structures implemented in LEMON.
+
+This group contains the heap structures implemented in LEMON.
+
+LEMON provides several heap classes. They are efficient implementations
+of the abstract data type \e priority \e queue. They store items with
+specified values called \e priorities in such a way that finding and
+removing the item with minimum priority are efficient.
+The basic operations are adding and erasing items, changing the priority
+of an item, etc.
+
+Heaps are crucial in several algorithms, such as Dijkstra and Prim.
+The heap implementations have the same interface, thus any of them can be
+used easily in such algorithms.
+
+\sa \ref concepts::Heap "Heap concept"
+*/
+
+/**
+@defgroup auxdat Auxiliary Data Structures
+@ingroup datas
+\brief Auxiliary data structures implemented in LEMON.
+
+This group contains some data structures implemented in LEMON in
+order to make it easier to implement combinatorial algorithms.
+*/
+
+/**
+@defgroup geomdat Geometric Data Structures
+@ingroup auxdat
+\brief Geometric data structures implemented in LEMON.
+
+This group contains geometric data structures implemented in LEMON.
+
+ - \ref lemon::dim2::Point "dim2::Point" implements a two dimensional
+ vector with the usual operations.
+ - \ref lemon::dim2::Box "dim2::Box" can be used to determine the
+ rectangular bounding box of a set of \ref lemon::dim2::Point
+ "dim2::Point"'s.
+*/
+
+/**
+@defgroup algs Algorithms
+\brief This group contains the several algorithms
+implemented in LEMON.
+
+This group contains the several algorithms
+implemented in LEMON.
+*/
+
+/**
+@defgroup search Graph Search
+@ingroup algs
+\brief Common graph search algorithms.
+
+This group contains the common graph search algorithms, namely
+\e breadth-first \e search (BFS) and \e depth-first \e search (DFS)
+\ref clrs01algorithms.
+*/
+
+/**
+@defgroup shortest_path Shortest Path Algorithms
+@ingroup algs
+\brief Algorithms for finding shortest paths.
+
+This group contains the algorithms for finding shortest paths in digraphs
+\ref clrs01algorithms.
+
+ - \ref Dijkstra algorithm for finding shortest paths from a source node
+ when all arc lengths are non-negative.
+ - \ref BellmanFord "Bellman-Ford" algorithm for finding shortest paths
+ from a source node when arc lenghts can be either positive or negative,
+ but the digraph should not contain directed cycles with negative total
+ length.
+ - \ref Suurballe A successive shortest path algorithm for finding
+ arc-disjoint paths between two nodes having minimum total length.
+*/
+
+/**
+@defgroup spantree Minimum Spanning Tree Algorithms
+@ingroup algs
+\brief Algorithms for finding minimum cost spanning trees and arborescences.
+
+This group contains the algorithms for finding minimum cost spanning
+trees and arborescences \ref clrs01algorithms.
+*/
+
+/**
+@defgroup max_flow Maximum Flow Algorithms
+@ingroup algs
+\brief Algorithms for finding maximum flows.
+
+This group contains the algorithms for finding maximum flows and
+feasible circulations \ref clrs01algorithms, \ref amo93networkflows.
+
+The \e maximum \e flow \e problem is to find a flow of maximum value between
+a single source and a single target. Formally, there is a \f$G=(V,A)\f$
+digraph, a \f$cap: A\rightarrow\mathbf{R}^+_0\f$ capacity function and
+\f$s, t \in V\f$ source and target nodes.
+A maximum flow is an \f$f: A\rightarrow\mathbf{R}^+_0\f$ solution of the
+following optimization problem.
+
+\f[ \max\sum_{sv\in A} f(sv) - \sum_{vs\in A} f(vs) \f]
+\f[ \sum_{uv\in A} f(uv) = \sum_{vu\in A} f(vu)
+ \quad \forall u\in V\setminus\{s,t\} \f]
+\f[ 0 \leq f(uv) \leq cap(uv) \quad \forall uv\in A \f]
+
+\ref Preflow is an efficient implementation of Goldberg-Tarjan's
+preflow push-relabel algorithm \ref goldberg88newapproach for finding
+maximum flows. It also provides functions to query the minimum cut,
+which is the dual problem of maximum flow.
+
+\ref Circulation is a preflow push-relabel algorithm implemented directly
+for finding feasible circulations, which is a somewhat different problem,
+but it is strongly related to maximum flow.
+For more information, see \ref Circulation.
+*/
+
+/**
+@defgroup min_cost_flow_algs Minimum Cost Flow Algorithms
+@ingroup algs
+
+\brief Algorithms for finding minimum cost flows and circulations.
+
+This group contains the algorithms for finding minimum cost flows and
+circulations \ref amo93networkflows. For more information about this
+problem and its dual solution, see \ref min_cost_flow
+"Minimum Cost Flow Problem".
+
+LEMON contains several algorithms for this problem.
+ - \ref NetworkSimplex Primal Network Simplex algorithm with various
+ pivot strategies \ref dantzig63linearprog, \ref kellyoneill91netsimplex.
+ - \ref CostScaling Cost Scaling algorithm based on push/augment and
+ relabel operations \ref goldberg90approximation, \ref goldberg97efficient,
+ \ref bunnagel98efficient.
+ - \ref CapacityScaling Capacity Scaling algorithm based on the successive
+ shortest path method \ref edmondskarp72theoretical.
+ - \ref CycleCanceling Cycle-Canceling algorithms, two of which are
+ strongly polynomial \ref klein67primal, \ref goldberg89cyclecanceling.
+
+In general NetworkSimplex is the most efficient implementation,
+but in special cases other algorithms could be faster.
+For example, if the total supply and/or capacities are rather small,
+CapacityScaling is usually the fastest algorithm (without effective scaling).
+*/
+
+/**
+@defgroup min_cut Minimum Cut Algorithms
+@ingroup algs
+
+\brief Algorithms for finding minimum cut in graphs.
+
+This group contains the algorithms for finding minimum cut in graphs.
+
+The \e minimum \e cut \e problem is to find a non-empty and non-complete
+\f$X\f$ subset of the nodes with minimum overall capacity on
+outgoing arcs. Formally, there is a \f$G=(V,A)\f$ digraph, a
+\f$cap: A\rightarrow\mathbf{R}^+_0\f$ capacity function. The minimum
+cut is the \f$X\f$ solution of the next optimization problem:
+
+\f[ \min_{X \subset V, X\not\in \{\emptyset, V\}}
+ \sum_{uv\in A: u\in X, v\not\in X}cap(uv) \f]
+
+LEMON contains several algorithms related to minimum cut problems:
+
+- \ref HaoOrlin "Hao-Orlin algorithm" for calculating minimum cut
+ in directed graphs.
+- \ref GomoryHu "Gomory-Hu tree computation" for calculating
+ all-pairs minimum cut in undirected graphs.
+
+If you want to find minimum cut just between two distinict nodes,
+see the \ref max_flow "maximum flow problem".
+*/
+
+/**
+@defgroup min_mean_cycle Minimum Mean Cycle Algorithms
+@ingroup algs
+\brief Algorithms for finding minimum mean cycles.
+
+This group contains the algorithms for finding minimum mean cycles
+\ref clrs01algorithms, \ref amo93networkflows.
+
+The \e minimum \e mean \e cycle \e problem is to find a directed cycle
+of minimum mean length (cost) in a digraph.
+The mean length of a cycle is the average length of its arcs, i.e. the
+ratio between the total length of the cycle and the number of arcs on it.
+
+This problem has an important connection to \e conservative \e length
+\e functions, too. A length function on the arcs of a digraph is called
+conservative if and only if there is no directed cycle of negative total
+length. For an arbitrary length function, the negative of the minimum
+cycle mean is the smallest \f$\epsilon\f$ value so that increasing the
+arc lengths uniformly by \f$\epsilon\f$ results in a conservative length
+function.
+
+LEMON contains three algorithms for solving the minimum mean cycle problem:
+- \ref KarpMmc Karp's original algorithm \ref amo93networkflows,
+ \ref dasdan98minmeancycle.
+- \ref HartmannOrlinMmc Hartmann-Orlin's algorithm, which is an improved
+ version of Karp's algorithm \ref dasdan98minmeancycle.
+- \ref HowardMmc Howard's policy iteration algorithm
+ \ref dasdan98minmeancycle.
+
+In practice, the \ref HowardMmc "Howard" algorithm proved to be by far the
+most efficient one, though the best known theoretical bound on its running
+time is exponential.
+Both \ref KarpMmc "Karp" and \ref HartmannOrlinMmc "Hartmann-Orlin" algorithms
+run in time O(ne) and use space O(n<sup>2</sup>+e), but the latter one is
+typically faster due to the applied early termination scheme.
+*/
+
+/**
+@defgroup matching Matching Algorithms
+@ingroup algs
+\brief Algorithms for finding matchings in graphs and bipartite graphs.
+
+This group contains the algorithms for calculating
+matchings in graphs and bipartite graphs. The general matching problem is
+finding a subset of the edges for which each node has at most one incident
+edge.
+
+There are several different algorithms for calculate matchings in
+graphs. The matching problems in bipartite graphs are generally
+easier than in general graphs. The goal of the matching optimization
+can be finding maximum cardinality, maximum weight or minimum cost
+matching. The search can be constrained to find perfect or
+maximum cardinality matching.
+
+The matching algorithms implemented in LEMON:
+- \ref MaxMatching Edmond's blossom shrinking algorithm for calculating
+ maximum cardinality matching in general graphs.
+- \ref MaxWeightedMatching Edmond's blossom shrinking algorithm for calculating
+ maximum weighted matching in general graphs.
+- \ref MaxWeightedPerfectMatching
+ Edmond's blossom shrinking algorithm for calculating maximum weighted
+ perfect matching in general graphs.
+- \ref MaxFractionalMatching Push-relabel algorithm for calculating
+ maximum cardinality fractional matching in general graphs.
+- \ref MaxWeightedFractionalMatching Augmenting path algorithm for calculating
+ maximum weighted fractional matching in general graphs.
+- \ref MaxWeightedPerfectFractionalMatching
+ Augmenting path algorithm for calculating maximum weighted
+ perfect fractional matching in general graphs.
+
+\image html matching.png
+\image latex matching.eps "Min Cost Perfect Matching" width=\textwidth
+*/
+
+/**
+@defgroup graph_properties Connectivity and Other Graph Properties
+@ingroup algs
+\brief Algorithms for discovering the graph properties
+
+This group contains the algorithms for discovering the graph properties
+like connectivity, bipartiteness, euler property, simplicity etc.
+
+\image html connected_components.png
+\image latex connected_components.eps "Connected components" width=\textwidth
+*/
+
+/**
+@defgroup planar Planarity Embedding and Drawing
+@ingroup algs
+\brief Algorithms for planarity checking, embedding and drawing
+
+This group contains the algorithms for planarity checking,
+embedding and drawing.
+
+\image html planar.png
+\image latex planar.eps "Plane graph" width=\textwidth
+*/
+
+/**
+@defgroup auxalg Auxiliary Algorithms
+@ingroup algs
+\brief Auxiliary algorithms implemented in LEMON.
+
+This group contains some algorithms implemented in LEMON
+in order to make it easier to implement complex algorithms.
+*/
+
+/**
+@defgroup gen_opt_group General Optimization Tools
+\brief This group contains some general optimization frameworks
+implemented in LEMON.
+
+This group contains some general optimization frameworks
+implemented in LEMON.
+*/
+
+/**
+@defgroup lp_group LP and MIP Solvers
+@ingroup gen_opt_group
+\brief LP and MIP solver interfaces for LEMON.
+
+This group contains LP and MIP solver interfaces for LEMON.
+Various LP solvers could be used in the same manner with this
+high-level interface.
+
+The currently supported solvers are \ref glpk, \ref clp, \ref cbc,
+\ref cplex, \ref soplex.
+*/
+
+/**
+@defgroup utils Tools and Utilities
+\brief Tools and utilities for programming in LEMON
+
+Tools and utilities for programming in LEMON.
+*/
+
+/**
+@defgroup gutils Basic Graph Utilities
+@ingroup utils
+\brief Simple basic graph utilities.
+
+This group contains some simple basic graph utilities.
+*/
+
+/**
+@defgroup misc Miscellaneous Tools
+@ingroup utils
+\brief Tools for development, debugging and testing.
+
+This group contains several useful tools for development,
+debugging and testing.
+*/
+
+/**
+@defgroup timecount Time Measuring and Counting
+@ingroup misc
+\brief Simple tools for measuring the performance of algorithms.
+
+This group contains simple tools for measuring the performance
+of algorithms.
+*/
+
+/**
+@defgroup exceptions Exceptions
+@ingroup utils
+\brief Exceptions defined in LEMON.
+
+This group contains the exceptions defined in LEMON.
+*/
+
+/**
+@defgroup io_group Input-Output
+\brief Graph Input-Output methods
+
+This group contains the tools for importing and exporting graphs
+and graph related data. Now it supports the \ref lgf-format
+"LEMON Graph Format", the \c DIMACS format and the encapsulated
+postscript (EPS) format.
+*/
+
+/**
+@defgroup lemon_io LEMON Graph Format
+@ingroup io_group
+\brief Reading and writing LEMON Graph Format.
+
+This group contains methods for reading and writing
+\ref lgf-format "LEMON Graph Format".
+*/
+
+/**
+@defgroup eps_io Postscript Exporting
+@ingroup io_group
+\brief General \c EPS drawer and graph exporter
+
+This group contains general \c EPS drawing methods and special
+graph exporting tools.
+*/
+
+/**
+@defgroup dimacs_group DIMACS Format
+@ingroup io_group
+\brief Read and write files in DIMACS format
+
+Tools to read a digraph from or write it to a file in DIMACS format data.
+*/
+
+/**
+@defgroup nauty_group NAUTY Format
+@ingroup io_group
+\brief Read \e Nauty format
+
+Tool to read graphs from \e Nauty format data.
+*/
+
+/**
+@defgroup concept Concepts
+\brief Skeleton classes and concept checking classes
+
+This group contains the data/algorithm skeletons and concept checking
+classes implemented in LEMON.
+
+The purpose of the classes in this group is fourfold.
+
+- These classes contain the documentations of the %concepts. In order
+ to avoid document multiplications, an implementation of a concept
+ simply refers to the corresponding concept class.
+
+- These classes declare every functions, <tt>typedef</tt>s etc. an
+ implementation of the %concepts should provide, however completely
+ without implementations and real data structures behind the
+ interface. On the other hand they should provide nothing else. All
+ the algorithms working on a data structure meeting a certain concept
+ should compile with these classes. (Though it will not run properly,
+ of course.) In this way it is easily to check if an algorithm
+ doesn't use any extra feature of a certain implementation.
+
+- The concept descriptor classes also provide a <em>checker class</em>
+ that makes it possible to check whether a certain implementation of a
+ concept indeed provides all the required features.
+
+- Finally, They can serve as a skeleton of a new implementation of a concept.
+*/
+
+/**
+@defgroup graph_concepts Graph Structure Concepts
+@ingroup concept
+\brief Skeleton and concept checking classes for graph structures
+
+This group contains the skeletons and concept checking classes of
+graph structures.
+*/
+
+/**
+@defgroup map_concepts Map Concepts
+@ingroup concept
+\brief Skeleton and concept checking classes for maps
+
+This group contains the skeletons and concept checking classes of maps.
+*/
+
+/**
+@defgroup tools Standalone Utility Applications
+
+Some utility applications are listed here.
+
+The standard compilation procedure (<tt>./configure;make</tt>) will compile
+them, as well.
+*/
+
+/**
+\anchor demoprograms
+
+@defgroup demos Demo Programs
+
+Some demo programs are listed here. Their full source codes can be found in
+the \c demo subdirectory of the source tree.
+
+In order to compile them, use the <tt>make demo</tt> or the
+<tt>make check</tt> commands.
+*/
+
+}
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diff --git a/lemon/doc/lgf.dox b/lemon/doc/lgf.dox
new file mode 100644
index 0000000..b5bf2f5
--- /dev/null
+++ b/lemon/doc/lgf.dox
@@ -0,0 +1,118 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2011
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+namespace lemon {
+/*!
+
+
+
+\page lgf-format LEMON Graph Format (LGF)
+
+The \e LGF is a <em>column oriented</em>
+file format for storing graphs and associated data like
+node and edge maps.
+
+Each line with \c '#' first non-whitespace
+character is considered as a comment line.
+
+Otherwise the file consists of sections starting with
+a header line. The header lines starts with an \c '@' character followed by the
+type of section. The standard section types are \c \@nodes, \c
+\@arcs and \c \@edges
+and \@attributes. Each header line may also have an optional
+\e name, which can be use to distinguish the sections of the same
+type.
+
+The standard sections are column oriented, each line consists of
+<em>token</em>s separated by whitespaces. A token can be \e plain or
+\e quoted. A plain token is just a sequence of non-whitespace characters,
+while a quoted token is a
+character sequence surrounded by double quotes, and it can also
+contain whitespaces and escape sequences.
+
+The \c \@nodes section describes a set of nodes and associated
+maps. The first is a header line, its columns are the names of the
+maps appearing in the following lines.
+One of the maps must be called \c
+"label", which plays special role in the file.
+The following
+non-empty lines until the next section describes nodes of the
+graph. Each line contains the values of the node maps
+associated to the current node.
+
+\code
+ @nodes
+ label coordinates size title
+ 1 (10,20) 10 "First node"
+ 2 (80,80) 8 "Second node"
+ 3 (40,10) 10 "Third node"
+\endcode
+
+The \c \@arcs section is very similar to the \c \@nodes section, it
+again starts with a header line describing the names of the maps, but
+the \c "label" map is not obligatory here. The following lines
+describe the arcs. The first two tokens of each line are the source
+and the target node of the arc, respectively, then come the map
+values. The source and target tokens must be node labels.
+
+\code
+ @arcs
+ capacity
+ 1 2 16
+ 1 3 12
+ 2 3 18
+\endcode
+
+If there is no map in the \c \@arcs section at all, then it must be
+indicated by a sole '-' sign in the first line.
+
+\code
+ @arcs
+ -
+ 1 2
+ 1 3
+ 2 3
+\endcode
+
+The \c \@edges is just a synonym of \c \@arcs. The \@arcs section can
+also store the edge set of an undirected graph. In such case there is
+a conventional method for store arc maps in the file, if two columns
+have the same caption with \c '+' and \c '-' prefix, then these columns
+can be regarded as the values of an arc map.
+
+The \c \@attributes section contains key-value pairs, each line
+consists of two tokens, an attribute name, and then an attribute
+value. The value of the attribute could be also a label value of a
+node or an edge, or even an edge label prefixed with \c '+' or \c '-',
+which regards to the forward or backward directed arc of the
+corresponding edge.
+
+\code
+ @attributes
+ source 1
+ target 3
+ caption "LEMON test digraph"
+\endcode
+
+The \e LGF can contain extra sections, but there is no restriction on
+the format of such sections.
+
+*/
+}
+
+// LocalWords: whitespace whitespaces
diff --git a/lemon/doc/license.dox b/lemon/doc/license.dox
new file mode 100644
index 0000000..a40939b
--- /dev/null
+++ b/lemon/doc/license.dox
@@ -0,0 +1,25 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2009
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/**
+
+\page license License Terms
+
+\verbinclude LICENSE
+
+*/
diff --git a/lemon/doc/mainpage.dox b/lemon/doc/mainpage.dox
new file mode 100644
index 0000000..b947bae
--- /dev/null
+++ b/lemon/doc/mainpage.dox
@@ -0,0 +1,61 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2010
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/**
+\mainpage LEMON 1.2.3 Documentation
+
+\section intro Introduction
+
+<b>LEMON</b> stands for <i><b>L</b>ibrary for <b>E</b>fficient <b>M</b>odeling
+and <b>O</b>ptimization in <b>N</b>etworks</i>.
+It is a C++ template library providing efficient implementations of common
+data structures and algorithms with focus on combinatorial optimization
+tasks connected mainly with graphs and networks.
+
+<b>
+LEMON is an <a class="el" href="http://opensource.org/">open&nbsp;source</a>
+project.
+You are free to use it in your commercial or
+non-commercial applications under very permissive
+\ref license "license terms".
+</b>
+
+The project is maintained by the
+<a href="http://www.cs.elte.hu/egres/">Egerv&aacute;ry Research Group on
+Combinatorial Optimization</a> \ref egres
+at the Operations Research Department of the
+<a href="http://www.elte.hu/en/">E&ouml;tv&ouml;s Lor&aacute;nd University</a>,
+Budapest, Hungary.
+LEMON is also a member of the <a href="http://www.coin-or.org/">COIN-OR</a>
+initiative \ref coinor.
+
+\section howtoread How to Read the Documentation
+
+If you would like to get to know the library, see
+<a class="el" href="http://lemon.cs.elte.hu/pub/tutorial/">LEMON Tutorial</a>.
+
+If you are interested in starting to use the library, see the <a class="el"
+href="http://lemon.cs.elte.hu/trac/lemon/wiki/InstallGuide/">Installation
+Guide</a>.
+
+If you know what you are looking for, then try to find it under the
+<a class="el" href="modules.html">Modules</a> section.
+
+If you are a user of the old (0.x) series of LEMON, please check out the
+\ref migration "Migration Guide" for the backward incompatibilities.
+*/
diff --git a/lemon/doc/mainpage.dox.in b/lemon/doc/mainpage.dox.in
new file mode 100644
index 0000000..86f124d
--- /dev/null
+++ b/lemon/doc/mainpage.dox.in
@@ -0,0 +1,61 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2010
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/**
+\mainpage @PACKAGE_NAME@ @PACKAGE_VERSION@ Documentation
+
+\section intro Introduction
+
+<b>LEMON</b> stands for <i><b>L</b>ibrary for <b>E</b>fficient <b>M</b>odeling
+and <b>O</b>ptimization in <b>N</b>etworks</i>.
+It is a C++ template library providing efficient implementations of common
+data structures and algorithms with focus on combinatorial optimization
+tasks connected mainly with graphs and networks.
+
+<b>
+LEMON is an <a class="el" href="http://opensource.org/">open&nbsp;source</a>
+project.
+You are free to use it in your commercial or
+non-commercial applications under very permissive
+\ref license "license terms".
+</b>
+
+The project is maintained by the
+<a href="http://www.cs.elte.hu/egres/">Egerv&aacute;ry Research Group on
+Combinatorial Optimization</a> \ref egres
+at the Operations Research Department of the
+<a href="http://www.elte.hu/en/">E&ouml;tv&ouml;s Lor&aacute;nd University</a>,
+Budapest, Hungary.
+LEMON is also a member of the <a href="http://www.coin-or.org/">COIN-OR</a>
+initiative \ref coinor.
+
+\section howtoread How to Read the Documentation
+
+If you would like to get to know the library, see
+<a class="el" href="http://lemon.cs.elte.hu/pub/tutorial/">LEMON Tutorial</a>.
+
+If you are interested in starting to use the library, see the <a class="el"
+href="http://lemon.cs.elte.hu/trac/lemon/wiki/InstallGuide/">Installation
+Guide</a>.
+
+If you know what you are looking for, then try to find it under the
+<a class="el" href="modules.html">Modules</a> section.
+
+If you are a user of the old (0.x) series of LEMON, please check out the
+\ref migration "Migration Guide" for the backward incompatibilities.
+*/
diff --git a/lemon/doc/migration.dox b/lemon/doc/migration.dox
new file mode 100644
index 0000000..3117aa3
--- /dev/null
+++ b/lemon/doc/migration.dox
@@ -0,0 +1,145 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2009
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+namespace lemon {
+/*!
+
+\page migration Migration from the 0.x Series
+
+This guide gives an in depth description on what has changed compared
+to the 0.x release series.
+
+Many of these changes adjusted automatically by the
+<tt>lemon-0.x-to-1.x.sh</tt> tool. Those requiring manual
+update are typeset <b>boldface</b>.
+
+\section migration-graph Graph Related Name Changes
+
+- \ref concepts::Digraph "Directed graphs" are called \c Digraph and
+ they have <tt>Arc</tt>s (instead of <tt>Edge</tt>s), while
+ \ref concepts::Graph "undirected graphs" are called \c Graph
+ (instead of \c UGraph) and they have <tt>Edge</tt>s (instead of
+ <tt>UEdge</tt>s). These changes reflected thoroughly everywhere in
+ the library. Namely,
+ - \c Graph -> \c Digraph
+ - \c %ListGraph -> \c ListDigraph, \c %SmartGraph -> \c SmartDigraph etc.
+ - \c UGraph -> \c Graph
+ - \c ListUGraph -> \c ListGraph, \c SmartUGraph -> \c SmartGraph etc.
+ - \c Edge -> \c Arc, \c UEdge -> \c Edge
+ - \c EdgeMap -> \c ArcMap, \c UEdgeMap -> \c EdgeMap
+ - \c EdgeIt -> \c ArcIt, \c UEdgeIt -> \c EdgeIt
+ - Class names and function names containing the words \c graph,
+ \c ugraph, \e edge or \e arc should also be updated.
+- <b>The two endpoints of an (\e undirected) \c Edge can be obtained by the
+ <tt>u()</tt> and <tt>v()</tt> member function of the graph
+ (instead of <tt>source()</tt> and <tt>target()</tt>). This change
+ must be done by hand.</b>
+ \n Of course, you can still use <tt>source()</tt> and <tt>target()</tt>
+ for <tt>Arc</tt>s (directed edges).
+
+\warning
+<b>The <tt>lemon-0.x-to-1.x.sh</tt> script replaces the words \c graph,
+\c ugraph, \c edge and \c uedge in your own identifiers and in
+strings, comments etc. as well as in all LEMON specific identifiers.
+So use the script carefully and make a backup copy of your source files
+before applying the script to them.</b>
+
+\section migration-lgf LGF tools
+ - The \ref lgf-format "LGF file format" has changed,
+ <tt>\@nodeset</tt> has changed to <tt>\@nodes</tt>,
+ <tt>\@edgeset</tt> and <tt>\@uedgeset</tt> to <tt>\@arcs</tt> or
+ <tt>\@edges</tt>, which become completely equivalents. The
+ <tt>\@nodes</tt>, <tt>\@edges</tt> and <tt>\@uedges</tt> sections are
+ removed from the format, the content of them should be
+ the part of <tt>\@attributes</tt> section. The data fields in
+ the sections must follow a strict format, they must be either character
+ sequences without whitespaces or quoted strings.
+ - The <tt>LemonReader</tt> and <tt>LemonWriter</tt> core interfaces
+ are no longer available.
+ - The implementation of the general section readers and writers has changed
+ they are simple functors now. Beside the old
+ stream based section handling, currently line oriented section
+ reading and writing are also supported. In the
+ section readers the lines must be counted manually. The sections
+ should be read and written with the SectionWriter and SectionReader
+ classes.
+ - Instead of the item readers and writers, item converters should be
+ used. The converters are functors, which map the type to
+ std::string or std::string to the type. The converters for standard
+ containers hasn't yet been implemented in the new LEMON. The converters
+ can return strings in any format, because if it is necessary, the LGF
+ writer and reader will quote and unquote the given value.
+ - The DigraphReader and DigraphWriter can used similarly to the
+ 0.x series, however the <tt>read</tt> or <tt>write</tt> prefix of
+ the member functions are removed.
+ - The new LEMON supports the function like interface, the \c
+ digraphReader and \c digraphWriter functions are more convenient than
+ using the classes directly.
+
+\section migration-search BFS, DFS and Dijkstra
+- <b>Using the function interface of BFS, DFS and %Dijkstra both source and
+ target nodes can be given as parameters of the <tt>run()</tt> function
+ (instead of \c bfs(), \c dfs() or \c dijkstra() itself).</b>
+- \ref named-templ-param "Named class template parameters" of \c Bfs,
+ \c Dfs, \c Dijkstra, \c BfsVisit, \c DfsVisit are renamed to start
+ with "Set" instead of "Def". Namely,
+ - \c DefPredMap -> \c SetPredMap
+ - \c DefDistMap -> \c SetDistMap
+ - \c DefReachedMap -> \c SetReachedMap
+ - \c DefProcessedMap -> \c SetProcessedMap
+ - \c DefHeap -> \c SetHeap
+ - \c DefStandardHeap -> \c SetStandardHeap
+ - \c DefOperationTraits -> \c SetOperationTraits
+ - \c DefProcessedMapToBeDefaultMap -> \c SetStandardProcessedMap
+
+\section migration-error Exceptions and Debug tools
+
+<b>The class hierarchy of exceptions has largely been simplified. Now,
+only the i/o related tools may throw exceptions. All other exceptions
+have been replaced with either the \c LEMON_ASSERT or the \c LEMON_DEBUG
+macros.</b>
+
+<b>On the other hand, the parameter order of constructors of the
+exceptions has been changed. See \ref IoError and \ref FormatError for
+more details.</b>
+
+\section migration-other Others
+- <b>The contents of <tt>graph_utils.h</tt> are moved to <tt>core.h</tt>
+ and <tt>maps.h</tt>. <tt>core.h</tt> is included by all graph types,
+ therefore it usually do not have to be included directly.</b>
+- <b><tt>path_utils.h</tt> is merged to \c path.h.</b>
+- <b>The semantic of the assignment operations and copy constructors of maps
+ are still under discussion. So, you must copy them by hand (i.e. copy
+ each entry one-by-one)</b>
+- <b>The parameters of the graph copying tools (i.e. \c GraphCopy,
+ \c DigraphCopy) have to be given in the from-to order.</b>
+- \c copyDigraph() and \c copyGraph() are renamed to \c digraphCopy()
+ and \c graphCopy(), respectively.
+- <b>The interface of \ref DynArcLookUp has changed. It is now the same as
+ of \ref ArcLookUp and \ref AllArcLookUp</b>
+- Some map types should also been renamed. Namely,
+ - \c IntegerMap -> \c RangeMap
+ - \c StdMap -> \c SparseMap
+ - \c FunctorMap -> \c FunctorToMap
+ - \c MapFunctor -> \c MapToFunctor
+ - \c ForkWriteMap -> \c ForkMap
+ - \c StoreBoolMap -> \c LoggerBoolMap
+- \c dim2::BoundingBox -> \c dim2::Box
+
+*/
+}
diff --git a/lemon/doc/min_cost_flow.dox b/lemon/doc/min_cost_flow.dox
new file mode 100644
index 0000000..ae8f044
--- /dev/null
+++ b/lemon/doc/min_cost_flow.dox
@@ -0,0 +1,153 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2010
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+namespace lemon {
+
+/**
+\page min_cost_flow Minimum Cost Flow Problem
+
+\section mcf_def Definition (GEQ form)
+
+The \e minimum \e cost \e flow \e problem is to find a feasible flow of
+minimum total cost from a set of supply nodes to a set of demand nodes
+in a network with capacity constraints (lower and upper bounds)
+and arc costs \ref amo93networkflows.
+
+Formally, let \f$G=(V,A)\f$ be a digraph, \f$lower: A\rightarrow\mathbf{R}\f$,
+\f$upper: A\rightarrow\mathbf{R}\cup\{+\infty\}\f$ denote the lower and
+upper bounds for the flow values on the arcs, for which
+\f$lower(uv) \leq upper(uv)\f$ must hold for all \f$uv\in A\f$,
+\f$cost: A\rightarrow\mathbf{R}\f$ denotes the cost per unit flow
+on the arcs and \f$sup: V\rightarrow\mathbf{R}\f$ denotes the
+signed supply values of the nodes.
+If \f$sup(u)>0\f$, then \f$u\f$ is a supply node with \f$sup(u)\f$
+supply, if \f$sup(u)<0\f$, then \f$u\f$ is a demand node with
+\f$-sup(u)\f$ demand.
+A minimum cost flow is an \f$f: A\rightarrow\mathbf{R}\f$ solution
+of the following optimization problem.
+
+\f[ \min\sum_{uv\in A} f(uv) \cdot cost(uv) \f]
+\f[ \sum_{uv\in A} f(uv) - \sum_{vu\in A} f(vu) \geq
+ sup(u) \quad \forall u\in V \f]
+\f[ lower(uv) \leq f(uv) \leq upper(uv) \quad \forall uv\in A \f]
+
+The sum of the supply values, i.e. \f$\sum_{u\in V} sup(u)\f$ must be
+zero or negative in order to have a feasible solution (since the sum
+of the expressions on the left-hand side of the inequalities is zero).
+It means that the total demand must be greater or equal to the total
+supply and all the supplies have to be carried out from the supply nodes,
+but there could be demands that are not satisfied.
+If \f$\sum_{u\in V} sup(u)\f$ is zero, then all the supply/demand
+constraints have to be satisfied with equality, i.e. all demands
+have to be satisfied and all supplies have to be used.
+
+
+\section mcf_algs Algorithms
+
+LEMON contains several algorithms for solving this problem, for more
+information see \ref min_cost_flow_algs "Minimum Cost Flow Algorithms".
+
+A feasible solution for this problem can be found using \ref Circulation.
+
+
+\section mcf_dual Dual Solution
+
+The dual solution of the minimum cost flow problem is represented by
+node potentials \f$\pi: V\rightarrow\mathbf{R}\f$.
+An \f$f: A\rightarrow\mathbf{R}\f$ primal feasible solution is optimal
+if and only if for some \f$\pi: V\rightarrow\mathbf{R}\f$ node potentials
+the following \e complementary \e slackness optimality conditions hold.
+
+ - For all \f$uv\in A\f$ arcs:
+ - if \f$cost^\pi(uv)>0\f$, then \f$f(uv)=lower(uv)\f$;
+ - if \f$lower(uv)<f(uv)<upper(uv)\f$, then \f$cost^\pi(uv)=0\f$;
+ - if \f$cost^\pi(uv)<0\f$, then \f$f(uv)=upper(uv)\f$.
+ - For all \f$u\in V\f$ nodes:
+ - \f$\pi(u)\leq 0\f$;
+ - if \f$\sum_{uv\in A} f(uv) - \sum_{vu\in A} f(vu) \neq sup(u)\f$,
+ then \f$\pi(u)=0\f$.
+
+Here \f$cost^\pi(uv)\f$ denotes the \e reduced \e cost of the arc
+\f$uv\in A\f$ with respect to the potential function \f$\pi\f$, i.e.
+\f[ cost^\pi(uv) = cost(uv) + \pi(u) - \pi(v).\f]
+
+All algorithms provide dual solution (node potentials), as well,
+if an optimal flow is found.
+
+
+\section mcf_eq Equality Form
+
+The above \ref mcf_def "definition" is actually more general than the
+usual formulation of the minimum cost flow problem, in which strict
+equalities are required in the supply/demand contraints.
+
+\f[ \min\sum_{uv\in A} f(uv) \cdot cost(uv) \f]
+\f[ \sum_{uv\in A} f(uv) - \sum_{vu\in A} f(vu) =
+ sup(u) \quad \forall u\in V \f]
+\f[ lower(uv) \leq f(uv) \leq upper(uv) \quad \forall uv\in A \f]
+
+However if the sum of the supply values is zero, then these two problems
+are equivalent.
+The \ref min_cost_flow_algs "algorithms" in LEMON support the general
+form, so if you need the equality form, you have to ensure this additional
+contraint manually.
+
+
+\section mcf_leq Opposite Inequalites (LEQ Form)
+
+Another possible definition of the minimum cost flow problem is
+when there are <em>"less or equal"</em> (LEQ) supply/demand constraints,
+instead of the <em>"greater or equal"</em> (GEQ) constraints.
+
+\f[ \min\sum_{uv\in A} f(uv) \cdot cost(uv) \f]
+\f[ \sum_{uv\in A} f(uv) - \sum_{vu\in A} f(vu) \leq
+ sup(u) \quad \forall u\in V \f]
+\f[ lower(uv) \leq f(uv) \leq upper(uv) \quad \forall uv\in A \f]
+
+It means that the total demand must be less or equal to the
+total supply (i.e. \f$\sum_{u\in V} sup(u)\f$ must be zero or
+positive) and all the demands have to be satisfied, but there
+could be supplies that are not carried out from the supply
+nodes.
+The equality form is also a special case of this form, of course.
+
+You could easily transform this case to the \ref mcf_def "GEQ form"
+of the problem by reversing the direction of the arcs and taking the
+negative of the supply values (e.g. using \ref ReverseDigraph and
+\ref NegMap adaptors).
+However \ref NetworkSimplex algorithm also supports this form directly
+for the sake of convenience.
+
+Note that the optimality conditions for this supply constraint type are
+slightly differ from the conditions that are discussed for the GEQ form,
+namely the potentials have to be non-negative instead of non-positive.
+An \f$f: A\rightarrow\mathbf{R}\f$ feasible solution of this problem
+is optimal if and only if for some \f$\pi: V\rightarrow\mathbf{R}\f$
+node potentials the following conditions hold.
+
+ - For all \f$uv\in A\f$ arcs:
+ - if \f$cost^\pi(uv)>0\f$, then \f$f(uv)=lower(uv)\f$;
+ - if \f$lower(uv)<f(uv)<upper(uv)\f$, then \f$cost^\pi(uv)=0\f$;
+ - if \f$cost^\pi(uv)<0\f$, then \f$f(uv)=upper(uv)\f$.
+ - For all \f$u\in V\f$ nodes:
+ - \f$\pi(u)\geq 0\f$;
+ - if \f$\sum_{uv\in A} f(uv) - \sum_{vu\in A} f(vu) \neq sup(u)\f$,
+ then \f$\pi(u)=0\f$.
+
+*/
+}
diff --git a/lemon/doc/named-param.dox b/lemon/doc/named-param.dox
new file mode 100644
index 0000000..2a981f7
--- /dev/null
+++ b/lemon/doc/named-param.dox
@@ -0,0 +1,119 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2009
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/*!
+
+\page named-param Named Parameters
+
+\section named-func-param Named Function Parameters
+
+Several modern languages provide a convenient way to refer the
+function parameters by name also when you call the function. It is
+especially comfortable in case of a function having tons of parameters
+with natural default values. Sadly, C++ lack this amenity.
+
+However, with a crafty trick and with some little
+inconvenience, it is possible to emulate is.
+The example below shows how to do it.
+
+\code
+class namedFn
+{
+ int _id;
+ double _val;
+ int _dim;
+
+ public:
+ namedFn() : _id(0), _val(1), _dim(2) {}
+ namedFn& id(int p) { _id = p ; return *this; }
+ namedFn& val(double p) { _val = p ; return *this; }
+ namedFn& dim(int p) { _dim = p ; return *this; }
+
+ run() {
+ std::cout << "Here comes the function itself\n" <<
+ << "With parameters "
+ << _id << ", " << _val << ", " << _dim << std::endl;
+ }
+};
+\endcode
+
+Then you can use it like this.
+
+\code
+namedFn().id(3).val(2).run();
+\endcode
+
+The trick is obvious, each "named parameter" changes one component of
+the underlying class, then gives back a reference to it. Finally,
+<tt>run()</tt> executes the algorithm itself.
+
+\note Although it is a class, namedFn is used pretty much like as it were
+a function. That it why we called it namedFn instead of \c NamedFn.
+
+\note In fact, the final <tt>.run()</tt> could be made unnecessary,
+because the algorithm could also be implemented in the destructor of
+\c namedFn instead. This however would make it impossible to implement
+functions with return values, and would also cause serious problems when
+implementing \ref named-templ-func-param "named template parameters".
+<b>Therefore, by convention, <tt>.run()</tt> must be used
+explicitly to execute a function having named parameters
+everywhere in LEMON.</b>
+
+\section named-templ-func-param Named Function Template Parameters
+
+A named parameter can also be a template function. The usage is
+exactly the same, but the implementation behind is a kind of black
+magic and they are the dirtiest part of the LEMON code.
+
+You will probably never need to know how it works, but if you really
+committed, have a look at \ref lemon/graph_to_eps.h for an example.
+
+\section traits-classes Traits Classes
+
+A similar game can also be played when defining classes. In this case
+the type of the class attributes can be changed. Initially we have to
+define a special class called <em>Traits Class</em> defining the
+default type of the attributes. Then the types of these attributes can
+be changed in the same way as described in the next section.
+
+See \ref lemon::DijkstraDefaultTraits for an
+example how a traits class implementation looks like.
+
+\section named-templ-param Named Class Template Parameters
+
+If we would like to change the type of an attribute in a class that
+was instantiated by using a traits class as a template parameter, and
+the class contains named parameters, we do not have to instantiate again
+the class with new traits class, but instead adaptor classes can
+be used as shown in the following example.
+
+\code
+Dijkstra<>::SetPredMap<NullMap<Node,Arc> >::Create
+\endcode
+
+It can also be used in conjunction with other named template
+parameters in arbitrary order.
+
+\code
+Dijkstra<>::SetDistMap<MyMap>::SetPredMap<NullMap<Node,Arc> >::Create
+\endcode
+
+The result will be an instantiated Dijkstra class, in which the
+DistMap and the PredMap is modified.
+
+*/
diff --git a/lemon/doc/namespaces.dox b/lemon/doc/namespaces.dox
new file mode 100644
index 0000000..248ca20
--- /dev/null
+++ b/lemon/doc/namespaces.dox
@@ -0,0 +1,30 @@
+/* -*- mode: C++; indent-tabs-mode: nil; -*-
+ *
+ * This file is a part of LEMON, a generic C++ optimization library.
+ *
+ * Copyright (C) 2003-2009
+ * Egervary Jeno Kombinatorikus Optimalizalasi Kutatocsoport
+ * (Egervary Research Group on Combinatorial Optimization, EGRES).
+ *
+ * Permission to use, modify and distribute this software is granted
+ * provided that this copyright notice appears in all copies. For
+ * precise terms see the accompanying LICENSE file.
+ *
+ * This software is provided "AS IS" with no warranty of any kind,
+ * express or implied, and with no claim as to its suitability for any
+ * purpose.
+ *
+ */
+
+/// The namespace of LEMON
+
+/// The namespace of LEMON
+///
+namespace lemon {
+
+ /// The namespace of LEMON concepts and concept checking classes
+
+ /// The namespace of LEMON concepts and concept checking classes
+ ///
+ namespace concepts {}
+}