tdoxyfile - pism - [fork] customized build of PISM, the parallel ice sheet model (tillflux branch)
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            1 # Doxyfile 1.6.1
            2 
            3 # This file describes the settings to be used by the documentation system
            4 # doxygen (www.doxygen.org) for a project
            5 #
            6 # All text after a hash (#) is considered a comment and will be ignored
            7 # The format is:
            8 #       TAG = value [value, ...]
            9 # For lists items can also be appended using:
           10 #       TAG += value [value, ...]
           11 # Values that contain spaces should be placed between quotes (" ")
           12 
           13 #---------------------------------------------------------------------------
           14 # Project related configuration options
           15 #---------------------------------------------------------------------------
           16 
           17 # This tag specifies the encoding used for all characters in the config file
           18 # that follow. The default is UTF-8 which is also the encoding used for all
           19 # text before the first occurrence of this tag. Doxygen uses libiconv (or the
           20 # iconv built into libc) for the transcoding. See
           21 # http://www.gnu.org/software/libiconv for the list of possible encodings.
           22 
           23 DOXYFILE_ENCODING      = UTF-8
           24 
           25 # The PROJECT_NAME tag is a single word (or a sequence of words surrounded
           26 # by quotes) that should identify the project.
           27 
           28 PROJECT_NAME           = "PISM, A Parallel Ice Sheet Model"
           29 
           30 # The PROJECT_NUMBER tag can be used to enter a project or revision number.
           31 # This could be handy for archiving the generated documentation or
           32 # if some version control system is used.
           33 
           34 PROJECT_NUMBER         = "${Pism_REVISION_TAG}"
           35 
           36 # The OUTPUT_DIRECTORY tag is used to specify the (relative or absolute)
           37 # base path where the generated documentation will be put.
           38 # If a relative path is entered, it will be relative to the location
           39 # where doxygen was started. If left blank the current directory will be used.
           40 
           41 OUTPUT_DIRECTORY       = .
           42 
           43 # If the CREATE_SUBDIRS tag is set to YES, then doxygen will create
           44 # 4096 sub-directories (in 2 levels) under the output directory of each output
           45 # format and will distribute the generated files over these directories.
           46 # Enabling this option can be useful when feeding doxygen a huge amount of
           47 # source files, where putting all generated files in the same directory would
           48 # otherwise cause performance problems for the file system.
           49 
           50 CREATE_SUBDIRS         = NO
           51 
           52 # The OUTPUT_LANGUAGE tag is used to specify the language in which all
           53 # documentation generated by doxygen is written. Doxygen will use this
           54 # information to generate all constant output in the proper language.
           55 # The default language is English, other supported languages are:
           56 # Afrikaans, Arabic, Brazilian, Catalan, Chinese, Chinese-Traditional,
           57 # Croatian, Czech, Danish, Dutch, Esperanto, Farsi, Finnish, French, German,
           58 # Greek, Hungarian, Italian, Japanese, Japanese-en (Japanese with English
           59 # messages), Korean, Korean-en, Lithuanian, Norwegian, Macedonian, Persian,
           60 # Polish, Portuguese, Romanian, Russian, Serbian, Serbian-Cyrilic, Slovak,
           61 # Slovene, Spanish, Swedish, Ukrainian, and Vietnamese.
           62 
           63 OUTPUT_LANGUAGE        = English
           64 
           65 # If the BRIEF_MEMBER_DESC tag is set to YES (the default) Doxygen will
           66 # include brief member descriptions after the members that are listed in
           67 # the file and class documentation (similar to JavaDoc).
           68 # Set to NO to disable this.
           69 
           70 BRIEF_MEMBER_DESC      = YES
           71 
           72 # If the REPEAT_BRIEF tag is set to YES (the default) Doxygen will prepend
           73 # the brief description of a member or function before the detailed description.
           74 # Note: if both HIDE_UNDOC_MEMBERS and BRIEF_MEMBER_DESC are set to NO, the
           75 # brief descriptions will be completely suppressed.
           76 
           77 REPEAT_BRIEF           = YES
           78 
           79 # This tag implements a quasi-intelligent brief description abbreviator
           80 # that is used to form the text in various listings. Each string
           81 # in this list, if found as the leading text of the brief description, will be
           82 # stripped from the text and the result after processing the whole list, is
           83 # used as the annotated text. Otherwise, the brief description is used as-is.
           84 # If left blank, the following values are used ("$name" is automatically
           85 # replaced with the name of the entity): "The $name class" "The $name widget"
           86 # "The $name file" "is" "provides" "specifies" "contains"
           87 # "represents" "a" "an" "the"
           88 
           89 ABBREVIATE_BRIEF       = "The $name class  " \
           90                          "The $name widget  " \
           91                          "The $name file  " \
           92                          is \
           93                          provides \
           94                          specifies \
           95                          contains \
           96                          represents \
           97                          a \
           98                          an \
           99                          the
          100 
          101 # If the ALWAYS_DETAILED_SEC and REPEAT_BRIEF tags are both set to YES then
          102 # Doxygen will generate a detailed section even if there is only a brief
          103 # description.
          104 
          105 ALWAYS_DETAILED_SEC    = NO
          106 
          107 # If the INLINE_INHERITED_MEMB tag is set to YES, doxygen will show all
          108 # inherited members of a class in the documentation of that class as if those
          109 # members were ordinary class members. Constructors, destructors and assignment
          110 # operators of the base classes will not be shown.
          111 
          112 INLINE_INHERITED_MEMB  = NO
          113 
          114 # If the FULL_PATH_NAMES tag is set to YES then Doxygen will prepend the full
          115 # path before files name in the file list and in the header files. If set
          116 # to NO the shortest path that makes the file name unique will be used.
          117 
          118 FULL_PATH_NAMES        = YES
          119 
          120 # If the FULL_PATH_NAMES tag is set to YES then the STRIP_FROM_PATH tag
          121 # can be used to strip a user-defined part of the path. Stripping is
          122 # only done if one of the specified strings matches the left-hand part of
          123 # the path. The tag can be used to show relative paths in the file list.
          124 # If left blank the directory from which doxygen is run is used as the
          125 # path to strip.
          126 
          127 STRIP_FROM_PATH        = ${Pism_SOURCE_DIR}/
          128 
          129 # The STRIP_FROM_INC_PATH tag can be used to strip a user-defined part of
          130 # the path mentioned in the documentation of a class, which tells
          131 # the reader which header file to include in order to use a class.
          132 # If left blank only the name of the header file containing the class
          133 # definition is used. Otherwise one should specify the include paths that
          134 # are normally passed to the compiler using the -I flag.
          135 
          136 STRIP_FROM_INC_PATH    =
          137 
          138 # If the SHORT_NAMES tag is set to YES, doxygen will generate much shorter
          139 # (but less readable) file names. This can be useful is your file systems
          140 # doesn't support long names like on DOS, Mac, or CD-ROM.
          141 
          142 SHORT_NAMES            = NO
          143 
          144 # If the JAVADOC_AUTOBRIEF tag is set to YES then Doxygen
          145 # will interpret the first line (until the first dot) of a JavaDoc-style
          146 # comment as the brief description. If set to NO, the JavaDoc
          147 # comments will behave just like regular Qt-style comments
          148 # (thus requiring an explicit @brief command for a brief description.)
          149 
          150 JAVADOC_AUTOBRIEF      = NO
          151 
          152 # If the QT_AUTOBRIEF tag is set to YES then Doxygen will
          153 # interpret the first line (until the first dot) of a Qt-style
          154 # comment as the brief description. If set to NO, the comments
          155 # will behave just like regular Qt-style comments (thus requiring
          156 # an explicit \brief command for a brief description.)
          157 
          158 QT_AUTOBRIEF           = NO
          159 
          160 # The MULTILINE_CPP_IS_BRIEF tag can be set to YES to make Doxygen
          161 # treat a multi-line C++ special comment block (i.e. a block of //! or ///
          162 # comments) as a brief description. This used to be the default behaviour.
          163 # The new default is to treat a multi-line C++ comment block as a detailed
          164 # description. Set this tag to YES if you prefer the old behaviour instead.
          165 
          166 MULTILINE_CPP_IS_BRIEF = NO
          167 
          168 # If the INHERIT_DOCS tag is set to YES (the default) then an undocumented
          169 # member inherits the documentation from any documented member that it
          170 # re-implements.
          171 
          172 INHERIT_DOCS           = YES
          173 
          174 # If the SEPARATE_MEMBER_PAGES tag is set to YES, then doxygen will produce
          175 # a new page for each member. If set to NO, the documentation of a member will
          176 # be part of the file/class/namespace that contains it.
          177 
          178 SEPARATE_MEMBER_PAGES  = YES
          179 
          180 # The TAB_SIZE tag can be used to set the number of spaces in a tab.
          181 # Doxygen uses this value to replace tabs by spaces in code fragments.
          182 
          183 TAB_SIZE               = 8
          184 
          185 # This tag can be used to specify a number of aliases that acts
          186 # as commands in the documentation. An alias has the form "name=value".
          187 # For example adding "sideeffect=\par Side Effects:\n" will allow you to
          188 # put the command \sideeffect (or @sideeffect) in the documentation, which
          189 # will result in a user-defined paragraph with heading "Side Effects:".
          190 # You can put \n's in the value part of an alias to insert newlines.
          191 
          192 ALIASES                = delta=δ
          193 
          194 # Set the OPTIMIZE_OUTPUT_FOR_C tag to YES if your project consists of C
          195 # sources only. Doxygen will then generate output that is more tailored for C.
          196 # For instance, some of the names that are used will be different. The list
          197 # of all members will be omitted, etc.
          198 
          199 OPTIMIZE_OUTPUT_FOR_C  = NO
          200 
          201 # Set the OPTIMIZE_OUTPUT_JAVA tag to YES if your project consists of Java
          202 # sources only. Doxygen will then generate output that is more tailored for
          203 # Java. For instance, namespaces will be presented as packages, qualified
          204 # scopes will look different, etc.
          205 
          206 OPTIMIZE_OUTPUT_JAVA   = NO
          207 
          208 # Set the OPTIMIZE_FOR_FORTRAN tag to YES if your project consists of Fortran
          209 # sources only. Doxygen will then generate output that is more tailored for
          210 # Fortran.
          211 
          212 OPTIMIZE_FOR_FORTRAN   = NO
          213 
          214 # Set the OPTIMIZE_OUTPUT_VHDL tag to YES if your project consists of VHDL
          215 # sources. Doxygen will then generate output that is tailored for
          216 # VHDL.
          217 
          218 OPTIMIZE_OUTPUT_VHDL   = NO
          219 
          220 # Doxygen selects the parser to use depending on the extension of the files it parses.
          221 # With this tag you can assign which parser to use for a given extension.
          222 # Doxygen has a built-in mapping, but you can override or extend it using this tag.
          223 # The format is ext=language, where ext is a file extension, and language is one of
          224 # the parsers supported by doxygen: IDL, Java, Javascript, C#, C, C++, D, PHP,
          225 # Objective-C, Python, Fortran, VHDL, C, C++. For instance to make doxygen treat
          226 # .inc files as Fortran files (default is PHP), and .f files as C (default is Fortran),
          227 # use: inc=Fortran f=C. Note that for custom extensions you also need to set FILE_PATTERNS otherwise the files are not read by doxygen.
          228 
          229 EXTENSION_MAPPING      =
          230 
          231 # If you use STL classes (i.e. std::string, std::vector, etc.) but do not want
          232 # to include (a tag file for) the STL sources as input, then you should
          233 # set this tag to YES in order to let doxygen match functions declarations and
          234 # definitions whose arguments contain STL classes (e.g. func(std::string); v.s.
          235 # func(std::string) {}). This also make the inheritance and collaboration
          236 # diagrams that involve STL classes more complete and accurate.
          237 
          238 BUILTIN_STL_SUPPORT    = YES
          239 
          240 # If you use Microsoft's C++/CLI language, you should set this option to YES to
          241 # enable parsing support.
          242 
          243 CPP_CLI_SUPPORT        = NO
          244 
          245 # Set the SIP_SUPPORT tag to YES if your project consists of sip sources only.
          246 # Doxygen will parse them like normal C++ but will assume all classes use public
          247 # instead of private inheritance when no explicit protection keyword is present.
          248 
          249 SIP_SUPPORT            = NO
          250 
          251 # For Microsoft's IDL there are propget and propput attributes to indicate getter
          252 # and setter methods for a property. Setting this option to YES (the default)
          253 # will make doxygen to replace the get and set methods by a property in the
          254 # documentation. This will only work if the methods are indeed getting or
          255 # setting a simple type. If this is not the case, or you want to show the
          256 # methods anyway, you should set this option to NO.
          257 
          258 IDL_PROPERTY_SUPPORT   = YES
          259 
          260 # If member grouping is used in the documentation and the DISTRIBUTE_GROUP_DOC
          261 # tag is set to YES, then doxygen will reuse the documentation of the first
          262 # member in the group (if any) for the other members of the group. By default
          263 # all members of a group must be documented explicitly.
          264 
          265 DISTRIBUTE_GROUP_DOC   = NO
          266 
          267 # Set the SUBGROUPING tag to YES (the default) to allow class member groups of
          268 # the same type (for instance a group of public functions) to be put as a
          269 # subgroup of that type (e.g. under the Public Functions section). Set it to
          270 # NO to prevent subgrouping. Alternatively, this can be done per class using
          271 # the \nosubgrouping command.
          272 
          273 SUBGROUPING            = YES
          274 
          275 # When TYPEDEF_HIDES_STRUCT is enabled, a typedef of a struct, union, or enum
          276 # is documented as struct, union, or enum with the name of the typedef. So
          277 # typedef struct TypeS {} TypeT, will appear in the documentation as a struct
          278 # with name TypeT. When disabled the typedef will appear as a member of a file,
          279 # namespace, or class. And the struct will be named TypeS. This can typically
          280 # be useful for C code in case the coding convention dictates that all compound
          281 # types are typedef'ed and only the typedef is referenced, never the tag name.
          282 
          283 TYPEDEF_HIDES_STRUCT   = NO
          284 
          285 #---------------------------------------------------------------------------
          286 # Build related configuration options
          287 #---------------------------------------------------------------------------
          288 
          289 # If the EXTRACT_ALL tag is set to YES doxygen will assume all entities in
          290 # documentation are documented, even if no documentation was available.
          291 # Private class members and static file members will be hidden unless
          292 # the EXTRACT_PRIVATE and EXTRACT_STATIC tags are set to YES
          293 
          294 EXTRACT_ALL            = ${Pism_DOXYGEN_EXTRACT_ALL}
          295 
          296 # If the EXTRACT_PRIVATE tag is set to YES all private members of a class
          297 # will be included in the documentation.
          298 
          299 EXTRACT_PRIVATE        = YES
          300 
          301 # If the EXTRACT_STATIC tag is set to YES all static members of a file
          302 # will be included in the documentation.
          303 
          304 EXTRACT_STATIC         = YES
          305 
          306 # If the EXTRACT_LOCAL_CLASSES tag is set to YES classes (and structs)
          307 # defined locally in source files will be included in the documentation.
          308 # If set to NO only classes defined in header files are included.
          309 
          310 EXTRACT_LOCAL_CLASSES  = YES
          311 
          312 # This flag is only useful for Objective-C code. When set to YES local
          313 # methods, which are defined in the implementation section but not in
          314 # the interface are included in the documentation.
          315 # If set to NO (the default) only methods in the interface are included.
          316 
          317 EXTRACT_LOCAL_METHODS  = NO
          318 
          319 # If this flag is set to YES, the members of anonymous namespaces will be
          320 # extracted and appear in the documentation as a namespace called
          321 # 'anonymous_namespace{file}', where file will be replaced with the base
          322 # name of the file that contains the anonymous namespace. By default
          323 # anonymous namespace are hidden.
          324 
          325 EXTRACT_ANON_NSPACES   = NO
          326 
          327 # If the HIDE_UNDOC_MEMBERS tag is set to YES, Doxygen will hide all
          328 # undocumented members of documented classes, files or namespaces.
          329 # If set to NO (the default) these members will be included in the
          330 # various overviews, but no documentation section is generated.
          331 # This option has no effect if EXTRACT_ALL is enabled.
          332 
          333 HIDE_UNDOC_MEMBERS     = NO
          334 
          335 # If the HIDE_UNDOC_CLASSES tag is set to YES, Doxygen will hide all
          336 # undocumented classes that are normally visible in the class hierarchy.
          337 # If set to NO (the default) these classes will be included in the various
          338 # overviews. This option has no effect if EXTRACT_ALL is enabled.
          339 
          340 HIDE_UNDOC_CLASSES     = NO
          341 
          342 # If the HIDE_FRIEND_COMPOUNDS tag is set to YES, Doxygen will hide all
          343 # friend (class|struct|union) declarations.
          344 # If set to NO (the default) these declarations will be included in the
          345 # documentation.
          346 
          347 HIDE_FRIEND_COMPOUNDS  = NO
          348 
          349 # If the HIDE_IN_BODY_DOCS tag is set to YES, Doxygen will hide any
          350 # documentation blocks found inside the body of a function.
          351 # If set to NO (the default) these blocks will be appended to the
          352 # function's detailed documentation block.
          353 
          354 HIDE_IN_BODY_DOCS      = NO
          355 
          356 # The INTERNAL_DOCS tag determines if documentation
          357 # that is typed after a \internal command is included. If the tag is set
          358 # to NO (the default) then the documentation will be excluded.
          359 # Set it to YES to include the internal documentation.
          360 
          361 INTERNAL_DOCS          = NO
          362 
          363 # If the CASE_SENSE_NAMES tag is set to NO then Doxygen will only generate
          364 # file names in lower-case letters. If set to YES upper-case letters are also
          365 # allowed. This is useful if you have classes or files whose names only differ
          366 # in case and if your file system supports case sensitive file names. Windows
          367 # and Mac users are advised to set this option to NO.
          368 
          369 CASE_SENSE_NAMES       = YES
          370 
          371 # If the HIDE_SCOPE_NAMES tag is set to NO (the default) then Doxygen
          372 # will show members with their full class and namespace scopes in the
          373 # documentation. If set to YES the scope will be hidden.
          374 
          375 HIDE_SCOPE_NAMES       = NO
          376 
          377 # If the SHOW_INCLUDE_FILES tag is set to YES (the default) then Doxygen
          378 # will put a list of the files that are included by a file in the documentation
          379 # of that file.
          380 
          381 SHOW_INCLUDE_FILES     = YES
          382 
          383 # If the INLINE_INFO tag is set to YES (the default) then a tag [inline]
          384 # is inserted in the documentation for inline members.
          385 
          386 INLINE_INFO            = YES
          387 
          388 # If the SORT_MEMBER_DOCS tag is set to YES (the default) then doxygen
          389 # will sort the (detailed) documentation of file and class members
          390 # alphabetically by member name. If set to NO the members will appear in
          391 # declaration order.
          392 
          393 SORT_MEMBER_DOCS       = YES
          394 
          395 # If the SORT_BRIEF_DOCS tag is set to YES then doxygen will sort the
          396 # brief documentation of file, namespace and class members alphabetically
          397 # by member name. If set to NO (the default) the members will appear in
          398 # declaration order.
          399 
          400 SORT_BRIEF_DOCS        = NO
          401 
          402 # If the SORT_MEMBERS_CTORS_1ST tag is set to YES then doxygen will sort the (brief and detailed) documentation of class members so that constructors and destructors are listed first. If set to NO (the default) the constructors will appear in the respective orders defined by SORT_MEMBER_DOCS and SORT_BRIEF_DOCS. This tag will be ignored for brief docs if SORT_BRIEF_DOCS is set to NO and ignored for detailed docs if SORT_MEMBER_DOCS is set to NO.
          403 
          404 SORT_MEMBERS_CTORS_1ST = NO
          405 
          406 # If the SORT_GROUP_NAMES tag is set to YES then doxygen will sort the
          407 # hierarchy of group names into alphabetical order. If set to NO (the default)
          408 # the group names will appear in their defined order.
          409 
          410 SORT_GROUP_NAMES       = NO
          411 
          412 # If the SORT_BY_SCOPE_NAME tag is set to YES, the class list will be
          413 # sorted by fully-qualified names, including namespaces. If set to
          414 # NO (the default), the class list will be sorted only by class name,
          415 # not including the namespace part.
          416 # Note: This option is not very useful if HIDE_SCOPE_NAMES is set to YES.
          417 # Note: This option applies only to the class list, not to the
          418 # alphabetical list.
          419 
          420 SORT_BY_SCOPE_NAME     = NO
          421 
          422 # The GENERATE_TODOLIST tag can be used to enable (YES) or
          423 # disable (NO) the todo list. This list is created by putting \todo
          424 # commands in the documentation.
          425 
          426 GENERATE_TODOLIST      = YES
          427 
          428 # The GENERATE_TESTLIST tag can be used to enable (YES) or
          429 # disable (NO) the test list. This list is created by putting \test
          430 # commands in the documentation.
          431 
          432 GENERATE_TESTLIST      = YES
          433 
          434 # The GENERATE_BUGLIST tag can be used to enable (YES) or
          435 # disable (NO) the bug list. This list is created by putting \bug
          436 # commands in the documentation.
          437 
          438 GENERATE_BUGLIST       = YES
          439 
          440 # The GENERATE_DEPRECATEDLIST tag can be used to enable (YES) or
          441 # disable (NO) the deprecated list. This list is created by putting
          442 # \deprecated commands in the documentation.
          443 
          444 GENERATE_DEPRECATEDLIST= YES
          445 
          446 # The ENABLED_SECTIONS tag can be used to enable conditional
          447 # documentation sections, marked by \if sectionname ... \endif.
          448 
          449 ENABLED_SECTIONS       = BROWSER
          450 
          451 # The MAX_INITIALIZER_LINES tag determines the maximum number of lines
          452 # the initial value of a variable or define consists of for it to appear in
          453 # the documentation. If the initializer consists of more lines than specified
          454 # here it will be hidden. Use a value of 0 to hide initializers completely.
          455 # The appearance of the initializer of individual variables and defines in the
          456 # documentation can be controlled using \showinitializer or \hideinitializer
          457 # command in the documentation regardless of this setting.
          458 
          459 MAX_INITIALIZER_LINES  = 30
          460 
          461 # Set the SHOW_USED_FILES tag to NO to disable the list of files generated
          462 # at the bottom of the documentation of classes and structs. If set to YES the
          463 # list will mention the files that were used to generate the documentation.
          464 
          465 SHOW_USED_FILES        = YES
          466 
          467 # Set the SHOW_FILES tag to NO to disable the generation of the Files page.
          468 # This will remove the Files entry from the Quick Index and from the
          469 # Folder Tree View (if specified). The default is YES.
          470 
          471 SHOW_FILES             = YES
          472 
          473 # Set the SHOW_NAMESPACES tag to NO to disable the generation of the
          474 # Namespaces page.
          475 # This will remove the Namespaces entry from the Quick Index
          476 # and from the Folder Tree View (if specified). The default is YES.
          477 
          478 SHOW_NAMESPACES        = YES
          479 
          480 # The FILE_VERSION_FILTER tag can be used to specify a program or script that
          481 # doxygen should invoke to get the current version for each file (typically from
          482 # the version control system). Doxygen will invoke the program by executing (via
          483 # popen()) the command <command> <input-file>, where <command> is the value of
          484 # the FILE_VERSION_FILTER tag, and <input-file> is the name of an input file
          485 # provided by doxygen. Whatever the program writes to standard output
          486 # is used as the file version. See the manual for examples.
          487 
          488 FILE_VERSION_FILTER    =
          489 
          490 # The LAYOUT_FILE tag can be used to specify a layout file which will be parsed by
          491 # doxygen. The layout file controls the global structure of the generated output files
          492 # in an output format independent way. The create the layout file that represents
          493 # doxygen's defaults, run doxygen with the -l option. You can optionally specify a
          494 # file name after the option, if omitted DoxygenLayout.xml will be used as the name
          495 # of the layout file.
          496 
          497 LAYOUT_FILE            =
          498 
          499 #---------------------------------------------------------------------------
          500 # configuration options related to warning and progress messages
          501 #---------------------------------------------------------------------------
          502 
          503 # The QUIET tag can be used to turn on/off the messages that are generated
          504 # by doxygen. Possible values are YES and NO. If left blank NO is used.
          505 
          506 QUIET                  = NO
          507 
          508 # The WARNINGS tag can be used to turn on/off the warning messages that are
          509 # generated by doxygen. Possible values are YES and NO. If left blank
          510 # NO is used.
          511 
          512 WARNINGS               = YES
          513 
          514 # If WARN_IF_UNDOCUMENTED is set to YES, then doxygen will generate warnings
          515 # for undocumented members. If EXTRACT_ALL is set to YES then this flag will
          516 # automatically be disabled.
          517 
          518 WARN_IF_UNDOCUMENTED   = YES
          519 
          520 # If WARN_IF_DOC_ERROR is set to YES, doxygen will generate warnings for
          521 # potential errors in the documentation, such as not documenting some
          522 # parameters in a documented function, or documenting parameters that
          523 # don't exist or using markup commands wrongly.
          524 
          525 WARN_IF_DOC_ERROR      = YES
          526 
          527 # This WARN_NO_PARAMDOC option can be abled to get warnings for
          528 # functions that are documented, but have no documentation for their parameters
          529 # or return value. If set to NO (the default) doxygen will only warn about
          530 # wrong or incomplete parameter documentation, but not about the absence of
          531 # documentation.
          532 
          533 WARN_NO_PARAMDOC       = YES
          534 
          535 # The WARN_FORMAT tag determines the format of the warning messages that
          536 # doxygen can produce. The string should contain the $file, $line, and $text
          537 # tags, which will be replaced by the file and line number from which the
          538 # warning originated and the warning text. Optionally the format may contain
          539 # $version, which will be replaced by the version of the file (if it could
          540 # be obtained via FILE_VERSION_FILTER)
          541 
          542 WARN_FORMAT            = "$file:$line: $text  "
          543 
          544 # The WARN_LOGFILE tag can be used to specify a file to which warning
          545 # and error messages should be written. If left blank the output is written
          546 # to stderr.
          547 
          548 WARN_LOGFILE           =
          549 
          550 #---------------------------------------------------------------------------
          551 # configuration options related to the input files
          552 #---------------------------------------------------------------------------
          553 
          554 # The INPUT tag can be used to specify the files and/or directories that contain
          555 # documented source files. You may enter file names like "myfile.cpp" or
          556 # directories like "/usr/src/myproject". Separate the files or directories
          557 # with spaces.
          558 
          559 INPUT = mainpage.md references.md howto.md petsc.md \
          560         ${Pism_SOURCE_DIR}/src/
          561 
          562 USE_MDFILE_AS_MAINPAGE = mainpage.md
          563 
          564 # This tag can be used to specify the character encoding of the source files
          565 # that doxygen parses. Internally doxygen uses the UTF-8 encoding, which is
          566 # also the default input encoding. Doxygen uses libiconv (or the iconv built
          567 # into libc) for the transcoding. See http://www.gnu.org/software/libiconv for
          568 # the list of possible encodings.
          569 
          570 INPUT_ENCODING         = UTF-8
          571 
          572 # If the value of the INPUT tag contains directories, you can use the
          573 # FILE_PATTERNS tag to specify one or more wildcard pattern (like *.cpp
          574 # and *.h) to filter out the source-files in the directories. If left
          575 # blank the following patterns are tested:
          576 # *.c *.cc *.cxx *.cpp *.c++ *.java *.ii *.ixx *.ipp *.i++ *.inl *.h *.hh *.hxx
          577 # *.hpp *.h++ *.idl *.odl *.cs *.php *.php3 *.inc *.m *.mm *.py *.f90
          578 
          579 FILE_PATTERNS          = *.c \
          580                          *.cc \
          581                          *.h \
          582                          *.hh
          583 
          584 # The RECURSIVE tag can be used to turn specify whether or not subdirectories
          585 # should be searched for input files as well. Possible values are YES and NO.
          586 # If left blank NO is used.
          587 
          588 RECURSIVE              = YES
          589 
          590 # The EXCLUDE tag can be used to specify files and/or directories that should
          591 # excluded from the INPUT source files. This way you can easily exclude a
          592 # subdirectory from a directory tree whose root is specified with the INPUT tag.
          593 
          594 EXCLUDE                = ${Pism_SOURCE_DIR}/src/earth/cubature.h \
          595                          ${Pism_SOURCE_DIR}/src/earth/cubature.c \
          596                          ${Pism_SOURCE_DIR}/src/calcalcs
          597 
          598 # The EXCLUDE_SYMLINKS tag can be used select whether or not files or
          599 # directories that are symbolic links (a Unix filesystem feature) are excluded
          600 # from the input.
          601 
          602 EXCLUDE_SYMLINKS       = NO
          603 
          604 # If the value of the INPUT tag contains directories, you can use the
          605 # EXCLUDE_PATTERNS tag to specify one or more wildcard patterns to exclude
          606 # certain files from those directories. Note that the wildcards are matched
          607 # against the file with absolute path, so to exclude all test directories
          608 # for example use the pattern */test/*
          609 
          610 EXCLUDE_PATTERNS       =
          611 
          612 # The EXCLUDE_SYMBOLS tag can be used to specify one or more symbol names
          613 # (namespaces, classes, functions, etc.) that should be excluded from the
          614 # output. The symbol name can be a fully qualified name, a word, or if the
          615 # wildcard * is used, a substring. Examples: ANamespace, AClass,
          616 # AClass::ANamespace, ANamespace::*Test
          617 
          618 EXCLUDE_SYMBOLS        =
          619 
          620 # The EXAMPLE_PATH tag can be used to specify one or more files or
          621 # directories that contain example code fragments that are included (see
          622 # the \include command).
          623 
          624 EXAMPLE_PATH           = .
          625 
          626 # If the value of the EXAMPLE_PATH tag contains directories, you can use the
          627 # EXAMPLE_PATTERNS tag to specify one or more wildcard pattern (like *.cpp
          628 # and *.h) to filter out the source-files in the directories. If left
          629 # blank all files are included.
          630 
          631 EXAMPLE_PATTERNS       = *
          632 
          633 # If the EXAMPLE_RECURSIVE tag is set to YES then subdirectories will be
          634 # searched for input files to be used with the \include or \dontinclude
          635 # commands irrespective of the value of the RECURSIVE tag.
          636 # Possible values are YES and NO. If left blank NO is used.
          637 
          638 EXAMPLE_RECURSIVE      = NO
          639 
          640 # The IMAGE_PATH tag can be used to specify one or more files or
          641 # directories that contain image that are included in the documentation (see
          642 # the \image command).
          643 
          644 IMAGE_PATH             =
          645 
          646 # The INPUT_FILTER tag can be used to specify a program that doxygen should
          647 # invoke to filter for each input file. Doxygen will invoke the filter program
          648 # by executing (via popen()) the command <filter> <input-file>, where <filter>
          649 # is the value of the INPUT_FILTER tag, and <input-file> is the name of an
          650 # input file. Doxygen will then use the output that the filter program writes
          651 # to standard output.
          652 # If FILTER_PATTERNS is specified, this tag will be
          653 # ignored.
          654 
          655 INPUT_FILTER           =
          656 
          657 # The FILTER_PATTERNS tag can be used to specify filters on a per file pattern
          658 # basis.
          659 # Doxygen will compare the file name with each pattern and apply the
          660 # filter if there is a match.
          661 # The filters are a list of the form:
          662 # pattern=filter (like *.cpp=my_cpp_filter). See INPUT_FILTER for further
          663 # info on how filters are used. If FILTER_PATTERNS is empty, INPUT_FILTER
          664 # is applied to all files.
          665 
          666 FILTER_PATTERNS        =
          667 
          668 # If the FILTER_SOURCE_FILES tag is set to YES, the input filter (if set using
          669 # INPUT_FILTER) will be used to filter the input files when producing source
          670 # files to browse (i.e. when SOURCE_BROWSER is set to YES).
          671 
          672 FILTER_SOURCE_FILES    = NO
          673 
          674 #---------------------------------------------------------------------------
          675 # configuration options related to source browsing
          676 #---------------------------------------------------------------------------
          677 
          678 # If the SOURCE_BROWSER tag is set to YES then a list of source files will
          679 # be generated. Documented entities will be cross-referenced with these sources.
          680 # Note: To get rid of all source code in the generated output, make sure also
          681 # VERBATIM_HEADERS is set to NO.
          682 
          683 SOURCE_BROWSER         = YES
          684 
          685 # Setting the INLINE_SOURCES tag to YES will include the body
          686 # of functions and classes directly in the documentation.
          687 
          688 INLINE_SOURCES         = NO
          689 
          690 # Setting the STRIP_CODE_COMMENTS tag to YES (the default) will instruct
          691 # doxygen to hide any special comment blocks from generated source code
          692 # fragments. Normal C and C++ comments will always remain visible.
          693 
          694 STRIP_CODE_COMMENTS    = NO
          695 
          696 # If the REFERENCED_BY_RELATION tag is set to YES
          697 # then for each documented function all documented
          698 # functions referencing it will be listed.
          699 
          700 REFERENCED_BY_RELATION = YES
          701 
          702 # If the REFERENCES_RELATION tag is set to YES
          703 # then for each documented function all documented entities
          704 # called/used by that function will be listed.
          705 
          706 REFERENCES_RELATION    = YES
          707 
          708 # If the REFERENCES_LINK_SOURCE tag is set to YES (the default)
          709 # and SOURCE_BROWSER tag is set to YES, then the hyperlinks from
          710 # functions in REFERENCES_RELATION and REFERENCED_BY_RELATION lists will
          711 # link to the source code.
          712 # Otherwise they will link to the documentation.
          713 
          714 REFERENCES_LINK_SOURCE = YES
          715 
          716 # If the USE_HTAGS tag is set to YES then the references to source code
          717 # will point to the HTML generated by the htags(1) tool instead of doxygen
          718 # built-in source browser. The htags tool is part of GNU's global source
          719 # tagging system (see http://www.gnu.org/software/global/global.html). You
          720 # will need version 4.8.6 or higher.
          721 
          722 USE_HTAGS              = NO
          723 
          724 # If the VERBATIM_HEADERS tag is set to YES (the default) then Doxygen
          725 # will generate a verbatim copy of the header file for each class for
          726 # which an include is specified. Set to NO to disable this.
          727 
          728 VERBATIM_HEADERS       = YES
          729 
          730 #---------------------------------------------------------------------------
          731 # configuration options related to the alphabetical class index
          732 #---------------------------------------------------------------------------
          733 
          734 # If the ALPHABETICAL_INDEX tag is set to YES, an alphabetical index
          735 # of all compounds will be generated. Enable this if the project
          736 # contains a lot of classes, structs, unions or interfaces.
          737 
          738 ALPHABETICAL_INDEX     = YES
          739 
          740 # If the alphabetical index is enabled (see ALPHABETICAL_INDEX) then
          741 # the COLS_IN_ALPHA_INDEX tag can be used to specify the number of columns
          742 # in which this list will be split (can be a number in the range [1..20])
          743 
          744 COLS_IN_ALPHA_INDEX    = 5
          745 
          746 # In case all classes in a project start with a common prefix, all
          747 # classes will be put under the same header in the alphabetical index.
          748 # The IGNORE_PREFIX tag can be used to specify one or more prefixes that
          749 # should be ignored while generating the index headers.
          750 
          751 IGNORE_PREFIX          = PISM
          752 
          753 #---------------------------------------------------------------------------
          754 # configuration options related to the HTML output
          755 #---------------------------------------------------------------------------
          756 
          757 # If the GENERATE_HTML tag is set to YES (the default) Doxygen will
          758 # generate HTML output.
          759 
          760 GENERATE_HTML          = YES
          761 
          762 # The HTML_OUTPUT tag is used to specify where the HTML docs will be put.
          763 # If a relative path is entered the value of OUTPUT_DIRECTORY will be
          764 # put in front of it. If left blank `html' will be used as the default path.
          765 
          766 HTML_OUTPUT            = html/
          767 
          768 # The HTML_FILE_EXTENSION tag can be used to specify the file extension for
          769 # each generated HTML page (for example: .htm,.php,.asp). If it is left blank
          770 # doxygen will generate files with .html extension.
          771 
          772 HTML_FILE_EXTENSION    = .html
          773 
          774 # The HTML_HEADER tag can be used to specify a personal HTML header for
          775 # each generated HTML page. If it is left blank doxygen will generate a
          776 # standard header.
          777 
          778 HTML_HEADER            =
          779 
          780 # The HTML_FOOTER tag can be used to specify a personal HTML footer for
          781 # each generated HTML page. If it is left blank doxygen will generate a
          782 # standard footer.
          783 
          784 HTML_FOOTER            =
          785 
          786 HTML_EXTRA_STYLESHEET = ${CMAKE_CURRENT_SOURCE_DIR}/browser.css
          787 
          788 # If the HTML_DYNAMIC_SECTIONS tag is set to YES then the generated HTML
          789 # documentation will contain sections that can be hidden and shown after the
          790 # page has loaded. For this to work a browser that supports
          791 # JavaScript and DHTML is required (for instance Mozilla 1.0+, Firefox
          792 # Netscape 6.0+, Internet explorer 5.0+, Konqueror, or Safari).
          793 
          794 HTML_DYNAMIC_SECTIONS  = YES
          795 
          796 # If the GENERATE_DOCSET tag is set to YES, additional index files
          797 # will be generated that can be used as input for Apple's Xcode 3
          798 # integrated development environment, introduced with OSX 10.5 (Leopard).
          799 # To create a documentation set, doxygen will generate a Makefile in the
          800 # HTML output directory. Running make will produce the docset in that
          801 # directory and running "make install" will install the docset in
          802 # ~/Library/Developer/Shared/Documentation/DocSets so that Xcode will find
          803 # it at startup.
          804 # See http://developer.apple.com/tools/creatingdocsetswithdoxygen.html for more information.
          805 
          806 GENERATE_DOCSET        = NO
          807 
          808 # When GENERATE_DOCSET tag is set to YES, this tag determines the name of the
          809 # feed. A documentation feed provides an umbrella under which multiple
          810 # documentation sets from a single provider (such as a company or product suite)
          811 # can be grouped.
          812 
          813 DOCSET_FEEDNAME        = "Doxygen generated docs"
          814 
          815 # When GENERATE_DOCSET tag is set to YES, this tag specifies a string that
          816 # should uniquely identify the documentation set bundle. This should be a
          817 # reverse domain-name style string, e.g. com.mycompany.MyDocSet. Doxygen
          818 # will append .docset to the name.
          819 
          820 DOCSET_BUNDLE_ID       = org.doxygen.Project
          821 
          822 # If the GENERATE_HTMLHELP tag is set to YES, additional index files
          823 # will be generated that can be used as input for tools like the
          824 # Microsoft HTML help workshop to generate a compiled HTML help file (.chm)
          825 # of the generated HTML documentation.
          826 
          827 GENERATE_HTMLHELP      = NO
          828 
          829 # If the GENERATE_HTMLHELP tag is set to YES, the CHM_FILE tag can
          830 # be used to specify the file name of the resulting .chm file. You
          831 # can add a path in front of the file if the result should not be
          832 # written to the html output directory.
          833 
          834 CHM_FILE               =
          835 
          836 # If the GENERATE_HTMLHELP tag is set to YES, the HHC_LOCATION tag can
          837 # be used to specify the location (absolute path including file name) of
          838 # the HTML help compiler (hhc.exe). If non-empty doxygen will try to run
          839 # the HTML help compiler on the generated index.hhp.
          840 
          841 HHC_LOCATION           =
          842 
          843 # If the GENERATE_HTMLHELP tag is set to YES, the GENERATE_CHI flag
          844 # controls if a separate .chi index file is generated (YES) or that
          845 # it should be included in the master .chm file (NO).
          846 
          847 GENERATE_CHI           = NO
          848 
          849 # If the GENERATE_HTMLHELP tag is set to YES, the CHM_INDEX_ENCODING
          850 # is used to encode HtmlHelp index (hhk), content (hhc) and project file
          851 # content.
          852 
          853 CHM_INDEX_ENCODING     =
          854 
          855 # If the GENERATE_HTMLHELP tag is set to YES, the BINARY_TOC flag
          856 # controls whether a binary table of contents is generated (YES) or a
          857 # normal table of contents (NO) in the .chm file.
          858 
          859 BINARY_TOC             = NO
          860 
          861 # The TOC_EXPAND flag can be set to YES to add extra items for group members
          862 # to the contents of the HTML help documentation and to the tree view.
          863 
          864 TOC_EXPAND             = NO
          865 
          866 # If the GENERATE_QHP tag is set to YES and both QHP_NAMESPACE and QHP_VIRTUAL_FOLDER
          867 # are set, an additional index file will be generated that can be used as input for
          868 # Qt's qhelpgenerator to generate a Qt Compressed Help (.qch) of the generated
          869 # HTML documentation.
          870 
          871 GENERATE_QHP           = NO
          872 
          873 # If the QHG_LOCATION tag is specified, the QCH_FILE tag can
          874 # be used to specify the file name of the resulting .qch file.
          875 # The path specified is relative to the HTML output folder.
          876 
          877 QCH_FILE               =
          878 
          879 # The QHP_NAMESPACE tag specifies the namespace to use when generating
          880 # Qt Help Project output. For more information please see
          881 # http://doc.trolltech.com/qthelpproject.html#namespace
          882 
          883 QHP_NAMESPACE          =
          884 
          885 # The QHP_VIRTUAL_FOLDER tag specifies the namespace to use when generating
          886 # Qt Help Project output. For more information please see
          887 # http://doc.trolltech.com/qthelpproject.html#virtual-folders
          888 
          889 QHP_VIRTUAL_FOLDER     = doc
          890 
          891 # If QHP_CUST_FILTER_NAME is set, it specifies the name of a custom filter to add.
          892 # For more information please see
          893 # http://doc.trolltech.com/qthelpproject.html#custom-filters
          894 
          895 QHP_CUST_FILTER_NAME   =
          896 
          897 # The QHP_CUST_FILT_ATTRS tag specifies the list of the attributes of the custom filter to add.For more information please see
          898 # <a href="http://doc.trolltech.com/qthelpproject.html#custom-filters">Qt Help Project / Custom Filters</a>.
          899 
          900 QHP_CUST_FILTER_ATTRS  =
          901 
          902 # The QHP_SECT_FILTER_ATTRS tag specifies the list of the attributes this project's
          903 # filter section matches.
          904 # <a href="http://doc.trolltech.com/qthelpproject.html#filter-attributes">Qt Help Project / Filter Attributes</a>.
          905 
          906 QHP_SECT_FILTER_ATTRS  =
          907 
          908 # If the GENERATE_QHP tag is set to YES, the QHG_LOCATION tag can
          909 # be used to specify the location of Qt's qhelpgenerator.
          910 # If non-empty doxygen will try to run qhelpgenerator on the generated
          911 # .qhp file.
          912 
          913 QHG_LOCATION           =
          914 
          915 # The DISABLE_INDEX tag can be used to turn on/off the condensed index at
          916 # top of each HTML page. The value NO (the default) enables the index and
          917 # the value YES disables it.
          918 
          919 DISABLE_INDEX          = NO
          920 
          921 # This tag can be used to set the number of enum values (range [1..20])
          922 # that doxygen will group on one line in the generated HTML documentation.
          923 
          924 ENUM_VALUES_PER_LINE   = 4
          925 
          926 # The GENERATE_TREEVIEW tag is used to specify whether a tree-like index
          927 # structure should be generated to display hierarchical information.
          928 # If the tag value is set to YES, a side panel will be generated
          929 # containing a tree-like index structure (just like the one that
          930 # is generated for HTML Help). For this to work a browser that supports
          931 # JavaScript, DHTML, CSS and frames is required (i.e. any modern browser).
          932 # Windows users are probably better off using the HTML help feature.
          933 
          934 GENERATE_TREEVIEW      = NO
          935 
          936 # If the treeview is enabled (see GENERATE_TREEVIEW) then this tag can be
          937 # used to set the initial width (in pixels) of the frame in which the tree
          938 # is shown.
          939 
          940 TREEVIEW_WIDTH         = 250
          941 
          942 # Use this tag to change the font size of Latex formulas included
          943 # as images in the HTML documentation. The default is 10. Note that
          944 # when you change the font size after a successful doxygen run you need
          945 # to manually remove any form_*.png images from the HTML output directory
          946 # to force them to be regenerated.
          947 
          948 FORMULA_FONTSIZE       = 14
          949 
          950 # When the SEARCHENGINE tag is enable doxygen will generate a search box for the HTML output. The underlying search engine uses javascript
          951 # and DHTML and should work on any modern browser. Note that when using HTML help (GENERATE_HTMLHELP) or Qt help (GENERATE_QHP)
          952 # there is already a search function so this one should typically
          953 # be disabled.
          954 
          955 SEARCHENGINE           = YES
          956 
          957 #---------------------------------------------------------------------------
          958 # configuration options related to the LaTeX output
          959 #---------------------------------------------------------------------------
          960 
          961 # If the GENERATE_LATEX tag is set to YES (the default) Doxygen will
          962 # generate Latex output.
          963 
          964 GENERATE_LATEX         = NO
          965 
          966 # The LATEX_OUTPUT tag is used to specify where the LaTeX docs will be put.
          967 # If a relative path is entered the value of OUTPUT_DIRECTORY will be
          968 # put in front of it. If left blank `latex' will be used as the default path.
          969 
          970 LATEX_OUTPUT           = latex
          971 
          972 # The LATEX_CMD_NAME tag can be used to specify the LaTeX command name to be
          973 # invoked. If left blank `latex' will be used as the default command name.
          974 
          975 LATEX_CMD_NAME         = latex
          976 
          977 # The MAKEINDEX_CMD_NAME tag can be used to specify the command name to
          978 # generate index for LaTeX. If left blank `makeindex' will be used as the
          979 # default command name.
          980 
          981 MAKEINDEX_CMD_NAME     = makeindex
          982 
          983 # If the COMPACT_LATEX tag is set to YES Doxygen generates more compact
          984 # LaTeX documents. This may be useful for small projects and may help to
          985 # save some trees in general.
          986 
          987 COMPACT_LATEX          = NO
          988 
          989 # The PAPER_TYPE tag can be used to set the paper type that is used
          990 # by the printer. Possible values are: a4, a4wide, letter, legal and
          991 # executive. If left blank a4wide will be used.
          992 
          993 PAPER_TYPE             = letter
          994 
          995 # The EXTRA_PACKAGES tag can be to specify one or more names of LaTeX
          996 # packages that should be included in the LaTeX output.
          997 
          998 EXTRA_PACKAGES         = amsmath \
          999                          txfonts \
         1000                          ${CMAKE_CURRENT_SOURCE_DIR}/pism
         1001 
         1002 # The LATEX_HEADER tag can be used to specify a personal LaTeX header for
         1003 # the generated latex document. The header should contain everything until
         1004 # the first chapter. If it is left blank doxygen will generate a
         1005 # standard header. Notice: only use this tag if you know what you are doing!
         1006 
         1007 LATEX_HEADER           =
         1008 
         1009 # If the PDF_HYPERLINKS tag is set to YES, the LaTeX that is generated
         1010 # is prepared for conversion to pdf (using ps2pdf). The pdf file will
         1011 # contain links (just like the HTML output) instead of page references
         1012 # This makes the output suitable for online browsing using a pdf viewer.
         1013 
         1014 PDF_HYPERLINKS         = YES
         1015 
         1016 # If the USE_PDFLATEX tag is set to YES, pdflatex will be used instead of
         1017 # plain latex in the generated Makefile. Set this option to YES to get a
         1018 # higher quality PDF documentation.
         1019 
         1020 USE_PDFLATEX           = YES
         1021 
         1022 # If the LATEX_BATCHMODE tag is set to YES, doxygen will add the \\batchmode.
         1023 # command to the generated LaTeX files. This will instruct LaTeX to keep
         1024 # running if errors occur, instead of asking the user for help.
         1025 # This option is also used when generating formulas in HTML.
         1026 
         1027 LATEX_BATCHMODE        = NO
         1028 
         1029 # If LATEX_HIDE_INDICES is set to YES then doxygen will not
         1030 # include the index chapters (such as File Index, Compound Index, etc.)
         1031 # in the output.
         1032 
         1033 LATEX_HIDE_INDICES     = NO
         1034 
         1035 # If LATEX_SOURCE_CODE is set to YES then doxygen will include source code with syntax highlighting in the LaTeX output. Note that which sources are shown also depends on other settings such as SOURCE_BROWSER.
         1036 
         1037 LATEX_SOURCE_CODE      = NO
         1038 
         1039 #---------------------------------------------------------------------------
         1040 # Configuration options related to the preprocessor
         1041 #---------------------------------------------------------------------------
         1042 
         1043 # If the ENABLE_PREPROCESSING tag is set to YES (the default) Doxygen will
         1044 # evaluate all C-preprocessor directives found in the sources and include
         1045 # files.
         1046 
         1047 ENABLE_PREPROCESSING   = YES
         1048 
         1049 # If the MACRO_EXPANSION tag is set to YES Doxygen will expand all macro
         1050 # names in the source code. If set to NO (the default) only conditional
         1051 # compilation will be performed. Macro expansion can be done in a controlled
         1052 # way by setting EXPAND_ONLY_PREDEF to YES.
         1053 
         1054 MACRO_EXPANSION        = NO
         1055 
         1056 # If the EXPAND_ONLY_PREDEF and MACRO_EXPANSION tags are both set to YES
         1057 # then the macro expansion is limited to the macros specified with the
         1058 # PREDEFINED and EXPAND_AS_DEFINED tags.
         1059 
         1060 EXPAND_ONLY_PREDEF     = NO
         1061 
         1062 # If the SEARCH_INCLUDES tag is set to YES (the default) the includes files
         1063 # in the INCLUDE_PATH (see below) will be search if a #include is found.
         1064 
         1065 SEARCH_INCLUDES        = YES
         1066 
         1067 # The INCLUDE_PATH tag can be used to specify one or more directories that
         1068 # contain include files that are not input files but should be processed by
         1069 # the preprocessor.
         1070 
         1071 INCLUDE_PATH           =
         1072 
         1073 # You can use the INCLUDE_FILE_PATTERNS tag to specify one or more wildcard
         1074 # patterns (like *.h and *.hpp) to filter out the header-files in the
         1075 # directories. If left blank, the patterns specified with FILE_PATTERNS will
         1076 # be used.
         1077 
         1078 INCLUDE_FILE_PATTERNS  =
         1079 
         1080 # The PREDEFINED tag can be used to specify one or more macro names that
         1081 # are defined before the preprocessor is started (similar to the -D option of
         1082 # gcc). The argument of the tag is a list of macros of the form: name
         1083 # or name=definition (no spaces). If the definition and the = are
         1084 # omitted =1 is assumed. To prevent a macro definition from being
         1085 # undefined via #undef or recursively expanded use the := operator
         1086 # instead of the = operator.
         1087 
         1088 PREDEFINED             = Pism_DEBUG,Pism_USE_PROJ,Pism_USE_PARALLEL_NETCDF4,Pism_USE_PNETCDF
         1089 
         1090 # If the MACRO_EXPANSION and EXPAND_ONLY_PREDEF tags are set to YES then
         1091 # this tag can be used to specify a list of macro names that should be expanded.
         1092 # The macro definition that is found in the sources will be used.
         1093 # Use the PREDEFINED tag if you want to use a different macro definition.
         1094 
         1095 EXPAND_AS_DEFINED      =
         1096 
         1097 # If the SKIP_FUNCTION_MACROS tag is set to YES (the default) then
         1098 # doxygen's preprocessor will remove all function-like macros that are alone
         1099 # on a line, have an all uppercase name, and do not end with a semicolon. Such
         1100 # function macros are typically used for boiler-plate code, and will confuse
         1101 # the parser if not removed.
         1102 
         1103 SKIP_FUNCTION_MACROS   = YES
         1104 
         1105 #---------------------------------------------------------------------------
         1106 # Configuration::additions related to external references
         1107 #---------------------------------------------------------------------------
         1108 
         1109 # The TAGFILES option can be used to specify one or more tagfiles.
         1110 # Optionally an initial location of the external documentation
         1111 # can be added for each tagfile. The format of a tag file without
         1112 # this location is as follows:
         1113 #
         1114 # TAGFILES = file1 file2 ...
         1115 # Adding location for the tag files is done as follows:
         1116 #
         1117 # TAGFILES = file1=loc1 "file2 = loc2" ...
         1118 # where "loc1" and "loc2" can be relative or absolute paths or
         1119 # URLs. If a location is present for each tag, the installdox tool
         1120 # does not have to be run to correct the links.
         1121 # Note that each tag file must have a unique name
         1122 # (where the name does NOT include the path)
         1123 # If a tag file is not located in the directory in which doxygen
         1124 # is run, you must also specify the path to the tagfile here.
         1125 
         1126 TAGFILES               =
         1127 
         1128 # When a file name is specified after GENERATE_TAGFILE, doxygen will create
         1129 # a tag file that is based on the input files it reads.
         1130 
         1131 GENERATE_TAGFILE       =
         1132 
         1133 # If the ALLEXTERNALS tag is set to YES all external classes will be listed
         1134 # in the class index. If set to NO only the inherited external classes
         1135 # will be listed.
         1136 
         1137 ALLEXTERNALS           = NO
         1138 
         1139 # If the EXTERNAL_GROUPS tag is set to YES all external groups will be listed
         1140 # in the modules index. If set to NO, only the current project's groups will
         1141 # be listed.
         1142 
         1143 EXTERNAL_GROUPS        = YES
         1144 
         1145 # The PERL_PATH should be the absolute path and name of the perl script
         1146 # interpreter (i.e. the result of `which perl').
         1147 
         1148 PERL_PATH              = /usr/bin/perl
         1149 
         1150 #---------------------------------------------------------------------------
         1151 # Configuration options related to the dot tool
         1152 #---------------------------------------------------------------------------
         1153 
         1154 # If the CLASS_DIAGRAMS tag is set to YES (the default) Doxygen will
         1155 # generate a inheritance diagram (in HTML, RTF and LaTeX) for classes with base
         1156 # or super classes. Setting the tag to NO turns the diagrams off. Note that
         1157 # this option is superseded by the HAVE_DOT option below. This is only a
         1158 # fallback. It is recommended to install and use dot, since it yields more
         1159 # powerful graphs.
         1160 
         1161 CLASS_DIAGRAMS         = YES
         1162 
         1163 # You can define message sequence charts within doxygen comments using the \msc
         1164 # command. Doxygen will then run the mscgen tool (see
         1165 # http://www.mcternan.me.uk/mscgen/) to produce the chart and insert it in the
         1166 # documentation. The MSCGEN_PATH tag allows you to specify the directory where
         1167 # the mscgen tool resides. If left empty the tool is assumed to be found in the
         1168 # default search path.
         1169 
         1170 MSCGEN_PATH            =
         1171 
         1172 # If set to YES, the inheritance and collaboration graphs will hide
         1173 # inheritance and usage relations if the target is undocumented
         1174 # or is not a class.
         1175 
         1176 HIDE_UNDOC_RELATIONS   = NO
         1177 
         1178 # If you set the HAVE_DOT tag to YES then doxygen will assume the dot tool is
         1179 # available from the path. This tool is part of Graphviz, a graph visualization
         1180 # toolkit from AT&T and Lucent Bell Labs. The other options in this section
         1181 # have no effect if this option is set to NO (the default)
         1182 
         1183 HAVE_DOT               = YES
         1184 
         1185 # By default doxygen will write a font called FreeSans.ttf to the output
         1186 # directory and reference it in all dot files that doxygen generates. This
         1187 # font does not include all possible unicode characters however, so when you need
         1188 # these (or just want a differently looking font) you can specify the font name
         1189 # using DOT_FONTNAME. You need need to make sure dot is able to find the font,
         1190 # which can be done by putting it in a standard location or by setting the
         1191 # DOTFONTPATH environment variable or by setting DOT_FONTPATH to the directory
         1192 # containing the font.
         1193 
         1194 DOT_FONTNAME           = 
         1195 
         1196 # The DOT_FONTSIZE tag can be used to set the size of the font of dot graphs.
         1197 # The default size is 10pt.
         1198 
         1199 DOT_FONTSIZE           = 10
         1200 
         1201 # By default doxygen will tell dot to use the output directory to look for the
         1202 # FreeSans.ttf font (which doxygen will put there itself). If you specify a
         1203 # different font using DOT_FONTNAME you can set the path where dot
         1204 # can find it using this tag.
         1205 
         1206 DOT_FONTPATH           =
         1207 
         1208 # If the CLASS_GRAPH and HAVE_DOT tags are set to YES then doxygen
         1209 # will generate a graph for each documented class showing the direct and
         1210 # indirect inheritance relations. Setting this tag to YES will force the
         1211 # the CLASS_DIAGRAMS tag to NO.
         1212 
         1213 CLASS_GRAPH            = YES
         1214 
         1215 # If the COLLABORATION_GRAPH and HAVE_DOT tags are set to YES then doxygen
         1216 # will generate a graph for each documented class showing the direct and
         1217 # indirect implementation dependencies (inheritance, containment, and
         1218 # class references variables) of the class with other documented classes.
         1219 
         1220 COLLABORATION_GRAPH    = NO
         1221 
         1222 # If the GROUP_GRAPHS and HAVE_DOT tags are set to YES then doxygen
         1223 # will generate a graph for groups, showing the direct groups dependencies
         1224 
         1225 GROUP_GRAPHS           = YES
         1226 
         1227 # If the UML_LOOK tag is set to YES doxygen will generate inheritance and
         1228 # collaboration diagrams in a style similar to the OMG's Unified Modeling
         1229 # Language.
         1230 
         1231 UML_LOOK               = NO
         1232 
         1233 # If set to YES, the inheritance and collaboration graphs will show the
         1234 # relations between templates and their instances.
         1235 
         1236 TEMPLATE_RELATIONS     = YES
         1237 
         1238 # If the ENABLE_PREPROCESSING, SEARCH_INCLUDES, INCLUDE_GRAPH, and HAVE_DOT
         1239 # tags are set to YES then doxygen will generate a graph for each documented
         1240 # file showing the direct and indirect include dependencies of the file with
         1241 # other documented files.
         1242 
         1243 INCLUDE_GRAPH          = YES
         1244 
         1245 # If the ENABLE_PREPROCESSING, SEARCH_INCLUDES, INCLUDED_BY_GRAPH, and
         1246 # HAVE_DOT tags are set to YES then doxygen will generate a graph for each
         1247 # documented header file showing the documented files that directly or
         1248 # indirectly include this file.
         1249 
         1250 INCLUDED_BY_GRAPH      = NO
         1251 
         1252 # If the CALL_GRAPH and HAVE_DOT options are set to YES then
         1253 # doxygen will generate a call dependency graph for every global function
         1254 # or class method. Note that enabling this option will significantly increase
         1255 # the time of a run. So in most cases it will be better to enable call graphs
         1256 # for selected functions only using the \callgraph command.
         1257 
         1258 CALL_GRAPH             = NO
         1259 
         1260 # If the CALLER_GRAPH and HAVE_DOT tags are set to YES then
         1261 # doxygen will generate a caller dependency graph for every global function
         1262 # or class method. Note that enabling this option will significantly increase
         1263 # the time of a run. So in most cases it will be better to enable caller
         1264 # graphs for selected functions only using the \callergraph command.
         1265 
         1266 CALLER_GRAPH           = NO
         1267 
         1268 # If the GRAPHICAL_HIERARCHY and HAVE_DOT tags are set to YES then doxygen
         1269 # will graphical hierarchy of all classes instead of a textual one.
         1270 
         1271 GRAPHICAL_HIERARCHY    = YES
         1272 
         1273 # If the DIRECTORY_GRAPH, SHOW_DIRECTORIES and HAVE_DOT tags are set to YES
         1274 # then doxygen will show the dependencies a directory has on other directories
         1275 # in a graphical way. The dependency relations are determined by the #include
         1276 # relations between the files in the directories.
         1277 
         1278 DIRECTORY_GRAPH        = NO
         1279 
         1280 # The DOT_IMAGE_FORMAT tag can be used to set the image format of the images
         1281 # generated by dot. Possible values are png, jpg, or gif
         1282 # If left blank png will be used.
         1283 
         1284 DOT_IMAGE_FORMAT       = png
         1285 
         1286 # The tag DOT_PATH can be used to specify the path where the dot tool can be
         1287 # found. If left blank, it is assumed the dot tool can be found in the path.
         1288 
         1289 DOT_PATH               = 
         1290 
         1291 # The DOTFILE_DIRS tag can be used to specify one or more directories that
         1292 # contain dot files that are included in the documentation (see the
         1293 # \dotfile command).
         1294 
         1295 DOTFILE_DIRS           =
         1296 
         1297 # The DOT_GRAPH_MAX_NODES tag can be used to set the maximum number of
         1298 # nodes that will be shown in the graph. If the number of nodes in a graph
         1299 # becomes larger than this value, doxygen will truncate the graph, which is
         1300 # visualized by representing a node as a red box. Note that doxygen if the
         1301 # number of direct children of the root node in a graph is already larger than
         1302 # DOT_GRAPH_MAX_NODES then the graph will not be shown at all. Also note
         1303 # that the size of a graph can be further restricted by MAX_DOT_GRAPH_DEPTH.
         1304 
         1305 DOT_GRAPH_MAX_NODES    = 100
         1306 
         1307 # The MAX_DOT_GRAPH_DEPTH tag can be used to set the maximum depth of the
         1308 # graphs generated by dot. A depth value of 3 means that only nodes reachable
         1309 # from the root by following a path via at most 3 edges will be shown. Nodes
         1310 # that lay further from the root node will be omitted. Note that setting this
         1311 # option to 1 or 2 may greatly reduce the computation time needed for large
         1312 # code bases. Also note that the size of a graph can be further restricted by
         1313 # DOT_GRAPH_MAX_NODES. Using a depth of 0 means no depth restriction.
         1314 
         1315 MAX_DOT_GRAPH_DEPTH    = 1000
         1316 
         1317 # Set the DOT_TRANSPARENT tag to YES to generate images with a transparent
         1318 # background. This is disabled by default, because dot on Windows does not
         1319 # seem to support this out of the box. Warning: Depending on the platform used,
         1320 # enabling this option may lead to badly anti-aliased labels on the edges of
         1321 # a graph (i.e. they become hard to read).
         1322 
         1323 DOT_TRANSPARENT        = YES
         1324 
         1325 # Set the DOT_MULTI_TARGETS tag to YES allow dot to generate multiple output
         1326 # files in one run (i.e. multiple -o and -T options on the command line). This
         1327 # makes dot run faster, but since only newer versions of dot (>1.8.10)
         1328 # support this, this feature is disabled by default.
         1329 
         1330 DOT_MULTI_TARGETS      = YES
         1331 
         1332 # If the GENERATE_LEGEND tag is set to YES (the default) Doxygen will
         1333 # generate a legend page explaining the meaning of the various boxes and
         1334 # arrows in the dot generated graphs.
         1335 
         1336 GENERATE_LEGEND        = YES
         1337 
         1338 # If the DOT_CLEANUP tag is set to YES (the default) Doxygen will
         1339 # remove the intermediate dot files that are used to generate
         1340 # the various graphs.
         1341 
         1342 DOT_CLEANUP            = YES
         1343