docs/CMakeLists.txt

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   5 # Mark Abraham, David van der Spoel, Berk Hess, and Erik Lindahl,
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  10 # modify it under the terms of the GNU Lesser General Public License
  11 # as published by the Free Software Foundation; either version 2.1
  12 # of the License, or (at your option) any later version.
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  17 # Lesser General Public License for more details.
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  30 # official version at http://www.gromacs.org.
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  33 # the research papers on the package. Check out http://www.gromacs.org.
  34
  35 # This directory provides a unified place for building all kinds of
  36 # GROMACS documentation. This includes some "static" content (Doxygen
  37 # code documentation, reference manual, install guide, old online HTML
  38 # images), and content generated from the gmx program for the various
  39 # tools (man and HTML pages). It also provides the "webpage" target,
  40 # that combines all of the above (except man pages in man format) into
  41 # a form suitable for automated deployment to the GROMACS website. It
  42 # also provides the INSTALL file for the tarball.
  43 #
  44 # The webpage is mostly built by Sphinx.  Variable values for Sphinx
  45 # substitutions are configured by CMake (for things like version numbers),
  46 # using gmx_configure_version_file().  This happens during build time instead
  47 # of configure time, because 1) some of the version variables are only
  48 # available during build time, and 2) we don't want to do all the Sphinx setup
  49 # during configuration to save some time when not building the content.
  50 # All the generated values get put into conf-vars.py (generated from
  51 # conf-vars.py.cmakein), which in turn is included by the Sphinx configuration
  52 # file conf.py.
  53
  54 set(SOURCE_MD5SUM "unknown" CACHE STRING
  55     "MD5 sum of the source tarball, normally used only for the pre-release webpage build")
  56 # REGRESSIONTEST_MD5SUM is set in cmake/gmxVersionInfo.cmake because it is used also in tests/CMakeLists.txt
  57 mark_as_advanced(SOURCE_MD5SUM)
  58
  59 set(EXPECTED_DOXYGEN_VERSION 1.8.5)
  60
  61 set(EXPECTED_SPHINX_VERSION 1.4.1)
  62
  63 if (DEFINED PYTHON_EXECUTABLE)
  64     # Keep quiet on subsequent runs of cmake
  65     set(PythonInterp_FIND_QUIETLY ON)
  66 endif()
  67 find_package(PythonInterp 2.7)
  68 find_package(Sphinx ${EXPECTED_SPHINX_VERSION} QUIET COMPONENTS pygments)
  69
  70 # Even if we aren't going to make the full webpage, set up to put all
  71 # the documentation output in the same place, for convenience
  72 set(HTML_OUTPUT_DIR "${CMAKE_CURRENT_BINARY_DIR}/html")
  73 file(MAKE_DIRECTORY ${HTML_OUTPUT_DIR})
  74
  75 # The directory from which man pages will be installed; if it remains
  76 # empty, they will be silently skipped.
  77 set(MAN_PAGE_DIR)
  78 if (SOURCE_IS_SOURCE_DISTRIBUTION)
  79     # When building from the tarball, install the bundled man pages
  80     # (unless overridden).
  81     set(MAN_PAGE_DIR ${CMAKE_CURRENT_SOURCE_DIR})
  82 endif()
  83
  84 add_subdirectory(doxygen)
  85 add_subdirectory(manual)
  86
  87 if (SPHINX_FOUND)
  88     # We need to have all the Sphinx input files in a single directory, and
  89     # since some of them are generated, we copy everything into the build tree,
  90     # to this directory.
  91     set(SPHINX_INPUT_DIR ${CMAKE_CURRENT_BINARY_DIR}/sphinx-input)
  92     set(SPHINX_EXTENSION_PATH ${CMAKE_CURRENT_SOURCE_DIR})
  93     if (SOURCE_MD5SUM STREQUAL "unknown")
  94         # But for testing the webpage build (e.g. from the repo) we
  95         # need a default value.
  96         set(REGRESSIONTEST_MD5SUM_STRING "unknown")
  97     else()
  98         # The real build of the webpage happens from the tarball, and
  99         # this should be set to the matching MD5 sum.
 100         set(REGRESSIONTEST_MD5SUM_STRING "${REGRESSIONTEST_MD5SUM}")
 101     endif()
 102     set(SPHINX_SOURCE_FILES
 103         index.rst
 104         download.rst
 105         dev-manual/index.rst
 106         dev-manual/build-system.rst
 107         dev-manual/commitstyle.rst
 108         dev-manual/documentation-generation.rst
 109         dev-manual/doxygen.rst
 110         dev-manual/error-handling.rst
 111         dev-manual/formatting.rst
 112         dev-manual/gmxtree.rst
 113         dev-manual/includestyle.rst
 114         dev-manual/jenkins.rst
 115         dev-manual/language-features.rst
 116         dev-manual/naming.rst
 117         dev-manual/overview.rst
 118         dev-manual/redmine-states.png
 119         dev-manual/relocatable-binaries.rst
 120         dev-manual/reportstyle.rst
 121         dev-manual/style.rst
 122         dev-manual/testutils.rst
 123         dev-manual/tools.rst
 124         dev-manual/uncrustify.rst
 125         fragments/doxygen-links.rst
 126         install-guide/index.rst
 127         release-notes/index.rst
 128         release-notes/2018/2018.7.rst
 129         release-notes/2018/2018.6.rst
 130         release-notes/2018/2018.5.rst
 131         release-notes/2018/2018.4.rst
 132         release-notes/2018/2018.3.rst
 133         release-notes/2018/2018.2.rst
 134         release-notes/2018/2018.1.rst
 135         release-notes/2018/major/highlights.rst
 136         release-notes/2018/major/features.rst
 137         release-notes/2018/major/performance.rst
 138         release-notes/2018/major/tools.rst
 139         release-notes/2018/major/bugs-fixed.rst
 140         release-notes/2018/major/removed-features.rst
 141         release-notes/2018/major/portability.rst
 142         release-notes/2018/major/miscellaneous.rst
 143         release-notes/2016/2016.5.rst
 144         release-notes/2016/2016.4.rst
 145         release-notes/2016/2016.3.rst
 146         release-notes/2016/2016.2.rst
 147         release-notes/2016/2016.1.rst
 148         release-notes/2016/major/highlights.rst
 149         release-notes/2016/major/new-features.rst
 150         release-notes/2016/major/performance.rst
 151         release-notes/2016/major/tools.rst
 152         release-notes/2016/major/bugs-fixed.rst
 153         release-notes/2016/major/removed-features.rst
 154         release-notes/2016/major/miscellaneous.rst
 155         release-notes/older/index.rst
 156         user-guide/index.rst
 157         user-guide/cutoff-schemes.rst
 158         user-guide/getting-started.rst
 159         user-guide/force-fields.rst
 160         user-guide/faq.rst
 161         user-guide/flow.rst
 162         user-guide/floating-point.rst
 163         user-guide/system-preparation.rst
 164         user-guide/managing-simulations.rst
 165         user-guide/mdrun-features.rst
 166         user-guide/mdrun-performance.rst
 167         user-guide/mdp-options.rst
 168         user-guide/run-time-errors.rst
 169         user-guide/file-formats.rst
 170         user-guide/cmdline.rst
 171         user-guide/environment-variables.rst
 172         user-guide/security.rst
 173         user-guide/terminology.rst
 174         user-guide/plotje.gif
 175         user-guide/xvgr.gif
 176         conf.py
 177         links.dat
 178         )
 179
 180     include(SphinxMacros.cmake)
 181     gmx_init_sphinx_setup(${SPHINX_INPUT_DIR})
 182
 183     set(SPHINX_CONFIG_VARS_FILE ${SPHINX_INPUT_DIR}/conf-vars.py)
 184     gmx_configure_version_file(conf-vars.py.cmakein ${SPHINX_CONFIG_VARS_FILE}
 185         EXTRA_VARS
 186             SPHINX_EXTENSION_PATH RELENG_PATH
 187             EXPECTED_DOXYGEN_VERSION
 188             EXPECTED_SPHINX_VERSION
 189             CMAKE_MINIMUM_REQUIRED_VERSION REQUIRED_CUDA_VERSION
 190             REQUIRED_OPENCL_MIN_VERSION
 191             REQUIRED_CUDA_COMPUTE_CAPABILITY REGRESSIONTEST_VERSION
 192             SOURCE_MD5SUM REGRESSIONTEST_MD5SUM_STRING
 193             GMX_TNG_MINIMUM_REQUIRED_VERSION
 194             GMX_LMFIT_MINIMUM_REQUIRED_VERSION
 195         COMMENT "Configuring Sphinx configuration file")
 196     gmx_add_sphinx_input_file(${SPHINX_CONFIG_VARS_FILE})
 197     gmx_add_sphinx_source_files(FILES ${SPHINX_SOURCE_FILES})
 198     if (EXISTS ${RELENG_PATH}/docs/FileList.cmake)
 199         include(${RELENG_PATH}/docs/FileList.cmake)
 200         gmx_add_sphinx_source_files(
 201             FROM ${RELENG_PATH}/docs TO dev-manual/releng PREFIX releng/docs/
 202             FILES ${RELENG_SPHINX_FILES})
 203     else()
 204         gmx_add_sphinx_source_files(FILES
 205             dev-manual/releng/index.rst
 206             dev-manual/releng/jenkins-howto.rst
 207             dev-manual/releng/jenkins-ui.rst
 208             )
 209     endif()
 210     gmx_add_sphinx_input_target(sphinx-input)
 211     # Remove other rst files from the build tree, since they confuse Sphinx.
 212     # Skip generated files in onlinehelp/, and fragments.
 213     # The latter do not cause issues with obsolete files, as they
 214     # are not considered as Sphinx input files, but will only be
 215     # included using an explicit .. include::.
 216     gmx_remove_obsolete_sphinx_input_files("^(onlinehelp|fragments)/.*\\\\.rst$")
 217
 218     # TODO: Make this remove obsolete .rst files.
 219     # TODO: This does not work in cross-compilation scenarios; disable up to
 220     # the necessary level.
 221     gmx_add_custom_output_target(sphinx-programs OUTPUT STAMP
 222         COMMAND ${CMAKE_COMMAND} -E make_directory onlinehelp
 223         COMMAND gmx -quiet help -export rst
 224         DEPENDS gmx
 225         WORKING_DIRECTORY ${SPHINX_INPUT_DIR}
 226         COMMENT "Generating reStructuredText help")
 227     # This dependency ensures that the directories exist before the
 228     # executable tries to write things there.
 229     add_dependencies(sphinx-programs sphinx-input)
 230
 231     # Make the INSTALL file for CPack for the tarball. This gets put
 232     # into the tarball via the CPack rules below, which requires that
 233     # the INSTALL file is in a separate directory by itself.
 234     set(TEXT_INSTALL_GUIDE_OUTPUT_DIR "install-guide/text")
 235     add_custom_target(install-guide
 236         COMMAND
 237             ${SPHINX_EXECUTABLE}
 238             -q -b text
 239             -w sphinx-install.log
 240             -d ${CMAKE_CURRENT_BINARY_DIR}/install-guide/_doctrees
 241             -c ${SPHINX_INPUT_DIR}
 242             "${SPHINX_INPUT_DIR}/install-guide"
 243             "${TEXT_INSTALL_GUIDE_OUTPUT_DIR}"
 244         COMMAND
 245             ${CMAKE_COMMAND} -E rename
 246             ${TEXT_INSTALL_GUIDE_OUTPUT_DIR}/index.txt
 247             ${TEXT_INSTALL_GUIDE_OUTPUT_DIR}/INSTALL
 248         WORKING_DIRECTORY
 249             ${CMAKE_CURRENT_BINARY_DIR}
 250         COMMENT "Building INSTALL with Sphinx"
 251         VERBATIM
 252         )
 253     add_dependencies(install-guide sphinx-input)
 254     gmx_cpack_add_generated_source_directory(install-guide/text DESTINATION /)
 255
 256     # Sphinx cache with pickled ReST documents
 257     set(SPHINX_CACHE_DIR "${CMAKE_CURRENT_BINARY_DIR}/_doctrees")
 258
 259     add_custom_target(webpage-sphinx
 260         COMMAND
 261             ${CMAKE_COMMAND} -E make_directory ${SPHINX_INPUT_DIR}/_static
 262         COMMAND
 263             ${SPHINX_EXECUTABLE}
 264             -q -b html
 265             -w sphinx-html.log
 266             -d "${SPHINX_CACHE_DIR}"
 267             "${SPHINX_INPUT_DIR}"
 268             "${HTML_OUTPUT_DIR}"
 269         WORKING_DIRECTORY
 270             ${CMAKE_CURRENT_BINARY_DIR}
 271         COMMENT "Building HTML documentation with Sphinx"
 272         VERBATIM
 273         )
 274     add_dependencies(webpage-sphinx sphinx-input sphinx-programs)
 275
 276     add_custom_target(man
 277         COMMAND
 278             ${SPHINX_EXECUTABLE}
 279             -q -b man
 280             -w sphinx-man.log
 281             -d ${SPHINX_CACHE_DIR}
 282             -t do_man
 283             ${SPHINX_INPUT_DIR}
 284             ${CMAKE_CURRENT_BINARY_DIR}/man
 285         COMMENT "Building man pages with Sphinx"
 286         VERBATIM)
 287     add_dependencies(man sphinx-input sphinx-programs)
 288     if (GMX_BUILD_HELP)
 289         # If requested, install the man pages built by the 'man' target
 290         # created above.  Nothing will be installed if the user did not
 291         # manually build the target.
 292         set(MAN_PAGE_DIR ${CMAKE_CURRENT_BINARY_DIR})
 293     endif()
 294 else()
 295     add_custom_target(webpage-sphinx
 296         COMMAND ${CMAKE_COMMAND} -E echo
 297             "HTML pages cannot be built because Sphinx version ${EXPECTED_SPHINX_VERSION} is not available"
 298         VERBATIM)
 299     add_custom_target(install-guide
 300         COMMAND ${CMAKE_COMMAND} -E echo
 301             "INSTALL cannot be built because Sphinx version ${EXPECTED_SPHINX_VERSION} is not available"
 302         VERBATIM)
 303     add_custom_target(man
 304         COMMAND ${CMAKE_COMMAND} -E echo
 305             "man pages cannot be built because Sphinx version ${EXPECTED_SPHINX_VERSION} is not available"
 306         VERBATIM)
 307 endif()
 308
 309 if (MAN_PAGE_DIR)
 310     set(MAN_PAGE_DIR ${MAN_PAGE_DIR}/man)
 311     # Trailing slash on directory is significant for
 312     # install(DIRECTORY). See CMake docs.
 313     install(DIRECTORY ${MAN_PAGE_DIR}/
 314         DESTINATION ${CMAKE_INSTALL_MANDIR}/man1
 315         COMPONENT man OPTIONAL
 316         FILES_MATCHING PATTERN "*.1")
 317 endif()
 318 gmx_cpack_add_generated_source_directory(man)
 319
 320 # Determine whether we can build all the HTML pages and content linked from
 321 # there.  If not, construct an informative message if the user tries to
 322 # build the target; most people never need to know, unless they've asked for
 323 # the webpage build.
 324 set(HTML_BUILD_IS_POSSIBLE ON)
 325 set(HTML_BUILD_NOT_POSSIBLE_REASON)
 326 set(HTML_BUILD_WARNINGS)
 327
 328 # Next, turn it off if any of the preconditions are unsatisified
 329 if (NOT PYTHON_EXECUTABLE)
 330     set(HTML_BUILD_IS_POSSIBLE OFF)
 331     set(HTML_BUILD_NOT_POSSIBLE_REASON "Python is required")
 332 elseif (NOT SPHINX_FOUND)
 333     # Hardly anything gets built if Sphinx is not available, so don't bother.
 334     set(HTML_BUILD_IS_POSSIBLE OFF)
 335     set(HTML_BUILD_NOT_POSSIBLE_REASON "Sphinx version ${EXPECTED_SPHINX_VERSION} is required")
 336 endif()
 337 if (NOT MANUAL_BUILD_IS_POSSIBLE)
 338     list(APPEND HTML_BUILD_WARNINGS
 339          "Reference PDF manual was not built, so links to it do not work")
 340 endif()
 341 if (NOT DOXYGEN_EXECUTABLE)
 342     list(APPEND HTML_BUILD_WARNINGS
 343         "Doxygen was not available, so links to Doxygen do not work")
 344 endif()
 345 if (NOT DOXYGEN_DOT_EXECUTABLE)
 346     list(APPEND HTML_BUILD_WARNINGS
 347         "dot/graphviz was not found, so some graphs are missing")
 348 endif()
 349
 350 if (HTML_BUILD_IS_POSSIBLE)
 351     set(_webpage_target_properties)
 352     if (HTML_BUILD_WARNINGS)
 353         list(APPEND _webpage_target_properties
 354              COMMAND ${CMAKE_COMMAND} -E echo
 355                  "webpage was built, but with the following limitations:")
 356         foreach(_warning ${HTML_BUILD_WARNINGS})
 357         list(APPEND _webpage_target_properties
 358              COMMAND ${CMAKE_COMMAND} -E echo " - ${_warning}")
 359         endforeach()
 360     endif()
 361
 362     if (MANUAL_BUILD_IS_POSSIBLE)
 363         # Make the PDF reference guide
 364         # TODO Try to make the PDF arrive directly in ${HTML_OUTPUT_DIR}
 365         # TODO Make this depend on the output of the manual build, so that the
 366         # file actually gets copied multiple times.
 367         set(_manual_target_location ${HTML_OUTPUT_DIR}/manual-${GMX_VERSION_STRING}.pdf)
 368         add_custom_command(
 369             OUTPUT ${_manual_target_location}
 370             COMMAND ${CMAKE_COMMAND}
 371                 -E remove -f ${_manual_target_location}
 372             COMMAND ${CMAKE_COMMAND}
 373                 -E copy ${CMAKE_CURRENT_BINARY_DIR}/manual/gromacs.pdf ${_manual_target_location}
 374             DEPENDS manual
 375             VERBATIM)
 376         list(APPEND _webpage_target_properties
 377              DEPENDS ${_manual_target_location})
 378     endif()
 379
 380     # The Doxygen configuration in doxygen/Doxyfile-common.cmakein
 381     # makes all the Doxygen output directly in
 382     # ${HTML_OUTPUT_DIR}/doxygen (and makes the directory if it needs
 383     # to).
 384
 385     # Add a top-level target that builds everything related to the webpage,
 386     # for Jenkins (and possibly others) to use
 387     add_custom_target(webpage ${_webpage_target_properties}
 388         COMMENT "Building webpage"
 389         VERBATIM)
 390     add_dependencies(webpage webpage-sphinx doxygen-all)
 391 else()
 392     add_custom_target(webpage
 393         COMMAND ${CMAKE_COMMAND} -E echo
 394             "Cannot build webpage because ${HTML_BUILD_NOT_POSSIBLE_REASON}"
 395         COMMENT "Webpage build not possible"
 396         VERBATIM)
 397 endif()