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ExternalData: Format module documentation
Manually revise the .rst format of the documentation. Use inline literal quotes appropriately in paragraph text. Move the :: literal block openers to the end of the preceding paragraphs. Convert the command signature documentation and examples to cmake code-block directives.
This commit is contained in:
Brad King
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# Use this module to unambiguously reference data files stored outside
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# the source tree and fetch them at build time from arbitrary local and
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# remote content-addressed locations. Functions provided by this module
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# recognize arguments with the syntax "DATA{<name>}" as references to
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# recognize arguments with the syntax ``DATA{<name>}`` as references to
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# external data, replace them with full paths to local copies of those
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# data, and create build rules to fetch and update the local copies.
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#
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# The DATA{} syntax is literal and the <name> is a full or relative path
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# The ``DATA{}`` syntax is literal and the ``<name>`` is a full or relative path
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# within the source tree. The source tree must contain either a real
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# data file at <name> or a "content link" at <name><ext> containing a
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# hash of the real file using a hash algorithm corresponding to <ext>.
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# For example, the argument "DATA{img.png}" may be satisfied by either a
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# real "img.png" file in the current source directory or a "img.png.md5"
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# data file at ``<name>`` or a "content link" at ``<name><ext>`` containing a
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# hash of the real file using a hash algorithm corresponding to ``<ext>``.
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# For example, the argument ``DATA{img.png}`` may be satisfied by either a
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# real ``img.png`` file in the current source directory or a ``img.png.md5``
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# file containing its MD5 sum.
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#
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# The 'ExternalData_Expand_Arguments' function evaluates DATA{}
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# The ``ExternalData_Expand_Arguments`` function evaluates ``DATA{}``
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# references in its arguments and constructs a new list of arguments:
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#
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# ::
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# .. code-block:: cmake
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#
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# ExternalData_Expand_Arguments(
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# <target> # Name of data management target
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# <outVar> # Output variable
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# [args...] # Input arguments, DATA{} allowed
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# )
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# ExternalData_Expand_Arguments(
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# <target> # Name of data management target
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# <outVar> # Output variable
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# [args...] # Input arguments, DATA{} allowed
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# )
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#
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# It replaces each DATA{} reference in an argument with the full path of
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# a real data file on disk that will exist after the <target> builds.
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# It replaces each ``DATA{}`` reference in an argument with the full path of
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# a real data file on disk that will exist after the ``<target>`` builds.
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#
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# The 'ExternalData_Add_Test' function wraps around the CMake add_test()
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# command but supports DATA{} references in its arguments:
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# The ``ExternalData_Add_Test`` function wraps around the CMake
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# :command:`add_test` command but supports ``DATA{}`` references in
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# its arguments:
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#
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# ::
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# .. code-block:: cmake
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#
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# ExternalData_Add_Test(
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# <target> # Name of data management target
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# ... # Arguments of add_test(), DATA{} allowed
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# )
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# ExternalData_Add_Test(
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# <target> # Name of data management target
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# ... # Arguments of add_test(), DATA{} allowed
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# )
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#
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# It passes its arguments through ExternalData_Expand_Arguments and then
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# invokes add_test() using the results.
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# It passes its arguments through ``ExternalData_Expand_Arguments`` and then
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# invokes the :command:`add_test` command using the results.
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#
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# The 'ExternalData_Add_Target' function creates a custom target to
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# The ``ExternalData_Add_Target`` function creates a custom target to
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# manage local instances of data files stored externally:
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#
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# ::
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# .. code-block:: cmake
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#
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# ExternalData_Add_Target(
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# <target> # Name of data management target
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# )
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# ExternalData_Add_Target(
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# <target> # Name of data management target
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# )
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#
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# It creates custom commands in the target as necessary to make data
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# files available for each DATA{} reference previously evaluated by
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# files available for each ``DATA{}`` reference previously evaluated by
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# other functions provided by this module. A list of URL templates must
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# be provided in the variable ExternalData_URL_TEMPLATES using the
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# placeholders "%(algo)" and "%(hash)" in each template. Data fetch
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# be provided in the variable ``ExternalData_URL_TEMPLATES`` using the
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# placeholders ``%(algo)`` and ``%(hash)`` in each template. Data fetch
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# rules try each URL template in order by substituting the hash
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# algorithm name for "%(algo)" and the hash value for "%(hash)".
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# algorithm name for ``%(algo)`` and the hash value for ``%(hash)``.
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#
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# The following hash algorithms are supported:
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# The following hash algorithms are supported::
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#
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# ::
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#
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# %(algo) <ext> Description
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# ------- ----- -----------
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# MD5 .md5 Message-Digest Algorithm 5, RFC 1321
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# SHA1 .sha1 US Secure Hash Algorithm 1, RFC 3174
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# SHA224 .sha224 US Secure Hash Algorithms, RFC 4634
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# SHA256 .sha256 US Secure Hash Algorithms, RFC 4634
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# SHA384 .sha384 US Secure Hash Algorithms, RFC 4634
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# SHA512 .sha512 US Secure Hash Algorithms, RFC 4634
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# %(algo) <ext> Description
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# ------- ----- -----------
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# MD5 .md5 Message-Digest Algorithm 5, RFC 1321
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# SHA1 .sha1 US Secure Hash Algorithm 1, RFC 3174
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# SHA224 .sha224 US Secure Hash Algorithms, RFC 4634
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# SHA256 .sha256 US Secure Hash Algorithms, RFC 4634
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# SHA384 .sha384 US Secure Hash Algorithms, RFC 4634
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# SHA512 .sha512 US Secure Hash Algorithms, RFC 4634
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#
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# Note that the hashes are used only for unique data identification and
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# download verification. This is not security software.
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#
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# Example usage:
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#
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# ::
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# .. code-block:: cmake
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#
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# include(ExternalData)
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# set(ExternalData_URL_TEMPLATES "file:///local/%(algo)/%(hash)"
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# "http://data.org/%(algo)/%(hash)")
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# ExternalData_Add_Test(MyData
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# NAME MyTest
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# COMMAND MyExe DATA{MyInput.png}
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# )
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# ExternalData_Add_Target(MyData)
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# include(ExternalData)
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# set(ExternalData_URL_TEMPLATES "file:///local/%(algo)/%(hash)"
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# "http://data.org/%(algo)/%(hash)")
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# ExternalData_Add_Test(MyData
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# NAME MyTest
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# COMMAND MyExe DATA{MyInput.png}
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# )
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# ExternalData_Add_Target(MyData)
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#
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# When test "MyTest" runs the "DATA{MyInput.png}" argument will be
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# When test ``MyTest`` runs the ``DATA{MyInput.png}`` argument will be
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# replaced by the full path to a real instance of the data file
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# "MyInput.png" on disk. If the source tree contains a content link
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# such as "MyInput.png.md5" then the "MyData" target creates a real
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# "MyInput.png" in the build tree.
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# ``MyInput.png`` on disk. If the source tree contains a content link
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# such as ``MyInput.png.md5`` then the ``MyData`` target creates a real
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# ``MyInput.png`` in the build tree.
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#
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# The DATA{} syntax can be told to fetch a file series using the form
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# "DATA{<name>,:}", where the ":" is literal. If the source tree
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# The ``DATA{}`` syntax can be told to fetch a file series using the form
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# ``DATA{<name>,:}``, where the ``:`` is literal. If the source tree
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# contains a group of files or content links named like a series then a
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# reference to one member adds rules to fetch all of them. Although all
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# members of a series are fetched, only the file originally named by the
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# DATA{} argument is substituted for it. The default configuration
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# recognizes file series names ending with "#.ext", "_#.ext", ".#.ext",
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# or "-#.ext" where "#" is a sequence of decimal digits and ".ext" is
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# any single extension. Configure it with a regex that parses <number>
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# and <suffix> parts from the end of <name>:
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# ``DATA{}`` argument is substituted for it. The default configuration
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# recognizes file series names ending with ``#.ext``, ``_#.ext``, ``.#.ext``,
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# or ``-#.ext`` where ``#`` is a sequence of decimal digits and ``.ext`` is
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# any single extension. Configure it with a regex that parses ``<number>``
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# and ``<suffix>`` parts from the end of ``<name>``::
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#
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# ::
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# ExternalData_SERIES_PARSE = regex of the form (<number>)(<suffix>)$
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#
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# ExternalData_SERIES_PARSE = regex of the form (<number>)(<suffix>)$
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# For more complicated cases set::
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#
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# For more complicated cases set:
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#
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# ::
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#
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# ExternalData_SERIES_PARSE = regex with at least two () groups
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# ExternalData_SERIES_PARSE_PREFIX = <prefix> regex group number, if any
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# ExternalData_SERIES_PARSE_NUMBER = <number> regex group number
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# ExternalData_SERIES_PARSE_SUFFIX = <suffix> regex group number
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# ExternalData_SERIES_PARSE = regex with at least two () groups
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# ExternalData_SERIES_PARSE_PREFIX = <prefix> regex group number, if any
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# ExternalData_SERIES_PARSE_NUMBER = <number> regex group number
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# ExternalData_SERIES_PARSE_SUFFIX = <suffix> regex group number
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#
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# Configure series number matching with a regex that matches the
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# <number> part of series members named <prefix><number><suffix>:
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# ``<number>`` part of series members named ``<prefix><number><suffix>``::
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#
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# ::
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# ExternalData_SERIES_MATCH = regex matching <number> in all series members
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#
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# ExternalData_SERIES_MATCH = regex matching <number> in all series members
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#
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# Note that the <suffix> of a series does not include a hash-algorithm
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# Note that the ``<suffix>`` of a series does not include a hash-algorithm
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# extension.
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#
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# The DATA{} syntax can alternatively match files associated with the
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# The ``DATA{}`` syntax can alternatively match files associated with the
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# named file and contained in the same directory. Associated files may
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# be specified by options using the syntax
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# DATA{<name>,<opt1>,<opt2>,...}. Each option may specify one file by
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# ``DATA{<name>,<opt1>,<opt2>,...}``. Each option may specify one file by
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# name or specify a regular expression to match file names using the
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# syntax REGEX:<regex>. For example, the arguments
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# syntax ``REGEX:<regex>``. For example, the arguments::
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#
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# ::
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# DATA{MyData/MyInput.mhd,MyInput.img} # File pair
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# DATA{MyData/MyFrames00.png,REGEX:MyFrames[0-9]+\\.png} # Series
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#
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# DATA{MyData/MyInput.mhd,MyInput.img} # File pair
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# DATA{MyData/MyFrames00.png,REGEX:MyFrames[0-9]+\\.png} # Series
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#
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# will pass MyInput.mha and MyFrames00.png on the command line but
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# will pass ``MyInput.mha`` and ``MyFrames00.png`` on the command line but
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# ensure that the associated files are present next to them.
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#
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# The DATA{} syntax may reference a directory using a trailing slash and
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# a list of associated files. The form DATA{<name>/,<opt1>,<opt2>,...}
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# The ``DATA{}`` syntax may reference a directory using a trailing slash and
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# a list of associated files. The form ``DATA{<name>/,<opt1>,<opt2>,...}``
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# adds rules to fetch any files in the directory that match one of the
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# associated file options. For example, the argument
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# DATA{MyDataDir/,REGEX:.*} will pass the full path to a MyDataDir
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# ``DATA{MyDataDir/,REGEX:.*}`` will pass the full path to a ``MyDataDir``
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# directory on the command line and ensure that the directory contains
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# files corresponding to every file or content link in the MyDataDir
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# files corresponding to every file or content link in the ``MyDataDir``
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# source directory.
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#
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# The variable ExternalData_LINK_CONTENT may be set to the name of a
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# The variable ``ExternalData_LINK_CONTENT`` may be set to the name of a
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# supported hash algorithm to enable automatic conversion of real data
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# files referenced by the DATA{} syntax into content links. For each
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# such <file> a content link named "<file><ext>" is created. The
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# original file is renamed to the form ".ExternalData_<algo>_<hash>" to
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# files referenced by the ``DATA{}`` syntax into content links. For each
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# such ``<file>`` a content link named ``<file><ext>`` is created. The
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# original file is renamed to the form ``.ExternalData_<algo>_<hash>`` to
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# stage it for future transmission to one of the locations in the list
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# of URL templates (by means outside the scope of this module). The
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# data fetch rule created for the content link will use the staged
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# object if it cannot be found using any URL template.
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#
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# The variable ExternalData_OBJECT_STORES may be set to a list of local
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# directories that store objects using the layout <dir>/%(algo)/%(hash).
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# The variable ``ExternalData_OBJECT_STORES`` may be set to a list of local
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# directories that store objects using the layout ``<dir>/%(algo)/%(hash)``.
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# These directories will be searched first for a needed object. If the
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# object is not available in any store then it will be fetched remotely
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# using the URL templates and added to the first local store listed. If
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# no stores are specified the default is a location inside the build
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# tree.
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#
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# The variable ExternalData_SOURCE_ROOT may be set to the highest source
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# directory containing any path named by a DATA{} reference. The
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# default is CMAKE_SOURCE_DIR. ExternalData_SOURCE_ROOT and
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# CMAKE_SOURCE_DIR must refer to directories within a single source
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# The variable ``ExternalData_SOURCE_ROOT`` may be set to the highest source
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# directory containing any path named by a ``DATA{}`` reference. The
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# default is ``CMAKE_SOURCE_DIR``. ``ExternalData_SOURCE_ROOT`` and
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# ``CMAKE_SOURCE_DIR`` must refer to directories within a single source
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# distribution (e.g. they come together in one tarball).
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#
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# The variable ExternalData_BINARY_ROOT may be set to the directory to
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# hold the real data files named by expanded DATA{} references. The
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# default is CMAKE_BINARY_DIR. The directory layout will mirror that of
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# content links under ExternalData_SOURCE_ROOT.
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# The variable ``ExternalData_BINARY_ROOT`` may be set to the directory to
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# hold the real data files named by expanded ``DATA{}`` references. The
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# default is ``CMAKE_BINARY_DIR``. The directory layout will mirror that of
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# content links under ``ExternalData_SOURCE_ROOT``.
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#
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# Variables ExternalData_TIMEOUT_INACTIVITY and
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# ExternalData_TIMEOUT_ABSOLUTE set the download inactivity and absolute
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# Variables ``ExternalData_TIMEOUT_INACTIVITY`` and
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# ``ExternalData_TIMEOUT_ABSOLUTE`` set the download inactivity and absolute
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# timeouts, in seconds. The defaults are 60 seconds and 300 seconds,
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# respectively. Set either timeout to 0 seconds to disable enforcement.
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