Remove most unused options which are defaulted #2998 (#3046)

* Remove most unused options which are defaulted #2998

* Correct doxygen predefined list

* Correct doxygen list of predefineds

17 files changed, 30 insertions, 923 deletions

diff --git a/configure.ac b/configure.ac
index 28afd64..e1ef78b 100644
--- a/configure.ac
+++ b/configure.ac
@@ -1237,9 +1237,11 @@ if test "X$HDF5_DOXYGEN" = "Xyes"; then
   DOXYGEN_PACKAGE=${PACKAGE_NAME}
   DOXYGEN_VERSION_STRING=${PACKAGE_VERSION}
   DOXYGEN_DIR='$(SRCDIR)/doxygen'
+  DOXYGEN_INCLUDE_ALIASES_PATH='$(SRCDIR)/doxygen'
   DOXYGEN_INCLUDE_ALIASES='$(SRCDIR)/doxygen/aliases'
+  DOXYGEN_VERBATIM_VARS='DOXYGEN_INCLUDE_ALIASES'
   DOXYGEN_PROJECT_LOGO='$(SRCDIR)/doxygen/img/HDFG-logo.png'
-  DOXYGEN_PROJECT_BRIEF=''
+  DOXYGEN_PROJECT_BRIEF='API Reference'
   DOXYGEN_INPUT_DIRECTORY='$(SRCDIR) $(SRCDIR)/doxygen/dox'
   DOXYGEN_OPTIMIZE_OUTPUT_FOR_C=YES
   DOXYGEN_MACRO_EXPANSION=YES
@@ -1256,7 +1258,7 @@ if test "X$HDF5_DOXYGEN" = "Xyes"; then
   DOXYGEN_SEARCHENGINE_URL=
   DOXYGEN_STRIP_FROM_PATH='$(SRCDIR)'
   DOXYGEN_STRIP_FROM_INC_PATH='$(SRCDIR)'
-  DOXYGEN_PREDEFINED='H5_HAVE_DIRECT H5_HAVE_LIBHDFS H5_HAVE_MAP_API H5_HAVE_PARALLEL H5_HAVE_ROS3_VFD H5_DOXYGEN_FORTRAN'
+  DOXYGEN_PREDEFINED='H5_HAVE_DIRECT H5_HAVE_LIBHDFS H5_HAVE_MAP_API H5_HAVE_PARALLEL H5_HAVE_ROS3_VFD H5_DOXYGEN_FORTRAN H5_HAVE_MIRROR_VFD'
 
   DX_INIT_DOXYGEN([HDF5], [./doxygen/Doxyfile], [hdf5lib_docs])
 fi
diff --git a/doxygen/CMakeLists.txt b/doxygen/CMakeLists.txt
index fda7e7d..aa241fb 100644
--- a/doxygen/CMakeLists.txt
+++ b/doxygen/CMakeLists.txt
@@ -29,7 +29,7 @@ if (DOXYGEN_FOUND)
   set (DOXYGEN_SEARCHENGINE_URL)
   set (DOXYGEN_STRIP_FROM_PATH ${HDF5_SOURCE_DIR})
   set (DOXYGEN_STRIP_FROM_INC_PATH ${HDF5_SOURCE_DIR})
-  set (DOXYGEN_PREDEFINED "H5_HAVE_DIRECT H5_HAVE_LIBHDFS H5_HAVE_MAP_API H5_HAVE_PARALLEL H5_HAVE_ROS3_VFD H5_DOXYGEN_FORTRAN")
+  set (DOXYGEN_PREDEFINED "H5_HAVE_DIRECT H5_HAVE_LIBHDFS H5_HAVE_MAP_API H5_HAVE_PARALLEL H5_HAVE_ROS3_VFD H5_DOXYGEN_FORTRAN H5_HAVE_MIRROR_VFD")
 
 # This configure and individual custom targets work together
   # Replace variables inside @@ with the current values
diff --git a/doxygen/Doxyfile.in b/doxygen/Doxyfile.in
index d9b0fe9..66e4826 100644
--- a/doxygen/Doxyfile.in
+++ b/doxygen/Doxyfile.in
@@ -60,16 +60,6 @@ PROJECT_LOGO           = @DOXYGEN_PROJECT_LOGO@
 
 OUTPUT_DIRECTORY       = @DOXYGEN_OUTPUT_DIRECTORY@
 
-# If the CREATE_SUBDIRS tag is set to YES then doxygen will create 4096 sub-
-# directories (in 2 levels) under the output directory of each output format and
-# will distribute the generated files over these directories. Enabling this
-# option can be useful when feeding doxygen a huge amount of source files, where
-# putting all generated files in the same directory would otherwise causes
-# performance problems for the file system.
-# The default value is: NO.
-
-CREATE_SUBDIRS         = NO
-
 # If the ALLOW_UNICODE_NAMES tag is set to YES, doxygen will allow non-ASCII
 # characters to appear in the names of generated files. If set to NO, non-ASCII
 # characters will be escaped, for example _xE3_x81_x84 will be used for Unicode
@@ -93,30 +83,6 @@ ALLOW_UNICODE_NAMES    = NO
 
 OUTPUT_LANGUAGE        = English
 
-# The OUTPUT_TEXT_DIRECTION tag is used to specify the direction in which all
-# documentation generated by doxygen is written. Doxygen will use this
-# information to generate all generated output in the proper direction.
-# Possible values are: None, LTR, RTL and Context.
-# The default value is: None.
-
-OUTPUT_TEXT_DIRECTION  = None
-
-# If the BRIEF_MEMBER_DESC tag is set to YES, doxygen will include brief member
-# descriptions after the members that are listed in the file and class
-# documentation (similar to Javadoc). Set to NO to disable this.
-# The default value is: YES.
-
-BRIEF_MEMBER_DESC      = YES
-
-# If the REPEAT_BRIEF tag is set to YES, doxygen will prepend the brief
-# description of a member or function before the detailed description
-#
-# Note: If both HIDE_UNDOC_MEMBERS and BRIEF_MEMBER_DESC are set to NO, the
-# brief descriptions will be completely suppressed.
-# The default value is: YES.
-
-REPEAT_BRIEF           = YES
-
 # This tag implements a quasi-intelligent brief description abbreviator that is
 # used to form the text in various listings. Each string in this list, if found
 # as the leading text of the brief description, will be stripped from the text
@@ -138,21 +104,6 @@ ABBREVIATE_BRIEF       = "The $name class" \
                          an \
                          the
 
-# If the ALWAYS_DETAILED_SEC and REPEAT_BRIEF tags are both set to YES then
-# doxygen will generate a detailed section even if there is only a brief
-# description.
-# The default value is: NO.
-
-ALWAYS_DETAILED_SEC    = NO
-
-# If the INLINE_INHERITED_MEMB tag is set to YES, doxygen will show all
-# inherited members of a class in the documentation of that class as if those
-# members were ordinary class members. Constructors, destructors and assignment
-# operators of the base classes will not be shown.
-# The default value is: NO.
-
-INLINE_INHERITED_MEMB  = NO
-
 # If the FULL_PATH_NAMES tag is set to YES, doxygen will prepend the full path
 # before files name in the file list and in the header files. If set to NO the
 # shortest path that makes the file name unique will be used
@@ -181,40 +132,6 @@ STRIP_FROM_PATH        = @DOXYGEN_STRIP_FROM_PATH@
 
 STRIP_FROM_INC_PATH    = @DOXYGEN_STRIP_FROM_INC_PATH@
 
-# If the SHORT_NAMES tag is set to YES, doxygen will generate much shorter (but
-# less readable) file names. This can be useful is your file systems doesn't
-# support long names like on DOS, Mac, or CD-ROM.
-# The default value is: NO.
-
-SHORT_NAMES            = NO
-
-# If the JAVADOC_AUTOBRIEF tag is set to YES then doxygen will interpret the
-# first line (until the first dot) of a Javadoc-style comment as the brief
-# description. If set to NO, the Javadoc-style will behave just like regular Qt-
-# style comments (thus requiring an explicit @brief command for a brief
-# description.)
-# The default value is: NO.
-
-JAVADOC_AUTOBRIEF      = NO
-
-# If the JAVADOC_BANNER tag is set to YES then doxygen will interpret a line
-# such as
-# /***************
-# as being the beginning of a Javadoc-style comment "banner". If set to NO, the
-# Javadoc-style will behave just like regular comments and it will not be
-# interpreted by doxygen.
-# The default value is: NO.
-
-JAVADOC_BANNER         = NO
-
-# If the QT_AUTOBRIEF tag is set to YES then doxygen will interpret the first
-# line (until the first dot) of a Qt-style comment as the brief description. If
-# set to NO, the Qt-style will behave just like regular Qt-style comments (thus
-# requiring an explicit \brief command for a brief description.)
-# The default value is: NO.
-
-QT_AUTOBRIEF           = NO
-
 # The MULTILINE_CPP_IS_BRIEF tag can be set to YES to make doxygen treat a
 # multi-line C++ special comment block (i.e. a block of //! or /// comments) as
 # a brief description. This used to be the default behavior. The new default is
@@ -227,19 +144,6 @@ QT_AUTOBRIEF           = NO
 
 MULTILINE_CPP_IS_BRIEF = NO
 
-# If the INHERIT_DOCS tag is set to YES then an undocumented member inherits the
-# documentation from any documented member that it re-implements.
-# The default value is: YES.
-
-INHERIT_DOCS           = YES
-
-# If the SEPARATE_MEMBER_PAGES tag is set to YES then doxygen will produce a new
-# page for each member. If set to NO, the documentation of a member will be part
-# of the file/class/namespace that contains it.
-# The default value is: NO.
-
-SEPARATE_MEMBER_PAGES  = NO
-
 # The TAB_SIZE tag can be used to set the number of spaces in a tab. Doxygen
 # uses this value to replace tabs by spaces in code fragments.
 # Minimum value: 1, maximum value: 16, default value: 4.
@@ -288,20 +192,6 @@ OPTIMIZE_OUTPUT_JAVA   = YES
 
 OPTIMIZE_FOR_FORTRAN   = YES
 
-# Set the OPTIMIZE_OUTPUT_VHDL tag to YES if your project consists of VHDL
-# sources. Doxygen will then generate output that is tailored for VHDL.
-# The default value is: NO.
-
-OPTIMIZE_OUTPUT_VHDL   = NO
-
-# Set the OPTIMIZE_OUTPUT_SLICE tag to YES if your project consists of Slice
-# sources only. Doxygen will then generate output that is more tailored for that
-# language. For instance, namespaces will be presented as modules, types will be
-# separated into more groups, etc.
-# The default value is: NO.
-
-OPTIMIZE_OUTPUT_SLICE  = NO
-
 # Doxygen selects the parser to use depending on the extension of the files it
 # parses. With this tag you can assign which parser to use for a given
 # extension. Doxygen has a built-in mapping, but you can override or extend it
@@ -349,48 +239,6 @@ TOC_INCLUDE_HEADINGS   = 5
 
 AUTOLINK_SUPPORT       = YES
 
-# If you use STL classes (i.e. std::string, std::vector, etc.) but do not want
-# to include (a tag file for) the STL sources as input, then you should set this
-# tag to YES in order to let doxygen match functions declarations and
-# definitions whose arguments contain STL classes (e.g. func(std::string);
-# versus func(std::string) {}). This also make the inheritance and collaboration
-# diagrams that involve STL classes more complete and accurate.
-# The default value is: NO.
-
-BUILTIN_STL_SUPPORT    = NO
-
-# If you use Microsoft's C++/CLI language, you should set this option to YES to
-# enable parsing support.
-# The default value is: NO.
-
-CPP_CLI_SUPPORT        = NO
-
-# Set the SIP_SUPPORT tag to YES if your project consists of sip (see:
-# https://www.riverbankcomputing.com/software/sip/intro) sources only. Doxygen
-# will parse them like normal C++ but will assume all classes use public instead
-# of private inheritance when no explicit protection keyword is present.
-# The default value is: NO.
-
-SIP_SUPPORT            = NO
-
-# For Microsoft's IDL there are propget and propput attributes to indicate
-# getter and setter methods for a property. Setting this option to YES will make
-# doxygen to replace the get and set methods by a property in the documentation.
-# This will only work if the methods are indeed getting or setting a simple
-# type. If this is not the case, or you want to show the methods anyway, you
-# should set this option to NO.
-# The default value is: YES.
-
-IDL_PROPERTY_SUPPORT   = YES
-
-# If member grouping is used in the documentation and the DISTRIBUTE_GROUP_DOC
-# tag is set to YES then doxygen will reuse the documentation of the first
-# member in the group (if any) for the other members of the group. By default
-# all members of a group must be documented explicitly.
-# The default value is: NO.
-
-DISTRIBUTE_GROUP_DOC   = NO
-
 # If one adds a struct or class to a group and this option is enabled, then also
 # any nested class or struct is added to the same group. By default this option
 # is disabled and one has to add nested compounds explicitly via \ingroup.
@@ -740,27 +588,6 @@ FILE_VERSION_FILTER    =
 
 LAYOUT_FILE            = @DOXYGEN_LAYOUT_FILE@
 
-# The CITE_BIB_FILES tag can be used to specify one or more bib files containing
-# the reference definitions. This must be a list of .bib files. The .bib
-# extension is automatically appended if omitted. This requires the bibtex tool
-# to be installed. See also https://en.wikipedia.org/wiki/BibTeX for more info.
-# For LaTeX the style of the bibliography can be controlled using
-# LATEX_BIB_STYLE. To use this feature you need bibtex and perl available in the
-# search path. See also \cite for info how to create references.
-
-CITE_BIB_FILES         =
-
-#---------------------------------------------------------------------------
-# Configuration options related to warning and progress messages
-#---------------------------------------------------------------------------
-
-# The QUIET tag can be used to turn on/off the messages that are generated to
-# standard output by doxygen. If QUIET is set to YES this implies that the
-# messages are off.
-# The default value is: NO.
-
-QUIET                  = NO
-
 # The WARNINGS tag can be used to turn on/off the warning messages that are
 # generated to standard error (stderr) by doxygen. If WARNINGS is set to YES
 # this implies that the warnings are on.
@@ -1545,81 +1372,6 @@ EXT_LINKS_IN_WINDOW    = NO
 
 HTML_FORMULA_FORMAT    = png
 
-# Use this tag to change the font size of LaTeX formulas included as images in
-# the HTML documentation. When you change the font size after a successful
-# doxygen run you need to manually remove any form_*.png images from the HTML
-# output directory to force them to be regenerated.
-# Minimum value: 8, maximum value: 50, default value: 10.
-# This tag requires that the tag GENERATE_HTML is set to YES.
-
-FORMULA_FONTSIZE       = 10
-
-# Use the FORMULA_TRANSPARENT tag to determine whether or not the images
-# generated for formulas are transparent PNGs. Transparent PNGs are not
-# supported properly for IE 6.0, but are supported on all modern browsers.
-#
-# Note that when changing this option you need to delete any form_*.png files in
-# the HTML output directory before the changes have effect.
-# The default value is: YES.
-# This tag requires that the tag GENERATE_HTML is set to YES.
-
-FORMULA_TRANSPARENT    = YES
-
-# The FORMULA_MACROFILE can contain LaTeX \newcommand and \renewcommand commands
-# to create new LaTeX commands to be used in formulas as building blocks. See
-# the section "Including formulas" for details.
-
-FORMULA_MACROFILE      =
-
-# Enable the USE_MATHJAX option to render LaTeX formulas using MathJax (see
-# https://www.mathjax.org) which uses client side JavaScript for the rendering
-# instead of using pre-rendered bitmaps. Use this if you do not have LaTeX
-# installed or if you want to formulas look prettier in the HTML output. When
-# enabled you may also need to install MathJax separately and configure the path
-# to it using the MATHJAX_RELPATH option.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_HTML is set to YES.
-
-USE_MATHJAX            = NO
-
-# When MathJax is enabled you can set the default output format to be used for
-# the MathJax output. See the MathJax site (see:
-# http://docs.mathjax.org/en/latest/output.html) for more details.
-# Possible values are: HTML-CSS (which is slower, but has the best
-# compatibility), NativeMML (i.e. MathML) and SVG.
-# The default value is: HTML-CSS.
-# This tag requires that the tag USE_MATHJAX is set to YES.
-
-MATHJAX_FORMAT         = HTML-CSS
-
-# When MathJax is enabled you need to specify the location relative to the HTML
-# output directory using the MATHJAX_RELPATH option. The destination directory
-# should contain the MathJax.js script. For instance, if the mathjax directory
-# is located at the same level as the HTML output directory, then
-# MATHJAX_RELPATH should be ../mathjax. The default value points to the MathJax
-# Content Delivery Network so you can quickly see the result without installing
-# MathJax. However, it is strongly recommended to install a local copy of
-# MathJax from https://www.mathjax.org before deployment.
-# The default value is: https://cdn.jsdelivr.net/npm/mathjax@2.
-# This tag requires that the tag USE_MATHJAX is set to YES.
-
-MATHJAX_RELPATH        = https://cdn.jsdelivr.net/npm/mathjax@2
-
-# The MATHJAX_EXTENSIONS tag can be used to specify one or more MathJax
-# extension names that should be enabled during MathJax rendering. For example
-# MATHJAX_EXTENSIONS = TeX/AMSmath TeX/AMSsymbols
-# This tag requires that the tag USE_MATHJAX is set to YES.
-
-MATHJAX_EXTENSIONS     =
-
-# The MATHJAX_CODEFILE tag can be used to specify a file with javascript pieces
-# of code that will be used on startup of the MathJax code. See the MathJax site
-# (see: http://docs.mathjax.org/en/latest/output.html) for more details. For an
-# example see the documentation.
-# This tag requires that the tag USE_MATHJAX is set to YES.
-
-MATHJAX_CODEFILE       =
-
 # When the SEARCHENGINE tag is enabled doxygen will generate a search box for
 # the HTML output. The underlying search engine uses javascript and DHTML and
 # should work on any modern browser. Note that when using HTML help
@@ -1715,188 +1467,6 @@ EXTRA_SEARCH_MAPPINGS  =
 
 GENERATE_LATEX         = NO
 
-# The LATEX_OUTPUT tag is used to specify where the LaTeX docs will be put. If a
-# relative path is entered the value of OUTPUT_DIRECTORY will be put in front of
-# it.
-# The default directory is: latex.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_OUTPUT           = latex
-
-# The LATEX_CMD_NAME tag can be used to specify the LaTeX command name to be
-# invoked.
-#
-# Note that when not enabling USE_PDFLATEX the default is latex when enabling
-# USE_PDFLATEX the default is pdflatex and when in the later case latex is
-# chosen this is overwritten by pdflatex. For specific output languages the
-# default can have been set differently, this depends on the implementation of
-# the output language.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_CMD_NAME         =
-
-# The MAKEINDEX_CMD_NAME tag can be used to specify the command name to generate
-# index for LaTeX.
-# Note: This tag is used in the Makefile / make.bat.
-# See also: LATEX_MAKEINDEX_CMD for the part in the generated output file
-# (.tex).
-# The default file is: makeindex.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-MAKEINDEX_CMD_NAME     = makeindex
-
-# The LATEX_MAKEINDEX_CMD tag can be used to specify the command name to
-# generate index for LaTeX. In case there is no backslash (\) as first character
-# it will be automatically added in the LaTeX code.
-# Note: This tag is used in the generated output file (.tex).
-# See also: MAKEINDEX_CMD_NAME for the part in the Makefile / make.bat.
-# The default value is: makeindex.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_MAKEINDEX_CMD    = makeindex
-
-# If the COMPACT_LATEX tag is set to YES, doxygen generates more compact LaTeX
-# documents. This may be useful for small projects and may help to save some
-# trees in general.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-COMPACT_LATEX          = NO
-
-# The PAPER_TYPE tag can be used to set the paper type that is used by the
-# printer.
-# Possible values are: a4 (210 x 297 mm), letter (8.5 x 11 inches), legal (8.5 x
-# 14 inches) and executive (7.25 x 10.5 inches).
-# The default value is: a4.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-PAPER_TYPE             = a4
-
-# The EXTRA_PACKAGES tag can be used to specify one or more LaTeX package names
-# that should be included in the LaTeX output. The package can be specified just
-# by its name or with the correct syntax as to be used with the LaTeX
-# \usepackage command. To get the times font for instance you can specify :
-# EXTRA_PACKAGES=times or EXTRA_PACKAGES={times}
-# To use the option intlimits with the amsmath package you can specify:
-# EXTRA_PACKAGES=[intlimits]{amsmath}
-# If left blank no extra packages will be included.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-EXTRA_PACKAGES         =
-
-# The LATEX_HEADER tag can be used to specify a personal LaTeX header for the
-# generated LaTeX document. The header should contain everything until the first
-# chapter. If it is left blank doxygen will generate a standard header. See
-# section "Doxygen usage" for information on how to let doxygen write the
-# default header to a separate file.
-#
-# Note: Only use a user-defined header if you know what you are doing! The
-# following commands have a special meaning inside the header: $title,
-# $datetime, $date, $doxygenversion, $projectname, $projectnumber,
-# $projectbrief, $projectlogo. Doxygen will replace $title with the empty
-# string, for the replacement values of the other commands the user is referred
-# to HTML_HEADER.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_HEADER           =
-
-# The LATEX_FOOTER tag can be used to specify a personal LaTeX footer for the
-# generated LaTeX document. The footer should contain everything after the last
-# chapter. If it is left blank doxygen will generate a standard footer. See
-# LATEX_HEADER for more information on how to generate a default footer and what
-# special commands can be used inside the footer.
-#
-# Note: Only use a user-defined footer if you know what you are doing!
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_FOOTER           =
-
-# The LATEX_EXTRA_STYLESHEET tag can be used to specify additional user-defined
-# LaTeX style sheets that are included after the standard style sheets created
-# by doxygen. Using this option one can overrule certain style aspects. Doxygen
-# will copy the style sheet files to the output directory.
-# Note: The order of the extra style sheet files is of importance (e.g. the last
-# style sheet in the list overrules the setting of the previous ones in the
-# list).
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_EXTRA_STYLESHEET =
-
-# The LATEX_EXTRA_FILES tag can be used to specify one or more extra images or
-# other source files which should be copied to the LATEX_OUTPUT output
-# directory. Note that the files will be copied as-is; there are no commands or
-# markers available.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_EXTRA_FILES      =
-
-# If the PDF_HYPERLINKS tag is set to YES, the LaTeX that is generated is
-# prepared for conversion to PDF (using ps2pdf or pdflatex). The PDF file will
-# contain links (just like the HTML output) instead of page references. This
-# makes the output suitable for online browsing using a PDF viewer.
-# The default value is: YES.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-PDF_HYPERLINKS         = YES
-
-# If the USE_PDFLATEX tag is set to YES, doxygen will use pdflatex to generate
-# the PDF file directly from the LaTeX files. Set this option to YES, to get a
-# higher quality PDF documentation.
-# The default value is: YES.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-USE_PDFLATEX           = YES
-
-# If the LATEX_BATCHMODE tag is set to YES, doxygen will add the \batchmode
-# command to the generated LaTeX files. This will instruct LaTeX to keep running
-# if errors occur, instead of asking the user for help. This option is also used
-# when generating formulas in HTML.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_BATCHMODE        = NO
-
-# If the LATEX_HIDE_INDICES tag is set to YES then doxygen will not include the
-# index chapters (such as File Index, Compound Index, etc.) in the output.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_HIDE_INDICES     = NO
-
-# If the LATEX_SOURCE_CODE tag 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.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_SOURCE_CODE      = NO
-
-# The LATEX_BIB_STYLE tag can be used to specify the style to use for the
-# bibliography, e.g. plainnat, or ieeetr. See
-# https://en.wikipedia.org/wiki/BibTeX and \cite for more info.
-# The default value is: plain.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_BIB_STYLE        = plain
-
-# If the LATEX_TIMESTAMP tag is set to YES then the footer of each generated
-# page will contain the date and time when the page was generated. Setting this
-# to NO can help when comparing the output of multiple runs.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_TIMESTAMP        = NO
-
-# The LATEX_EMOJI_DIRECTORY tag is used to specify the (relative or absolute)
-# path from which the emoji images will be read. If a relative path is entered,
-# it will be relative to the LATEX_OUTPUT directory. If left blank the
-# LATEX_OUTPUT directory will be used.
-# This tag requires that the tag GENERATE_LATEX is set to YES.
-
-LATEX_EMOJI_DIRECTORY  =
-
 #---------------------------------------------------------------------------
 # Configuration options related to the RTF output
 #---------------------------------------------------------------------------
@@ -1908,61 +1478,6 @@ LATEX_EMOJI_DIRECTORY  =
 
 GENERATE_RTF           = NO
 
-# The RTF_OUTPUT tag is used to specify where the RTF docs will be put. If a
-# relative path is entered the value of OUTPUT_DIRECTORY will be put in front of
-# it.
-# The default directory is: rtf.
-# This tag requires that the tag GENERATE_RTF is set to YES.
-
-RTF_OUTPUT             = rtf
-
-# If the COMPACT_RTF tag is set to YES, doxygen generates more compact RTF
-# documents. This may be useful for small projects and may help to save some
-# trees in general.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_RTF is set to YES.
-
-COMPACT_RTF            = NO
-
-# If the RTF_HYPERLINKS tag is set to YES, the RTF that is generated will
-# contain hyperlink fields. The RTF file will contain links (just like the HTML
-# output) instead of page references. This makes the output suitable for online
-# browsing using Word or some other Word compatible readers that support those
-# fields.
-#
-# Note: WordPad (write) and others do not support links.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_RTF is set to YES.
-
-RTF_HYPERLINKS         = NO
-
-# Load stylesheet definitions from file. Syntax is similar to doxygen's
-# configuration file, i.e. a series of assignments. You only have to provide
-# replacements, missing definitions are set to their default value.
-#
-# See also section "Doxygen usage" for information on how to generate the
-# default style sheet that doxygen normally uses.
-# This tag requires that the tag GENERATE_RTF is set to YES.
-
-RTF_STYLESHEET_FILE    =
-
-# Set optional variables used in the generation of an RTF document. Syntax is
-# similar to doxygen's configuration file. A template extensions file can be
-# generated using doxygen -e rtf extensionFile.
-# This tag requires that the tag GENERATE_RTF is set to YES.
-
-RTF_EXTENSIONS_FILE    =
-
-# If the RTF_SOURCE_CODE tag is set to YES then doxygen will include source code
-# with syntax highlighting in the RTF output.
-#
-# Note that which sources are shown also depends on other settings such as
-# SOURCE_BROWSER.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_RTF is set to YES.
-
-RTF_SOURCE_CODE        = NO
-
 #---------------------------------------------------------------------------
 # Configuration options related to the man page output
 #---------------------------------------------------------------------------
@@ -1973,40 +1488,6 @@ RTF_SOURCE_CODE        = NO
 
 GENERATE_MAN           = NO
 
-# The MAN_OUTPUT tag is used to specify where the man pages will be put. If a
-# relative path is entered the value of OUTPUT_DIRECTORY will be put in front of
-# it. A directory man3 will be created inside the directory specified by
-# MAN_OUTPUT.
-# The default directory is: man.
-# This tag requires that the tag GENERATE_MAN is set to YES.
-
-MAN_OUTPUT             = man
-
-# The MAN_EXTENSION tag determines the extension that is added to the generated
-# man pages. In case the manual section does not start with a number, the number
-# 3 is prepended. The dot (.) at the beginning of the MAN_EXTENSION tag is
-# optional.
-# The default value is: .3.
-# This tag requires that the tag GENERATE_MAN is set to YES.
-
-MAN_EXTENSION          = .3
-
-# The MAN_SUBDIR tag determines the name of the directory created within
-# MAN_OUTPUT in which the man pages are placed. If defaults to man followed by
-# MAN_EXTENSION with the initial . removed.
-# This tag requires that the tag GENERATE_MAN is set to YES.
-
-MAN_SUBDIR             =
-
-# If the MAN_LINKS tag is set to YES and doxygen generates man output, then it
-# will generate one additional man file for each entity documented in the real
-# man page(s). These additional files only source the real man page, but without
-# them the man command would be unable to find the correct page.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_MAN is set to YES.
-
-MAN_LINKS              = NO
-
 #---------------------------------------------------------------------------
 # Configuration options related to the XML output
 #---------------------------------------------------------------------------
@@ -2017,30 +1498,6 @@ MAN_LINKS              = NO
 
 GENERATE_XML           = NO
 
-# The XML_OUTPUT tag is used to specify where the XML pages will be put. If a
-# relative path is entered the value of OUTPUT_DIRECTORY will be put in front of
-# it.
-# The default directory is: xml.
-# This tag requires that the tag GENERATE_XML is set to YES.
-
-XML_OUTPUT             = xml
-
-# If the XML_PROGRAMLISTING tag is set to YES, doxygen will dump the program
-# listings (including syntax highlighting and cross-referencing information) to
-# the XML output. Note that enabling this will significantly increase the size
-# of the XML output.
-# The default value is: YES.
-# This tag requires that the tag GENERATE_XML is set to YES.
-
-XML_PROGRAMLISTING     = YES
-
-# If the XML_NS_MEMB_FILE_SCOPE tag is set to YES, doxygen will include
-# namespace members in file scope as well, matching the HTML output.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_XML is set to YES.
-
-XML_NS_MEMB_FILE_SCOPE = NO
-
 #---------------------------------------------------------------------------
 # Configuration options related to the DOCBOOK output
 #---------------------------------------------------------------------------
@@ -2051,23 +1508,6 @@ XML_NS_MEMB_FILE_SCOPE = NO
 
 GENERATE_DOCBOOK       = NO
 
-# The DOCBOOK_OUTPUT tag is used to specify where the Docbook pages will be put.
-# If a relative path is entered the value of OUTPUT_DIRECTORY will be put in
-# front of it.
-# The default directory is: docbook.
-# This tag requires that the tag GENERATE_DOCBOOK is set to YES.
-
-DOCBOOK_OUTPUT         = docbook
-
-# If the DOCBOOK_PROGRAMLISTING tag is set to YES, doxygen will include the
-# program listings (including syntax highlighting and cross-referencing
-# information) to the DOCBOOK output. Note that enabling this will significantly
-# increase the size of the DOCBOOK output.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_DOCBOOK is set to YES.
-
-DOCBOOK_PROGRAMLISTING = NO
-
 #---------------------------------------------------------------------------
 # Configuration options for the AutoGen Definitions output
 #---------------------------------------------------------------------------
@@ -2092,32 +1532,6 @@ GENERATE_AUTOGEN_DEF   = NO
 
 GENERATE_PERLMOD       = NO
 
-# If the PERLMOD_LATEX tag is set to YES, doxygen will generate the necessary
-# Makefile rules, Perl scripts and LaTeX code to be able to generate PDF and DVI
-# output from the Perl module output.
-# The default value is: NO.
-# This tag requires that the tag GENERATE_PERLMOD is set to YES.
-
-PERLMOD_LATEX          = NO
-
-# If the PERLMOD_PRETTY tag is set to YES, the Perl module output will be nicely
-# formatted so it can be parsed by a human reader. This is useful if you want to
-# understand what is going on. On the other hand, if this tag is set to NO, the
-# size of the Perl module output will be much smaller and Perl will parse it
-# just the same.
-# The default value is: YES.
-# This tag requires that the tag GENERATE_PERLMOD is set to YES.
-
-PERLMOD_PRETTY         = YES
-
-# The names of the make variables in the generated doxyrules.make file are
-# prefixed with the string contained in PERLMOD_MAKEVAR_PREFIX. This is useful
-# so different doxyrules.make files included by the same Makefile don't
-# overwrite each other's variables.
-# This tag requires that the tag GENERATE_PERLMOD is set to YES.
-
-PERLMOD_MAKEVAR_PREFIX =
-
 #---------------------------------------------------------------------------
 # Configuration options related to the preprocessor
 #---------------------------------------------------------------------------
@@ -2241,313 +1655,3 @@ EXTERNAL_GROUPS        = YES
 # The default value is: YES.
 
 EXTERNAL_PAGES         = YES
-
-#---------------------------------------------------------------------------
-# Configuration options related to the dot tool
-#---------------------------------------------------------------------------
-
-# If the CLASS_DIAGRAMS tag is set to YES, doxygen will generate a class diagram
-# (in HTML and LaTeX) for classes with base or super classes. Setting the tag to
-# NO turns the diagrams off. Note that this option also works with HAVE_DOT
-# disabled, but it is recommended to install and use dot, since it yields more
-# powerful graphs.
-# The default value is: YES.
-
-CLASS_DIAGRAMS         = YES
-
-# You can include diagrams made with dia in doxygen documentation. Doxygen will
-# then run dia to produce the diagram and insert it in the documentation. The
-# DIA_PATH tag allows you to specify the directory where the dia binary resides.
-# If left empty dia is assumed to be found in the default search path.
-
-DIA_PATH               =
-
-# If set to YES the inheritance and collaboration graphs will hide inheritance
-# and usage relations if the target is undocumented or is not a class.
-# The default value is: YES.
-
-HIDE_UNDOC_RELATIONS   = YES
-
-# If you set the HAVE_DOT tag to YES then doxygen will assume the dot tool is
-# available from the path. This tool is part of Graphviz (see:
-# http://www.graphviz.org/), a graph visualization toolkit from AT&T and Lucent
-# Bell Labs. The other options in this section have no effect if this option is
-# set to NO
-# The default value is: NO.
-
-HAVE_DOT               = NO
-
-# The DOT_NUM_THREADS specifies the number of dot invocations doxygen is allowed
-# to run in parallel. When set to 0 doxygen will base this on the number of
-# processors available in the system. You can set it explicitly to a value
-# larger than 0 to get control over the balance between CPU load and processing
-# speed.
-# Minimum value: 0, maximum value: 32, default value: 0.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_NUM_THREADS        = 0
-
-# When you want a differently looking font in the dot files that doxygen
-# generates you can specify the font name using DOT_FONTNAME. You need to make
-# sure dot is able to find the font, which can be done by putting it in a
-# standard location or by setting the DOTFONTPATH environment variable or by
-# setting DOT_FONTPATH to the directory containing the font.
-# The default value is: Helvetica.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_FONTNAME           = Helvetica
-
-# The DOT_FONTSIZE tag can be used to set the size (in points) of the font of
-# dot graphs.
-# Minimum value: 4, maximum value: 24, default value: 10.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_FONTSIZE           = 10
-
-# By default doxygen will tell dot to use the default font as specified with
-# DOT_FONTNAME. If you specify a different font using DOT_FONTNAME you can set
-# the path where dot can find it using this tag.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_FONTPATH           =
-
-# If the CLASS_GRAPH tag is set to YES then doxygen will generate a graph for
-# each documented class showing the direct and indirect inheritance relations.
-# Setting this tag to YES will force the CLASS_DIAGRAMS tag to NO.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-CLASS_GRAPH            = YES
-
-# If the COLLABORATION_GRAPH tag is set to YES then doxygen will generate a
-# graph for each documented class showing the direct and indirect implementation
-# dependencies (inheritance, containment, and class references variables) of the
-# class with other documented classes.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-COLLABORATION_GRAPH    = YES
-
-# If the GROUP_GRAPHS tag is set to YES then doxygen will generate a graph for
-# groups, showing the direct groups dependencies.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-GROUP_GRAPHS           = YES
-
-# If the UML_LOOK tag is set to YES, doxygen will generate inheritance and
-# collaboration diagrams in a style similar to the OMG's Unified Modeling
-# Language.
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-UML_LOOK               = NO
-
-# If the UML_LOOK tag is enabled, the fields and methods are shown inside the
-# class node. If there are many fields or methods and many nodes the graph may
-# become too big to be useful. The UML_LIMIT_NUM_FIELDS threshold limits the
-# number of items for each type to make the size more manageable. Set this to 0
-# for no limit. Note that the threshold may be exceeded by 50% before the limit
-# is enforced. So when you set the threshold to 10, up to 15 fields may appear,
-# but if the number exceeds 15, the total amount of fields shown is limited to
-# 10.
-# Minimum value: 0, maximum value: 100, default value: 10.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-UML_LIMIT_NUM_FIELDS   = 10
-
-# If the TEMPLATE_RELATIONS tag is set to YES then the inheritance and
-# collaboration graphs will show the relations between templates and their
-# instances.
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-TEMPLATE_RELATIONS     = NO
-
-# If the INCLUDE_GRAPH, ENABLE_PREPROCESSING and SEARCH_INCLUDES tags are set to
-# YES then doxygen will generate a graph for each documented file showing the
-# direct and indirect include dependencies of the file with other documented
-# files.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-INCLUDE_GRAPH          = YES
-
-# If the INCLUDED_BY_GRAPH, ENABLE_PREPROCESSING and SEARCH_INCLUDES tags are
-# set to YES then doxygen will generate a graph for each documented file showing
-# the direct and indirect include dependencies of the file with other documented
-# files.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-INCLUDED_BY_GRAPH      = YES
-
-# If the CALL_GRAPH tag is set to YES then doxygen will generate a call
-# dependency graph for every global function or class method.
-#
-# Note that enabling this option will significantly increase the time of a run.
-# So in most cases it will be better to enable call graphs for selected
-# functions only using the \callgraph command. Disabling a call graph can be
-# accomplished by means of the command \hidecallgraph.
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-CALL_GRAPH             = NO
-
-# If the CALLER_GRAPH tag is set to YES then doxygen will generate a caller
-# dependency graph for every global function or class method.
-#
-# Note that enabling this option will significantly increase the time of a run.
-# So in most cases it will be better to enable caller graphs for selected
-# functions only using the \callergraph command. Disabling a caller graph can be
-# accomplished by means of the command \hidecallergraph.
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-CALLER_GRAPH           = NO
-
-# If the GRAPHICAL_HIERARCHY tag is set to YES then doxygen will graphical
-# hierarchy of all classes instead of a textual one.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-GRAPHICAL_HIERARCHY    = YES
-
-# If the DIRECTORY_GRAPH tag is set to YES then doxygen will show the
-# dependencies a directory has on other directories in a graphical way. The
-# dependency relations are determined by the #include relations between the
-# files in the directories.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DIRECTORY_GRAPH        = YES
-
-# The DOT_IMAGE_FORMAT tag can be used to set the image format of the images
-# generated by dot. For an explanation of the image formats see the section
-# output formats in the documentation of the dot tool (Graphviz (see:
-# http://www.graphviz.org/)).
-# Note: If you choose svg you need to set HTML_FILE_EXTENSION to xhtml in order
-# to make the SVG files visible in IE 9+ (other browsers do not have this
-# requirement).
-# Possible values are: png, jpg, gif, svg, png:gd, png:gd:gd, png:cairo,
-# png:cairo:gd, png:cairo:cairo, png:cairo:gdiplus, png:gdiplus and
-# png:gdiplus:gdiplus.
-# The default value is: png.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_IMAGE_FORMAT       = png
-
-# If DOT_IMAGE_FORMAT is set to svg, then this option can be set to YES to
-# enable generation of interactive SVG images that allow zooming and panning.
-#
-# Note that this requires a modern browser other than Internet Explorer. Tested
-# and working are Firefox, Chrome, Safari, and Opera.
-# Note: For IE 9+ you need to set HTML_FILE_EXTENSION to xhtml in order to make
-# the SVG files visible. Older versions of IE do not have SVG support.
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-INTERACTIVE_SVG        = NO
-
-# The DOT_PATH tag can be used to specify the path where the dot tool can be
-# found. If left blank, it is assumed the dot tool can be found in the path.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_PATH               =
-
-# The DOTFILE_DIRS tag can be used to specify one or more directories that
-# contain dot files that are included in the documentation (see the \dotfile
-# command).
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOTFILE_DIRS           =
-
-# The MSCFILE_DIRS tag can be used to specify one or more directories that
-# contain msc files that are included in the documentation (see the \mscfile
-# command).
-
-MSCFILE_DIRS           =
-
-# The DIAFILE_DIRS tag can be used to specify one or more directories that
-# contain dia files that are included in the documentation (see the \diafile
-# command).
-
-DIAFILE_DIRS           =
-
-# When using plantuml, the PLANTUML_JAR_PATH tag should be used to specify the
-# path where java can find the plantuml.jar file. If left blank, it is assumed
-# PlantUML is not used or called during a preprocessing step. Doxygen will
-# generate a warning when it encounters a \startuml command in this case and
-# will not generate output for the diagram.
-
-PLANTUML_JAR_PATH      =
-
-# When using plantuml, the PLANTUML_CFG_FILE tag can be used to specify a
-# configuration file for plantuml.
-
-PLANTUML_CFG_FILE      =
-
-# When using plantuml, the specified paths are searched for files specified by
-# the !include statement in a plantuml block.
-
-PLANTUML_INCLUDE_PATH  =
-
-# The DOT_GRAPH_MAX_NODES tag can be used to set the maximum number of nodes
-# that will be shown in the graph. If the number of nodes in a graph becomes
-# larger than this value, doxygen will truncate the graph, which is visualized
-# by representing a node as a red box. Note that doxygen if the number of direct
-# children of the root node in a graph is already larger than
-# DOT_GRAPH_MAX_NODES then the graph will not be shown at all. Also note that
-# the size of a graph can be further restricted by MAX_DOT_GRAPH_DEPTH.
-# Minimum value: 0, maximum value: 10000, default value: 50.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_GRAPH_MAX_NODES    = 50
-
-# The MAX_DOT_GRAPH_DEPTH tag can be used to set the maximum depth of the graphs
-# generated by dot. A depth value of 3 means that only nodes reachable from the
-# root by following a path via at most 3 edges will be shown. Nodes that lay
-# further from the root node will be omitted. Note that setting this option to 1
-# or 2 may greatly reduce the computation time needed for large code bases. Also
-# note that the size of a graph can be further restricted by
-# DOT_GRAPH_MAX_NODES. Using a depth of 0 means no depth restriction.
-# Minimum value: 0, maximum value: 1000, default value: 0.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-MAX_DOT_GRAPH_DEPTH    = 0
-
-# Set the DOT_TRANSPARENT tag to YES to generate images with a transparent
-# background. This is disabled by default, because dot on Windows does not seem
-# to support this out of the box.
-#
-# Warning: Depending on the platform used, enabling this option may lead to
-# badly anti-aliased labels on the edges of a graph (i.e. they become hard to
-# read).
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_TRANSPARENT        = NO
-
-# Set the DOT_MULTI_TARGETS tag to YES to allow dot to generate multiple output
-# files in one run (i.e. multiple -o and -T options on the command line). This
-# makes dot run faster, but since only newer versions of dot (>1.8.10) support
-# this, this feature is disabled by default.
-# The default value is: NO.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_MULTI_TARGETS      = NO
-
-# If the GENERATE_LEGEND tag is set to YES doxygen will generate a legend page
-# explaining the meaning of the various boxes and arrows in the dot generated
-# graphs.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-GENERATE_LEGEND        = YES
-
-# If the DOT_CLEANUP tag is set to YES, doxygen will remove the intermediate dot
-# files that are used to generate the various graphs.
-# The default value is: YES.
-# This tag requires that the tag HAVE_DOT is set to YES.
-
-DOT_CLEANUP            = YES
diff --git a/doxygen/aliases b/doxygen/aliases
index dc79623..8e447d1 100644
--- a/doxygen/aliases
+++ b/doxygen/aliases
@@ -15,7 +15,7 @@ ALIASES += Code{1}="<tt>\1</tt>"
 ALIASES += success{1}="\Bold{Success:} \1"
 ALIASES += failure{1}="\Bold{Failure:} \1"
 
-ALIASES += herr_t="Returns a non-negative value if successful; otherwise returns a negative value."
+ALIASES += herr_t="Returns a non-negative value if successful; otherwise, returns a negative value."
 ALIASES += herr_t_iter="\li Zero causes the iterator to continue, returning zero when the iteration is complete. \li A positive value causes the iterator to immediately return that positive value, indicating short-circuit success. \li A negative value causes the iterator to immediately return that value, indicating failure."
 ALIASES += hid_t{1}="Returns a \1 identifier if successful; otherwise returns #H5I_INVALID_HID. "
 ALIASES += hid_ti{1}="Returns an \1 identifier if successful; otherwise returns #H5I_INVALID_HID. "
@@ -74,7 +74,7 @@ ALIASES += space_id="\param[in] space_id Dataspace identifier"
 ALIASES += space_id{1}="\param[in] \1 Dataspace identifier"
 
 ################################################################################
-# Dataypes
+# Datatypes
 ################################################################################
 
 ALIASES += type_id="\param[in] type_id Datatype identifier"
diff --git a/doxygen/dox/LearnBasics2.dox b/doxygen/dox/LearnBasics2.dox
index 6f94c7f..87bbe87 100644
--- a/doxygen/dox/LearnBasics2.dox
+++ b/doxygen/dox/LearnBasics2.dox
@@ -788,7 +788,7 @@ The function #H5Tarray_create creates a new array datatype object. Parameters sp
 \li the dimension permutation of the array, i.e., whether the elements of the array are listed in C or FORTRAN order.
 
 <h4>Working with existing array datatypes</h4>
-When working with existing arrays, one must first determine the the rank, or number of dimensions, of the array.
+When working with existing arrays, one must first determine the rank, or number of dimensions, of the array.
 
 The function #H5Tget_array_dims returns the rank of a specified array datatype.
 
diff --git a/doxygen/dox/LearnBasics3.dox b/doxygen/dox/LearnBasics3.dox
index 2fe0f52..06afacd 100644
--- a/doxygen/dox/LearnBasics3.dox
+++ b/doxygen/dox/LearnBasics3.dox
@@ -210,7 +210,7 @@ For details on compiling an HDF5 application:
 an extendible array dataset, pass in #H5P_DATASET_CREATE for the property list class.
 \li The #H5Pset_chunk call modifies a Dataset Creation Property List instance to store a chunked
 layout dataset and sets the size of the chunks used.
-\li To extend an unlimited dimension dataset use the the #H5Dset_extent call. Please be aware that
+\li To extend an unlimited dimension dataset use the #H5Dset_extent call. Please be aware that
 after this call, the dataset's dataspace must be refreshed with #H5Dget_space before more data can be accessed.
 \li The #H5Pget_chunk call retrieves the size of chunks for the raw data of a chunked layout dataset.
 \li Once there is no longer a need for a Property List instance, it should be closed with the #H5Pclose call.
diff --git a/doxygen/dox/Overview.dox b/doxygen/dox/Overview.dox
index eaa942e..befbb29 100644
--- a/doxygen/dox/Overview.dox
+++ b/doxygen/dox/Overview.dox
@@ -23,8 +23,9 @@ documents cover a mix of tasks, concepts, and reference, to help a specific
 \par Versions
      Version-specific documentation (see the version in the title area) can be found
      here:
-     - HDF5 <code>1.12</code> branch (this site)
+     - <a href="https://docs.hdfgroup.org/hdf5/develop/index.html">HDF5 <code>develop</code> branch</a>
      - <a href="https://docs.hdfgroup.org/hdf5/v1_14/index.html">HDF5 1.14.x</a>
+     - <a href="https://docs.hdfgroup.org/hdf5/v1_12/index.html">HDF5 1.12.x (this site)</a>
      - <a href="https://docs.hdfgroup.org/hdf5/v1_10/index.html">HDF5 1.10.x</a>
      - <a href="https://docs.hdfgroup.org/hdf5/v1_8/index.html">HDF5 1.8.x</a>
 
diff --git a/doxygen/dox/ReferenceManual.dox b/doxygen/dox/ReferenceManual.dox
index b9bcd49..40f8b8a 100644
--- a/doxygen/dox/ReferenceManual.dox
+++ b/doxygen/dox/ReferenceManual.dox
@@ -158,7 +158,7 @@ Follow these simple rules and stay out of trouble:
 \li \Bold{Dynamic memory allocation:} The API contains a few functions in which the
     HDF5 library dynamically allocates memory on the caller's behalf. The caller owns
     this memory and eventually must free it by calling H5free_memory() and not language-explicit memory functions.
-\li \Bold{Be careful with that saw:} Do not modify the underlying collection when an
+\li \Bold{Don't modify while iterating:} Do not modify the underlying collection when an
     iteration is in progress!
 \li \Bold{Use of locations:} Certain API functions, typically called \Code{H5***_by_name}
     use a combination of identifiers and path names to refer to HDF5 objects.
diff --git a/doxygen/dox/ViewTools.dox b/doxygen/dox/ViewTools.dox
index 2212d4b..66b2def 100644
--- a/doxygen/dox/ViewTools.dox
+++ b/doxygen/dox/ViewTools.dox
@@ -465,7 +465,7 @@ example <code style="background-color:whitesmoke;">h5_crtgrpar.c</code>. To disp
 \endcode
 
 \subsubsection subsubsecViewToolsViewDset_h5dumpEx5 Example 5
-The <code style="background-color:whitesmoke;">-p</code> option is used to examine the the dataset filters, storage layout, and fill value properties of a dataset.
+The <code style="background-color:whitesmoke;">-p</code> option is used to examine the dataset filters, storage layout, and fill value properties of a dataset.
 
 This option can be useful for checking how well compression works, or even for analyzing performance
 and dataset size issues related to chunking. (The smaller the chunk size, the more chunks that HDF5
diff --git a/doxygen/examples/H5.format.1.0.html b/doxygen/examples/H5.format.1.0.html
index 4eb0548..26d0421 100644
--- a/doxygen/examples/H5.format.1.0.html
+++ b/doxygen/examples/H5.format.1.0.html
@@ -1488,7 +1488,7 @@ Elena>               "Free-space object"
 		</tr>
 
 		<tr valign=top>
-		  <td>Object Size</td> <td>This is the size of the the fields
+		  <td>Object Size</td> <td>This is the size of the fields
 		    above plus the object data stored for the object.  The
 		    actual storage size is rounded up to a multiple of
 		    eight.</td>
diff --git a/doxygen/examples/H5.format.1.1.html b/doxygen/examples/H5.format.1.1.html
index 9d03a76..3af50d6 100644
--- a/doxygen/examples/H5.format.1.1.html
+++ b/doxygen/examples/H5.format.1.1.html
@@ -6091,7 +6091,7 @@ TABLE.list TD { border:none; }
 		<td>Used by the library before version 1.6.1.  In this version,
 		  the Flags field is used to indicate whether the actual message is
 		  stored in the global heap (never implemented).  The Pointer field
-		  either contains the the header message address in the global heap
+		  either contains the header message address in the global heap
 		  (never implemented) or the address of the shared object header.</td>
 	      </tr>
 	    </table>
diff --git a/doxygen/examples/H5Pget_metadata_read_attempts.2.c b/doxygen/examples/H5Pget_metadata_read_attempts.2.c
index 2cd12db..44b26e9 100644
--- a/doxygen/examples/H5Pget_metadata_read_attempts.2.c
+++ b/doxygen/examples/H5Pget_metadata_read_attempts.2.c
@@ -1,7 +1,7 @@
 /* Open the file with SWMR access and default file access property list */
 fid = H5Fopen(FILE, (H5F_ACC_RDONLY | H5F_ACC_SWMR_READ), H5P_DEFAULT);
 
-/* Get the file's file access roperty list */
+/* Get the file's file access property list */
 file_fapl = H5Fget_access_plist(fid);
 
 /* Retrieve the # of read attempts from the file's file access property list */
@@ -26,7 +26,7 @@ H5Pset_metadata_read_attempts(fapl, 20);
 /* Open the file with SWMR access and the non-default file access property list */
 fid = H5Fopen(FILE, (H5F_ACC_RDONLY | H5F_ACC_SWMR_READ), fapl);
 
-/* Get the file's file access roperty list */
+/* Get the file's file access property list */
 file_fapl = H5Fget_access_plist(fid);
 
 /* Retrieve the # of read attempts from the file's file access property list */
diff --git a/doxygen/examples/H5Pget_metadata_read_attempts.3.c b/doxygen/examples/H5Pget_metadata_read_attempts.3.c
index 4b5ea3a..8edda9f 100644
--- a/doxygen/examples/H5Pget_metadata_read_attempts.3.c
+++ b/doxygen/examples/H5Pget_metadata_read_attempts.3.c
@@ -1,7 +1,7 @@
 /* Open the file with non-SWMR access and default file access property list */
 fid = H5Fopen(FILE, H5F_ACC_RDONLY, H5P_DEFAULT);
 
-/* Get the file's file access roperty list */
+/* Get the file's file access property list */
 file_fapl = H5Fget_access_plist(fid);
 
 /* Retrieve the # of read attempts from the file's file access property list */
@@ -26,7 +26,7 @@ H5Pset_metadata_read_attempts(fapl, 20);
 /* Open the file with non-SWMR access and the non-default file access property list */
 fid = H5Fopen(FILE, H5F_ACC_RDONLY, fapl);
 
-/* Get the file's file access roperty list */
+/* Get the file's file access property list */
 file_fapl = H5Fget_access_plist(fid);
 
 /* Retrieve the # of read attempts from the file's file access property list */
diff --git a/doxygen/examples/H5Pset_metadata_read_attempts.c b/doxygen/examples/H5Pset_metadata_read_attempts.c
index 7c2f65d..db3573b 100644
--- a/doxygen/examples/H5Pset_metadata_read_attempts.c
+++ b/doxygen/examples/H5Pset_metadata_read_attempts.c
@@ -8,7 +8,7 @@ H5Pset_metadata_read_attempts(fapl, 20);
 /* Open the file with SWMR access and the non-default file access property list */
 fid = H5Fopen(FILE, (H5F_ACC_RDONLY | H5F_ACC_SWMR_READ), fapl);
 
-/* Get the file's file access roperty list */
+/* Get the file's file access property list */
 file_fapl = H5Fget_access_plist(fid);
 
 /* Retrieve the # of read attempts from the file's file access property list */
@@ -38,7 +38,7 @@ H5Pset_metadata_read_attempts(fapl, 20);
 /* Open the file with SWMR access and the non-default file access property list */
 fid = H5Fopen(FILE, H5F_ACC_RDONLY, fapl);
 
-/* Get the file's file access roperty list */
+/* Get the file's file access property list */
 file_fapl = H5Fget_access_plist(fid);
 
 /* Retrieve the # of read attempts from the file's file access property list */
diff --git a/doxygen/examples/ImageSpec.html b/doxygen/examples/ImageSpec.html
index 1b700ff..130d86e 100644
--- a/doxygen/examples/ImageSpec.html
+++ b/doxygen/examples/ImageSpec.html
@@ -851,7 +851,7 @@ This defines the color model that the entries in the palette data set represent.
 "RGB"</dt>
 
 <dd>
-Each color index contains a triplet where the the first value defines the
+Each color index contains a triplet where the first value defines the
 red component, second defines the green component, and the third the blue
 component.</dd>
 
@@ -859,7 +859,7 @@ component.</dd>
 "CMY"</dt>
 
 <dd>
-Each color index contains a triplet where the the first value defines the
+Each color index contains a triplet where the first value defines the
 cyan component, second defines the magenta component, and the third the
 yellow component.</dd>
 
@@ -867,7 +867,7 @@ yellow component.</dd>
 "CMYK"</dt>
 
 <dd>
-Each color index contains a quadruplet where the the first value defines
+Each color index contains a quadruplet where the first value defines
 the cyan component, second defines the magenta component, the third the
 yellow component, and the forth the black component.</dd>
 
@@ -875,7 +875,7 @@ yellow component, and the forth the black component.</dd>
 "YCbCr"</dt>
 
 <dd>
-Class Y encoding model. Each color index contains a triplet where the the
+Class Y encoding model. Each color index contains a triplet where the
 first value defines the luminance, second defines the Cb Chromonance, and
 the third the Cr Chromonance.</dd>
 
@@ -884,14 +884,14 @@ the third the Cr Chromonance.</dd>
 
 <dd>
 Composite encoding color model. Each color index contains a triplet where
-the the first value defines the luminance component, second defines the
+the first value defines the luminance component, second defines the
 chromonance component, and the third the value component.</dd>
 
 <dt>
 "HSV"</dt>
 
 <dd>
-Each color index contains a triplet where the the first value defines the
+Each color index contains a triplet where the first value defines the
 hue component, second defines the saturation component, and the third the
 value component. The hue component defines the hue spectrum with a low
 value representing magenta/red progressing to a high value which would
diff --git a/doxygen/examples/tables/propertyLists.dox b/doxygen/examples/tables/propertyLists.dox
index e77c2fd..039ac97 100644
--- a/doxygen/examples/tables/propertyLists.dox
+++ b/doxygen/examples/tables/propertyLists.dox
@@ -245,7 +245,7 @@ file access property list.</td>
 </tr>
 <tr>
 <td>#H5Pset_page_buffer_size/#H5Pget_page_buffer_size</td>
-<td>Set/get the the maximum size for the page buffer.</td>
+<td>Set/get the maximum size for the page buffer.</td>
 </tr>
 <tr>
 <td>#H5Pset_sieve_buf_size/#H5Pget_sieve_buf_size</td>
@@ -742,7 +742,7 @@ C function is a macro: \see \ref api-compat-macros.</td>
 <td>Sets up use of the Fletcher32 checksum filter.</td>
 </tr>
 <tr>
-<td>#H5Pset_local_heap_size_hint#H5Pget_local_heap_size_hint/</td>
+<td>#H5Pset_local_heap_size_hint/#H5Pget_local_heap_size_hint</td>
 <td>Sets/gets the anticipated maximum size of a local heap.</td>
 </tr>
 <tr>
diff --git a/doxygen/hdf5_navtree_hacks.js b/doxygen/hdf5_navtree_hacks.js
index dda8984..804701f 100644
--- a/doxygen/hdf5_navtree_hacks.js
+++ b/doxygen/hdf5_navtree_hacks.js
@@ -141,7 +141,7 @@ function initNavTree(toroot,relpath)
   $(window).on("load", showRoot);
 }
 
-// return false if the the node has no children at all, or has only section/subsection children
+// return false if the node has no children at all, or has only section/subsection children
 function checkChildrenData(node) {
   if (!(typeof(node.childrenData)==='string')) {
     for (var i in node.childrenData) {