diff --git a/docs/doxygen.conf.in b/docs/doxygen.conf.in
index a358236..155eeb5 100644
--- a/docs/doxygen.conf.in
+++ b/docs/doxygen.conf.in
@@ -68,7 +68,7 @@
 # performance problems for the file system.
 # The default value is: NO.
 
-CREATE_SUBDIRS         = YES
+CREATE_SUBDIRS         = NO
 
 # The OUTPUT_LANGUAGE tag is used to specify the language in which all
 # documentation generated by doxygen is written. Doxygen will use this
@@ -175,7 +175,7 @@
 # requiring an explicit \brief command for a brief description.)
 # The default value is: NO.
 
-QT_AUTOBRIEF           = NO
+QT_AUTOBRIEF           = YES
 
 # 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
@@ -220,12 +220,6 @@
 
 ALIASES                =
 
-# This tag can be used to specify a number of word-keyword mappings (TCL only).
-# A mapping has the form "name=value". For example adding "class=itcl::class"
-# will allow you to use the command class in the itcl::class meaning.
-
-TCL_SUBST              =
-
 # Set the OPTIMIZE_OUTPUT_FOR_C tag to YES if your project consists of C sources
 # only. Doxygen will then generate output that is more tailored for C. For
 # instance, some of the names that are used will be different. The list of all
@@ -968,13 +962,6 @@
 
 ALPHABETICAL_INDEX     = YES
 
-# The COLS_IN_ALPHA_INDEX tag can be used to specify the number of columns in
-# which the alphabetical index list will be split.
-# Minimum value: 1, maximum value: 20, default value: 5.
-# This tag requires that the tag ALPHABETICAL_INDEX is set to YES.
-
-COLS_IN_ALPHA_INDEX    = 5
-
 # In case all classes in a project start with a common prefix, all classes will
 # be put under the same header in the alphabetical index. The IGNORE_PREFIX tag
 # can be used to specify a prefix (or a list of prefixes) that should be ignored
@@ -1919,6 +1906,12 @@
 PREDEFINED             = DOXYGEN \
                          BOOST_CONCEPT_ASSERT(x)= \
                          BOOST_CONCEPT_REQUIRES(x)= \
+                         NDN_CXX_DECLARE_WIRE_ENCODE_INSTANTIATIONS(x)= \
+                         NDN_LOG_INIT(x)= \
+                         NDN_LOG_MEMBER_DECL()= \
+                         NDN_LOG_MEMBER_DECL_SPECIALIZED(x)= \
+                         NDN_LOG_MEMBER_INIT(x,y)= \
+                         NDN_LOG_MEMBER_INIT_SPECIALIZED(x,y)= \
                          NAC_PUBLIC_WITH_TESTS_ELSE_PROTECTED=protected \
                          NAC_PUBLIC_WITH_TESTS_ELSE_PRIVATE=private \
                          NAC_PROTECTED_WITH_TESTS_ELSE_PRIVATE=private \
@@ -1988,12 +1981,6 @@
 
 EXTERNAL_PAGES         = YES
 
-# The PERL_PATH should be the absolute path and name of the perl script
-# interpreter (i.e. the result of 'which perl').
-# The default file (with absolute path) is: /usr/bin/perl.
-
-PERL_PATH              = /usr/bin/perl
-
 #---------------------------------------------------------------------------
 # Configuration options related to the dot tool
 #---------------------------------------------------------------------------
@@ -2007,15 +1994,6 @@
 
 CLASS_DIAGRAMS         = YES
 
-# You can define message sequence charts within doxygen comments using the \msc
-# command. Doxygen will then run the mscgen tool (see:
-# http://www.mcternan.me.uk/mscgen/)) to produce the chart and insert it in the
-# documentation. The MSCGEN_PATH tag allows you to specify the directory where
-# the mscgen tool resides. If left empty the tool is assumed to be found in the
-# default search path.
-
-MSCGEN_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.
@@ -2029,7 +2007,7 @@
 # set to NO
 # The default value is: NO.
 
-HAVE_DOT               = YES
+HAVE_DOT               = @HAVE_DOT@
 
 # 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
diff --git a/wscript b/wscript
index 7df64d4..6e49d2a 100644
--- a/wscript
+++ b/wscript
@@ -26,6 +26,8 @@
     conf.env.WITH_EXAMPLES = True
     conf.env.WITH_TESTS = conf.options.with_tests
 
+    conf.find_program('dot', var='DOT', mandatory=False)
+
     conf.check_cfg(package='libndn-cxx', args=['--cflags', '--libs'], uselib_store='NDN_CXX',
                    pkg_config_path=os.environ.get('PKG_CONFIG_PATH', '%s/pkgconfig' % conf.env.LIBDIR))
 
@@ -123,6 +125,7 @@
         target=['docs/doxygen.conf',
                 'docs/named_data_theme/named_data_footer-with-analytics.html'],
         VERSION=VERSION,
+        HAVE_DOT='YES' if bld.env.DOT else 'NO',
         HTML_FOOTER='../build/docs/named_data_theme/named_data_footer-with-analytics.html' \
                         if os.getenv('GOOGLE_ANALYTICS', None) \
                         else '../docs/named_data_theme/named_data_footer.html',