diff --git a/docs/doxygen.conf.in b/docs/doxygen.conf.in
index ffad164..7a5922d 100644
--- a/docs/doxygen.conf.in
+++ b/docs/doxygen.conf.in
@@ -230,12 +230,6 @@
 
 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
@@ -2050,7 +2044,10 @@
 # This tag requires that the tag ENABLE_PREPROCESSING is set to YES.
 
 PREDEFINED             = DOXYGEN \
+                         CHRONOSYNC_PUBLIC_WITH_TESTS_ELSE_PROTECTED=protected \
                          CHRONOSYNC_PUBLIC_WITH_TESTS_ELSE_PRIVATE=private \
+                         CHRONOSYNC_PROTECTED_WITH_TESTS_ELSE_PRIVATE=private \
+                         CHRONOSYNC_VIRTUAL_WITH_TESTS= \
                          NDN_CXX_DECLARE_WIRE_ENCODE_INSTANTIATIONS(x)=
 
 # If the MACRO_EXPANSION and EXPAND_ONLY_PREDEF tags are set to YES then this
@@ -2118,12 +2115,6 @@
 
 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
 #---------------------------------------------------------------------------
@@ -2137,15 +2128,6 @@
 
 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            =
-
 # 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.