update docs

docs/doxygen.rc

@@ -58,7 +58,7 @@ PROJECT_LOGO           = misc/icons/yap_96x96x32.png
 # entered, it will be relative to the location where doxygen was started. If
 # left blank the current directory will be used.
 
-OUTPUT_DIRECTORY       = doxout
+OUTPUT_DIRECTORY       = ../doxout
 
 # 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
@@ -786,8 +786,7 @@ WARN_LOGFILE           =
 # INPUT                  = /Users/vsc/git/yap-6.3/packages/cplint/mcintyre.pl
 #INPUT = /Users/vsc/git/yap-6.3/packages/R/R.pl		
 
-INPUT = docs/yap.md \
-			 docs/yapdocs.yap \
+INPUT = foreigns.yap docs/yap.md docs/chr.md docs/threads.md docs/syntax.md docs/clpqr.md \
                          pl \
                          C \
                          H \
@@ -796,8 +795,8 @@ INPUT = docs/yap.md \
                          packages \
                          library \
                          CXX \
-                         OPTYap \
-			 docs/foreigns.yap
+                         OPTYap
+			 
 
 # This tag can be used to specify the character encoding of the source files
 # that doxygen parses. Internally doxygen uses the UTF-8 encoding. Doxygen uses
@@ -877,7 +876,9 @@ RECURSIVE              = YES
 # Note that relative paths are relative to the directory from which doxygen is
 # run.
 
-EXCLUDE                = *pltotex.pl packages/swig/android
+EXCLUDE                = *pltotex.pl packages/swig/android \
+		       paackages/chr \
+		       packages/RDF
 
 # The EXCLUDE_SYMLINKS tag can be used to select whether or not files or
 # directories that are symbolic links (a Unix file system feature) are excluded