Release-1.8.0

Doxyfile

@@ -121,7 +121,20 @@ EXCLUDE                = src/code.cpp \
                          src/doxygen_php.h \
                          src/compound_xsd.h \
                          src/layout_default.h \
-			 src/bib2xhtml.h
+			 src/bib2xhtml.h \
+                         src/doxygen_bst.h \
+                         src/header_html.h \
+                         src/index_xsd.h \
+                         src/jquery_js.h \
+                         src/jquery_fx_js.h \
+                         src/jquery_ui_js.h \
+                         src/navtree_css.h \
+                         src/navtree_hs.h \
+                         src/search_css.h \
+                         src/search_functions_php.h \
+                         src/search_opensearch_php.h \
+                         src/search_js.h \
+                         src/sizzle_js.h
 EXCLUDE_SYMLINKS       = NO
 EXCLUDE_PATTERNS       =
 EXCLUDE_SYMBOLS        =

INSTALL

-DOXYGEN Version 1.7.6.1-20120220
+DOXYGEN Version 1.8.0
 
 Please read the installation section of the manual 
 (http://www.doxygen.org/install.html) for instructions.
 
 --------
-Dimitri van Heesch (20 February 2012)
+Dimitri van Heesch (25 February 2012)

README

-DOXYGEN Version 1.7.6.1_20120220
+DOXYGEN Version 1.8.0
 
 Please read INSTALL for compilation instructions.
 
@@ -26,4 +26,4 @@ forum.
 
 Enjoy,
 
-Dimitri van Heesch (dimitri@stack.nl) (20 February 2012)
+Dimitri van Heesch (dimitri@stack.nl) (25 February 2012)

configure

@@ -16,11 +16,11 @@
 # shell script to configure doxygen
 
 doxygen_version_major=1
-doxygen_version_minor=7
-doxygen_version_revision=6.1
+doxygen_version_minor=8
+doxygen_version_revision=0
 
 #NOTE: Setting version_mmn to "NO" will omit mmn info from the package.
-doxygen_version_mmn=20120220
+doxygen_version_mmn=NO
 
 bin_dirs=`echo $PATH | sed -e "s/:/ /g"`
 

doc/commands.doc

@@ -539,8 +539,8 @@ Structural indicators
   this command in a comment block of a define or variable, the
   initializer is always hidden. The maximum number of initialization lines
   can be changed by means of the configuration parameter
-  \ref cfg_max_initializer_lines "MAX_INITIALIZER_LINES", the default value is
-  30.
+  \ref cfg_max_initializer_lines "MAX_INITIALIZER_LINES", the default 
+  value is 30.
 
   \sa section \ref cmdshowinitializer "\\showinitializer".
 

doc/markdown.doc

@@ -169,10 +169,8 @@ Examples:
 
     __double underscores__
 
-Note that unlike standard Markdown, doxygen will not touch internal underscores or
-stars, so the following will appear as-is:
-
-    a_nice_identifier
+See section \ref mddox_emph_spans for more info how doxygen handles
+emphasis spans slightly different than standard Markdown.
 
 \subsection md_codespan code spans
 
@@ -505,6 +503,24 @@ For Item1 the indentation is 4 (when treating the list marker as whitespace),
 so the next paragraph "More text..." starts at the same indentation level 
 and is therefore not seen as a code block.
 
+\subsection mddox_emph_spans Emphasis limits
+
+Unlike standard Markdown, doxygen will not touch internal underscores or
+stars, so the following will appear as-is:
+
+    a_nice_identifier
+
+Futhermore, a `*` or `_` only starts an emphasis if
+- it is followed by an alphanumberical character, and
+- it is preceded by a space, newline, or one the following characters `<{([,:;`
+
+An emphasis ends if
+- it is not following by an alphanumerical character, and
+- it is not preceded by a space, newline, or one the following characters `({[<=+-\@`
+
+Lastly, the span of the emphasis is limited to a single paragraph.
+
+
 \subsection mddox_code_spans Code Spans Limits
 
 Note that unlike standard Markdown, doxygen leaves the following untouched.

qtools/qdir_unix.cpp

@@ -82,12 +82,12 @@ QString QDir::canonicalPath() const
 
     char cur[PATH_MAX];
     char tmp[PATH_MAX];
-    GETCWD( cur, PATH_MAX );
+    (void)GETCWD( cur, PATH_MAX );
     if ( CHDIR(QFile::encodeName(dPath)) >= 0 ) {
-	GETCWD( tmp, PATH_MAX );
+	(void)GETCWD( tmp, PATH_MAX );
 	r = QFile::decodeName(tmp);
     }
-    CHDIR( cur );
+    (void)CHDIR( cur );
 
     slashify( r );
     return r;

qtools/qxml.cpp

@@ -1515,7 +1515,7 @@ bool QXmlDefaultHandler::unparsedEntityDecl( const QString&, const QString&,
   provided in the XML document.
 */
 bool QXmlDefaultHandler::resolveEntity( const QString&, const QString&,
-	QXmlInputSource* ret )
+	QXmlInputSource* &ret )
 {
     ret = 0;
     return TRUE;

qtools/qxml.h

@@ -440,7 +440,7 @@ class QM_EXPORT QXmlEntityResolver
 {
 public:
     virtual ~QXmlEntityResolver() {}
-    virtual bool resolveEntity( const QString& publicId, const QString& systemId, QXmlInputSource* ret ) = 0;
+    virtual bool resolveEntity( const QString& publicId, const QString& systemId, QXmlInputSource* &ret ) = 0;
     virtual QString errorString() = 0;
 };
 
@@ -494,7 +494,7 @@ public:
     bool notationDecl( const QString& name, const QString& publicId, const QString& systemId );
     bool unparsedEntityDecl( const QString& name, const QString& publicId, const QString& systemId, const QString& notationName );
 
-    bool resolveEntity( const QString& publicId, const QString& systemId, QXmlInputSource* ret );
+    bool resolveEntity( const QString& publicId, const QString& systemId, QXmlInputSource* &ret );
 
     bool startDTD( const QString& name, const QString& publicId, const QString& systemId );
     bool endDTD();

src/commentcnv.l

@@ -82,21 +82,22 @@ static void replaceCommentMarker(const char *s,int len)
 {
   const char *p=s;
   char c;
-  // copy blanks
+  // copy leading blanks
   while ((c=*p) && (c==' ' || c=='\t' || c=='\n')) 
   {
     ADDCHAR(c);
     g_lineNr += c=='\n';
     p++;
   }
-  // replace start of comment marker by spaces
+  // replace start of comment marker by blanks and the last character by a *
+  int blanks=0;
   while ((c=*p) && (c=='/' || c=='!' || c=='#')) 
   {
-    ADDCHAR(' ');
+    blanks++;
     p++;
     if (*p=='<') // comment-after-item marker 
     { 
-      ADDCHAR(' '); 
+      blanks++;
       p++; 
     }
     if (c=='!') // end after first !
@@ -104,6 +105,15 @@ static void replaceCommentMarker(const char *s,int len)
       break;
     }
   }
+  if (blanks>0)
+  {
+    while (blanks>1)
+    {
+      ADDCHAR(' ');
+      blanks--;
+    }
+    ADDCHAR('*');
+  }
   // copy comment line to output
   ADDARRAY(p,len-(p-s));
 }

src/config.l

@@ -454,7 +454,7 @@ static QCString configStringRecode(
   QCString outputEncoding = toEncoding;
   if (inputEncoding.isEmpty() || outputEncoding.isEmpty() || inputEncoding==outputEncoding) return str;
   int inputSize=str.length();
-  size_t outputSize=inputSize*4+1;
+  int outputSize=inputSize*4+1;
   QCString output(outputSize);
   void *cd = portable_iconv_open(outputEncoding,inputEncoding);
   if (cd==(void *)(-1)) 
@@ -463,13 +463,13 @@ static QCString configStringRecode(
         inputEncoding.data(),outputEncoding.data());
     exit(1);
   }
-  size_t iLeft=inputSize;
-  size_t oLeft=outputSize;
+  size_t iLeft=(size_t)inputSize;
+  size_t oLeft=(size_t)outputSize;
   const char *inputPtr  = str.data();
   char       *outputPtr = output.data();
   if (!portable_iconv(cd, &inputPtr, &iLeft, &outputPtr, &oLeft))
   {
-    outputSize-=oLeft;
+    outputSize-=(int)oLeft;
     output.resize(outputSize+1);
     output.at(outputSize)='\0';
     //printf("iconv: input size=%d output size=%d\n[%s]\n",size,newSize,srcBuf.data());

src/docparser.cpp

@@ -2275,7 +2275,7 @@ void DocInternalRef::parse()
 //---------------------------------------------------------------------------
 
 DocRef::DocRef(DocNode *parent,const QCString &target,const QCString &context) : 
-   m_refToSection(FALSE), m_refToAnchor(FALSE)
+   m_refToSection(FALSE), m_refToAnchor(FALSE), m_isSubPage(FALSE)
 {
   m_parent = parent; 
   Definition  *compound = 0;
@@ -2286,14 +2286,20 @@ DocRef::DocRef(DocNode *parent,const QCString &target,const QCString &context) :
   SectionInfo *sec = Doxygen::sectionDict[target];
   if (sec) // ref to section or anchor
   {
+    PageDef *pd = 0;
+    if (sec->type==SectionInfo::Page)
+    {
+      pd = Doxygen::pageSDict->find(target);
+    }
     m_text         = sec->title;
     if (m_text.isEmpty()) m_text = sec->label;
 
     m_ref          = sec->ref;
     m_file         = stripKnownExtensions(sec->fileName);
-    if (sec->type!=SectionInfo::Page) m_anchor = sec->label;
     m_refToAnchor  = sec->type==SectionInfo::Anchor;
     m_refToSection = sec->type!=SectionInfo::Anchor;
+    m_isSubPage    = pd && pd->hasParentPage();
+    if (sec->type!=SectionInfo::Page || m_isSubPage) m_anchor = sec->label;
     //printf("m_text=%s,m_ref=%s,m_file=%s,m_refToAnchor=%d type=%d\n",
     //    m_text.data(),m_ref.data(),m_file.data(),m_refToAnchor,sec->type);
     return;

src/docparser.h

@@ -721,11 +721,13 @@ class DocRef : public CompAccept<DocRef>, public DocNode
     bool hasLinkText() const     { return !m_children.isEmpty(); }
     bool refToAnchor() const     { return m_refToAnchor; }
     bool refToSection() const    { return m_refToSection; }
+    bool isSubPage() const       { return m_isSubPage; }
     void accept(DocVisitor *v)   { CompAccept<DocRef>::accept(this,v); }
 
   private:
     bool      m_refToSection;
     bool      m_refToAnchor;
+    bool      m_isSubPage;
     QCString   m_file;
     QCString   m_relPath;
     QCString   m_ref;

src/doctokenizer.l

@@ -525,7 +525,7 @@ REFWORD   {LABELID}|{REFWORD2}|{REFWORD3}
 <St_Para>{SPCMD3}      {
   			 g_token->name = "form";
 			 bool ok;
-			 g_token->id = QCString(yytext).right(yyleng-6).toInt(&ok);
+			 g_token->id = QCString(yytext).right((int)yyleng-6).toInt(&ok);
 			 ASSERT(ok);
 			 return TK_COMMAND;
   		       }
@@ -633,7 +633,7 @@ REFWORD   {LABELID}|{REFWORD2}|{REFWORD3}
 <St_Para>{LNKWORD1}{FUNCARG}{CVSPEC}[^a-z_A-Z0-9] {
                          g_token->name = yytext;
                          g_token->name = g_token->name.left(g_token->name.length()-1);
-			 unput(yytext[yyleng-1]);
+			 unput(yytext[(int)yyleng-1]);
                          return TK_LNKWORD;
                        }
   /********* patterns for normal words ******************/
@@ -684,7 +684,7 @@ REFWORD   {LABELID}|{REFWORD2}|{REFWORD3}
 			 }
 			 else // found end of a paragraph
 			 {
-                           g_token->indent=computeIndent(yytext,yyleng-1);
+                           g_token->indent=computeIndent(yytext,(int)yyleng-1);
                            int i;
                            // put back the indentation (needed for list items)
                            for (i=0;i<g_token->indent;i++)
@@ -946,7 +946,7 @@ REFWORD   {LABELID}|{REFWORD2}|{REFWORD3}
                        }
 <St_XRefItem2>[0-9]+"." {
   			 QCString numStr=yytext;
-			 numStr=numStr.left(yyleng-1);
+			 numStr=numStr.left((int)yyleng-1);
 			 g_token->id=numStr.toInt();
 			 return RetVal_OK;
   		       }
@@ -956,7 +956,7 @@ REFWORD   {LABELID}|{REFWORD2}|{REFWORD3}
                        }
 <St_Param>"\""[^\n\"]+"\"" {
   			 g_token->name = yytext+1;
-			 g_token->name = g_token->name.left(yyleng-2);
+			 g_token->name = g_token->name.left((int)yyleng-2);
 			 return TK_WORD;
                        }
 <St_Param>({PHPTYPE}{BLANK}*"|"{BLANK}*)*{PHPTYPE}{WS}+("&")?"$"{LABELID} {

src/dot.cpp

@@ -250,7 +250,7 @@ static QCString replaceRef(const QCString &buf,const QCString relPath,
 {
   // search for href="...", store ... part in link
   QCString href = "href";
-  bool isXLink=FALSE;
+  //bool isXLink=FALSE;
   int len = 6;
   int indexS = buf.find("href=\""), indexE;
   if (indexS>5 && buf.find("xlink:href=\"")!=-1) // XLink href (for SVG)
@@ -258,7 +258,7 @@ static QCString replaceRef(const QCString &buf,const QCString relPath,
     indexS-=6;
     len+=6;
     href.prepend("xlink:");
-    isXLink=TRUE;
+    //isXLink=TRUE;
   }
   if (indexS>=0 && (indexE=buf.find('"',indexS+len))!=-1)
   {
@@ -1601,6 +1601,8 @@ void DotNode::writeBox(FTextStream &t,
     // add names shown as relation to a dictionary, so we don't show
     // them as attributes as well
     QDict<void> arrowNames(17);
+    if (m_edgeInfo)
+    {
       QListIterator<EdgeInfo> li(*m_edgeInfo);
       EdgeInfo *ei;
       for (li.toFirst();(ei=li.current());++li)
@@ -1610,6 +1612,7 @@ void DotNode::writeBox(FTextStream &t,
           arrowNames.insert(ei->m_label,(void*)0x8);
         }
       }
+    }
 
     //printf("DotNode::writeBox for %s\n",m_classDef->name().data());
     static bool extractPrivate = Config_getBool("EXTRACT_PRIVATE");

src/doxygen.cpp

@@ -2729,7 +2729,7 @@ static void addVariable(EntryNav *rootNav,int isFuncPtr=-1)
       //int indentDepth=0;
       int si=scope.find('@');
       //int anonyScopes = 0;
-      bool added=FALSE;
+      //bool added=FALSE;
       
       static bool inlineSimpleStructs = Config_getBool("INLINE_SIMPLE_STRUCTS");
       if (si!=-1 && !inlineSimpleStructs) // anonymous scope or type
@@ -2754,7 +2754,7 @@ static void addVariable(EntryNav *rootNav,int isFuncPtr=-1)
                                   root->protection,
                                   isMemberOf ? Foreign : isRelated ? Related : Member
                                  );
-            added=TRUE;
+            //added=TRUE;
           }
           else // anonymous scope inside namespace or file => put variable in the global scope
           {
@@ -2762,7 +2762,7 @@ static void addVariable(EntryNav *rootNav,int isFuncPtr=-1)
             {
               md=addVariableToFile(rootNav,mtype,pScope,name,TRUE,0); 
             }
-            added=TRUE;
+            //added=TRUE;
           }
         }
       }
@@ -9319,8 +9319,6 @@ static const char *getArg(int argc,char **argv,int &optind)
 
 //----------------------------------------------------------------------------
 
-extern void commentScanTest();
-
 void initDoxygen()
 {
   const char *lang = portable_getenv("LC_ALL");

src/entry.h

@@ -31,7 +31,7 @@ class FileDef;
 class FileStorage;
 class StorageIntf;
 class ArgumentList;
-class ListItemInfo;
+struct ListItemInfo;
 
 /*! \brief This class stores information about an inheritance relation
  */ 

src/fortrancode.l

@@ -652,6 +652,7 @@ ARGS_L2   "("({ARGS_L0}|[^()]|{ARGS_L1a}|{ARGS_L1})*")"
 ARGS      {BS}({ARGS_L0}|{ARGS_L1}|{ARGS_L2})
 
 NUM_TYPE  (complex|integer|logical|real)
+LOG_OPER  (\.and\.|\.eq\.|\.eqv\.|\.ge\.|\.gt\.|\.le\.|\.lt\.|\.ne\.|\.neqv\.|\.or\.|\.not\.)
 KIND      {ARGS}
 CHAR      (CHARACTER{ARGS}?|CHARACTER{BS}"*"({BS}[0-9]+|{ARGS}))
 TYPE_SPEC (({NUM_TYPE}({BS}"*"{BS}[0-9]+)?)|({NUM_TYPE}{KIND})|DOUBLE{BS_}COMPLEX|DOUBLE{BS_}PRECISION|{CHAR}|TYPE{ARGS})
@@ -979,6 +980,9 @@ IGNORE (CALL)
 <*>.					{ 
   					  g_code->codify(yytext);
 					}
+<*>{LOG_OPER}                           { // Fortran logical comparison keywords
+                                          g_code->codify(yytext);
+                                        }
 %%
 
 /*@ ----------------------------------------------------------------------------

src/fortranscanner.l

@@ -249,6 +249,7 @@ ARGS      {BS}({ARGS_L0}|{ARGS_L1}|{ARGS_L2})
 NOARGS    {BS}"\n"
 
 NUM_TYPE  (complex|integer|logical|real)
+LOG_OPER  (\.and\.|\.eq\.|\.eqv\.|\.ge\.|\.gt\.|\.le\.|\.lt\.|\.ne\.|\.neqv\.|\.or\.|\.not\.)
 KIND      {ARGS}
 CHAR      (CHARACTER{ARGS}?|CHARACTER{BS}"*"({BS}[0-9]+|{ARGS}))
 TYPE_SPEC (({NUM_TYPE}({BS}"*"{BS}[0-9]+)?)|({NUM_TYPE}{KIND})|DOUBLE{BS_}COMPLEX|DOUBLE{BS_}PRECISION|{CHAR}|TYPE{ARGS}|CLASS{ARGS}|PROCEDURE{ARGS}?)
@@ -1102,7 +1103,9 @@ private                                 {
                                             popBuffer();
                                           }
                                         }
- <*>.                 	                {
+<*>{LOG_OPER}                           { // Fortran logical comparison keywords
+                                        }
+<*>.                 	                {
                                           //debugStr+=yytext;
 					  //printf("I:%c\n", *yytext);
                                         } // ignore remaining text 
@@ -2070,16 +2073,16 @@ static void subrHandleCommentBlock(const QCString &doc,bool brief)
   current = subrCurrent.first(); // temporarily switch to the entry of the subroutine / function
   if (docBlock.stripWhiteSpace().find("\\param") == 0)
   {
-    handleCommentBlock(doc,brief);
+    handleCommentBlock("\n\n"+doc,brief);
   }
   else if (docBlock.stripWhiteSpace().find("@param") == 0)
   {
-    handleCommentBlock(doc,brief);
+    handleCommentBlock("\n\n"+doc,brief);
   }
   else 
   {
     int dir1 = modifiers[current_root][argName.lower()].direction;
-    handleCommentBlock(QCString("@param ") + directionParam[dir1] + " " + 
+    handleCommentBlock(QCString("\n\n@param ") + directionParam[dir1] + " " + 
 	               argName + " " + doc,brief);
   }
   current=tmp_entry;
@@ -2122,8 +2125,9 @@ static void parseMain(const char *fileName,const char *fileBuf,Entry *rt)
   {
     isFixedForm = recognizeFixedForm(fileBuf);
 
-    if (isFixedForm) {
-      printf("Prepassing fixed form of %s\n", fileName);
+    if (isFixedForm) 
+    {
+      msg("Prepassing fixed form of %s\n", fileName);
       //printf("---strlen=%d\n", strlen(fileBuf));
       //clock_t start=clock();
 

src/htmldocvisitor.cpp

@@ -1374,7 +1374,9 @@ void HtmlDocVisitor::visitPre(DocRef *ref)
   if (m_hide) return;
   if (!ref->file().isEmpty()) 
   {
-    startLink(ref->ref(),ref->file(),ref->relPath(),ref->anchor());
+    // when ref->isSubPage()==TRUE we use ref->file() for HTML and
+    // ref->anchor() for LaTeX/RTF
+    startLink(ref->ref(),ref->file(),ref->relPath(),ref->isSubPage() ? 0 : ref->anchor());
   }
   if (!ref->hasLinkText()) filter(ref->targetTitle());
 }

src/jquery_fx.js

@@ -29,7 +29,8 @@ d,e){c=1.70158;var g=0,h=d;if(a==0)return b;if((a/=e)==1)return b+d;g||(g=e*0.3)
 0,h=d;if(a==0)return b;if((a/=e/2)==2)return b+d;g||(g=e*0.3*1.5);if(h<Math.abs(d)){h=d;c=g/4}else c=g/(2*Math.PI)*Math.asin(d/h);if(a<1)return-0.5*h*Math.pow(2,10*(a-=1))*Math.sin((a*e-c)*2*Math.PI/g)+b;return h*Math.pow(2,-10*(a-=1))*Math.sin((a*e-c)*2*Math.PI/g)*0.5+d+b},easeInBack:function(c,a,b,d,e,g){if(g==j)g=1.70158;return d*(a/=e)*a*((g+1)*a-g)+b},easeOutBack:function(c,a,b,d,e,g){if(g==j)g=1.70158;return d*((a=a/e-1)*a*((g+1)*a+g)+1)+b},easeInOutBack:function(c,a,b,d,e,g){if(g==j)g=1.70158;
 if((a/=e/2)<1)return d/2*a*a*(((g*=1.525)+1)*a-g)+b;return d/2*((a-=2)*a*(((g*=1.525)+1)*a+g)+2)+b},easeInBounce:function(c,a,b,d,e){return d-f.easing.easeOutBounce(c,e-a,0,d,e)+b},easeOutBounce:function(c,a,b,d,e){return(a/=e)<1/2.75?d*7.5625*a*a+b:a<2/2.75?d*(7.5625*(a-=1.5/2.75)*a+0.75)+b:a<2.5/2.75?d*(7.5625*(a-=2.25/2.75)*a+0.9375)+b:d*(7.5625*(a-=2.625/2.75)*a+0.984375)+b},easeInOutBounce:function(c,a,b,d,e){if(a<e/2)return f.easing.easeInBounce(c,a*2,0,d,e)*0.5+b;return f.easing.easeOutBounce(c,
 a*2-e,0,d,e)*0.5+d*0.5+b}})}(jQuery);
-;/*
+;
+/*
  * jQuery UI Effects Highlight 1.8.16
  *
  * Copyright 2011, AUTHORS.txt (http://jqueryui.com/about)

src/jquery_fx_js.h

@@ -29,7 +29,8 @@
 "0,h=d;if(a==0)return b;if((a/=e/2)==2)return b+d;g||(g=e*0.3*1.5);if(h<Math.abs(d)){h=d;c=g/4}else c=g/(2*Math.PI)*Math.asin(d/h);if(a<1)return-0.5*h*Math.pow(2,10*(a-=1))*Math.sin((a*e-c)*2*Math.PI/g)+b;return h*Math.pow(2,-10*(a-=1))*Math.sin((a*e-c)*2*Math.PI/g)*0.5+d+b},easeInBack:function(c,a,b,d,e,g){if(g==j)g=1.70158;return d*(a/=e)*a*((g+1)*a-g)+b},easeOutBack:function(c,a,b,d,e,g){if(g==j)g=1.70158;return d*((a=a/e-1)*a*((g+1)*a+g)+1)+b},easeInOutBack:function(c,a,b,d,e,g){if(g==j)g=1.70158;\n"
 "if((a/=e/2)<1)return d/2*a*a*(((g*=1.525)+1)*a-g)+b;return d/2*((a-=2)*a*(((g*=1.525)+1)*a+g)+2)+b},easeInBounce:function(c,a,b,d,e){return d-f.easing.easeOutBounce(c,e-a,0,d,e)+b},easeOutBounce:function(c,a,b,d,e){return(a/=e)<1/2.75?d*7.5625*a*a+b:a<2/2.75?d*(7.5625*(a-=1.5/2.75)*a+0.75)+b:a<2.5/2.75?d*(7.5625*(a-=2.25/2.75)*a+0.9375)+b:d*(7.5625*(a-=2.625/2.75)*a+0.984375)+b},easeInOutBounce:function(c,a,b,d,e){if(a<e/2)return f.easing.easeInBounce(c,a*2,0,d,e)*0.5+b;return f.easing.easeOutBounce(c,\n"
 "a*2-e,0,d,e)*0.5+d*0.5+b}})}(jQuery);\n"
-";/*\n"
+";\n"
+"/*\n"
 " * jQuery UI Effects Highlight 1.8.16\n"
 " *\n"
 " * Copyright 2011, AUTHORS.txt (http://jqueryui.com/about)\n"

src/latexdocvisitor.cpp

@@ -1126,14 +1126,30 @@ void LatexDocVisitor::visitPost(DocLink *lnk)
 void LatexDocVisitor::visitPre(DocRef *ref)
 {
   if (m_hide) return;
+  // when ref->isSubPage()==TRUE we use ref->file() for HTML and
+  // ref->anchor() for LaTeX/RTF
+  if (ref->isSubPage())
+  {
+    startLink(ref->ref(),0,ref->anchor());
+  }
+  else
+  {
     if (!ref->file().isEmpty()) startLink(ref->ref(),ref->file(),ref->anchor());
+  }
   if (!ref->hasLinkText()) filter(ref->targetTitle());
 }
 
 void LatexDocVisitor::visitPost(DocRef *ref) 
 {
   if (m_hide) return;
+  if (ref->isSubPage())
+  {
+    endLink(ref->ref(),0,ref->anchor());
+  }
+  else
+  {
     if (!ref->file().isEmpty()) endLink(ref->ref(),ref->file(),ref->anchor());
+  }
 }
 
 void LatexDocVisitor::visitPre(DocSecRefItem *)

src/markdown.cpp

@@ -942,7 +942,7 @@ static int processSpecialCommand(GrowBuf &out, const char *data, int offset, int
 static void processInline(GrowBuf &out,const char *data,int size)
 {
   int i=0, end=0;
-  action_t action;
+  action_t action = 0;
   while (i<size)
   {
     while (end<size && ((action=g_actions[(uchar)data[end]])==0)) end++;

src/navtree.js

@@ -125,10 +125,13 @@ function newNode(o, po, text, link, childrenData, lastNode)
       var targetPage = stripPath(link.split('#')[0]);
       a.href = srcPage!=targetPage ? url : '#';
       a.onclick = function(){
+        if (!$(a).parent().parent().hasClass('selected'))
+        {
           $('.item').removeClass('selected');
           $('.item').removeAttr('id');
           $(a).parent().parent().addClass('selected');
           $(a).parent().parent().attr('id','selected');
+        }
         var pos, anchor = $(aname), docContent = $('#doc-content');
         if (anchor.parent().attr('class')=='memItemLeft') {
           pos = anchor.parent().position().top;
@@ -229,7 +232,7 @@ function highlightAnchor()
 
 function showNode(o, node, index)
 {
-  if (node.childrenData && !node.expanded) {
+  if (node.childrenData /*&& !node.expanded*/) {
     if (typeof(node.childrenData)==='string') {
       var varName    = node.childrenData;
       getScript(node.relpath+varName,function(){
@@ -276,6 +279,7 @@ function showNode(o, node, index)
             $(n.itemDiv).addClass('selected');
             $(n.itemDiv).attr('id','selected');
           }
+          showRoot();
         }
       }
     }
@@ -293,6 +297,20 @@ function getNode(o, po)
   }
 }
 
+function navTo(o,root,hash,relpath)
+{
+  getScript(relpath+"navtreeindex",function(){
+    var navTreeIndex = eval('NAVTREEINDEX');
+    if (navTreeIndex) {
+      var nti = navTreeIndex[root+hash];
+      o.breadcrumbs = nti ? nti : navTreeIndex[root];
+      if (o.breadcrumbs==null) o.breadcrumbs = navTreeIndex["index.html"];
+      o.breadcrumbs.unshift(0);
+      showNode(o, o.node, 0);
+    }
+  },true);
+}
+
 function initNavTree(toroot,relpath)
 {
   var o = new Object();
@@ -313,35 +331,22 @@ function initNavTree(toroot,relpath)
   o.node.plus_img.width = 16;
   o.node.plus_img.height = 22;
 
-  getScript(relpath+"navtreeindex",function(){
-    var navTreeIndex = eval('NAVTREEINDEX');
-    if (navTreeIndex) {
-      var nti = navTreeIndex[toroot+window.location.hash];
-      o.breadcrumbs = nti ? nti : navTreeIndex[toroot];
-      if (o.breadcrumbs==null) o.breadcrumbs = navTreeIndex["index.html"];
-      o.breadcrumbs.unshift(0);
-      showNode(o, o.node, 0);
-    }
-  },true);
+  navTo(o,toroot,window.location.hash,relpath);
 
   $(window).bind('hashchange', function(){
      if (window.location.hash && window.location.hash.length>1){
-       highlightAnchor();
        var a;
        if ($(location).attr('hash')){
-         var link=stripPath($(location).attr('pathname'))+':'+
+         var clslink=stripPath($(location).attr('pathname'))+':'+
                                $(location).attr('hash').substring(1);
-         a=$('.item a[class$=\""'+link+'"\"]');
+         a=$('.item a[class$=\""'+clslink+'"\"]');
        }
-       if (a && a.length){
+       if (a==null || !$(a).parent().parent().hasClass('selected')){
          $('.item').removeClass('selected');
          $('.item').removeAttr('id');
-         a.parent().parent().addClass('selected');
-         a.parent().parent().attr('id','selected');
-         var anchor = $($(location).attr('hash'));
-         var targetDiv = anchor.next();
-         showRoot();
        }
+       var link=stripPath($(location).attr('pathname'));
+       navTo(o,link,$(location).attr('hash'),relpath);
      }
   })
 

src/navtree_js.h

@@ -125,10 +125,13 @@
 "      var targetPage = stripPath(link.split('#')[0]);\n"
 "      a.href = srcPage!=targetPage ? url : '#';\n"
 "      a.onclick = function(){\n"
+"        if (!$(a).parent().parent().hasClass('selected'))\n"
+"        {\n"
 "          $('.item').removeClass('selected');\n"
 "          $('.item').removeAttr('id');\n"
 "          $(a).parent().parent().addClass('selected');\n"
 "          $(a).parent().parent().attr('id','selected');\n"
+"        }\n"
 "        var pos, anchor = $(aname), docContent = $('#doc-content');\n"
 "        if (anchor.parent().attr('class')=='memItemLeft') {\n"
 "          pos = anchor.parent().position().top;\n"
@@ -229,7 +232,7 @@
 "\n"
 "function showNode(o, node, index)\n"
 "{\n"
-"  if (node.childrenData && !node.expanded) {\n"
+"  if (node.childrenData /*&& !node.expanded*/) {\n"
 "    if (typeof(node.childrenData)==='string') {\n"
 "      var varName    = node.childrenData;\n"
 "      getScript(node.relpath+varName,function(){\n"
@@ -276,6 +279,7 @@
 "            $(n.itemDiv).addClass('selected');\n"
 "            $(n.itemDiv).attr('id','selected');\n"
 "          }\n"
+"          showRoot();\n"
 "        }\n"
 "      }\n"
 "    }\n"
@@ -293,6 +297,20 @@
 "  }\n"
 "}\n"
 "\n"
+"function navTo(o,root,hash,relpath)\n"
+"{\n"
+"  getScript(relpath+\"navtreeindex\",function(){\n"
+"    var navTreeIndex = eval('NAVTREEINDEX');\n"
+"    if (navTreeIndex) {\n"
+"      var nti = navTreeIndex[root+hash];\n"
+"      o.breadcrumbs = nti ? nti : navTreeIndex[root];\n"
+"      if (o.breadcrumbs==null) o.breadcrumbs = navTreeIndex[\"index.html\"];\n"
+"      o.breadcrumbs.unshift(0);\n"
+"      showNode(o, o.node, 0);\n"
+"    }\n"
+"  },true);\n"
+"}\n"
+"\n"
 "function initNavTree(toroot,relpath)\n"
 "{\n"
 "  var o = new Object();\n"
@@ -313,35 +331,22 @@
 "  o.node.plus_img.width = 16;\n"
 "  o.node.plus_img.height = 22;\n"
 "\n"
-"  getScript(relpath+\"navtreeindex\",function(){\n"
-"    var navTreeIndex = eval('NAVTREEINDEX');\n"
-"    if (navTreeIndex) {\n"
-"      var nti = navTreeIndex[toroot+window.location.hash];\n"
-"      o.breadcrumbs = nti ? nti : navTreeIndex[toroot];\n"
-"      if (o.breadcrumbs==null) o.breadcrumbs = navTreeIndex[\"index.html\"];\n"
-"      o.breadcrumbs.unshift(0);\n"
-"      showNode(o, o.node, 0);\n"
-"    }\n"
-"  },true);\n"
+"  navTo(o,toroot,window.location.hash,relpath);\n"
 "\n"
 "  $(window).bind('hashchange', function(){\n"
 "     if (window.location.hash && window.location.hash.length>1){\n"
-"       highlightAnchor();\n"
 "       var a;\n"
 "       if ($(location).attr('hash')){\n"
-"         var link=stripPath($(location).attr('pathname'))+':'+\n"
+"         var clslink=stripPath($(location).attr('pathname'))+':'+\n"
 "                               $(location).attr('hash').substring(1);\n"
-"         a=$('.item a[class$=\\\"\"'+link+'\"\\\"]');\n"
+"         a=$('.item a[class$=\\\"\"'+clslink+'\"\\\"]');\n"
 "       }\n"
-"       if (a && a.length){\n"
+"       if (a==null || !$(a).parent().parent().hasClass('selected')){\n"
 "         $('.item').removeClass('selected');\n"
 "         $('.item').removeAttr('id');\n"
-"         a.parent().parent().addClass('selected');\n"
-"         a.parent().parent().attr('id','selected');\n"
-"         var anchor = $($(location).attr('hash'));\n"
-"         var targetDiv = anchor.next();\n"
-"         showRoot();\n"
 "       }\n"
+"       var link=stripPath($(location).attr('pathname'));\n"
+"       navTo(o,link,$(location).attr('hash'),relpath);\n"
 "     }\n"
 "  })\n"
 "\n"

src/pagedef.cpp

@@ -78,8 +78,6 @@ void PageDef::writeDocumentation(OutputList &ol)
 
   //printf("PageDef::writeDocumentation: %s\n",getOutputFileBase().data());
 
-  startFile(ol,getOutputFileBase(),pageName,title(),HLI_Pages,!generateTreeView);
-
   ol.pushGeneratorState();
   //1.{ 
 
@@ -95,6 +93,8 @@ void PageDef::writeDocumentation(OutputList &ol)
     ol.enable(OutputGenerator::Html);
   }
 
+  startFile(ol,getOutputFileBase(),pageName,title(),HLI_Pages,!generateTreeView);
+
   if (!generateTreeView)
   {
     if (getOuterScope()!=Doxygen::globalScope && !Config_getBool("DISABLE_INDEX"))
@@ -147,9 +147,6 @@ void PageDef::writeDocumentation(OutputList &ol)
 
   writePageDocumentation(ol);
 
-  ol.popGeneratorState();
-  //1.}
-
   if (generateTreeView && getOuterScope()!=Doxygen::globalScope && !Config_getBool("DISABLE_INDEX"))
   {
     ol.endContents();
@@ -160,6 +157,9 @@ void PageDef::writeDocumentation(OutputList &ol)
     endFile(ol);
   }
 
+  ol.popGeneratorState();
+  //1.}
+
   if (!Config_getString("GENERATE_TAGFILE").isEmpty())
   {
     bool found=FALSE;

src/pre.l

@@ -2206,11 +2206,15 @@ CHARLIT   (("'"\\[0-7]{1,3}"'")|("'"\\."'")|("'"[^'\\\n]{1,4}"'"))
 					  BEGIN(SkipString);
 					}
 <SkipLine>.
-<SkipLine,SkipCommand,SkipCPPBlock,SkipString>"//"[^\n]* {
+<SkipString>"//"/[^\n]*                 { 
+                                        }
+<SkipLine,SkipCommand,SkipCPPBlock>"//"[^\n]* {
   					  g_lastCPPContext=YY_START;
   					  BEGIN(RemoveCPPComment);
 					}
-<SkipLine,SkipCommand,SkipCPPBlock,SkipString>"/*"/[^\n]* {
+<SkipString>"/*"/[^\n]*                 { 
+                                        }
+<SkipLine,SkipCommand,SkipCPPBlock>"/*"/[^\n]* {
 					  g_lastCContext=YY_START;
   					  BEGIN(RemoveCComment);
   					}

src/pycode.l

@@ -576,7 +576,7 @@ static void generateClassOrGlobalLink(CodeOutputInterface &ol,char *clName,
 
   ClassDef *cd=0,*lcd=0;  /** Class def that we may find */
   MemberDef *md=0;        /** Member def that we may find */
-  bool isLocal=FALSE;
+  //bool isLocal=FALSE;
 
   if ((lcd=g_theVarContext.findVariable(className))==0) // not a local variable
   {
@@ -611,7 +611,7 @@ static void generateClassOrGlobalLink(CodeOutputInterface &ol,char *clName,
     {
       g_theCallContext.setClass(lcd);
     }
-    isLocal=TRUE;
+    //isLocal=TRUE;
     //fprintf(stderr,"is a local variable cd=%p!\n",cd);
   }
 
@@ -1426,19 +1426,14 @@ static void adjustScopesAndSuites(unsigned indentLength)
   }
 }
 
-void parsePythonCode(CodeOutputInterface &od,const char *className,
+void parsePythonCode(CodeOutputInterface &od,const char * /*className*/,
                  const QCString &s,bool exBlock, const char *exName,
-		 FileDef *fd,int startLine,int endLine,bool inlineFragment,
+		 FileDef *fd,int startLine,int endLine,bool /*inlineFragment*/,
 		 MemberDef *,bool) 
 {
 
   //printf("***parseCode()\n");
   
-  //--- some code to eliminate warnings---
-  className = "";
-  exBlock = FALSE;
-  exName = "";
-  inlineFragment = "";
   //--------------------------------------
   if (s.isEmpty()) return;
   g_code = &od;

src/rtfdocvisitor.cpp

@@ -1185,7 +1185,16 @@ void RTFDocVisitor::visitPre(DocRef *ref)
 {
   if (m_hide) return;
   DBG_RTF("{\\comment RTFDocVisitor::visitPre(DocRef)}\n");
+  // when ref->isSubPage()==TRUE we use ref->file() for HTML and
+  // ref->anchor() for LaTeX/RTF
+  if (ref->isSubPage())
+  {
+    startLink(ref->ref(),0,ref->anchor());
+  }
+  else
+  {
     if (!ref->file().isEmpty()) startLink(ref->ref(),ref->file(),ref->anchor());
+  }
   if (!ref->hasLinkText()) filter(ref->targetTitle());
 }
 
@@ -1448,11 +1457,11 @@ void RTFDocVisitor::visitPost(DocParamList *pl)
   DBG_RTF("{\\comment RTFDocVisitor::visitPost(DocParamList)}\n");
 
   DocParamSect::Type parentType = DocParamSect::Unknown;
-  DocParamSect *sect = 0;
+  //DocParamSect *sect = 0;
   if (pl->parent() && pl->parent()->kind()==DocNode::Kind_ParamSect)
   {
     parentType = ((DocParamSect*)pl->parent())->type();
-    sect=(DocParamSect*)pl->parent();
+    //sect=(DocParamSect*)pl->parent();
   }
   bool useTable = parentType==DocParamSect::Param ||
                   parentType==DocParamSect::RetVal ||
@@ -1652,9 +1661,12 @@ void RTFDocVisitor::startLink(const QCString &ref,const QCString &file,const QCS
     {
       refName+=file;
     }
-    if (anchor)
+    if (!file.isEmpty() && anchor)
     {
       refName+='_';
+    }
+    if (anchor)
+    {
       refName+=anchor;
     }
 

src/rtfgen.cpp

@@ -1713,7 +1713,7 @@ void RTFGenerator::docify(const char *str)
   {
     const unsigned char *p=(const unsigned char *)str;
     unsigned char c;
-    unsigned char pc='\0';
+    //unsigned char pc='\0';
     while (*p)
     {
       //static bool MultiByte = FALSE;
@@ -1746,7 +1746,7 @@ void RTFGenerator::docify(const char *str)
             t << (char)c;
           }
       }
-      pc = c;
+      //pc = c;
       m_omitParagraph = FALSE;
     }
   }

src/store.cpp

@@ -402,7 +402,7 @@ void Store::dumpBlock(portable_off_t s,portable_off_t e)
   portable_fseek(m_file,s,SEEK_SET);
   int size = (int)(e-s);
   uchar *buf = new uchar[size];
-  fread(buf,size,1,m_file);
+  (void)fread(buf,size,1,m_file);
   int i,j;
   for (i=0;i<size;i+=16)
   {

src/svgpan.js

@@ -304,13 +304,13 @@ function handlePrint(evt)
             'xmlns:svg="http://www.w3.org/2000/svg" '+
             'xmlns:xlink="http://www.w3.org/1999/xlink">');
     d.write('<head><title>Print SVG</title></head>');
-    d.write('<body style="margin: 0px; padding: 0px;" onload="window.print(); window.close();">');
+    d.write('<body style="margin: 0px; padding: 0px;" onload="window.print();">');
     d.write('<div id="svg" style="width:'+windowWidth+'px; height:'+windowHeight+'px;">'+xs+'</div>');
     d.write('</body>');
     d.write('</html>');
     d.close();
   } catch(e) {
-    alert('Print function not supported by this browser!');
+    alert('Failed to open popup window needed for printing!\n'+e.message);
   }
 }
 

src/svgpan_js.h

@@ -304,13 +304,13 @@
 "            'xmlns:svg=\"http://www.w3.org/2000/svg\" '+\n"
 "            'xmlns:xlink=\"http://www.w3.org/1999/xlink\">');\n"
 "    d.write('<head><title>Print SVG</title></head>');\n"
-"    d.write('<body style=\"margin: 0px; padding: 0px;\" onload=\"window.print(); window.close();\">');\n"
+"    d.write('<body style=\"margin: 0px; padding: 0px;\" onload=\"window.print();\">');\n"
 "    d.write('<div id=\"svg\" style=\"width:'+windowWidth+'px; height:'+windowHeight+'px;\">'+xs+'</div>');\n"
 "    d.write('</body>');\n"
 "    d.write('</html>');\n"
 "    d.close();\n"
 "  } catch(e) {\n"
-"    alert('Print function not supported by this browser!');\n"
+"    alert('Failed to open popup window needed for printing!\\n'+e.message);\n"
 "  }\n"
 "}\n"
 "\n"

src/vhdlcode.l

@@ -618,12 +618,12 @@ static void codifyMapLines(char *text)
   int wordCounter=0;
   QCString ctemp;
   //printf("codifyLines(%d,\"%s\")\n",g_yyLineNr,text);
-  char *p=text,*sp=p;
+  char *p=text; //,*sp=p;
   char c;
   bool done=FALSE;
   while (!done)
   {
-    sp=p;
+    //sp=p;
     while ((c=*p++) &&  c!='\n' && c!=':' && c != ' ' && c != '(' && c!='\0' && c!='\t')
     { 
       if (c!=0x9)

src/vhdldocgen.cpp

@@ -403,17 +403,17 @@ void VhdlDocGen::findAllPackages(const QCString& className,QDict<QCString>& qdic
 
 MemberDef* VhdlDocGen::findFunction(const QList<Argument> &ql,
     const QCString& funcname,
-    const QCString& package, bool type)
+    const QCString& package, bool /*type*/)
 {
   MemberDef* mdef=0;
-  int funcType;
+  //int funcType;
   ClassDef *cdef=getClass(package.data());
   if (cdef==0) return 0;
 
-  if (type)
-    funcType=VhdlDocGen::PROCEDURE;
-  else
-    funcType=VhdlDocGen::FUNCTION;
+  //if (type)
+  //  funcType=VhdlDocGen::PROCEDURE;
+  //else
+  //  funcType=VhdlDocGen::FUNCTION;
 
   MemberList *mem=cdef->getMemberList(MemberList::pubMethods);
 
@@ -1194,7 +1194,7 @@ void VhdlDocGen::writeFuncProcDocu(
     bool /*type*/)
 {
   if (al==0) return;
-  bool sem=FALSE;
+  //bool sem=FALSE;
   ol.enableAll();
 
   ArgumentListIterator ali(*al);
@@ -1263,7 +1263,7 @@ void VhdlDocGen::writeFuncProcDocu(
     }
     ol.endParameterName(FALSE,FALSE,FALSE);
 
-    sem=TRUE;
+    //sem=TRUE;
     first=FALSE;
   }
   //ol.endParameterList();

src/vhdldocgen.h

@@ -35,7 +35,7 @@ class FileStorage;
 class EntryNav;
 class ClassDef;
 class MemberDef;
-class Argument;
+struct Argument;
 
 // wrapper class for the vhdl parser
 class MyParserVhdl