if [[ "$OSTYPE" == "linux-gnu"* ]]; then
		osoptions=""
elif [[ "$OSTYPE" == "darwin"* ]]; then
		osoptions=""
elif [[ "$OSTYPE" == "cygwin" ]]; then
		osoptions="--fail-if-warnings  --eol=lf "
elif [[ "$OSTYPE" == "msys" ]]; then
		osoptions="--fail-if-warnings  --eol=lf "
fi
if [[ -z $targetDocroot ]]; then
    targetDocroot=$docroot
fi
echo "${PWD##*/}"
options=$osoptions"--toc --number-sections --toc-depth=5 --from markdown+smart+raw_html+fenced_divs+bracketed_spans --to html5 --wrap=preserve --metadata=lang:en --css=$targetDocroot"pandoc_templates/style.css" -Bnavbar   -o"
for f in *
do
	if [[ -d $f && -x $f/mkdocs.sh ]]; then
		echo "recursing into" $f
        $f/mkdocs.sh
		dirx=`dirname $0`
		dirx="${dirx%/}"             # strip trailing slash (if any)
		subdirx="${dirx##*/}"
		echo "resuming "$subdirx
fi
	if [[ $f =~ (.*)".md"$ ]];then
     	base=${BASH_REMATCH[1]}
 		if [[ $f -nt $destdir$base.html ]];	then
 			katex=""
   			line=""
    		for i in 1 2 3 4 5
   			do
	 			read line

	 			if [[ $line =~ katex ]];then
		 			katex=" --katex="$docroot
	 			fi
   			done <$f
			echo "$destdir$base.html from $f"
			pandoc  --variable $banner_height --variable targetDocroot:$targetDocroot --template $docroot"pandoc_templates/pandoc.template" $katex $options $destdir$base.html $base.md
		#else
 			#  echo "       $base.html up to date"
		fi
	fi
done
echo done with "${PWD##*/}"