Walkdir gives the full path for each file so I have to remove the input dir part.

{%code_ref
    "src" : "src/MarkdownReader.js",
    "ref" : {
        "text" : "var match = files[i].substr(dirNameLength+1).match(mdre);"
    }
%}

**Warning:**
I don't like the fact that this is here, its implying that it has 1-1 relation with the metadata saved
{:.alert .alert-danger }

{%code_warning
    "src" : "src/MarkdownReader.js",
    "ref" : {
        "text" : "Object.defineProperty(ref,\"jsonml\",{enumerable:false});"
    }
%}



**Warning:**
Revisit this
{:.alert .alert-danger }

{%code_warning
    "src" : "src/MarkdownReader.js",
    "ref" : {
        "text" : "MarkdownReader.prototype.analyzeMarkdownFileReader"
    }
%}