An EPUB 3.0 template (including iBooks display options) to help you get started with your ebook. http://git.io/epub3-boilerplate
▾ /
▾ META-INF/
▪ container.xml
▪ mimetype
▾ OPS/ (Open Publishing Structure)
▾ book/
▪ content.xhtml
▪ cover.xhtml
▪ title.xhtml
▪ table-of-contents.ncx (only needed for EPUB 2.0 backward-compatibility)
▪ table-of-contents.xhtml
▾ css/
▪ style.css
▾ fonts/
▪ fonts.css
▪ someawesomefont.woff
▾ images/
▪ cover.png
▪ package.opf
As the author of this template I myself have used it a lot already and everytime I find something new I need in a book, I add it to this template. So, what I suggest you do is you really start fresh, creating a new folder and adding only what you need, otherwise I find it tough to keep track of what you have changed, added or deleted. Have fun coding!
To install the Automator services copy them to either /Library/Services/ or ~/Library/Services/. For the EpubCheck Service, please install epubcheck and terminal-notifier with brew install terminal-notifier epubcheck.