Hi, I imagine that you are referring to the 'rootfile' element in "META-INF/container.xml":
<container xmlns="urn:oasis:names:tc:opendocument:xmlns:container" version="1.0">
<rootfiles>
<rootfile full-path="EPUB/package.opf" media-type="application/oebps-package+xml"/>
</rootfiles>
</container>
...as per the specification:
"
The Package Document traversed by the CFI must be the one specified as the default rendition in the Publication's META-INF/container.xml file (i.e., the Package Document referenced by the first rootfile element in container.xml).
"
It is my understanding is that only *intra-publication* CFIs allow linking to OPF files other than the "root" one:
http://idpf.org/epub/linking/cfi/epub-cfi.html#sec-intra-cfis
e.g.:
href="../package.opf#epubcfi(...)"
So, with a publication-level EPUB CFI, it is only possible to link into the root OPF, e.g.:
href="book.epub#epubcfi(...)"
Regards, Dan