I guess that Atril cannot handle several levels of "ul" lists in the toc.xhtml file, structure is like this:
$ xmlstarlet elements toc.xhtml html html/head html/head/title html/head/style html/body html/body/h2 html/body/ul html/body/ul/li html/body/ul/li/a - visible html/body/ul/li html/body/ul/li/a - visible html/body/ul/li html/body/ul/li/a - visible html/body/ul/li html/body/ul/li/a html/body/ul/li/ul html/body/ul/li/ul/li html/body/ul/li/ul/li/a - visible html/body/ul/li/ul/li/ul html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li html/body/ul/li/ul/li/a - visible html/body/ul/li/ul/li/ul html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug html/body/ul/li/ul/li/ul/li html/body/ul/li/ul/li/ul/li/a - HIDDEN, a bug ...
I guess that Atril cannot handle several levels of "ul" lists in the toc.xhtml file, structure is like this:
$ xmlstarlet elements toc.xhtml ul/li/ul/ li ul/li/ul/ li/a - visible ul/li/ul/ li/ul ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li ul/li/ul/ li/a - visible ul/li/ul/ li/ul ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug ul/li/ul/ li/ul/li ul/li/ul/ li/ul/li/ a - HIDDEN, a bug
html
html/head
html/head/title
html/head/style
html/body
html/body/h2
html/body/ul
html/body/ul/li
html/body/ul/li/a - visible
html/body/ul/li
html/body/ul/li/a - visible
html/body/ul/li
html/body/ul/li/a - visible
html/body/ul/li
html/body/ul/li/a
html/body/ul/li/ul
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
html/body/
...