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You can override every LaTeX inline hook in a config file (see Using LaTeX config files) with
\renewcommand{\nameofHook}[1]{new definition}
In the new definition, every #1
is replaced with the respective
text to be formatted. Note that it is unnecessary to enclose the whole
new definition with braces in order to keep re-definitions local. This
is done in the LaTeX source anyway.
Let's assume you wanted to change the appearance of URLs. You prefer the Texinfo way of printing them with a fixed-width font. Then the following line does the trick:
\renewcommand{\urlHook}[1]{\texttt{#1}}
Put this line in the file mymanual-t2l.cfg in the same directory as mymanual.texi. That's it.