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PG does not ignore comments in _CoqProject file
_CoqProject file has a bash-like comment syntax. # starts a comment until the end of the line.
But if PG find a _CoqPrpjet file containing, e.g.
# -R . Foo
it will then consider the commented -R directive:
coqtop -topfile <scriptfile> -emacs -R <expanded path> Foo