I'm the FreeBSD port maintainer for GNU indent. It seems that at least the following parameters of the configure script are ignored:
--docdir --dvidir --psdir --pdfdir --htmldir I know next to nothing about autotools (and have currently no inclination to read up on it) but it seems to me that the lines docdir = $(prefix)/doc/@PACKAGE@ dvidir = $(docdir) psdir = $(docdir) pdfdir = $(docdir) htmldir = $(docdir) in doc/Makefile.in should read docdir = @docdir@ dvidir = @dvidir@ psdir = @psdir@ pdfdir = @pdfdir@ htmldir = @htmldir@ How one gets automake to do this, I don't really know. It probably has to do with the corresponding entries in doc/Makefile.am. But you guys will know better how to fix this.