Got it! Your Makefile is corrupted, see this part:
[...]
inst_pkgconf = $(INST)/pkgconf-0.9.7
inst_pkgconfig = $(INST)/pkgconfig-1.1.0
inst_planarity = $(INST)/planarity-2.2.0
inst_plantri = $(INST)/plantri-4.5
inst_polytopes_db = $(INST)/polytopes_db-20120220
inst_ppl = $(INST)/ppl-1.1
# All standard packages
[...]
This list unexpectedly ends at ppl, which means that any package which
comes alphabetically after ppl will not be installed.
I will need to see the top-level file config.log to debug this further.
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