The port sets CONFIGURE_ARGS twice which results in --with-python never being passed to the build. CONFIGURE_ARGS= --with-python CONFIGURE_ARGS= --enable-shared --disable-static The build appears to succeed anyway, so maybe --with-python is not really needed.
Ping.
Thanks for reporting this!
A commit references this bug: Author: yuri Date: Thu Jan 17 05:59:38 UTC 2019 New revision: 490524 URL: https://svnweb.freebsd.org/changeset/ports/490524 Log: science/coot: Remove the unused CONFIGURE_ARGS line PR: 234737 Reported by: tobik Changes: head/science/coot/Makefile