=> Bootstrap dependency digest>=20010302: found digest-20190127
=> Checksum SHA1 OK for primer3-src-2.3.6.tar.gz
=> Checksum RMD160 OK for primer3-src-2.3.6.tar.gz
=> Checksum SHA512 OK for primer3-src-2.3.6.tar.gz
===> Installing dependencies for primer3-2.3.6
=> Tool dependency gmake>=3.81: found gmake-4.2.1nb1
=> Tool dependency nbpatch-[0-9]*: found nbpatch-20151107
=> Tool dependency checkperms>=1.1: found checkperms-1.12
=> Build dependency cwrappers>=20150314: found cwrappers-20180325
===> Skipping vulnerability checks.
WARNING: No /opt/pkg/pkgdb/pkg-vulnerabilities file found.
WARNING: To fix run: `/opt/pkg/sbin/pkg_admin -K /opt/pkg/pkgdb fetch-pkg-vulnerabilities'.
===> Overriding tools for primer3-2.3.6
===> Extracting for primer3-2.3.6
===> Patching for primer3-2.3.6
=> Applying pkgsrc patches for primer3-2.3.6
=> Verifying /opt/pkgsrc/biology/primer3/patches/patch-src_primer3__boulder__main.c
=> Applying pkgsrc patch /opt/pkgsrc/biology/primer3/patches/patch-src_primer3__boulder__main.c
Hmm...  Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-src_primer3__boulder__main.c,v 1.2 2015/01/31 06:18:43 mef Exp $
|
|getopt_long_only is not very portable; use getopt_long instead.
|
|--- src/primer3_boulder_main.c.orig	2013-10-21 16:49:57.000000000 +0900
|+++ src/primer3_boulder_main.c	2015-01-31 15:12:56.000000000 +0900
--------------------------
Patching file src/primer3_boulder_main.c using Plan A...
Hunk #1 succeeded at 128.
done
===> Creating toolchain wrappers for primer3-2.3.6