=> Bootstrap dependency digest>=20211023: found digest-20211023
=> Checksum BLAKE2s OK for phylip-3.69.tar.gz
=> Checksum SHA512 OK for phylip-3.69.tar.gz
===> Installing dependencies for phylip-3.69
=> Tool dependency checkperms>=1.1: found checkperms-1.12
=> Build dependency x11-links>=1.34: found x11-links-1.34
=> Build dependency cwrappers>=20150314: found cwrappers-20180325
===> Skipping vulnerability checks.
WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found.
WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'.
===> Overriding tools for phylip-3.69
===> Extracting for phylip-3.69
===> Patching for phylip-3.69
=> Applying pkgsrc patches for phylip-3.69
=> Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/biology/phylip/patches/patch-aa
=> Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/biology/phylip/patches/patch-aa
Hmm...  Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-aa,v 1.3 2010/07/10 11:26:32 obache Exp $
|
|--- Makefile.orig	2009-09-08 22:14:56.000000000 +0000
|+++ Makefile
--------------------------
Patching file Makefile using Plan A...
Hunk #1 succeeded at 78.
Hunk #2 succeeded at 97.
Hunk #3 succeeded at 128.
Hunk #4 succeeded at 149.
done
===> Creating toolchain wrappers for phylip-3.69
===> Configuring for phylip-3.69
=> Checking for portability problems in extracted files