=> Bootstrap dependency digest>=20010302: found digest-20190127
=> Checksum SHA1 OK for gnome-chemistry-utils-0.14.16.tar.bz2
=> Checksum RMD160 OK for gnome-chemistry-utils-0.14.16.tar.bz2
=> Checksum SHA512 OK for gnome-chemistry-utils-0.14.16.tar.bz2
===> Installing dependencies for gnome-chemistry-utils-0.14.16nb6
==========================================================================
The following variables will affect the build process of this package,
gnome-chemistry-utils-0.14.16nb6.  Their current value is shown below:

        * JPEG_DEFAULT = jpeg

Based on these variables, the following variables have been set:

        * JPEGBASE (defined, but empty)
        * JPEG_TYPE = jpeg

You may want to abort the process now with CTRL-C and change the value
of variables in the first group before continuing.  Be sure to run
`/usr/bin/make clean' after the changes.
==========================================================================
=> Tool dependency glib2-tools-[0-9]*: found glib2-tools-2.68.4
=> Tool dependency libtool-base>=2.4.2nb9: found libtool-base-2.4.6nb3
=> Tool dependency intltool>=0.40.0: found intltool-0.51.0nb6
=> Tool dependency bsdtar-[0-9]*: found bsdtar-3.4.3
=> Tool dependency gmake>=3.81: found gmake-4.3nb2
=> Tool dependency perl>=5.0: found perl-5.34.0nb3
=> Tool dependency pkgconf-[0-9]*: found pkgconf-1.8.0
=> Tool dependency checkperms>=1.1: found checkperms-1.12
=> Build dependency x11-links>=1.34: found x11-links-1.34
=> Build dependency gnome-doc-utils>=0.8.0: found gnome-doc-utils-0.20.10nb9
=> Build dependency eigen3>=3.1.2: found eigen3-3.3.9
=> Build dependency cwrappers>=20150314: found cwrappers-20180325
=> Full dependency hicolor-icon-theme>=0.9nb1: found hicolor-icon-theme-0.17nb1
=> Full dependency shared-mime-info>=1.0nb1: found shared-mime-info-1.10nb4
=> Full dependency gnome-mime-data>=2.18.0nb9: found gnome-mime-data-2.18.0nb10
=> Full dependency gtkglext>=1.2.0nb43: found gtkglext-1.2.0nb45
=> Full dependency goffice0.10>=0.10.48nb1: found goffice0.10-0.10.48nb1
=> Full dependency gtk3+>=3.24.22nb1: found gtk3+-3.24.30
=> Full dependency desktop-file-utils>=0.10nb1: found desktop-file-utils-0.26
=> Full dependency chemical-mime-data>=0.1.94: found chemical-mime-data-0.1.94
=> Full dependency bodr>=8: found bodr-9nb14
=> Full dependency openbabel>=3.1.1nb6: found openbabel-3.1.1nb7
=> Full dependency rarian>=0.6.0: found rarian-0.8.1nb7
===> 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 gnome-chemistry-utils-0.14.16nb6
===> Extracting for gnome-chemistry-utils-0.14.16nb6
===> Patching for gnome-chemistry-utils-0.14.16nb6
=> Applying pkgsrc patches for gnome-chemistry-utils-0.14.16nb6
=> Verifying /tree/pkgsrc/biology/gnome-chemistry-utils/patches/patch-configure
=> Applying pkgsrc patch /tree/pkgsrc/biology/gnome-chemistry-utils/patches/patch-configure
Hmm...  Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-configure,v 1.1 2020/06/29 13:04:48 ryoon Exp $
|
|* Use openbabel 3.
|
|--- configure.orig	2016-11-23 13:06:33.000000000 +0000
|+++ configure
--------------------------
Patching file configure using Plan A...
Hunk #1 succeeded at 19695.
Hunk #2 succeeded at 19712.
Hunk #3 succeeded at 19738.
done
===> Creating toolchain wrappers for gnome-chemistry-utils-0.14.16nb6
===> Configuring for gnome-chemistry-utils-0.14.16nb6
=> Generating pkg-config file for builtin expat package.
=> Generating pkg-config files for builtin xz package.
=> Modifying GNU configure scripts to avoid --recheck
=> Replacing config-guess with pkgsrc versions
=> Replacing config-sub with pkgsrc versions
=> Replacing install-sh with pkgsrc version
=> Checking for portability problems in extracted files
WARNING: [check-portability.awk] => Found $RANDOM:
WARNING: [check-portability.awk] configure:16575:       INTLTOOL_XML_NOMERGE_RULE='%.xml:       %.xml.in       $(INTLTOOL_MERGE) ; $(INTLTOOL_V_MERGE)_it_tmp_dir=tmp.intltool.$$RANDOM && mkdir $$_it_tmp_dir && LC_ALL=C $(INTLTOOL_MERGE) $(INTLTOOL_V_MERGE_OPTIONS) -x -u $$_it_tmp_dir $< $@ && rmdir $$_it_tmp_dir'

Explanation:
===========================================================================
The variable $RANDOM is not required for a POSIX-conforming shell, and
many implementations of /bin/sh do not support it. It should therefore
not be used in shell programs that are meant to be portable across a
large number of POSIX-like systems.
===========================================================================

checking for a BSD-compatible install... /usr/bin/install -c -o pbulk -g users
checking whether build environment is sane... yes
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checking how to hardcode library paths into programs... immediate
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checking dynamic linker characteristics... NetBSD ld.elf_so
checking how to hardcode library paths into programs... immediate
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checking for XML::Parser... ok
checking pkg-config is at least version 0.9.0... yes
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configure: creating ./config.status
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rm: libtoolT: No such file or directory
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=> Overriding intltool.
=> Modifying libtool scripts to use pkgsrc libtool
=> Modifying libtool scripts to use pkgsrc depcomp