=> Bootstrap dependency digest>=20211023: found digest-20220214
===> Building for biolibc-tools-0.1.4.9
cd /Users/pbulk/build/biology/biolibc-tools/work/biolibc-tools-6d9604303fa43418a423840c916407af2b069184 && /opt/pkg/bin/bmake PREFIX=/opt/pkg depend
rm -f Makefile.depend
for file in *.c; do  cc -isystem /opt/pkg/include -isystem /opt/pkg/include -MM ${file} >> Makefile.depend;  printf "\t\${CC} -c \${CFLAGS} ${file}\n\n" >> Makefile.depend;  done
--- depend ---
--- fastx2tsv.o ---
--- fastx-derep.o ---
--- depend ---
rm -f Makefile.depend
--- fastx2tsv.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include fastx2tsv.c
--- depend ---
for file in *.c; do  clang -isystem /opt/pkg/include -isystem /opt/pkg/include -MM ${file} >> Makefile.depend;  printf "	\${CC} -c \${CFLAGS} ${file}

" >> Makefile.depend;  done
--- fastx-derep.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include fastx-derep.c
--- vcf-search.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include vcf-search.c
--- fasta2seq.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include fasta2seq.c
--- find-orfs.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include find-orfs.c
--- gff3-to-bed.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include gff3-to-bed.c
--- extract-seq.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include extract-seq.c
--- chrom-lens.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include chrom-lens.c
--- fastx-stats.o ---
--- ensemblid2gene.o ---
--- vcf-downsample.o ---
--- ensemblid2gene.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include ensemblid2gene.c
--- fastx-stats.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include fastx-stats.c
--- vcf-downsample.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include vcf-downsample.c
--- deromanize.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include deromanize.c
--- blt.o ---
clang -c -pipe -Os -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -Wno-char-subscripts -isystem /opt/pkg/include -isystem /opt/pkg/include blt.c
--- fastx2tsv ---
clang -o fastx2tsv fastx2tsv.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- fastx-derep ---
clang -o fastx-derep fastx-derep.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm -lxxhash
--- vcf-search ---
--- fastx2tsv ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- vcf-search ---
clang -o vcf-search vcf-search.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- fasta2seq ---
clang -o fasta2seq fasta2seq.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- fastx-derep ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- vcf-search ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- find-orfs ---
--- gff3-to-bed ---
--- find-orfs ---
clang -o find-orfs find-orfs.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- fasta2seq ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- gff3-to-bed ---
clang -o gff3-to-bed gff3-to-bed.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- extract-seq ---
clang -o extract-seq extract-seq.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- gff3-to-bed ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- find-orfs ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- chrom-lens ---
clang -o chrom-lens chrom-lens.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- ensemblid2gene ---
--- extract-seq ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- ensemblid2gene ---
clang -o ensemblid2gene ensemblid2gene.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- vcf-downsample ---
--- chrom-lens ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- vcf-downsample ---
clang -o vcf-downsample vcf-downsample.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- fastx-stats ---
--- ensemblid2gene ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- fastx-stats ---
clang -o fastx-stats fastx-stats.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- vcf-downsample ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- deromanize ---
clang -o deromanize deromanize.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- blt ---
clang -o blt blt.o -L/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
--- fastx-stats ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- deromanize ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored
--- blt ---
ld: warning: duplicate -rpath '/opt/pkg/lib' ignored