+ case "${usergroup_phase}" in
+ local run_cmd
+ run_cmd=run_su
+ shift
+ run_su /opt/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/biolibc-tools-0.1.4.1/work.log
+ su pbulk -c '"$@"' make /opt/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/biolibc-tools-0.1.4.1/work.log
=> Bootstrap dependency digest>=20211023: found digest-20220214
===> Building for biolibc-tools-0.1.4.1
cd /home/pbulk/build/biology/biolibc-tools/work/biolibc-tools-01886a9b8b0532b555f113dba334812735af1361 && /opt/pkg/bin/bmake PREFIX=/opt/pkg depend
rm -f Makefile.depend
for file in *.c; do  gcc -isystem /opt/pkg/include -isystem /opt/pkg/include -MM ${file} >> Makefile.depend;  printf "\t\${CC} -c \${CFLAGS} ${file}\n\n" >> Makefile.depend;  done
rm -f Makefile.depend
for file in *.c; do  gcc -isystem /opt/pkg/include -isystem /opt/pkg/include -MM ${file} >> Makefile.depend;  printf "\t\${CC} -c \${CFLAGS} ${file}\n\n" >> Makefile.depend;  done
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include fastx2tsv.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include fastx-derep.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include vcf-search.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include fasta2seq.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include find-orfs.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include gff2bed.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include extract-seq.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include chrom-lens.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include fastx-stats.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include ensemblid2gene.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include vcf-downsample.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include deromanize.c
gcc -c -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -D_FORTIFY_SOURCE=2 -I/opt/pkg/include -DLIBEXECDIR=\"/opt/pkg/libexec/biolibc-tools\" -DXXH_INLINE_ALL -DVERSION=\"`./version.sh`\" -isystem /opt/pkg/include -isystem /opt/pkg/include blt.c
gcc -o fastx2tsv fastx2tsv.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o fastx-derep fastx-derep.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/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
gcc -o vcf-search vcf-search.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o fasta2seq fasta2seq.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o find-orfs find-orfs.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o gff2bed gff2bed.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o extract-seq extract-seq.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o chrom-lens chrom-lens.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o fastx-stats fastx-stats.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o ensemblid2gene ensemblid2gene.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o vcf-downsample vcf-downsample.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o deromanize deromanize.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm
gcc -o blt blt.o -lresolv -lsocket -lnsl -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -L/opt/pkg/lib -Wl,-rpath,/opt/pkg/lib  -lbiolibc -lxtend -lm