+ case "${usergroup_phase}" in
+ local run_cmd
+ run_cmd=run_su
+ shift
+ run_su /opt/pkg/bin/bmake stage-install BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/biolibc-tools-0.1.4.3/work.log
+ su pbulk -c '"$@"' make /opt/pkg/bin/bmake stage-install BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/biolibc-tools-0.1.4.3/work.log
=> Bootstrap dependency digest>=20211023: found digest-20220214
===> Installing for biolibc-tools-0.1.4.3
=> Generating pre-install file lists
mkdir -p /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/bin /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1 /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/libexec/biolibc-tools
/opt/pkg/bin/bsdinstall -m 0755 blt /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/bin
/opt/pkg/bin/bsdinstall -m 0755 fastx2tsv fastx-derep vcf-search fasta2seq find-orfs gff2bed extract-seq chrom-lens fastx-stats ensemblid2gene vcf-downsample deromanize /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/libexec/biolibc-tools
sed -e "s|../Scripts|`realpath /opt/pkg/libexec/biolibc-tools`|g" Scripts/fastq-derep.sh > fastq-derep.sh
/usr/bin/bash: realpath: command not found
/opt/pkg/bin/bsdinstall -m 0755 fastq-derep.sh /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/libexec/biolibc-tools
rm fastq-derep.sh
/opt/pkg/bin/bsdinstall -m 0755 Scripts/uniq-seqs.awk /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/libexec/biolibc-tools
/opt/pkg/bin/bsdinstall -m 0444 Man/* /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1
strip /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/bin/blt
for f in fastx2tsv fastx-derep vcf-search fasta2seq find-orfs gff2bed extract-seq chrom-lens fastx-stats ensemblid2gene vcf-downsample deromanize; do strip /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/libexec/biolibc-tools/${f}; done
=> Generating CTF data
=> Automatic stripping of debug information
=> Automatic manual page handling
=> Generating post-install file lists
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-chrom-lens.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-deromanize.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-ensemblid2gene.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-extract-seq.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fasta2seq.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastq-derep.sh.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastx-derep.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastx-stats.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastx2tsv.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-find-orfs.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-gff2bed.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-vcf-downsample.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-vcf-search.1.gz'
pkg_create: can't stat `/home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt.1.gz'
=> Checking file-check results for biolibc-tools-0.1.4.3
ERROR: ************************************************************
ERROR: The following files are in the PLIST but not in /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg:
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-chrom-lens.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-deromanize.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-ensemblid2gene.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-extract-seq.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fasta2seq.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastq-derep.sh.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastx-derep.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastx-stats.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-fastx2tsv.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-find-orfs.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-gff2bed.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-vcf-downsample.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt-vcf-search.1.gz
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/share/man/man1/blt.1.gz
ERROR: ************************************************************
ERROR: The following files are in /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg but not in the PLIST:
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-chrom-lens.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-deromanize.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-ensemblid2gene.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-extract-seq.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-fasta2seq.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-fastq-derep.sh.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-fastx-derep.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-fastx-stats.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-fastx2tsv.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-find-orfs.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-gff2bed.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-vcf-downsample.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt-vcf-search.1
ERROR: /home/pbulk/build/biology/biolibc-tools/work/.destdir/opt/pkg/man/man1/blt.1
*** Error code 1
Stop.
bmake[1]: stopped in /data/jenkins/workspace/pkgsrc-upstream-trunk/biology/biolibc-tools
*** Error code 1
Stop.
bmake: stopped in /data/jenkins/workspace/pkgsrc-upstream-trunk/biology/biolibc-tools