=> Bootstrap dependency digest>=20010302: found digest-20121220
===> Skipping vulnerability checks.
WARNING: No /var/db/pkg/pkg-vulnerabilities file found.
WARNING: To fix run: `/usr/sbin/pkg_admin -K /var/db/pkg fetch-pkg-vulnerabilities'.
===> Building for xylem-1.8.7
gcc  -c  -O2 p2clib.c
ar r libp2c.a p2clib.o; ranlib libp2c.a
ar: creating libp2c.a
gcc dbstat.c -O  -L. -lp2c -lm -I. -O2 -o dbstat
gcc getloc.c -O  -L. -lp2c -lm -I. -O2 -o getloc
gcc getob.c -O  -L. -lp2c -lm -I. -O2 -o getob
getob.c: In function 'INITLIST':
getob.c:650:19: warning: cast to pointer from integer of different size
getob.c:651:19: warning: cast to pointer from integer of different size
getob.c: In function 'ADDNODE':
getob.c:1233:23: warning: cast to pointer from integer of different size
gcc identify.c -O  -L. -lp2c -lm -I. -O2 -o identify
gcc prot2nuc.c -O  -L. -lp2c -lm -I. -O2 -o prot2nuc
gcc reform.c -O  -L. -lp2c -lm -I. -O2 -o reform
gcc ribosome.c -O  -L. -lp2c -lm -I. -O2 -o ribosome
gcc splitdb.c -O  -L. -lp2c -lm -I. -O2 -o splitdb
gcc shuffle.c -O  -L. -lp2c -lm -I. -O2 -o shuffle
gcc flat2phyl.c -O  -L. -lp2c -lm -I. -O2 -o flat2phyl
gcc phyl2flat.c -O  -L. -lp2c -lm -I. -O2 -o phyl2flat
=> Unwrapping files-to-be-installed.
/bin/rm -f /scratch/biology/xylem/work/xylem/test/testxylem.csh.orig
/bin/mv /scratch/biology/xylem/work/xylem/src.c/identify /scratch/biology/xylem/work/xylem/src.c/xyl-identify
/bin/mv /scratch/biology/xylem/work/xylem/src.c/shuffle /scratch/biology/xylem/work/xylem/src.c/xyl-shuffle