You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.

Maintainer:     po...@freebsd.org
Last committer: sunp...@freebsd.org
Ident:          $FreeBSD: branches/2016Q3/science/silo/Makefile 413700 
2016-04-20 20:42:39Z sunpoet $
Log URL:        
http://beefy1.nyi.freebsd.org/data/110i386-quarterly/422148/logs/silo-4.10_3.log
Build URL:      
http://beefy1.nyi.freebsd.org/build.html?mastername=110i386-quarterly&build=422148
Log:

====>> Building science/silo
build started at Fri Sep 16 07:04:55 UTC 2016
port directory: /usr/ports/science/silo
building for: FreeBSD 110i386-quarterly-job-15 11.0-RC3 FreeBSD 11.0-RC3 
r305786 i386
maintained by: po...@freebsd.org
Makefile ident:      $FreeBSD: branches/2016Q3/science/silo/Makefile 413700 
2016-04-20 20:42:39Z sunpoet $
Poudriere version: 3.1.14
Host OSVERSION: 1200005
Jail OSVERSION: 1100122

---Begin Environment---
SHELL=/bin/csh
UNAME_p=i386
UNAME_m=i386
UNAME_v=FreeBSD 11.0-RC3 r305786
UNAME_r=11.0-RC3
BLOCKSIZE=K
MAIL=/var/mail/root
STATUS=1
OPSYS=FreeBSD
ARCH=i386
LINUX_OSRELEASE=2.6.32
SAVED_TERM=
MASTERMNT=/usr/local/poudriere/data/.m/110i386-quarterly/ref
UID=0
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
_JAVA_VERSION_LIST_REGEXP=1.6\|1.7\|1.8\|1.6+\|1.7+\|1.8+
POUDRIERE_BUILD_TYPE=bulk
PKGNAME=silo-4.10_3
OSREL=11.0
_OSRELEASE=11.0-RC3
PYTHONBASE=/usr/local
OLDPWD=/
_SMP_CPUS=24
PWD=/usr/local/poudriere/data/.m/110i386-quarterly/ref/.p/pool
MASTERNAME=110i386-quarterly
SCRIPTPREFIX=/usr/local/share/poudriere
_JAVA_VENDOR_LIST_REGEXP=openjdk\|oracle\|sun
USER=root
HOME=/root
POUDRIERE_VERSION=3.1.14
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
CONFIGURE_MAX_CMD_LEN=262144
LIBEXECPREFIX=/usr/local/libexec/poudriere
LOCALBASE=/usr/local
PACKAGE_BUILDING=yes
_JAVA_OS_LIST_REGEXP=native\|linux
OSVERSION=1100122
---End Environment---

---Begin OPTIONS List---
===> The following configuration options are available for silo-4.10_3:
     FORTRAN=off: Fortran language support
     HDF5=on: HDF-5 data format support
     PYTHON=off: Python bindings or support
     QT4=off: Qt 4 toolkit support
===> Use 'make config' to modify these settings
---End OPTIONS List---

--CONFIGURE_ARGS--
--enable-shared --disable-static --disable-fortran 
--with-hdf5=/usr/local/include,/usr/local/lib --disable-pythonmodule 
--disable-silex --prefix=/usr/local ${_LATE_CONFIGURE_ARGS}
--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/science/silo/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/silo/work  
HOME=/wrkdirs/usr/ports/science/silo/work TMPDIR="/tmp" SHELL=/bin/sh 
CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site 
lt_cv_sys_max_cmd_len=262144
--End CONFIGURE_ENV--

--MAKE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/science/silo/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/silo/work  
HOME=/wrkdirs/usr/ports/science/silo/work TMPDIR="/tmp" NO_PIE=yes 
MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES 
PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="cc" CFLAGS="-O2 
-pipe  -fstack-protector -fno-strict-aliasing"  CPP="cpp" 
CPPFLAGS="-I/usr/local/include"  LDFLAGS=" -L/usr/local/lib -fstack-protector" 
LIBS=""  CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector -fno-strict-aliasing " 
 MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -m 555"  
BSD_INSTALL_LIB="install  -s -m 444"  BSD_INSTALL_SCRIPT="install  -m 555"  
BSD_INSTALL_DATA="install  -m 0644"  BSD_INSTALL_MAN="install  -m 444"
--End MAKE_ENV--

--PLIST_SUB--
FORTRAN="@comment
"
NO_FORTRAN=""
HDF5=""
NO_HDF5="@comment
"
SUFX_HDF5="h5"
PYTHON="@comment
"
NO_PYTHON=""
QT4="@comment
"
NO_QT4=""
OSREL=11.0
PREFIX=%D
LOCALBASE=/usr/local
RESETPREFIX=/usr/local
PORTDOCS=""
PORTEXAMPLES=""
LIB32DIR=lib
DOCSDIR="share/doc/silo"
EXAMPLESDIR="share/examples/silo"
DATADIR="share/silo"
WWWDIR="www/silo"
ETCDIR="etc/silo"
--End PLIST_SUB--

--SUB_LIST--
FORTRAN="@comment
"
NO_FORTRAN=""
HDF5=""
NO_HDF5="@comment
"
PYTHON="@comment
"
NO_PYTHON=""
QT4="@comment
"
NO_QT4=""
PREFIX=/usr/local
LOCALBASE=/usr/local
DATADIR=/usr/local/share/silo
DOCSDIR=/usr/local/share/doc/silo
EXAMPLESDIR=/usr/local/share/examples/silo
WWWDIR=/usr/local/www/silo
ETCDIR=/usr/local/etc/silo
--End SUB_LIST--

---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
MACHINE=i386
MACHINE_ARCH=i386
ARCH=${MACHINE_ARCH}
#### /usr/local/etc/poudriere.d/make.conf ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure.  It currently retries the same
# failed mirror and then fails rather then trying another.  It *does*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
DISABLE_MAKE_JOBS=poudriere
---End make.conf---
=======================<phase: check-sanity   >============================
===>   NOTICE:

The silo port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port

===>  License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   silo-4.10_3 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.8.7_1.txz
[110i386-quarterly-job-15] Installing pkg-1.8.7_1...
[110i386-quarterly-job-15] Extracting pkg-1.8.7_1: .......... done
===>   silo-4.10_3 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of silo-4.10_3
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>   NOTICE:

The silo port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port

===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by silo-4.10_3 for building
===========================================================================
=======================<phase: checksum       >============================
===>   NOTICE:

The silo port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port

===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by silo-4.10_3 for building
=> SHA256 Checksum OK for silo-4.10-bsd.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
<snip>
checking history.h usability... no
checking history.h presence... no
checking for history.h... no
checking readline/history.h usability... yes
checking readline/history.h presence... yes
checking for readline/history.h... yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating SiloWindows/Makefile
config.status: creating svn_bin/Makefile
config.status: creating config/Makefile
config.status: creating config-site/Makefile
config.status: creating docs/Makefile
config.status: creating src/Makefile
config.status: creating src/score/Makefile
config.status: creating src/pdb/Makefile
config.status: creating src/silo/Makefile
config.status: creating src/silo/silo.h
config.status: creating src/debug/Makefile
config.status: creating src/netcdf/Makefile
config.status: creating src/pdb_drv/Makefile
config.status: creating src/pdbp_drv/Makefile
config.status: creating src/hdf5_drv/Makefile
config.status: creating src/taurus/Makefile
config.status: creating src/unknown/Makefile
config.status: creating src/filters/Makefile
config.status: creating tests/Makefile
config.status: creating tools/Makefile
config.status: creating tools/browser/Makefile
config.status: creating tools/python/Makefile
config.status: creating tools/silex/Makefile
config.status: creating tools/silock/Makefile
config.status: creating tools/json/Makefile
config.status: creating tools/mapred/Makefile
config.status: creating src/libsiloh5.settings
config.status: creating config.h
config.status: executing tests/atconfig commands
config.status: executing depfiles commands
config.status: executing libtool commands


SUMMARY OF THE Silo with HDF5 CONFIGURATION
=================================

Silo Version:           4.10
Configured on:          Fri Sep 16 07:05:00 UTC 2016
Configured by:          root@110i386-quarterly-job-15
Configure command:      ./configure '--enable-shared' '--disable-static' 
'--disable-fortran' '--with-hdf5=/usr/local/include,/usr/local/lib' 
'--disable-pythonmodule' '--disable-silex' '--prefix=/usr/local' 
'--localstatedir=/var' '--mandir=/usr/local/man' '--infodir=/usr/local/info/' 
'--build=i386-portbld-freebsd11.0' 'build_alias=i386-portbld-freebsd11.0' 
'CXX=c++' 'CXXFLAGS=-O2 -pipe -fstack-protector -fno-strict-aliasing ' 
'LDFLAGS= -L/usr/local/lib -fstack-protector' 'LIBS=' 
'CPPFLAGS=-I/usr/local/include' 'CC=cc' 'CFLAGS=-O2 -pipe -fstack-protector 
-fno-strict-aliasing' 'CPP=cpp'
Host system:            i386-portbld-freebsd11.0
Build system:           i386-portbld-freebsd11.0
Installation point:     /usr/local
Source directory:       @UsingSrcDir@
Archiver:               ar
Ranlib:                 ranlib

Configure Summary
Compiling Options:
                     C Compiler /usr/bin/cc
                       CPPFLAGS -I/usr/local/include -I/usr/local/include
                         CFLAGS -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement
                        LDFLAGS -L/usr/local/lib  -L/usr/local/lib 
-fstack-protector
                           LIBS -lhdf5  -lm
Languages:
                   C++ Compiler /usr/bin/c++
                       CXXFLAGS -O2 -pipe -fstack-protector 
-fno-strict-aliasing 
               Fortran Compiler 
                        FCFLAGS 
                         FCLIBS 
Features:
                        Browser @UsingBrowser@
                       Readline @UsingReadline@
                           HDF5 @UsingHDF5@
                          Silex @UsingSilex@
                             Qt @UsingQt@
                Qt moc Compiler 
                    Qt CXXFLAGS 
                        Qt LIBS 
                         Python @UsingPython@
                Python Compiler 
                Python CPPFLAGS 
===========================================================================
=======================<phase: build          >============================
===>  Building for silo-4.10_3
gmake[1]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd'
gmake  all-recursive
gmake[2]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd'
Making all in .
gmake[3]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd'
gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd'
Making all in src
gmake[3]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src'
gmake  all-recursive
gmake[4]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src'
Making all in score
gmake[5]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/score'
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
 -I/usr/local/include -I/usr/local/include  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT memmove.lo -MD -MP -MF 
.deps/memmove.Tpo -c -o memmove.lo memmove.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include 
-I/usr/local/include -O2 -pipe -fstack-protector -fno-strict-aliasing 
-D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 
-Wdeclaration-after-statement -MT memmove.lo -MD -MP -MF .deps/memmove.Tpo -c 
memmove.c  -fPIC -DPIC -o .libs/memmove.o
mv -f .deps/memmove.Tpo .deps/memmove.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
 -I/usr/local/include -I/usr/local/include  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT scctla.lo -MD -MP -MF 
.deps/scctla.Tpo -c -o scctla.lo scctla.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include 
-I/usr/local/include -O2 -pipe -fstack-protector -fno-strict-aliasing 
-D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 
-Wdeclaration-after-statement -MT scctla.lo -MD -MP -MF .deps/scctla.Tpo -c 
scctla.c  -fPIC -DPIC -o .libs/scctla.o
mv -f .deps/scctla.Tpo .deps/scctla.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
 -I/usr/local/include -I/usr/local/include  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT scctl.lo -MD -MP -MF 
.deps/scctl.Tpo -c -o scctl.lo scctl.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include 
-I/usr/local/include -O2 -pipe -fstack-protector -fno-strict-aliasing 
-D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 
-Wdeclaration-after-statement -MT scctl.lo -MD -MP -MF .deps/scctl.Tpo -c 
scctl.c  -fPIC -DPIC -o .libs/scctl.o
mv -f .deps/scctl.Tpo .deps/scctl.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
 -I/usr/local/include -I/usr/local/include  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT schash.lo -MD -MP -MF 
.deps/schash.Tpo -c -o schash.lo schash.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include 
-I/usr/local/include -O2 -pipe -fstack-protector -fno-strict-aliasing 
-D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 
-Wdeclaration-after-statement -MT schash.lo -MD -MP -MF .deps/schash.Tpo -c 
schash.c  -fPIC -DPIC -o .libs/schash.o
mv -f .deps/schash.Tpo .deps/schash.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
 -I/usr/local/include -I/usr/local/include  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT scstr.lo -MD -MP -MF 
.deps/scstr.Tpo -c -o scstr.lo scstr.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include 
-I/usr/local/include -O2 -pipe -fstack-protector -fno-strict-aliasing 
-D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 
-Wdeclaration-after-statement -MT scstr.lo -MD -MP -MF .deps/scstr.Tpo -c 
scstr.c  -fPIC -DPIC -o .libs/scstr.o
mv -f .deps/scstr.Tpo .deps/scstr.Plo
/bin/sh ../../libtool --tag=CC   --mode=link cc  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement  -L/usr/local/lib  
-L/usr/local/lib -fstack-protector -o libsilo_score.la  memmove.lo scctla.lo 
scctl.lo schash.lo scstr.lo  -lhdf5  -lm
libtool: link: ar cru .libs/libsilo_score.a .libs/memmove.o .libs/scctla.o 
.libs/scctl.o .libs/schash.o .libs/scstr.o 
libtool: link: ranlib .libs/libsilo_score.a
libtool: link: ( cd ".libs" && rm -f "libsilo_score.la" && ln -s 
"../libsilo_score.la" "libsilo_score.la" )
gmake[5]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/score'
Making all in pdb
gmake[5]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/pdb'
cc -DHAVE_CONFIG_H -I. -I../..  -I../../src/score -I../../src/silo 
-I/usr/local/include -I/usr/local/include  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT detect.o -MD -MP -MF 
.deps/detect.Tpo -c -o detect.o detect.c
mv -f .deps/detect.Tpo .deps/detect.Po
cc -O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -o 
detect detect.o
./detect >> pdform.h
gmake  all-am
gmake[6]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/pdb'
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdb.lo -MD -MP -MF .deps/pdb.Tpo -c -o pdb.lo pdb.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdb.lo -MD -MP -MF .deps/pdb.Tpo -c pdb.c  -fPIC -DPIC -o .libs/pdb.o
mv -f .deps/pdb.Tpo .deps/pdb.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbdir.lo -MD -MP -MF .deps/pdbdir.Tpo -c -o pdbdir.lo pdbdir.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbdir.lo -MD -MP -MF .deps/pdbdir.Tpo -c pdbdir.c  -fPIC -DPIC -o 
.libs/pdbdir.o
mv -f .deps/pdbdir.Tpo .deps/pdbdir.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbio.lo -MD -MP -MF .deps/pdbio.Tpo -c -o pdbio.lo pdbio.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbio.lo -MD -MP -MF .deps/pdbio.Tpo -c pdbio.c  -fPIC -DPIC -o .libs/pdbio.o
mv -f .deps/pdbio.Tpo .deps/pdbio.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbmm.lo -MD -MP -MF .deps/pdbmm.Tpo -c -o pdbmm.lo pdbmm.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbmm.lo -MD -MP -MF .deps/pdbmm.Tpo -c pdbmm.c  -fPIC -DPIC -o .libs/pdbmm.o
mv -f .deps/pdbmm.Tpo .deps/pdbmm.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbx.lo -MD -MP -MF .deps/pdbx.Tpo -c -o pdbx.lo pdbx.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdbx.lo -MD -MP -MF .deps/pdbx.Tpo -c pdbx.c  -fPIC -DPIC -o .libs/pdbx.o
mv -f .deps/pdbx.Tpo .deps/pdbx.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdconv.lo -MD -MP -MF .deps/pdconv.Tpo -c -o pdconv.lo pdconv.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdconv.lo -MD -MP -MF .deps/pdconv.Tpo -c pdconv.c  -fPIC -DPIC -o 
.libs/pdconv.o
mv -f .deps/pdconv.Tpo .deps/pdconv.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdlow.lo -MD -MP -MF .deps/pdlow.Tpo -c -o pdlow.lo pdlow.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdlow.lo -MD -MP -MF .deps/pdlow.Tpo -c pdlow.c  -fPIC -DPIC -o .libs/pdlow.o
mv -f .deps/pdlow.Tpo .deps/pdlow.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdmemb.lo -MD -MP -MF .deps/pdmemb.Tpo -c -o pdmemb.lo pdmemb.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdmemb.lo -MD -MP -MF .deps/pdmemb.Tpo -c pdmemb.c  -fPIC -DPIC -o 
.libs/pdmemb.o
mv -f .deps/pdmemb.Tpo .deps/pdmemb.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdpath.lo -MD -MP -MF .deps/pdpath.Tpo -c -o pdpath.lo pdpath.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdpath.lo -MD -MP -MF .deps/pdpath.Tpo -c pdpath.c  -fPIC -DPIC -o 
.libs/pdpath.o
mv -f .deps/pdpath.Tpo .deps/pdpath.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src/score -I../../src/silo -I/usr/local/include -I/usr/local/include  
-O2 -pipe  -fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdrdwr.lo -MD -MP -MF .deps/pdrdwr.Tpo -c -o pdrdwr.lo pdrdwr.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src/score 
-I../../src/silo -I/usr/local/include -I/usr/local/include -O2 -pipe 
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
pdrdwr.lo -MD -MP -MF .deps/pdrdwr.Tpo -c pdrdwr.c  -fPIC -DPIC -o 
.libs/pdrdwr.o
mv -f .deps/pdrdwr.Tpo .deps/pdrdwr.Plo
/bin/sh ../../libtool --tag=CC   --mode=link cc  -O2 -pipe  -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement  -L/usr/local/lib  
-L/usr/local/lib -fstack-protector -o libsilo_pdb.la  pdb.lo pdbdir.lo pdbio.lo 
pdbmm.lo pdbx.lo pdconv.lo pdlow.lo pdmemb.lo pdpath.lo pdrdwr.lo  -lhdf5  -lm
libtool: link: ar cru .libs/libsilo_pdb.a .libs/pdb.o .libs/pdbdir.o 
.libs/pdbio.o .libs/pdbmm.o .libs/pdbx.o .libs/pdconv.o .libs/pdlow.o 
.libs/pdmemb.o .libs/pdpath.o .libs/pdrdwr.o 
libtool: link: ranlib .libs/libsilo_pdb.a
libtool: link: ( cd ".libs" && rm -f "libsilo_pdb.la" && ln -s 
"../libsilo_pdb.la" "libsilo_pdb.la" )
gmake[6]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/pdb'
gmake[5]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/pdb'
Making all in silo
gmake[5]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/silo'
gmake  all-am
gmake[6]: Entering directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/silo'
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src  -I/usr/local/include -I/usr/local/include  -O2 -pipe  
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
alloc.lo -MD -MP -MF .deps/alloc.Tpo -c -o alloc.lo alloc.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src 
-I/usr/local/include -I/usr/local/include -O2 -pipe -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT alloc.lo -MD -MP -MF 
.deps/alloc.Tpo -c alloc.c  -fPIC -DPIC -o .libs/alloc.o
mv -f .deps/alloc.Tpo .deps/alloc.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src  -I/usr/local/include -I/usr/local/include  -O2 -pipe  
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
extface.lo -MD -MP -MF .deps/extface.Tpo -c -o extface.lo extface.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src 
-I/usr/local/include -I/usr/local/include -O2 -pipe -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT extface.lo -MD -MP -MF 
.deps/extface.Tpo -c extface.c  -fPIC -DPIC -o .libs/extface.o
mv -f .deps/extface.Tpo .deps/extface.Plo
/bin/sh ../../libtool --tag=CC   --mode=compile cc -DHAVE_CONFIG_H -I. -I../..  
-I../../src  -I/usr/local/include -I/usr/local/include  -O2 -pipe  
-fstack-protector -fno-strict-aliasing -D_LARGEFILE_SOURCE 
-D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT 
silo.lo -MD -MP -MF .deps/silo.Tpo -c -o silo.lo silo.c
libtool: compile:  cc -DHAVE_CONFIG_H -I. -I../.. -I../../src 
-I/usr/local/include -I/usr/local/include -O2 -pipe -fstack-protector 
-fno-strict-aliasing -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE 
-D_FILE_OFFSET_BITS=64 -Wdeclaration-after-statement -MT silo.lo -MD -MP -MF 
.deps/silo.Tpo -c silo.c  -fPIC -DPIC -o .libs/silo.o
silo.c:227:19: error: field has incomplete type 'struct stat64'
    struct stat64 s;
                  ^
silo.c:227:12: note: forward declaration of 'struct stat64'
    struct stat64 s;
           ^
silo.c:2277:14: warning: implicit declaration of function 'stat64' is invalid 
in C99 [-Wimplicit-function-declaration]
    retval = stat64(name, &(statbuf->s));
             ^
silo.c:9200:2: warning: HI AND LO OFFSET NOT VALID IN PRESENCE OF EXPLICIT 
GHOST LABELS [-W#warnings]
#warning HI AND LO OFFSET NOT VALID IN PRESENCE OF EXPLICIT GHOST LABELS
 ^
2 warnings and 1 error generated.
gmake[6]: *** [Makefile:454: silo.lo] Error 1
gmake[6]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/silo'
gmake[5]: *** [Makefile:378: all] Error 2
gmake[5]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src/silo'
gmake[4]: *** [Makefile:559: all-recursive] Error 1
gmake[4]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src'
gmake[3]: *** [Makefile:442: all] Error 2
gmake[3]: Leaving directory 
'/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd/src'
gmake[2]: *** [Makefile:437: all-recursive] Error 1
gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd'
gmake[1]: *** [Makefile:366: all] Error 2
gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/silo/work/silo-4.10-bsd'
*** Error code 1

Stop.
make: stopped in /usr/ports/science/silo
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