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: t...@freebsd.org
Ident:          $FreeBSD: head/biology/primer3/Makefile 354670 2014-05-20 
19:32:39Z tijl $
Log URL:        
http://beefy11.nyi.freebsd.org/data/head-i386-default/p460764_s328823/logs/primer3-2.3.6.log
Build URL:      
http://beefy11.nyi.freebsd.org/build.html?mastername=head-i386-default&build=p460764_s328823
Log:

=>> Building biology/primer3
build started at Sat Feb  3 05:11:58 UTC 2018
port directory: /usr/ports/biology/primer3
package name: primer3-2.3.6
building for: FreeBSD head-i386-default-job-19 12.0-CURRENT FreeBSD 
12.0-CURRENT 1200056 i386
maintained by: po...@freebsd.org
Makefile ident:      $FreeBSD: head/biology/primer3/Makefile 354670 2014-05-20 
19:32:39Z tijl $
Poudriere version: 3.2.4-34-g673bd441
Host OSVERSION: 1200054
Jail OSVERSION: 1200056
Job Id: 19




!!! Jail is newer than host. (Jail: 1200056, Host: 1200054) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!



---Begin Environment---
SHELL=/bin/csh
UNAME_p=i386
UNAME_m=i386
OSVERSION=1200056
UNAME_v=FreeBSD 12.0-CURRENT 1200056
UNAME_r=12.0-CURRENT
BLOCKSIZE=K
MAIL=/var/mail/root
STATUS=1
SAVED_TERM=
MASTERMNT=/usr/local/poudriere/data/.m/head-i386-default/ref
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
POUDRIERE_BUILD_TYPE=bulk
OLDPWD=/usr/local/poudriere/data/.m/head-i386-default/ref/.p
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
PWD=/usr/local/poudriere/data/.m/head-i386-default/ref/.p/pool
MASTERNAME=head-i386-default
SCRIPTPREFIX=/usr/local/share/poudriere
USER=root
HOME=/root
POUDRIERE_VERSION=3.2.4-34-g673bd441
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
LIBEXECPREFIX=/usr/local/libexec/poudriere
LOCALBASE=/usr/local
PACKAGE_BUILDING=yes
POUDRIEREPATH=/usr/local/bin/poudriere
---End Environment---

---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
DEPENDS_ARGS=
MAKE_ARGS=
---End Poudriere Port Flags/Env---

---Begin OPTIONS List---
---End OPTIONS List---

--MAINTAINER--
po...@freebsd.org
--End MAINTAINER--

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/biology/primer3/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/primer3/work  
HOME=/wrkdirs/usr/ports/biology/primer3/work TMPDIR="/tmp" 
PATH=/wrkdirs/usr/ports/biology/primer3/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
 SHELL=/bin/sh CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--

--MAKE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/primer3/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/primer3/work  
HOME=/wrkdirs/usr/ports/biology/primer3/work TMPDIR="/tmp" 
PATH=/wrkdirs/usr/ports/biology/primer3/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
 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=""  
LDFLAGS=" -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 0644" 
 BSD_INSTALL_SCRIPT="install  -m 555"  BSD_INSTALL_DATA="install  -m 0644"  
BSD_INSTALL_MAN="install  -m 444"
--End MAKE_ENV--

--PLIST_SUB--
PORTDOCS="" PORTEXAMPLES="" OSREL=12.0 PREFIX=%D LOCALBASE=/usr/local  
RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/primer3"  
EXAMPLESDIR="share/examples/primer3"  DATADIR="share/primer3"  
WWWDIR="www/primer3"  ETCDIR="etc/primer3"
--End PLIST_SUB--

--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/primer3 
DOCSDIR=/usr/local/share/doc/primer3 
EXAMPLESDIR=/usr/local/share/examples/primer3  WWWDIR=/usr/local/www/primer3 
ETCDIR=/usr/local/etc/primer3
--End SUB_LIST--

---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
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
# Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs
MAKE_JOBS_NUMBER=2
#### /usr/ports/Mk/Scripts/ports_env.sh ####
ARCH=i386
CONFIGURE_MAX_CMD_LEN=262144
OPSYS=FreeBSD
OSREL=12.0
OSVERSION=1200056
PYTHONBASE=/usr/local
UID=0
_OSRELEASE=12.0-CURRENT
#### Misc Poudriere ####
GID=0
DISABLE_MAKE_JOBS=poudriere
---End make.conf---
--Resource limits--
cpu time               (seconds, -t)  unlimited
file size           (512-blocks, -f)  unlimited
data seg size           (kbytes, -d)  524288
stack size              (kbytes, -s)  65536
core file size      (512-blocks, -c)  unlimited
max memory size         (kbytes, -m)  unlimited
locked memory           (kbytes, -l)  unlimited
max user processes              (-u)  89999
open files                      (-n)  1024
virtual mem size        (kbytes, -v)  unlimited
swap limit              (kbytes, -w)  unlimited
socket buffer size       (bytes, -b)  unlimited
pseudo-terminals                (-p)  unlimited
kqueues                         (-k)  unlimited
umtx shared locks               (-o)  unlimited
--End resource limits--
=======================<phase: check-sanity   >============================
===>   NOTICE:

The primer3 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 GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   primer3-2.3.6 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.4.txz
[head-i386-default-job-19] Installing pkg-1.10.4...
[head-i386-default-job-19] Extracting pkg-1.10.4: .......... done
===>   primer3-2.3.6 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of primer3-2.3.6
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>   NOTICE:

The primer3 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 GPLv2 accepted by the user
===> Fetching all distfiles required by primer3-2.3.6 for building
===========================================================================
=======================<phase: checksum       >============================
===>   NOTICE:

The primer3 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 GPLv2 accepted by the user
===> Fetching all distfiles required by primer3-2.3.6 for building
=> SHA256 Checksum OK for primer3-src-2.3.6.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>   NOTICE:

<snip>
[head-i386-default-job-19] `-- Installing gettext-runtime-0.19.8.1_1...
[head-i386-default-job-19] |   `-- Installing indexinfo-0.3.1...
[head-i386-default-job-19] |   `-- Extracting indexinfo-0.3.1: .... done
[head-i386-default-job-19] `-- Extracting gettext-runtime-0.19.8.1_1: 
.......... done
[head-i386-default-job-19] Extracting gmake-4.2.1_1: .......... done
===>   primer3-2.3.6 depends on executable: gmake - found
===>   Returning to build of primer3-2.3.6
===========================================================================
=======================<phase: lib-depends    >============================
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for primer3-2.3.6
===========================================================================
=======================<phase: build          >============================
===>  Building for primer3-2.3.6
gmake[1]: Entering directory 
'/wrkdirs/usr/ports/biology/primer3/work/primer3-2.3.6/src'
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__  primer3_boulder_main.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__  -o format_output.o format_output.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
format_output.c:418:48: warning: comparison of address of 'retval->rev' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
            if (pa->pick_right_primer && &retval->rev != NULL 
                                          ~~~~~~~~^~~    ~~~~
format_output.c:429:47: warning: comparison of address of 'retval->fwd' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
            if (pa->pick_left_primer && &retval->fwd != NULL 
                                         ~~~~~~~~^~~    ~~~~
format_output.c:851:45: warning: comparison of address of 'retval->fwd' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
    if ((pa->pick_left_primer) && (&retval->fwd != NULL )
                                    ~~~~~~~~^~~    ~~~~
format_output.c:858:48: warning: comparison of address of 'retval->intl' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
    if ((pa->pick_internal_oligo) && (&retval->intl != NULL )
                                       ~~~~~~~~^~~~    ~~~~
format_output.c:865:46: warning: comparison of address of 'retval->rev' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
    if ((pa->pick_right_primer) && (&retval->rev != NULL )
                                     ~~~~~~~~^~~    ~~~~
format_output.c:888:43: warning: comparison of address of 'retval->fwd' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
  if ((pa->pick_left_primer) && (&retval->fwd != NULL )
                                  ~~~~~~~~^~~    ~~~~
format_output.c:907:46: warning: comparison of address of 'retval->intl' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
  if ((pa->pick_internal_oligo) && (&retval->intl != NULL )
                                     ~~~~~~~~^~~~    ~~~~
format_output.c:926:44: warning: comparison of address of 'retval->rev' not 
equal to a null pointer is always true [-Wtautological-pointer-compare]
  if ((pa->pick_right_primer) && (&retval->rev != NULL )
                                   ~~~~~~~~^~~    ~~~~
8 warnings generated.
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__  -o read_boulder.o read_boulder.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__  -o print_boulder.o print_boulder.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__ -Wno-deprecated  -o libprimer3.o libprimer3.c
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__ -o p3_seq_lib.o p3_seq_lib.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
ar rv libprimer3.a libprimer3.o p3_seq_lib.o
ar: warning: creating libprimer3.a
a - libprimer3.o
a - p3_seq_lib.o
ranlib libprimer3.a
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__  -o dpal_primer.o dpal.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
dpal.c:368:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, c;
    ^~~~~~~~~
dpal.c:368:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, c;
    ^~~~~~~~~
dpal.c:368:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, c;
    ^~~~~~~~~
dpal.c:368:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, c;
    ^~~~~~~~~
dpal.c:368:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, c;
    ^~~~~~~~~
dpal.c:369:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap, gapl = in->gapl, max_gap = in->max_gap;
    ^~~~~~~~~
dpal.c:369:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap, gapl = in->gapl, max_gap = in->max_gap;
    ^~~~~~~~~
dpal.c:369:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap, gapl = in->gapl, max_gap = in->max_gap;
    ^~~~~~~~~
dpal.c:594:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, mgy, c;
    ^~~~~~~~~
dpal.c:594:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, mgy, c;
    ^~~~~~~~~
dpal.c:594:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, mgy, c;
    ^~~~~~~~~
dpal.c:594:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, mgy, c;
    ^~~~~~~~~
dpal.c:594:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, mgy, c;
    ^~~~~~~~~
dpal.c:594:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j, k, mg, mgy, c;
    ^~~~~~~~~
dpal.c:595:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap, gapl = in->gapl, max_gap = in->max_gap;
    ^~~~~~~~~
dpal.c:595:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap, gapl = in->gapl, max_gap = in->max_gap;
    ^~~~~~~~~
dpal.c:595:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap, gapl = in->gapl, max_gap = in->max_gap;
    ^~~~~~~~~
dpal.c:760:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j;
    ^~~~~~~~~
dpal.c:760:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int i, j;
    ^~~~~~~~~
dpal.c:761:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int gap = in->gap;
    ^~~~~~~~~
dpal.c:762:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int smax;           /* The optimum score. */
    ^~~~~~~~~
dpal.c:763:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int score;          /* Current score. */
    ^~~~~~~~~
dpal.c:764:5: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
    register int a;
    ^~~~~~~~~
dpal.c:852:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int i, j, k;
  ^~~~~~~~~
dpal.c:852:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int i, j, k;
  ^~~~~~~~~
dpal.c:852:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int i, j, k;
  ^~~~~~~~~
dpal.c:853:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int gap = in->gap;
  ^~~~~~~~~
dpal.c:854:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int smax;           /* The optimum score. */
  ^~~~~~~~~
dpal.c:855:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int score;          /* Current score. */
  ^~~~~~~~~
dpal.c:856:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int a, t;
  ^~~~~~~~~
dpal.c:856:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int a, t;
  ^~~~~~~~~
dpal.c:1049:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register const unsigned char *p;
  ^~~~~~~~~
dpal.c:1072:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int i, j;
  ^~~~~~~~~
dpal.c:1072:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int i, j;
  ^~~~~~~~~
dpal.c:1073:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int gap = in->gap;
  ^~~~~~~~~
dpal.c:1074:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int smax;           /* The optimum score. */
  ^~~~~~~~~
dpal.c:1075:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int score;          /* Current score. */
  ^~~~~~~~~
dpal.c:1076:3: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
  register int a;
  ^~~~~~~~~
38 warnings generated.
ar rv libdpal.a dpal_primer.o
ar: warning: creating libdpal.a
a - dpal_primer.o
ranlib libdpal.a
c++ -c -O2 -pipe  -fstack-protector -fno-strict-aliasing -g -Wall 
-D__USE_FIXED_PROTOTYPES__ -ffloat-store  -o thal_primer.o thal.c
c++: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is 
deprecated [-Wdeprecated]
c++: warning: optimization flag '-ffloat-store' is not supported 
[-Wignored-optimization-argument]
thal.c:426:13: error: comparison between pointer and integer ('int' and 'const 
unsigned char *')
   if ('\0' == oligo_f) {
       ~~~~ ^  ~~~~~~~
thal.c:431:13: error: comparison between pointer and integer ('int' and 'const 
unsigned char *')
   if ('\0' == oligo_r) {
       ~~~~ ^  ~~~~~~~
thal.c:2407:4: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
   register char s;
   ^~~~~~~~~
thal.c:2408:4: warning: 'register' storage class specifier is deprecated and 
incompatible with C++17 [-Wdeprecated-register]
   register char e;
   ^~~~~~~~~
2 warnings and 2 errors generated.
gmake[1]: *** [Makefile:192: thal_primer.o] Error 1
gmake[1]: Leaving directory 
'/wrkdirs/usr/ports/biology/primer3/work/primer3-2.3.6/src'
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/primer3
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