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:     y...@freebsd.org
Last committer: jbe...@freebsd.org
Ident:          $FreeBSD: branches/2019Q3/science/rdkit/Makefile 498698 
2019-04-12 06:36:31Z jbeich $
Log URL:        
http://pylon.nyi.freebsd.org/data/120powerpc64-quarterly/506095/logs/rdkit-2018.09.3_2.log
Build URL:      
http://pylon.nyi.freebsd.org/build.html?mastername=120powerpc64-quarterly&build=506095
Log:

=>> Building science/rdkit
build started at Thu Jul 11 11:30:38 UTC 2019
port directory: /usr/ports/science/rdkit
package name: rdkit-2018.09.3_2
building for: FreeBSD 120powerpc64-quarterly-job-08 12.0-RELEASE-p7 FreeBSD 
12.0-RELEASE-p7 1200086 powerpc
maintained by: y...@freebsd.org
Makefile ident:      $FreeBSD: branches/2019Q3/science/rdkit/Makefile 498698 
2019-04-12 06:36:31Z jbeich $
Poudriere version: 3.2.8-5-gc81843e5
Host OSVERSION: 1300012
Jail OSVERSION: 1200086
Job Id: 08

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DEPENDS_ARGS=
MAKE_ARGS=
---End Poudriere Port Flags/Env---

---Begin OPTIONS List---
===> The following configuration options are available for rdkit-2018.09.3_2:
     DOCS=on: Build and/or install documentation
     PYTHON=on: Python bindings or support
===> Use 'make config' to modify these settings
---End OPTIONS List---

--MAINTAINER--
y...@freebsd.org
--End MAINTAINER--

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
PYTHON="/usr/local/bin/python3.6" 
XDG_DATA_HOME=/wrkdirs/usr/ports/science/rdkit/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/rdkit/work  
HOME=/wrkdirs/usr/ports/science/rdkit/work TMPDIR="/tmp" 
PATH=/wrkdirs/usr/ports/science/rdkit/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/science/rdkit/work  
XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/rdkit/work  
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PATH=/wrkdirs/usr/ports/science/rdkit/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 
DESTDIR=/wrkdirs/usr/ports/science/rdkit/work/stage PREFIX=/usr/local  
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-fstack-protector-strong " LIBS=""  CXX="c++" CXXFLAGS="-O2 -pipe 
-fstack-protector-strong -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--
SHLIB_VER=2018.09.3 PORTDOCS="" DOCS="" NO_DOCS="@comment " PYTHON="" 
NO_PYTHON="@comment " CMAKE_BUILD_TYPE="release" 
PYTHON_INCLUDEDIR=include/python3.6m  PYTHON_LIBDIR=lib/python3.6  
PYTHON_PLATFORM=freebsd12  PYTHON_SITELIBDIR=lib/python3.6/site-packages  
PYTHON_SUFFIX=36  PYTHON_VER=3.6  PYTHON_VERSION=python3.6 PYTHON2="@comment " 
PYTHON3="" OSREL=12.0 PREFIX=%D LOCALBASE=/usr/local  RESETPREFIX=/usr/local 
LIB32DIR=lib DOCSDIR="share/doc/RDKit"  EXAMPLESDIR="share/examples/rdkit"  
DATADIR="share/RDKit"  WWWDIR="www/rdkit"  ETCDIR="etc/rdkit"
--End PLIST_SUB--

--SUB_LIST--
DOCS="" NO_DOCS="@comment " PYTHON="" NO_PYTHON="@comment " PREFIX=/usr/local 
LOCALBASE=/usr/local  DATADIR=/usr/local/share/RDKit 
DOCSDIR=/usr/local/share/doc/RDKit EXAMPLESDIR=/usr/local/share/examples/rdkit  
WWWDIR=/usr/local/www/rdkit ETCDIR=/usr/local/etc/rdkit
--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
#### /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*
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MAKE_JOBS_NUMBER=2

# stable/10 includes src.conf too late but make.conf is in sys.mk
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# Disable build of llib now that head no longer has lint(1)
LINT=   true
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#### /usr/ports/Mk/Scripts/ports_env.sh ####
_CCVERSION_921dbbb2=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 
2007 Free Software Foundation, Inc. This is free software; see the source for 
copying conditions. There is NO warranty; not even for MERCHANTABILITY or 
FITNESS FOR A PARTICULAR PURPOSE.
_ALTCCVERSION_921dbbb2=none
_CXXINTERNAL_acaad9ca=Using built-in specs. Target: 
powerpc64-undermydesk-freebsd Configured with: FreeBSD/powerpc64 system 
compiler Thread model: posix gcc version 4.2.1 20070831 patched [FreeBSD] 
"/usr/bin/ld" "--eh-frame-hdr" "-Qy" "-melf64ppc_fbsd" "--enable-new-dtags" 
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"/usr/lib/crtend.o" "/usr/lib/crtn.o"
CC_OUTPUT_921dbbb2_58173849=yes
CC_OUTPUT_921dbbb2_9bdba57c=yes
CC_OUTPUT_921dbbb2_6a4fe7f5=cc1: error: unrecognized command line option 
"-std=c11"
CC_OUTPUT_921dbbb2_6bcac02b=yes
CC_OUTPUT_921dbbb2_67d20829=yes
CC_OUTPUT_921dbbb2_bfa62e83=cc1: error: unrecognized command line option 
"-std=gnu11"
CC_OUTPUT_921dbbb2_f0b4d593=yes
CC_OUTPUT_921dbbb2_308abb44=cc1plus: error: unrecognized command line option 
"-std=c++0x"
CC_OUTPUT_921dbbb2_f00456e5=cc1plus: error: unrecognized command line option 
"-std=c++11"
CC_OUTPUT_921dbbb2_65ad290d=cc1plus: error: unrecognized command line option 
"-std=c++14"
CC_OUTPUT_921dbbb2_f2776b26=cc1plus: error: unrecognized command line option 
"-std=c++17"
CC_OUTPUT_921dbbb2_b2657cc3=yes
CC_OUTPUT_921dbbb2_380987f7=cc1plus: error: unrecognized command line option 
"-std=gnu++11"
CC_OUTPUT_921dbbb2_160933ec=cc1plus: error: unrecognized command line option 
"-std=gnu++14"
CC_OUTPUT_921dbbb2_fb62803b=cc1plus: error: unrecognized command line option 
"-std=gnu++17"
_OBJC_CCVERSION_921dbbb2=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright 
(C) 2007 Free Software Foundation, Inc. This is free software; see the source 
for copying conditions. There is NO warranty; not even for MERCHANTABILITY or 
FITNESS FOR A PARTICULAR PURPOSE.
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ARCH=powerpc64
OPSYS=FreeBSD
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OSREL=12.0
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CONFIGURE_MAX_CMD_LEN=262144
HAVE_PORTS_ENV=1
#### Misc Poudriere ####
GID=0
UID=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)  33554432
stack size              (kbytes, -s)  524288
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   >============================
===>  License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   rdkit-2018.09.3_2 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.11.1.txz
[120powerpc64-quarterly-job-08] Installing pkg-1.11.1...
[120powerpc64-quarterly-job-08] Extracting pkg-1.11.1: .......... done
===>   rdkit-2018.09.3_2 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of rdkit-2018.09.3_2
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License BSD3CLAUSE accepted by the user
=> rdkit-rdkit-Release_2018_09_3_GH0.tar.gz doesn't seem to exist in 
/portdistfiles/.
=> Attempting to fetch 
https://codeload.github.com/rdkit/rdkit/tar.gz/Release_2018_09_3?dummy=/rdkit-rdkit-Release_2018_09_3_GH0.tar.gz
fetch: 
https://codeload.github.com/rdkit/rdkit/tar.gz/Release_2018_09_3?dummy=/rdkit-rdkit-Release_2018_09_3_GH0.tar.gz:
 size unknown
fetch: 
https://codeload.github.com/rdkit/rdkit/tar.gz/Release_2018_09_3?dummy=/rdkit-rdkit-Release_2018_09_3_GH0.tar.gz:
 size of remote file is not known
rdkit-rdkit-Release_2018_09_3_GH0.tar.gz                52 MB 4522 kBps    12s
=> schrodinger-maeparser-1.0.0_GH0.tar.gz doesn't seem to exist in 
/portdistfiles/.
=> Attempting to fetch 
https://codeload.github.com/schrodinger/maeparser/tar.gz/1.0.0?dummy=/schrodinger-maeparser-1.0.0_GH0.tar.gz
fetch: 
https://codeload.github.com/schrodinger/maeparser/tar.gz/1.0.0?dummy=/schrodinger-maeparser-1.0.0_GH0.tar.gz:
 size unknown
fetch: 
https://codeload.github.com/schrodinger/maeparser/tar.gz/1.0.0?dummy=/schrodinger-maeparser-1.0.0_GH0.tar.gz:
 size of remote file is not known
schrodinger-maeparser-1.0.0_GH0.tar.gz                  25 kB  219 kBps    00s
=> schrodinger-coordgenlibs-ede3191_GH0.tar.gz doesn't seem to exist in 
/portdistfiles/.
=> Attempting to fetch 
https://codeload.github.com/schrodinger/coordgenlibs/tar.gz/ede3191?dummy=/schrodinger-coordgenlibs-ede3191_GH0.tar.gz
fetch: 
https://codeload.github.com/schrodinger/coordgenlibs/tar.gz/ede3191?dummy=/schrodinger-coordgenlibs-ede3191_GH0.tar.gz:
 size unknown
fetch: 
https://codeload.github.com/schrodinger/coordgenlibs/tar.gz/ede3191?dummy=/schrodinger-coordgenlibs-ede3191_GH0.tar.gz:
 size of remote file is not known
schrodinger-coordgenlibs-ede3191_GH0.tar.gz           3634 kB 1148 kBps    03s
===> Fetching all distfiles required by rdkit-2018.09.3_2 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by rdkit-2018.09.3_2 for building
=> SHA256 Checksum OK for rdkit-rdkit-Release_2018_09_3_GH0.tar.gz.
=> SHA256 Checksum OK for schrodinger-maeparser-1.0.0_GH0.tar.gz.
=> SHA256 Checksum OK for schrodinger-coordgenlibs-ede3191_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by rdkit-2018.09.3_2 for building
===>  Extracting for rdkit-2018.09.3_2
=> SHA256 Checksum OK for rdkit-rdkit-Release_2018_09_3_GH0.tar.gz.
=> SHA256 Checksum OK for schrodinger-maeparser-1.0.0_GH0.tar.gz.
<snip>
===>   rdkit-2018.09.3_2 depends on executable: bison - not found
===>   Installing existing package /packages/All/bison-3.4.1,1.txz
[120powerpc64-quarterly-job-08] Installing bison-3.4.1,1...
[120powerpc64-quarterly-job-08] `-- Installing libtextstyle-0.20.1...
[120powerpc64-quarterly-job-08] `-- Extracting libtextstyle-0.20.1: .......... 
done
[120powerpc64-quarterly-job-08] `-- Installing m4-1.4.18_1,1...
[120powerpc64-quarterly-job-08] `-- Extracting m4-1.4.18_1,1: .......... done
[120powerpc64-quarterly-job-08] Extracting bison-3.4.1,1: .......... done
===>   rdkit-2018.09.3_2 depends on executable: bison - found
===>   Returning to build of rdkit-2018.09.3_2
===>   rdkit-2018.09.3_2 depends on file: /usr/local/bin/cmake - not found
===>   Installing existing package /packages/All/cmake-3.14.5.txz
[120powerpc64-quarterly-job-08] Installing cmake-3.14.5...
[120powerpc64-quarterly-job-08] `-- Installing curl-7.65.1...
[120powerpc64-quarterly-job-08] |   `-- Installing ca_root_nss-3.44.1...
[120powerpc64-quarterly-job-08] |   `-- Extracting ca_root_nss-3.44.1: ........ 
done
[120powerpc64-quarterly-job-08] |   `-- Installing libnghttp2-1.39.1...
[120powerpc64-quarterly-job-08] |   `-- Extracting libnghttp2-1.39.1: 
.......... done
[120powerpc64-quarterly-job-08] `-- Extracting curl-7.65.1: .......... done
[120powerpc64-quarterly-job-08] `-- Installing expat-2.2.6_1...
[120powerpc64-quarterly-job-08] `-- Extracting expat-2.2.6_1: .......... done
[120powerpc64-quarterly-job-08] `-- Installing jsoncpp-1.8.1_6...
[120powerpc64-quarterly-job-08] `-- Extracting jsoncpp-1.8.1_6: .......... done
[120powerpc64-quarterly-job-08] `-- Installing libarchive-3.3.3,1...
[120powerpc64-quarterly-job-08] |   `-- Installing liblz4-1.9.1,1...
[120powerpc64-quarterly-job-08] |   `-- Extracting liblz4-1.9.1,1: .......... 
done
[120powerpc64-quarterly-job-08] |   `-- Installing lzo2-2.10_1...
[120powerpc64-quarterly-job-08] |   `-- Extracting lzo2-2.10_1: .......... done
[120powerpc64-quarterly-job-08] `-- Extracting libarchive-3.3.3,1: .......... 
done
[120powerpc64-quarterly-job-08] `-- Installing libuv-1.30.1...
[120powerpc64-quarterly-job-08] `-- Extracting libuv-1.30.1: .......... done
[120powerpc64-quarterly-job-08] `-- Installing rhash-1.3.5...
[120powerpc64-quarterly-job-08] `-- Extracting rhash-1.3.5: .......... done
[120powerpc64-quarterly-job-08] Extracting cmake-3.14.5: .......... done
Message from ca_root_nss-3.44.1:

********************************* WARNING *********************************

FreeBSD does not, and can not warrant that the certification authorities
whose certificates are included in this package have in any way been
audited for trustworthiness or RFC 3647 compliance.

Assessment and verification of trust is the complete responsibility of the
system administrator.

*********************************** NOTE **********************************

This package installs symlinks to support root certificates discovery by
default for software that uses OpenSSL.

This enables SSL Certificate Verification by client software without manual
intervention.

If you prefer to do this manually, replace the following symlinks with
either an empty file or your site-local certificate bundle.

  * /etc/ssl/cert.pem
  * /usr/local/etc/ssl/cert.pem
  * /usr/local/openssl/cert.pem

***************************************************************************
===>   rdkit-2018.09.3_2 depends on file: /usr/local/bin/cmake - found
===>   Returning to build of rdkit-2018.09.3_2
===>   rdkit-2018.09.3_2 depends on executable: ninja - not found
===>   Installing existing package /packages/All/ninja-1.9.0,2.txz
[120powerpc64-quarterly-job-08] Installing ninja-1.9.0,2...
[120powerpc64-quarterly-job-08] Extracting ninja-1.9.0,2: ......... done
===>   rdkit-2018.09.3_2 depends on executable: ninja - found
===>   Returning to build of rdkit-2018.09.3_2
===>   rdkit-2018.09.3_2 depends on file: 
/usr/local/libdata/pkgconfig/eigen3.pc - not found
===>   Installing existing package /packages/All/eigen-3.3.7.txz
[120powerpc64-quarterly-job-08] Installing eigen-3.3.7...
[120powerpc64-quarterly-job-08] Extracting eigen-3.3.7: .......... done
===>   rdkit-2018.09.3_2 depends on file: 
/usr/local/libdata/pkgconfig/eigen3.pc - found
===>   Returning to build of rdkit-2018.09.3_2
===>   rdkit-2018.09.3_2 depends on file: /usr/local/bin/python3.6 - found
===========================================================================
=======================<phase: lib-depends    >============================
===>   rdkit-2018.09.3_2 depends on shared library: libboost_system.so - not 
found
===>   Installing existing package /packages/All/boost-libs-1.70.0_2.txz
[120powerpc64-quarterly-job-08] Installing boost-libs-1.70.0_2...
[120powerpc64-quarterly-job-08] `-- Installing icu-64.2,1...
[120powerpc64-quarterly-job-08] `-- Extracting icu-64.2,1: .......... done
[120powerpc64-quarterly-job-08] Extracting boost-libs-1.70.0_2: .......... done
Message from boost-libs-1.70.0_2:

You have built the Boost library with thread support.

Don't forget to add -pthread to your linker options when
linking your code.
===>   rdkit-2018.09.3_2 depends on shared library: libboost_system.so - found 
(/usr/local/lib/libboost_system.so)
===>   Returning to build of rdkit-2018.09.3_2
===>   rdkit-2018.09.3_2 depends on shared library: libboost_python36.so - not 
found
===>   Installing existing package /packages/All/py36-boost-libs-1.70.0_2.txz
[120powerpc64-quarterly-job-08] Installing py36-boost-libs-1.70.0_2...
[120powerpc64-quarterly-job-08] Extracting py36-boost-libs-1.70.0_2: .......... 
done
Message from py36-boost-libs-1.70.0_2:

You have built the Boost library with thread support.

Don't forget to add -pthread to your linker options when
linking your code.

You have built the Boost.Python library. You have to add the following
options when building your own code:

Compiler options:
   -I/usr/local/include/python3.6m -I/usr/local/include

Linker options:
   -L/usr/local/lib/python3.6 -L/usr/local/lib -lboost_python -lpython3.6
===>   rdkit-2018.09.3_2 depends on shared library: libboost_python36.so - 
found (/usr/local/lib/libboost_python36.so)
===>   Returning to build of rdkit-2018.09.3_2
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for rdkit-2018.09.3_2
===>  Performing out-of-source build
/bin/mkdir -p /wrkdirs/usr/ports/science/rdkit/work/.build
-- The C compiler identification is GNU 4.2.1
-- The CXX compiler identification is GNU 4.2.1
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Check if the system is big endian
-- Searching 16 bit integer
-- Looking for sys/types.h
-- Looking for sys/types.h - found
-- Looking for stdint.h
-- Looking for stdint.h - found
-- Looking for stddef.h
-- Looking for stddef.h - found
-- Check size of unsigned short
-- Check size of unsigned short - done
-- Using unsigned short
-- Check if the system is big endian - big endian
-- Found Catch2 source in /usr/local
CATCH: /usr/local/include/catch2
-- Found PythonInterp: /usr/local/bin/python3.6 (found version "3.6.8") 
-- Found PythonLibs: /usr/local/lib/libpython3.6m.so (found version "3.6.8") 
CMake Warning at /usr/local/share/cmake/Modules/FindBoost.cmake:1837 (message):
  No header defined for python-py36; skipping header check
Call Stack (most recent call first):
  CMakeLists.txt:236 (find_package)


Python Install directory /usr/local/lib/python3.6/site-packages
PYTHON Py_ENABLE_SHARED: 1
PYTHON USING LINK LINE: -shared -lpthread -L/usr/local/lib  
-fstack-protector-strong
-- Found Eigen3: /usr/local/include/eigen3 (Required is at least version 
"2.91.0") 
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Found Threads: TRUE  
-- Boost version: 1.70.0
-- Found the following Boost libraries:
--   serialization
== Using strict rotor definition
-- Found MAEParser source in 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/maeparser
-- Found coordgenlibs source in 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/coordgenlibs
== Updating Filters.cpp from pains file
== Done updating pains files
-- Found RapidJSON source in 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External
Skipping SLN build with gcc version <= 4.8
Skipping build of SimDivPickers on big endian system
Skipping build of clustering and cmim libraries on big endian system
-- Configuring done
-- Generating done
CMake Warning:
  Manually-specified variables were not used by the project:

    CMAKE_COLOR_MAKEFILE
    CMAKE_CXX_FLAGS_DEBUG
    CMAKE_C_FLAGS_DEBUG
    CMAKE_C_FLAGS_RELEASE
    CMAKE_VERBOSE_MAKEFILE


-- Build files have been written to: 
/wrkdirs/usr/ports/science/rdkit/work/.build
===========================================================================
=======================<phase: build          >============================
===>  Building for rdkit-2018.09.3_2
[1/681] cd /wrkdirs/usr/ports/science/rdkit/work/.build/External/INCHI-API && 
/usr/local/bin/cmake -E copy 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/INCHI-API/python/noinchi.py
 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/rdkit/Chem/inchi.py
[2/681] /usr/bin/c++  -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK 
-DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D 
-DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS 
-DRDK_USE_STRICT_ROTOR_DEFINITION -Dcoordgenlib_EXPORTS 
-I/usr/local/include/catch2 
-I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External 
-I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen
 -I/usr/local/include/python3.6m 
-I/usr/local/lib/python3.6/site-packages/numpy/core/include 
-I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/Code 
-I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe 
-fstack-protector-strong -fno-strict-aliasing -mpopcnt -std=c++11 
-Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC 
-O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -MD -MT 
External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o
 -MF External/CoordGen/CMak
 eFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o.d -o 
External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o
 -c 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/coordgenlibs/CoordgenFragmentBuilder.cpp
FAILED: 
External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o
 
/usr/bin/c++  -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD 
-DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_HAS_EIGEN3 
-DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION 
-Dcoordgenlib_EXPORTS -I/usr/local/include/catch2 
-I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External 
-I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen
 -I/usr/local/include/python3.6m 
-I/usr/local/lib/python3.6/site-packages/numpy/core/include 
-I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/Code 
-I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe 
-fstack-protector-strong -fno-strict-aliasing -mpopcnt -std=c++11 
-Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC 
-O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -MD -MT 
External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o
 -MF External/CoordGen/CMakeFiles/c
 oordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o.d -o 
External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o
 -c 
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/coordgenlibs/CoordgenFragmentBuilder.cpp
cc1plus: error: unrecognized command line option "-mpopcnt"
cc1plus: error: unrecognized command line option "-std=c++11"
ninja: build stopped: subcommand failed.
*** Error code 1

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