[package - 141releng-armv7-default][science/mdynamix] Failed for mdynamix-5.3.0 in build
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Date: Wed, 01 Jan 2025 14:04:27 UTC
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: yuri@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/ampere3/data/141releng-armv7-default/5dc9e6d0c83c/logs/mdynamix-5.3.0.log
Build URL: https://pkg-status.freebsd.org/ampere3/build.html?mastername=141releng-armv7-default&build=5dc9e6d0c83c
Log:
=>> Building science/mdynamix
build started at Wed Jan 1 14:03:59 UTC 2025
port directory: /usr/ports/science/mdynamix
package name: mdynamix-5.3.0
building for: FreeBSD 141releng-armv7-default-job-05 14.1-RELEASE-p6 FreeBSD 14.1-RELEASE-p6 1401000 arm
maintained by: yuri@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 991 Dec 30 2023 /usr/ports/science/mdynamix/Makefile
Ports top last git commit: 5dc9e6d0c83
Ports top unclean checkout: no
Port dir last git commit: b4fb7dbd84e
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.2
Host OSVERSION: 1500028
Jail OSVERSION: 1401000
Job Id: 05
---Begin Environment---
SHELL=/bin/sh
OSVERSION=1401000
UNAME_v=FreeBSD 14.1-RELEASE-p6 1401000
UNAME_r=14.1-RELEASE-p6
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MAIL=/var/mail/root
MM_CHARSET=UTF-8
LANG=C.UTF-8
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
MAKE_OBJDIR_CHECK_WRITABLE=0
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USER=root
POUDRIERE_NAME=poudriere-git
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.4.2
MASTERMNT=/usr/local/poudriere/data/.m/141releng-armv7-default/ref
LC_COLLATE=C
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---End Environment---
---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
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MAKE_ARGS=
---End Poudriere Port Flags/Env---
---Begin OPTIONS List---
---End OPTIONS List---
--MAINTAINER--
yuri@FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
F77="gfortran13" F90="gfortran13" FC="gfortran13" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch" F90FLAGS="-O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc13" MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/science/mdynamix/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/mdynamix/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/mdynamix/work/.cache HOME=/wrkdirs/usr/ports/science/mdynamix/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/mdynamix/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/mdynamix/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--
--MAKE_ENV--
F77="gfortran13" F90="gfortran13" FC="gfortran13" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch" F90FLAGS="-O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc13" XDG_DATA_HOME=/wrkdirs/usr/ports/science/mdynamix/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/mdynamix/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/mdynamix/work/.cache HOME=/wrkdirs/usr/ports/science/mdynamix/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/mdynamix/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/mdynamix/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/loc
al/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " 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--
OSREL=14.1 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/mdynamix" EXAMPLESDIR="share/examples/mdynamix" DATADIR="share/mdynamix" WWWDIR="www/mdynamix" ETCDIR="etc/mdynamix"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/mdynamix DOCSDIR=/usr/local/share/doc/mdynamix EXAMPLESDIR=/usr/local/share/examples/mdynamix WWWDIR=/usr/local/www/mdynamix ETCDIR=/usr/local/etc/mdynamix
--End SUB_LIST--
---Begin 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 3 jobs
MAKE_JOBS_NUMBER=3
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### ####
# 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 3 jobs
MAKE_JOBS_NUMBER=3
#### Misc Poudriere ####
.include "/etc/make.conf.ports_env"
GID=0
UID=0
---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) 8192
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 >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2+ accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> mdynamix-5.3.0 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.21.3.pkg
[141releng-armv7-default-job-05] Installing pkg-1.21.3...
[141releng-armv7-default-job-05] Extracting pkg-1.21.3: .......... done
===> mdynamix-5.3.0 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of mdynamix-5.3.0
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2+ accepted by the user
===> Fetching all distfiles required by mdynamix-5.3.0 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2+ accepted by the user
===> Fetching all distfiles required by mdynamix-5.3.0 for building
=> SHA256 Checksum OK for md530.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv2+ accepted by the user
===> Fetching all distfiles required by mdynamix-5.3.0 for building
===> Extracting for mdynamix-5.3.0
=> SHA256 Checksum OK for md530.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Patching for mdynamix-5.3.0
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> mdynamix-5.3.0 depends on executable: gfortran13 - not found
===> Installing existing package /packages/All/gcc13-13.3.0.pkg
[141releng-armv7-default-job-05] Installing gcc13-13.3.0...
[141releng-armv7-default-job-05] `-- Installing binutils-2.43.1,1...
[141releng-armv7-default-job-05] | `-- Installing indexinfo-0.3.1...
[141releng-armv7-default-job-05] | `-- Extracting indexinfo-0.3.1: .... done
[141releng-armv7-default-job-05] | `-- Installing zstd-1.5.6...
[141releng-armv7-default-job-05] | | `-- Installing liblz4-1.10.0,1...
[141releng-armv7-default-job-05] | | `-- Extracting liblz4-1.10.0,1: .......... done
[141releng-armv7-default-job-05] | `-- Extracting zstd-1.5.6: .......... done
[141releng-armv7-default-job-05] `-- Extracting binutils-2.43.1,1: .......... done
[141releng-armv7-default-job-05] `-- Installing gmp-6.3.0...
[141releng-armv7-default-job-05] `-- Extracting gmp-6.3.0: .......... done
[141releng-armv7-default-job-05] `-- Installing mpc-1.3.1_1...
[141releng-armv7-default-job-05] | `-- Installing mpfr-4.2.1,1...
[141releng-armv7-default-job-05] | `-- Extracting mpfr-4.2.1,1: .......... done
[141releng-armv7-default-job-05] `-- Extracting mpc-1.3.1_1: ......... done
[141releng-armv7-default-job-05] Extracting gcc13-13.3.0: .......... done
=====
Message from gcc13-13.3.0:
<snip>
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:226:72:
226 | 175 IF(TES-RHO)180,180,105
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:228:72:
228 | DO 190 J=1,N
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 190 at (1)
util.f:229:72:
229 | 190 A(I,J)=SCL*A(I,J)
| 1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 190 at (1)
util.f:478:72:
478 | IF(NDIM-6)5,5,2
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:484:72:
484 | IF(I-NDIM)3,6,6
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
mpif77 -O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch -ffast-math -c -o setup.o setup.f
setup.f:978:72:
978 | DO 100 J = 1,NRY
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 100 at (1)
setup.f:979:72:
979 | DO 100 K = 1,NRZ
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 100 at (1)
gfortran -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -fstack-protector-strong -o md aver.o cpu_intel.o input.o forces.o main.o mdee.o mdstep.o restart.o scalar.o service.o setup.o util.o
mpif77 -O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch -ffast-math -c -o util.o util.f
/usr/local/bin/ld: warning: _dvmd_lnx.o: missing .note.GNU-stack section implies executable stack
/usr/local/bin/ld: NOTE: This behaviour is deprecated and will be removed in a future version of the linker
util.f:168:72:
168 | DO 20 J=1,N
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 20 at (1)
util.f:169:72:
169 | 20 A(I,J)=A(I,J)/SCL
| 1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 20 at (1)
util.f:171:72:
171 | DO 30 J=1,N
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 30 at (1)
util.f:177:72:
177 | DO 100 J=1,IU1
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 100 at (1)
util.f:178:72:
178 | 100 TES=TES+2.D0*A(I,J)*A(I,J)
| 1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 100 at (1)
util.f:185:72:
185 | DO 165 J=1,IUU1
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 165 at (1)
util.f:202:72:
202 | IF(K-I)140,135,135
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:207:72:
207 | 140 IF(K-J)145,150,150
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:223:72:
223 | IF(M-1)175,170,170
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:226:72:
226 | 175 IF(TES-RHO)180,180,105
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
util.f:228:72:
228 | DO 190 J=1,N
| 1
Warning: Fortran 2018 deleted feature: Shared DO termination label 190 at (1)
util.f:229:72:
229 | 190 A(I,J)=SCL*A(I,J)
| 1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 190 at (1)
/usr/local/bin/ld: forces.o: in function `gettrs_':
forces.f:(.text+0x2af0): undefined reference to `pbc_'
/usr/local/bin/ld: forces.f:(.text+0x2b00): undefined reference to `pbc_'
/usr/local/bin/ld: forces.f:(.text+0x2b10): undefined reference to `pbc_'
/usr/local/bin/ld: forces.o: in function `getang_':
forces.f:(.text+0x342c): undefined reference to `pbc_'
/usr/local/bin/ld: forces.f:(.text+0x34d8): undefined reference to `pbc_'
/usr/local/bin/ld: forces.o:forces.f:(.text+0x5f58): more undefined references to `pbc_' follow
/usr/local/bin/ld: forces.o: in function `fforces_':
forces.f:(.text+0x6e10): undefined reference to `zerofs_'
/usr/local/bin/ld: forces.f:(.text+0x6e30): undefined reference to `sclfrc_'
/usr/local/bin/ld: forces.o: in function `slforces_':
forces.f:(.text+0x6e40): undefined reference to `zeroav_'
/usr/local/bin/ldutil.f:478:72:
478 | IF(NDIM-6)5,5,2
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
: forces.f:(.text+0x6e4c): undefined reference to `zerofs_'
/usr/local/bin/ld: forces.f:(.text+0x6e68): undefined reference to `sclfrc_'
/usr/local/bin/ld: forces.o: in function `util.f:484:72:
484 | IF(I-NDIM)3,6,6
| 1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
allforce_':
forces.f:(.text+0x6e78): undefined reference to `zeroav_'
/usr/local/bin/ld: forces.f:(.text+0x6e88): undefined reference to `zerofs_'
/usr/local/bin/ld: forces.f:(.text+0x6e90): undefined reference to `zerofs_'
/usr/local/bin/ld: forces.f:(.text+0x6ebc): undefined reference to `sclfrc_'
/usr/local/bin/ld: main.o: in function `MAIN__':
main.f:(.text+0x1700): undefined reference to `zeroav_'
/usr/local/bin/ld: main.f:(.text+0x2700): undefined reference to `reclen_'
/usr/local/bin/ld: main.f:(.text+0x2704): undefined reference to `getcom_'
/usr/local/bin/ld: main.f:(.text+0x2e0c): undefined reference to `pbc_'
/usr/local/bin/ld: main.f:(.text+0x3420): undefined reference to `reclen_'
/usr/local/bin/ld: main.f:(.text+0x3c50): undefined reference to `getcom_'
/usr/local/bin/ld: main.f:(.text+0x3f5c): undefined reference to `chterm_'
/usr/local/bin/ld: main.f:(.text+0x3f74): undefined reference to `testconf_'
/usr/local/bin/ld: main.f:(.text+0x4124): undefined reference to `comvel_'
/usr/local/bin/ld: main.f:(.text+0x4ebc): undefined reference to `group_'
/usr/local/bin/ld: mdee.o: in function `difen_':
mdee.f:(.text+0x888): undefined reference to `pbc_'
/usr/local/bin/ld: mdee.f:(.text+0xcf0): undefined reference to `pbc_'
/usr/local/bin/ld: mdee.o: in function `diffur_':
mdee.f:(.text+0x164c): undefined reference to `pbc_'
/usr/local/bin/ld: mdee.o: in function `mdee_ave_':
mdee.f:(.text+0x4860): undefined reference to `zeroav_'
/usr/local/bin/ld: mdstep.o: in function `scaling_':
mdstep.f:(.text+0x1c): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x1068): undefined reference to `reclen_'
/usr/local/bin/ld: mdstep.f:(.text+0x10b8): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x1750): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x1eb4): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x2b04): undefined reference to `reclen_'
/usr/local/bin/ld: mdstep.f:(.text+0x2fc8): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.o: in function `shejk_':
mdstep.f:(.text+0x3434): undefined reference to `pbc_'
/usr/local/bin/ld: mdstep.f:(.text+0x36b8): undefined reference to `pbc_'
/usr/local/bin/ld: mdstep.o: in function `sultan_':
mdstep.f:(.text+0x4368): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x4420): undefined reference to `chterm_'
/usr/local/bin/ld: mdstep.f:(.text+0x472c): undefined reference to `getcom_'
/usr/local/bin/ld: mdstep.f:(.text+0x4784): undefined reference to `getkin_'
/usr/local/bin/ld: mdstep.f:(.text+0x4af4): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x4b7c): undefined reference to `chkmom_'
/usr/local/bin/ld: mdstep.o: in function `double_':
mdstep.f:(.text+0x5634): undefined reference to `getcom_'
/usr/local/bin/ld: mdstep.f:(.text+0x5874): undefined reference to `chterm_'
/usr/local/bin/ld: mdstep.f:(.text+0x5948): undefined reference to `zeroav_'
/usr/local/bin/ld: mdstep.f:(.text+0x5a64): undefined reference to `getcom_'
/usr/local/bin/ld: mdstep.f:(.text+0x5cdc): undefined reference to `getemp_'
/usr/local/bin/ld: mdstep.f:(.text+0x60f4): undefined reference to `chkmom_'
/usr/local/bin/ld: mdstep.f:(.text+0x6110): undefined reference to `getkin_'
/usr/local/bin/ld: restart.o: in function `restrt_':
restart.f:(.text+0x3758): undefined reference to `getemp_'
/usr/local/bin/ld: setup.o: in function `iunits_':
setup.f:(.text+0x1408): undefined reference to `reclen_'
/usr/local/bin/ld: setup.o: in function `cubic_':
setup.f:(.text+0x6a78): undefined reference to `pbc_'
/usr/local/bin/ld: setup.o: in function `fcc_':
setup.f:(.text+0x6ee4): undefined reference to `pbc_'
collect2: error: ld returned 1 exit status
make[1]: *** [Makefile.gfortran:10: default] Error 1
make[1]: Leaving directory '/wrkdirs/usr/ports/science/mdynamix/work/mdynamix'
gmake: *** [Makefile:2: default] Error 2
gmake: *** Waiting for unfinished jobs....
mpif77 -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -fstack-protector-strong -o mdp aver.o cpu_mpi.o input.o forces.o main.o mdee.o mdstep.o restart.o mpi.o pimd.o service.o setup.o util.o
/usr/local/bin/ld: warning: _dvmd_lnx.o: missing .note.GNU-stack section implies executable stack
/usr/local/bin/ld: NOTE: This behaviour is deprecated and will be removed in a future version of the linker
make[1]: Leaving directory '/wrkdirs/usr/ports/science/mdynamix/work/mdynamix'
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/science/mdynamix