[exp - 142amd64-default-build-as-user][science/mdynamix] Failed for mdynamix-5.3.0 in build
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Date: Fri, 19 Sep 2025 00:23:10 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/package19/data/142amd64-default-build-as-user/0028b32312ae/logs/mdynamix-5.3.0.log
Build URL: https://pkg-status.freebsd.org/package19/build.html?mastername=142amd64-default-build-as-user&build=0028b32312ae
Log:
=>> Building science/mdynamix
build started at Fri Sep 19 00:22:50 -00 2025
port directory: /usr/ports/science/mdynamix
package name: mdynamix-5.3.0
building for: FreeBSD 142amd64-default-build-as-user-job-04 14.2-RELEASE-p5 FreeBSD 14.2-RELEASE-p5 amd64
maintained by: yuri@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 991 Feb 19 2025 /usr/ports/science/mdynamix/Makefile
Ports top last git commit: 0028b32312
Ports top unclean checkout: no
Port dir last git commit: 999be5f9b5
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.3
Host OSVERSION: 1600000
Jail OSVERSION: 1402000
Job Id: 04
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yuri@FreeBSD.org
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OSREL=14.2 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"
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=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534
===> 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-2.3.1.pkg
[142amd64-default-build-as-user-job-04] Installing pkg-2.3.1...
[142amd64-default-build-as-user-job-04] Extracting pkg-2.3.1: .......... 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=nobody UID=65534 GID=65534
===> 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=nobody UID=65534 GID=65534
===> 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_3.pkg
[142amd64-default-build-as-user-job-04] Installing gcc13-13.3.0_3...
[142amd64-default-build-as-user-job-04] `-- Installing binutils-2.44,1...
[142amd64-default-build-as-user-job-04] | `-- Installing indexinfo-0.3.1_1...
[142amd64-default-build-as-user-job-04] | `-- Extracting indexinfo-0.3.1_1: .... done
[142amd64-default-build-as-user-job-04] | `-- Installing zstd-1.5.7...
[142amd64-default-build-as-user-job-04] | | `-- Installing liblz4-1.10.0,1...
[142amd64-default-build-as-user-job-04] | | `-- Extracting liblz4-1.10.0,1: .......... done
[142amd64-default-build-as-user-job-04] | `-- Extracting zstd-1.5.7: .......... done
[142amd64-default-build-as-user-job-04] `-- Extracting binutils-2.44,1: .......... done
[142amd64-default-build-as-user-job-04] `-- Installing gmp-6.3.0...
[142amd64-default-build-as-user-job-04] `-- Extracting gmp-6.3.0: .......... done
[142amd64-default-build-as-user-job-04] `-- Installing mpc-1.3.1_1...
[142amd64-default-build-as-user-job-04] | `-- Installing mpfr-4.2.2,1...
[142amd64-default-build-as-user-job-04] | `-- Extracting mpfr-4.2.2,1: .......... done
[142amd64-default-build-as-user-job-04] `-- Extracting mpc-1.3.1_1: ......... done
[142amd64-default-build-as-user-job-04] Extracting gcc13-13.3.0_3: .......... done
=====
Message from gcc13-13.3.0_3:
--
To ensure binaries built with this toolchain find appropriate versions
of the necessary run-time libraries, you may want to link using
-Wl,-rpath=/usr/local/lib/gcc13
For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
transparently.
===> mdynamix-5.3.0 depends on executable: gfortran13 - found
<snip>
mpif.h:592:12:
Warning: Legacy Extension: SAVE statement at (1) follows blanket SAVE statement
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)
mpif.h:591:12:
Warning: Legacy Extension: SAVE statement at (1) follows blanket SAVE statement
mpif.h:592:12:
Warning: Legacy Extension: SAVE statement at (1) follows blanket SAVE statement
pimd.f:531:25:
531 | call MPI_ALLREDUCE(BUFF,BUF2,IBUF,MPI_REAL,
| 1
......
1117 | call MPI_ALLREDUCE(BUFF,BUF2,IBUF,MPI_DOUBLE_PRECISION,
| 2
Warning: Type mismatch between actual argument at (1) and actual argument at (2) (REAL(4)/REAL(8)).
pimd.f:531:30:
531 | call MPI_ALLREDUCE(BUFF,BUF2,IBUF,MPI_REAL,
| 1
......
1117 | call MPI_ALLREDUCE(BUFF,BUF2,IBUF,MPI_DOUBLE_PRECISION,
| 2
Warning: Type mismatch between actual argument at (1) and actual argument at (2) (REAL(4)/REAL(8)).
gfortran -O -Wl,-rpath=/usr/local/lib/gcc13 -fallow-argument-mismatch -ffast-math -c -o util.o util.f
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)
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 util.o util.f
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)
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)
gfortran -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -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 -Wl,-rpath=/usr/local/lib/gcc13 -L/usr/local/lib/gcc13 -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: main.o: in function `MAIN__':
main.f:(.text+0x19ae): undefined reference to `iunits_'
/usr/local/bin/ld: main.f:(.text+0x2d78): undefined reference to `fcc_'
/usr/local/bin/ld: main.f:(.text+0x2e1d): undefined reference to `dnasol_'
/usr/local/bin/ld: main.f:(.text+0x2e73): undefined reference to `sphole_'
/usr/local/bin/ld: main.f:(.text+0x2ead): undefined reference to `cubic_'
/usr/local/bin/ld: main.f:(.text+0x44b9): undefined reference to `bndlst_'
/usr/local/bin/ld: main.f:(.text+0x5658): undefined reference to `pullini_'
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....
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