[package - main-i386-default][science/py-MDAnalysis] Failed for py38-MDAnalysis-0.19.2_2 in build

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From: <pkg-fallout_at_FreeBSD.org>
Date: Thu, 30 Dec 2021 01:27:57 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:        http://beefy17.nyi.freebsd.org/data/main-i386-default/pb62f24f32e66_sc3a688ef4d/logs/py38-MDAnalysis-0.19.2_2.log
Build URL:      http://beefy17.nyi.freebsd.org/build.html?mastername=main-i386-default&build=pb62f24f32e66_sc3a688ef4d
Log:

=>> Building science/py-MDAnalysis
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
build started at Thu Dec 30 01:27:40 UTC 2021
port directory: /usr/ports/science/py-MDAnalysis
package name: py38-MDAnalysis-0.19.2_2
building for: FreeBSD main-i386-default-job-10 14.0-CURRENT FreeBSD 14.0-CURRENT 1400045 i386
maintained by: yuri@FreeBSD.org
Makefile ident: 
Poudriere version: 3.2.8-21-g883afb07
Host OSVERSION: 1400042
Jail OSVERSION: 1400045
Job Id: 10




!!! Jail is newer than host. (Jail: 1400045, Host: 1400042) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!



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ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
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yuri@FreeBSD.org
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ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
=======================<phase: check-sanity   >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===>  License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===>   py38-MDAnalysis-0.19.2_2 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.17.5.pkg
[main-i386-default-job-10] Installing pkg-1.17.5...
[main-i386-default-job-10] Extracting pkg-1.17.5: .......... done
===>   py38-MDAnalysis-0.19.2_2 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of py38-MDAnalysis-0.19.2_2
===========================================================================
=======================<phase: fetch-depends  >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
===========================================================================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
make: "/usr/ports/Mk/Uses/compiler.mk" line 92: warning: "/usr/bin/clang --version" returned non-zero status
=======================<phase: fetch          >============================
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
make: "/usr/ports/Mk/Uses/compiler.mk" line 73: warning: "cc --version" returned non-zero status
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "clang"
<snip>
copying MDAnalysis/units.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/contacts.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/polymer.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/waterdynamics.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/psa.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/helanal.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/diffusionmap.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/rdf.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/lineardensity.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/hole.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/base.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/density.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/distances.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/x3dna.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/align.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/gnm.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/nuclinfo.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/rms.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/leaflet.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/dihedrals.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
copying MDAnalysis/analysis/pca.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration
copying MDAnalysis/migration/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration
copying MDAnalysis/migration/test_dummy_torsion.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration
copying MDAnalysis/migration/ten2eleven.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration
copying MDAnalysis/migration/test_dummy_old_MDA_code.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/tests
copying MDAnalysis/tests/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/tests
copying MDAnalysis/tests/datafiles.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/tests
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/pkdtree.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/log.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/distances.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/transformations.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/mdamath.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/util.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
copying MDAnalysis/lib/NeighborSearch.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/topology.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/topologyobjects.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/log.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/_get_readers.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/selection.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/distances.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/transformations.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/topologyattrs.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/util.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/parallel.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/AtomGroup.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/qcprot.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/groups.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/units.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
copying MDAnalysis/core/universe.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/core
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/transformations
copying MDAnalysis/transformations/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/transformations
copying MDAnalysis/transformations/translate.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/transformations
copying MDAnalysis/transformations/rotate.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/transformations
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/PSFParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/GSDParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/DLPolyParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/XYZParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/PDBQTParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/MinimalParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/TPRParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/base.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/GMSParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/_elements.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/CRDParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/PQRParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/guessers.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/tables.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/TOPParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/PDBParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/MMTFParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/MOL2Parser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/GROParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/core.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/TXYZParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
copying MDAnalysis/topology/DMSParser.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/visualization
copying MDAnalysis/visualization/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/visualization
copying MDAnalysis/visualization/streamlines.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/visualization
copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/visualization
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/jmol.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/base.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/pymol.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/vmd.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/gromacs.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
copying MDAnalysis/selections/charmm.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/selections
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/null.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/DCD.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/XTC.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/MOL2.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/MMTF.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/memory.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/chain.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/DMS.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/GRO.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/base.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/DLPoly.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/CRD.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/PDBQT.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/GSD.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/GMS.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/INPCRD.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/PDB.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/TRJ.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/XDR.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/TRR.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/core.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/TXYZ.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/TRZ.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/PQR.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
copying MDAnalysis/coordinates/XYZ.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/coordinates
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/auxiliary
copying MDAnalysis/auxiliary/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/auxiliary
copying MDAnalysis/auxiliary/base.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/auxiliary
copying MDAnalysis/auxiliary/XVG.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/auxiliary
copying MDAnalysis/auxiliary/core.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/auxiliary
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/legacy
copying MDAnalysis/analysis/legacy/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/legacy
copying MDAnalysis/analysis/legacy/x3dna.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/legacy
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
copying MDAnalysis/analysis/encore/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
copying MDAnalysis/analysis/encore/similarity.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
copying MDAnalysis/analysis/encore/confdistmatrix.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
copying MDAnalysis/analysis/encore/covariance.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
copying MDAnalysis/analysis/encore/utils.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
copying MDAnalysis/analysis/encore/bootstrap.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/hbonds
copying MDAnalysis/analysis/hbonds/hbond_analysis.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/hbonds
copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/hbonds
copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/hbonds
copying MDAnalysis/analysis/hbonds/wbridge_analysis.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/hbonds
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/data
copying MDAnalysis/analysis/data/filenames.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/data
copying MDAnalysis/analysis/data/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/data
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/dimensionality_reduction
copying MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/dimensionality_reduction
copying MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/dimensionality_reduction
copying MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/dimensionality_reduction
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/clustering
copying MDAnalysis/analysis/encore/clustering/cluster.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/clustering
copying MDAnalysis/analysis/encore/clustering/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/clustering
copying MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/clustering
copying MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/encore/clustering
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_agmethods.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_torsions.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_numframes.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_camelcase.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_torsionclasses.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_mdaimports.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_writer.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_agcountmethods.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_agsetterpluralization.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_calctorsions.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_selectatoms.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_framenumberingzerobased.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
copying MDAnalysis/migration/fixes/fix_agmethods2.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/migration/fixes
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib/formats
copying MDAnalysis/lib/formats/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib/formats
creating build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology/tpr
copying MDAnalysis/topology/tpr/__init__.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology/tpr
copying MDAnalysis/topology/tpr/obj.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology/tpr
copying MDAnalysis/topology/tpr/utils.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology/tpr
copying MDAnalysis/topology/tpr/setting.py -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/topology/tpr
copying MDAnalysis/analysis/data/rama_ref_data.npy -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/data
copying MDAnalysis/analysis/data/janin_ref_data.npy -> build/lib.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/analysis/data
running build_ext
building 'MDAnalysis.lib.formats.libdcd' extension
creating build/temp.freebsd-14.0-CURRENT-i386-3.8
creating build/temp.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis
creating build/temp.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib
creating build/temp.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib/formats
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/usr/local/lib/python3.8/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -I/usr/local/include/python3.8 -c MDAnalysis/lib/formats/libdcd.c -o build/temp.freebsd-14.0-CURRENT-i386-3.8/MDAnalysis/lib/formats/libdcd.o -std=c99 -ffast-math -funroll-loops
ld-elf.so.1: Shared object "libc++.so.1" not found, required by "cc"
setup.py:118: DeprecationWarning: The SafeConfigParser class has been renamed to ConfigParser in Python 3.2. This alias will be removed in future versions. Use ConfigParser directly instead.
  self.config = configparser.SafeConfigParser()
error: command 'cc' failed with exit status 1
*** Error code 1

Stop.
make: stopped in /usr/ports/science/py-MDAnalysis