[exp - 142amd64-default-build-as-user][science/py-pymatgen] Failed for py311-pymatgen-2025.6.14_1 in run-depends
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Date: Mon, 15 Sep 2025 12:29:20 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/py311-pymatgen-2025.6.14_1.log Build URL: https://pkg-status.freebsd.org/package19/build.html?mastername=142amd64-default-build-as-user&build=0028b32312ae Log: =>> Building science/py-pymatgen build started at Mon Sep 15 12:28:12 -00 2025 port directory: /usr/ports/science/py-pymatgen package name: py311-pymatgen-2025.6.14_1 building for: FreeBSD 142amd64-default-build-as-user-job-08 14.2-RELEASE-p5 FreeBSD 14.2-RELEASE-p5 amd64 maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 3139 Sep 7 00:02 /usr/ports/science/py-pymatgen/Makefile Ports top last git commit: 0028b32312 Ports top unclean checkout: no Port dir last git commit: b304d8ab18 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.3 Host OSVERSION: 1600000 Jail OSVERSION: 1402000 Job Id: 08 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1402000 UNAME_v=FreeBSD 14.2-RELEASE-p5 UNAME_r=14.2-RELEASE-p5 BLOCKSIZE=K 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 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.3 MASTERMNT=/poudriere/data/.m/142amd64-default-build-as-user/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= GID=0 OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 UID=0 PWD=/poudriere/data/.m/142amd64-default-build-as-user/08/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=142amd64-default-build-as-user SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/poudriere/data/.m/142amd64-default-build-as-user/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.3 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR=py311 MAKE_ARGS= FLAVOR=py311 ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python3.11" XDG_DATA_HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311 XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311 XDG_CACHE_HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311/.cache HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/py-pymatgen/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/py-pymatgen/work-py311/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311 XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311 XDG_CACHE_HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311/.cache HOME=/wrkdirs/usr/ports/science/py-pymatgen/work-py311 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/py-pymatgen/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/py-pymatgen/work-py311/.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 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " 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" BS D_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PYTHON_INCLUDEDIR=include/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd14 PYTHON_SITELIBDIR=lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" OSREL=14.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/py311-pymatgen" EXAMPLESDIR="share/examples/py311-pymatgen" DATADIR="share/py311-pymatgen" WWWDIR="www/py311-pymatgen" ETCDIR="etc/py311-pymatgen" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd14 PYTHON_SITELIBDIR=/usr/local/lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/py311-pymatgen DOCSDIR=/usr/local/share/doc/py311-pymatgen EXAMPLESDIR=/usr/local/share/examples/py311-pymatgen WWWDIR=/usr/local/www/py311-pymatgen ETCDIR=/usr/local/etc/py311-pymatgen --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### # Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs MAKE_JOBS_NUMBER=3 #### Misc Poudriere #### .include "/etc/make.conf.ports_env" ---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) 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 pipebuf (-y) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> License MIT accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-pymatgen-2025.6.14_1 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-08] Installing pkg-2.3.1... [142amd64-default-build-as-user-job-08] Extracting pkg-2.3.1: .......... done ===> py311-pymatgen-2025.6.14_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py311-pymatgen-2025.6.14_1 =========================================================================== =======================<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 MIT accepted by the user ===> Fetching all distfiles required by py311-pymatgen-2025.6.14_1 for building =========================================================================== =======================<phase: checksum >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> Fetching all distfiles required by py311-pymatgen-2025.6.14_1 for building => SHA256 Checksum OK for materialsproject-pymatgen-v2025.6.14_GH0.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 MIT accepted by the user ===> Fetching all distfiles required by py311-pymatgen-2025.6.14_1 for building ===> Extracting for py311-pymatgen-2025.6.14_1 => SHA256 Checksum OK for materialsproject-pymatgen-v2025.6.14_GH0.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 py311-pymatgen-2025.6.14_1 ===> Applying FreeBSD patches for py311-pymatgen-2025.6.14_1 from /usr/ports/science/py-pymatgen/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-setuptools>0 - not found ===> Installing existing package /packages/All/py311-setuptools-63.1.0_3.pkg [142amd64-default-build-as-user-job-08] Installing py311-setuptools-63.1.0_3... [142amd64-default-build-as-user-job-08] `-- Installing python311-3.11.13_1... [142amd64-default-build-as-user-job-08] | `-- Installing gettext-runtime-0.23.1... [142amd64-default-build-as-user-job-08] | | `-- Installing indexinfo-0.3.1_1... [142amd64-default-build-as-user-job-08] | | `-- Extracting indexinfo-0.3.1_1: .... done [142amd64-default-build-as-user-job-08] | `-- Extracting gettext-runtime-0.23.1: .......... done [142amd64-default-build-as-user-job-08] | `-- Installing libffi-3.5.1... [142amd64-default-build-as-user-job-08] | `-- Extracting libffi-3.5.1: .......... done [142amd64-default-build-as-user-job-08] | `-- Installing mpdecimal-4.0.1... [142amd64-default-build-as-user-job-08] | `-- Extracting mpdecimal-4.0.1: .......... done [142amd64-default-build-as-user-job-08] | `-- Installing readline-8.2.13_2... [142amd64-default-build-as-user-job-08] | `-- Extracting readline-8.2.13_2: .......... done [142amd64-default-build-as-user-job-08] `-- Extracting python311-3.11.13_1: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-setuptools-63.1.0_3: .......... done ===== Message from python311-3.11.13_1: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py311-gdbm databases/py-gdbm@py311 py311-sqlite3 databases/py-sqlite3@py311 py311-tkinter x11-toolkits/py-tkinter@py311 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-setuptools>0 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-numpy>=1.16,1<1.27,1 - not found <snip> [142amd64-default-build-as-user-job-08] | | | `-- Installing pinentry-1.3.2... [142amd64-default-build-as-user-job-08] | | | | `-- Installing pinentry-curses-1.3.2... [142amd64-default-build-as-user-job-08] | | | | `-- Extracting pinentry-curses-1.3.2: .... done [142amd64-default-build-as-user-job-08] | | | `-- Extracting pinentry-1.3.2: ..... done [142amd64-default-build-as-user-job-08] | | | `-- Extracting gnupg-2.4.8: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting gpgme-2.0.0: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing gpgmepp-2.0.0... [142amd64-default-build-as-user-job-08] | | `-- Extracting gpgmepp-2.0.0: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing nspr-4.37... [142amd64-default-build-as-user-job-08] | | `-- Extracting nspr-4.37: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing nss-3.116... [142amd64-default-build-as-user-job-08] | | `-- Extracting nss-3.116: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing poppler-data-0.4.12... [142amd64-default-build-as-user-job-08] | | `-- Extracting poppler-data-0.4.12: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting poppler-25.04.0_2: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing postgresql17-client-17.6_1... [142amd64-default-build-as-user-job-08] | | `-- Extracting postgresql17-client-17.6_1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing sfcgal-2.2.0... [142amd64-default-build-as-user-job-08] | | `-- Extracting sfcgal-2.2.0: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing spatialite-5.1.0_4... [142amd64-default-build-as-user-job-08] | | `-- Installing librttopo-1.1.0... [142amd64-default-build-as-user-job-08] | | `-- Extracting librttopo-1.1.0: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting spatialite-5.1.0_4: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing xerces-c3-3.3.0... [142amd64-default-build-as-user-job-08] | | `-- Extracting xerces-c3-3.3.0: .......... done [142amd64-default-build-as-user-job-08] | `-- Extracting gdal-3.11.3_4: .......... done [142amd64-default-build-as-user-job-08] `-- Extracting py311-gdal-3.11.3: .......... done [142amd64-default-build-as-user-job-08] `-- Installing py311-pydot-4.0.1... [142amd64-default-build-as-user-job-08] | `-- Installing graphviz-12.2.1_2... [142amd64-default-build-as-user-job-08] | | `-- Installing cairo-1.18.2,3... [142amd64-default-build-as-user-job-08] | | `-- Installing lzo2-2.10_1... [142amd64-default-build-as-user-job-08] | | `-- Extracting lzo2-2.10_1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing pixman-0.46.2... [142amd64-default-build-as-user-job-08] | | `-- Extracting pixman-0.46.2: ......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting cairo-1.18.2,3: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing libICE-1.1.2,1... [142amd64-default-build-as-user-job-08] | | `-- Extracting libICE-1.1.2,1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing libSM-1.2.6,1... [142amd64-default-build-as-user-job-08] | | `-- Extracting libSM-1.2.6,1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing libXaw-1.0.16,2... [142amd64-default-build-as-user-job-08] | | `-- Installing libXmu-1.1.4,1... [142amd64-default-build-as-user-job-08] | | | `-- Installing libXt-1.3.0,1... [142amd64-default-build-as-user-job-08] | | | `-- Extracting libXt-1.3.0,1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting libXmu-1.1.4,1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing libXpm-3.5.17_1... [142amd64-default-build-as-user-job-08] | | `-- Extracting libXpm-3.5.17_1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting libXaw-1.0.16,2: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing libgd-2.3.3_13,1... [142amd64-default-build-as-user-job-08] | | `-- Extracting libgd-2.3.3_13,1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing libltdl-2.5.4... [142amd64-default-build-as-user-job-08] | | `-- Extracting libltdl-2.5.4: .......... done [142amd64-default-build-as-user-job-08] | | `-- Installing pango-1.56.1... [142amd64-default-build-as-user-job-08] | | `-- Installing libthai-0.1.29_1... [142amd64-default-build-as-user-job-08] | | | `-- Installing libdatrie-0.2.13_2... [142amd64-default-build-as-user-job-08] | | | `-- Extracting libdatrie-0.2.13_2: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting libthai-0.1.29_1: .......... done [142amd64-default-build-as-user-job-08] | | `-- Extracting pango-1.56.1: .......... done [142amd64-default-build-as-user-job-08] | `-- Extracting graphviz-12.2.1_2: .......... done [142amd64-default-build-as-user-job-08] `-- Extracting py311-pydot-4.0.1: .......... done [142amd64-default-build-as-user-job-08] `-- Installing py311-pygraphviz-1.6_1... [142amd64-default-build-as-user-job-08] `-- Extracting py311-pygraphviz-1.6_1: .......... done [142amd64-default-build-as-user-job-08] `-- Installing py311-pyyaml-6.0.1_1... [142amd64-default-build-as-user-job-08] | `-- Installing libyaml-0.2.5... [142amd64-default-build-as-user-job-08] | `-- Extracting libyaml-0.2.5: ......... done [142amd64-default-build-as-user-job-08] `-- Extracting py311-pyyaml-6.0.1_1: .......... done [142amd64-default-build-as-user-job-08] `-- Installing py311-scikit-sparse-0.4.16_1... [142amd64-default-build-as-user-job-08] | `-- Installing py311-scipy-1.11.1_4,1... [142amd64-default-build-as-user-job-08] | | `-- Installing blas-3.12.1... [142amd64-default-build-as-user-job-08] | | `-- Extracting blas-3.12.1: ........ done [142amd64-default-build-as-user-job-08] | `-- Extracting py311-scipy-1.11.1_4,1: .......... done [142amd64-default-build-as-user-job-08] `-- Extracting py311-scikit-sparse-0.4.16_1: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-networkx-3.5_3,2: .......... done ===== Message from boost-libs-1.88.0_2: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===== Message from postgresql17-client-17.6_1: -- The PostgreSQL port has a collection of "side orders": postgresql-docs For all of the html documentation p5-Pg A perl5 API for client access to PostgreSQL databases. postgresql-tcltk If you want tcl/tk client support. postgresql-jdbc For Java JDBC support. postgresql-odbc For client access from unix applications using ODBC as access method. Not needed to access unix PostgreSQL servers from Win32 using ODBC. See below. ruby-postgres, py-psycopg For client access to PostgreSQL databases using the ruby & python languages. postgresql-plperl, postgresql-pltcl & postgresql-plruby For using perl5, tcl & ruby as procedural languages. postgresql-contrib Lots of contributed utilities, postgresql functions and datatypes. There you find pg_standby, pgcrypto and many other cool things. etc... ===> py311-pymatgen-2025.6.14_1 depends on package: py311-networkx>=2.7 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-numpy>=1.16,1<1.27,1 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-orjson>=3.10 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-palettable>=3.3.3 - not found ===> Installing existing package /packages/All/py311-palettable-3.3.3.pkg [142amd64-default-build-as-user-job-08] Installing py311-palettable-3.3.3... [142amd64-default-build-as-user-job-08] Extracting py311-palettable-3.3.3: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-palettable>=3.3.3 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-pandas>=2 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-plotly>=5.0.0 - not found ===> Installing existing package /packages/All/py311-plotly-5.24.1_1.pkg [142amd64-default-build-as-user-job-08] Installing py311-plotly-5.24.1_1... [142amd64-default-build-as-user-job-08] `-- Installing py311-tenacity-9.0.0... [142amd64-default-build-as-user-job-08] `-- Extracting py311-tenacity-9.0.0: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-plotly-5.24.1_1: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-plotly>=5.0.0 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-pybtex>=0.24.0 - not found ===> Installing existing package /packages/All/py311-pybtex-0.25.1.pkg [142amd64-default-build-as-user-job-08] Installing py311-pybtex-0.25.1... [142amd64-default-build-as-user-job-08] `-- Installing py311-latexcodec-3.0.1... [142amd64-default-build-as-user-job-08] `-- Extracting py311-latexcodec-3.0.1: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-pybtex-0.25.1: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-pybtex>=0.24.0 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-requests>=2.32 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-ruamel.yaml>=0.17.0 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-scipy>=1.13.0 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-spglib>=2.5 - not found ===> Installing existing package /packages/All/py311-spglib-2.6.0.pkg [142amd64-default-build-as-user-job-08] Installing py311-spglib-2.6.0... [142amd64-default-build-as-user-job-08] `-- Installing spglib-2.6.0... [142amd64-default-build-as-user-job-08] `-- Extracting spglib-2.6.0: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-spglib-2.6.0: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-spglib>=2.5 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-sympy>=1.3 - not found ===> Installing existing package /packages/All/py311-sympy-1.14.0.pkg [142amd64-default-build-as-user-job-08] Installing py311-sympy-1.14.0... [142amd64-default-build-as-user-job-08] `-- Installing py311-mpmath-1.3.0_2... [142amd64-default-build-as-user-job-08] | `-- Installing py311-gmpy2-2.2.1_1... [142amd64-default-build-as-user-job-08] | `-- Extracting py311-gmpy2-2.2.1_1: .......... done [142amd64-default-build-as-user-job-08] `-- Extracting py311-mpmath-1.3.0_2: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-sympy-1.14.0: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-sympy>=1.3 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-tabulate>=0.9 - not found ===> Installing existing package /packages/All/py311-tabulate-0.9.0.pkg [142amd64-default-build-as-user-job-08] Installing py311-tabulate-0.9.0... [142amd64-default-build-as-user-job-08] Extracting py311-tabulate-0.9.0: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-tabulate>=0.9 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-tqdm>=4.60 - found ===> py311-pymatgen-2025.6.14_1 depends on package: py311-uncertainties>=3.1.4 - not found ===> Installing existing package /packages/All/py311-uncertainties-3.2.2.pkg [142amd64-default-build-as-user-job-08] Installing py311-uncertainties-3.2.2... [142amd64-default-build-as-user-job-08] `-- Installing py311-future-0.18.3_1... [142amd64-default-build-as-user-job-08] `-- Extracting py311-future-0.18.3_1: .......... done [142amd64-default-build-as-user-job-08] Extracting py311-uncertainties-3.2.2: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-uncertainties>=3.1.4 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-ase>=3.23.0 - not found ===> Installing existing package /packages/All/py311-ase-3.26.0.pkg [142amd64-default-build-as-user-job-08] Installing py311-ase-3.26.0... [142amd64-default-build-as-user-job-08] Extracting py311-ase-3.26.0: .......... done ===> py311-pymatgen-2025.6.14_1 depends on package: py311-ase>=3.23.0 - found ===> Returning to build of py311-pymatgen-2025.6.14_1 ===> py311-pymatgen-2025.6.14_1 depends on package: py311-beautifulsoup>0 - not found ===> Installing existing package /packages/All/py311-beautifulsoup-4.13.4_1.pkg [142amd64-default-build-as-user-job-08] Installing py311-beautifulsoup-4.13.4_1... [142amd64-default-build-as-user-job-08] `-- Installing py311-html5lib-1.1_1... [142amd64-default-build-as-user-job-08] | `-- Installing py311-webencodings-0.5.1_1... [142amd64-default-build-as-user-job-08] | `-- Extracting py311-webencodings-0.5.1_1: .......... done [142amd64-default-build-as-user-job-08] `-- Extracting py311-html5lib-1.1_1: .......... done [142amd64-default-build-as-user-job-08] `-- Installing py311-lxml5-5.4.0_2... pkg-static: py311-lxml5-5.4.0_2 conflicts with py311-lxml-6.0.1 (installs files into the same place). Problematic file: /usr/local/lib/python3.11/site-packages/lxml/ElementInclude.py Failed to install the following 1 package(s): /packages/All/py311-beautifulsoup-4.13.4_1.pkg *** Error code 1 Stop. make: stopped in /usr/ports/science/py-pymatgen