I: pbuilder: network access will be disabled during build I: Current time: Wed Mar 5 19:04:27 -12 2025 I: pbuilder-time-stamp: 1741244667 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [python-emmet-core_0.84.2-2.dsc] I: copying [./python-emmet-core_0.84.2.orig.tar.gz] I: copying [./python-emmet-core_0.84.2-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./python-emmet-core_0.84.2-2.dsc: unsupported subcommand dpkg-source: info: extracting python-emmet-core in python-emmet-core-0.84.2 dpkg-source: info: unpacking python-emmet-core_0.84.2.orig.tar.gz dpkg-source: info: unpacking python-emmet-core_0.84.2-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying skip_tests.patch dpkg-source: info: applying test_files_dir.patch dpkg-source: info: applying backup_version.patch dpkg-source: info: applying fix_floating_point_comparison_PR1167.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/10678/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='ea4c3abbe4bc46feadafcdca56ea4f85' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='10678' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.egvrwZL5/pbuilderrc_hlyW --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.egvrwZL5/b1 --logfile b1/build.log python-emmet-core_0.84.2-2.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64c 6.1.0-31-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/10678/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-sequence-python3, pybuild-plugin-pyproject, python3-setuptools, python3-setuptools-scm, python3-all, python3-custodian, python3-pymatgen (>= 2023.10.11~), python3-openmm, python3-mdanalysis (>= 2.7.0~), python3-monty (>= 2024.2.2~), python3-pydantic (>= 2.0~), python3-pydantic-settings (>= 2.0~), python3-pybtex (>= 0.24~), python3-typing-extensions (>= 3.7~), python3-spglib (>= 2.0.1~), python3-numpy, python3-pytest, python3-bson, python3-openbabel dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19508 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on pybuild-plugin-pyproject; however: Package pybuild-plugin-pyproject is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools-scm; however: Package python3-setuptools-scm is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-custodian; however: Package python3-custodian is not installed. pbuilder-satisfydepends-dummy depends on python3-pymatgen (>= 2023.10.11~); however: Package python3-pymatgen is not installed. pbuilder-satisfydepends-dummy depends on python3-openmm; however: Package python3-openmm is not installed. pbuilder-satisfydepends-dummy depends on python3-mdanalysis (>= 2.7.0~); however: Package python3-mdanalysis is not installed. pbuilder-satisfydepends-dummy depends on python3-monty (>= 2024.2.2~); however: Package python3-monty is not installed. pbuilder-satisfydepends-dummy depends on python3-pydantic (>= 2.0~); however: Package python3-pydantic is not installed. pbuilder-satisfydepends-dummy depends on python3-pydantic-settings (>= 2.0~); however: Package python3-pydantic-settings is not installed. pbuilder-satisfydepends-dummy depends on python3-pybtex (>= 0.24~); however: Package python3-pybtex is not installed. pbuilder-satisfydepends-dummy depends on python3-typing-extensions (>= 3.7~); however: Package python3-typing-extensions is not installed. pbuilder-satisfydepends-dummy depends on python3-spglib (>= 2.0.1~); however: Package python3-spglib is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-pytest; however: Package python3-pytest is not installed. pbuilder-satisfydepends-dummy depends on python3-bson; however: Package python3-bson is not installed. pbuilder-satisfydepends-dummy depends on python3-openbabel; however: Package python3-openbabel is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-font-awesome{a} fonts-lato{a} fonts-lyx{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcairo2{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgpg-error0{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libinchi1.07{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} liblerc4{a} libmaeparser1{a} libmagic-mgc{a} libmagic1t64{a} libopenbabel7{a} libopenjp2-7{a} libopenmm-dev{a} libopenmm8.1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libproc2-0{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libsymspg2{a} libtcl8.6{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunistring5{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} libyaml-0-2{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} po-debconf{a} procps{a} pybuild-plugin-pyproject{a} python-matplotlib-data{a} python3{a} python3-all{a} python3-annotated-types{a} python3-attr{a} python3-autocommand{a} python3-biopython{a} python3-brotli{a} python3-bson{a} python3-build{a} python3-cairo{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-citeproc{a} python3-contourpy{a} python3-custodian{a} python3-cycler{a} python3-dateutil{a} python3-decorator{a} python3-dnspython{a} python3-dotenv{a} python3-duecredit{a} python3-email-validator{a} python3-fasteners{a} python3-fastjsonschema{a} python3-fonttools{a} python3-freetype{a} python3-fs{a} python3-griddataformats{a} python3-idna{a} python3-inflect{a} python3-iniconfig{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-joblib{a} python3-jsonschema{a} python3-jsonschema-specifications{a} python3-jupyter-core{a} python3-kiwisolver{a} python3-latexcodec{a} python3-looseversion{a} python3-lxml{a} python3-lz4{a} python3-matplotlib{a} python3-mda-xdrlib{a} python3-mdanalysis{a} python3-minimal{a} python3-mmtf{a} python3-monotonic{a} python3-monty{a} python3-more-itertools{a} python3-mpmath{a} python3-mrcfile{a} python3-msgpack{a} python3-nbformat{a} python3-networkx{a} python3-numpy{a} python3-numpy-dev{a} python3-openbabel{a} python3-openmm{a} python3-packaging{a} python3-palettable{a} python3-pandas{a} python3-pandas-lib{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-platformdirs{a} python3-plotly{a} python3-pluggy{a} python3-psutil{a} python3-pybtex{a} python3-pydantic{a} python3-pydantic-core{a} python3-pydantic-settings{a} python3-pymatgen{a} python3-pyparsing{a} python3-pyproject-hooks{a} python3-pytest{a} python3-pytz{a} python3-referencing{a} python3-reportlab{a} python3-requests{a} python3-rlpycairo{a} python3-rpds-py{a} python3-ruamel.yaml{a} python3-ruamel.yaml.clib{a} python3-scipy{a} python3-sentry-sdk{a} python3-setuptools{a} python3-setuptools-scm{a} python3-six{a} python3-spglib{a} python3-sympy{a} python3-tabulate{a} python3-tenacity{a} python3-threadpoolctl{a} python3-tk{a} python3-toml{a} python3-tqdm{a} python3-traitlets{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-uncertainties{a} python3-urllib3{a} python3-wheel{a} python3-yaml{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} python3.13-tk{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-rtd-theme-common{a} tk8.6-blt2.5{a} tzdata{a} unicode-data{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a} The following packages are RECOMMENDED but will NOT be installed: curl fonts-dejavu-extra isympy-common javascript-common libarchive-cpio-perl libglib2.0-data libgpg-error-l10n libltdl-dev libmail-sendmail-perl linux-sysctl-defaults lynx ncbi-blast+ psmisc python-biopython-doc python-monty-doc python3-ase python3-bottleneck python3-bs4 python3-bson-ext python3-cryptography python3-cssselect python3-fqdn python3-gdal python3-h2 python3-html5lib python3-httpcore python3-httpx python3-isoduration python3-jinja2 python3-json-pointer python3-numexpr python3-odf python3-olefile python3-openpyxl python3-pooch python3-pydot python3-pygments python3-pygraphviz python3-rfc3339-validator python3-rfc3986-validator python3-rfc3987 python3-sklearn python3-tables python3-tomli python3-uritemplate python3-vtk9 python3-webcolors shared-mime-info wget xdg-user-dirs 0 packages upgraded, 236 newly installed, 0 to remove and 0 not upgraded. Need to get 178 MB of archives. After unpacking 788 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main armhf fonts-lato all 2.015-1 [2780 kB] Get: 2 http://deb.debian.org/debian unstable/main armhf libpython3.13-minimal armhf 3.13.2-1 [845 kB] Get: 3 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB] Get: 4 http://deb.debian.org/debian unstable/main armhf python3.13-minimal armhf 3.13.2-1 [1842 kB] Get: 5 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.13.2-2 [27.1 kB] Get: 6 http://deb.debian.org/debian unstable/main armhf media-types all 12.0.0 [28.9 kB] Get: 7 http://deb.debian.org/debian unstable/main armhf netbase all 6.4 [12.8 kB] Get: 8 http://deb.debian.org/debian unstable/main armhf tzdata all 2025a-2 [259 kB] Get: 9 http://deb.debian.org/debian unstable/main armhf libffi8 armhf 3.4.7-1 [20.3 kB] Get: 10 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-6 [69.4 kB] Get: 11 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-6 [146 kB] Get: 12 http://deb.debian.org/debian unstable/main armhf libpython3.13-stdlib armhf 3.13.2-1 [1853 kB] Get: 13 http://deb.debian.org/debian unstable/main armhf python3.13 armhf 3.13.2-1 [745 kB] Get: 14 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.13.2-2 [10.1 kB] Get: 15 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.13.2-2 [28.1 kB] Get: 16 http://deb.debian.org/debian unstable/main armhf python3-numpy-dev armhf 1:2.2.3+ds-4 [133 kB] Get: 17 http://deb.debian.org/debian unstable/main armhf libblas3 armhf 3.12.1-2 [116 kB] Get: 18 http://deb.debian.org/debian unstable/main armhf libgfortran5 armhf 14.2.0-17 [263 kB] Get: 19 http://deb.debian.org/debian unstable/main armhf liblapack3 armhf 3.12.1-2 [1835 kB] Get: 20 http://deb.debian.org/debian unstable/main armhf python3-numpy armhf 1:2.2.3+ds-4 [3477 kB] Get: 21 http://deb.debian.org/debian unstable/main armhf sgml-base all 1.31 [15.4 kB] Get: 22 http://deb.debian.org/debian unstable/main armhf libproc2-0 armhf 2:4.0.4-7 [56.3 kB] Get: 23 http://deb.debian.org/debian unstable/main armhf procps armhf 2:4.0.4-7 [866 kB] Get: 24 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 25 http://deb.debian.org/debian unstable/main armhf openssl armhf 3.4.1-1 [1393 kB] Get: 26 http://deb.debian.org/debian unstable/main armhf ca-certificates all 20241223 [164 kB] Get: 27 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 28 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 29 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 30 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.23.1-1 [238 kB] Get: 31 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 32 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-7 [1095 kB] Get: 33 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.4-5 [84.9 kB] Get: 34 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 35 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 36 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-7 [272 kB] Get: 37 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB] Get: 38 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 39 http://deb.debian.org/debian unstable/main armhf automake all 1:1.17-3 [862 kB] Get: 40 http://deb.debian.org/debian unstable/main armhf autopoint all 0.23.1-1 [770 kB] Get: 41 http://deb.debian.org/debian unstable/main armhf libtcl8.6 armhf 8.6.16+dfsg-1 [934 kB] Get: 42 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b7 [284 kB] Get: 43 http://deb.debian.org/debian unstable/main armhf libpng16-16t64 armhf 1.6.47-1 [264 kB] Get: 44 http://deb.debian.org/debian unstable/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [385 kB] Get: 45 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-mono all 2.37-8 [489 kB] Get: 46 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-core all 2.37-8 [840 kB] Get: 47 http://deb.debian.org/debian unstable/main armhf libfontenc1 armhf 1:1.1.8-1+b2 [20.9 kB] Get: 48 http://deb.debian.org/debian unstable/main armhf x11-common all 1:7.7+24 [217 kB] Get: 49 http://deb.debian.org/debian unstable/main armhf xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get: 50 http://deb.debian.org/debian unstable/main armhf xfonts-utils armhf 1:7.7+7 [84.2 kB] Get: 51 http://deb.debian.org/debian unstable/main armhf fonts-urw-base35 all 20200910-8 [10.8 MB] Get: 52 http://deb.debian.org/debian unstable/main armhf fontconfig-config armhf 2.15.0-2 [317 kB] Get: 53 http://deb.debian.org/debian unstable/main armhf libfontconfig1 armhf 2.15.0-2 [371 kB] Get: 54 http://deb.debian.org/debian unstable/main armhf libxau6 armhf 1:1.0.11-1 [19.7 kB] Get: 55 http://deb.debian.org/debian unstable/main armhf libxdmcp6 armhf 1:1.1.5-1 [26.4 kB] Get: 56 http://deb.debian.org/debian unstable/main armhf libxcb1 armhf 1.17.0-2+b1 [140 kB] Get: 57 http://deb.debian.org/debian unstable/main armhf libx11-data all 2:1.8.10-2 [337 kB] Get: 58 http://deb.debian.org/debian unstable/main armhf libx11-6 armhf 2:1.8.10-2 [750 kB] Get: 59 http://deb.debian.org/debian unstable/main armhf libxrender1 armhf 1:0.9.10-1.1+b4 [25.0 kB] Get: 60 http://deb.debian.org/debian unstable/main armhf libxft2 armhf 2.3.6-1+b4 [46.4 kB] Get: 61 http://deb.debian.org/debian unstable/main armhf libxext6 armhf 2:1.3.4-1+b3 [45.2 kB] Get: 62 http://deb.debian.org/debian unstable/main armhf libxss1 armhf 1:1.2.3-1+b3 [16.4 kB] Get: 63 http://deb.debian.org/debian unstable/main armhf libtk8.6 armhf 8.6.16-1 [698 kB] Get: 64 http://deb.debian.org/debian unstable/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-8 [483 kB] Get: 65 http://deb.debian.org/debian unstable/main armhf blt armhf 2.5.3+dfsg-8 [5984 B] Get: 66 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.24.1 [90.9 kB] Get: 67 http://deb.debian.org/debian unstable/main armhf libtool all 2.5.4-4 [539 kB] Get: 68 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB] Get: 69 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 70 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 71 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 72 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 73 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 74 http://deb.debian.org/debian unstable/main armhf libunistring5 armhf 1.3-1 [444 kB] Get: 75 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-6 [9086 kB] Get: 76 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b2 [605 kB] Get: 77 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.23.1-1 [1560 kB] Get: 78 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 79 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 80 http://deb.debian.org/debian unstable/main armhf debhelper all 13.24.1 [920 kB] Get: 81 http://deb.debian.org/debian unstable/main armhf python3-autocommand all 2.2.2-3 [13.6 kB] Get: 82 http://deb.debian.org/debian unstable/main armhf python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 83 http://deb.debian.org/debian unstable/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 84 http://deb.debian.org/debian unstable/main armhf python3-typeguard all 4.4.2-1 [37.3 kB] Get: 85 http://deb.debian.org/debian unstable/main armhf python3-inflect all 7.3.1-2 [32.4 kB] Get: 86 http://deb.debian.org/debian unstable/main armhf python3-jaraco.context all 6.0.1-1 [8276 B] Get: 87 http://deb.debian.org/debian unstable/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 88 http://deb.debian.org/debian unstable/main armhf python3-pkg-resources all 75.8.0-1 [222 kB] Get: 89 http://deb.debian.org/debian unstable/main armhf python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 90 http://deb.debian.org/debian unstable/main armhf python3-zipp all 3.21.0-1 [10.6 kB] Get: 91 http://deb.debian.org/debian unstable/main armhf python3-setuptools all 75.8.0-1 [724 kB] Get: 92 http://deb.debian.org/debian unstable/main armhf dh-python all 6.20250108 [113 kB] Get: 93 http://deb.debian.org/debian unstable/main armhf fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 94 http://deb.debian.org/debian unstable/main armhf fonts-lyx all 2.4.3-1 [190 kB] Get: 95 http://deb.debian.org/debian unstable/main armhf libpixman-1-0 armhf 0.44.0-3 [164 kB] Get: 96 http://deb.debian.org/debian unstable/main armhf libxcb-render0 armhf 1.17.0-2+b1 [114 kB] Get: 97 http://deb.debian.org/debian unstable/main armhf libxcb-shm0 armhf 1.17.0-2+b1 [105 kB] Get: 98 http://deb.debian.org/debian unstable/main armhf libcairo2 armhf 1.18.2-2 [443 kB] Get: 99 http://deb.debian.org/debian unstable/main armhf libdeflate0 armhf 1.23-1+b1 [36.7 kB] Get: 100 http://deb.debian.org/debian unstable/main armhf libfribidi0 armhf 1.0.16-1 [24.6 kB] Get: 101 http://deb.debian.org/debian unstable/main armhf libgpg-error0 armhf 1.51-3 [71.9 kB] Get: 102 http://deb.debian.org/debian unstable/main armhf libgcrypt20 armhf 1.11.0-7 [727 kB] Get: 103 http://deb.debian.org/debian unstable/main armhf libglib2.0-0t64 armhf 2.83.5-1 [1339 kB] Get: 104 http://deb.debian.org/debian unstable/main armhf libgraphite2-3 armhf 1.3.14-2+b1 [63.1 kB] Get: 105 http://deb.debian.org/debian unstable/main armhf libharfbuzz0b armhf 10.2.0-1 [419 kB] Get: 106 http://deb.debian.org/debian unstable/main armhf libimagequant0 armhf 2.18.0-1+b2 [30.5 kB] Get: 107 http://deb.debian.org/debian unstable/main armhf libinchi1.07 armhf 1.07.3+dfsg-1 [449 kB] Get: 108 http://deb.debian.org/debian unstable/main armhf libjbig0 armhf 2.1-6.1+b2 [27.3 kB] Get: 109 http://deb.debian.org/debian unstable/main armhf libjpeg62-turbo armhf 1:2.1.5-3.1 [145 kB] Get: 110 http://deb.debian.org/debian unstable/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 111 http://deb.debian.org/debian unstable/main armhf libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 112 http://deb.debian.org/debian unstable/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 113 http://deb.debian.org/debian unstable/main armhf libjs-sphinxdoc all 8.1.3-5 [30.5 kB] Get: 114 http://deb.debian.org/debian unstable/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1+b2 [25.6 kB] Get: 115 http://deb.debian.org/debian unstable/main armhf liblcms2-2 armhf 2.16-2 [131 kB] Get: 116 http://deb.debian.org/debian unstable/main armhf liblerc4 armhf 4.0.0+ds-5 [146 kB] Get: 117 http://deb.debian.org/debian unstable/main armhf libmaeparser1 armhf 1.3.1-1+b2 [80.7 kB] Get: 118 http://deb.debian.org/debian unstable/main armhf libopenbabel7 armhf 3.1.1+dfsg-11+b2 [2964 kB] Get: 119 http://deb.debian.org/debian unstable/main armhf libopenjp2-7 armhf 2.5.3-1 [184 kB] Get: 120 http://deb.debian.org/debian unstable/main armhf libopenmm8.1 armhf 8.1.2+dfsg-4+b1 [882 kB] Get: 121 http://deb.debian.org/debian unstable/main armhf libopenmm-dev armhf 8.1.2+dfsg-4+b1 [328 kB] Get: 122 http://deb.debian.org/debian unstable/main armhf libpython3.13 armhf 3.13.2-1 [1868 kB] Get: 123 http://deb.debian.org/debian unstable/main armhf libqhull-r8.0 armhf 2020.2-6+b2 [220 kB] Get: 124 http://deb.debian.org/debian unstable/main armhf libraqm0 armhf 0.10.2-1 [11.6 kB] Get: 125 http://deb.debian.org/debian unstable/main armhf libsharpyuv0 armhf 1.5.0-0.1 [114 kB] Get: 126 http://deb.debian.org/debian unstable/main armhf libsymspg2 armhf 2.5.0-2+b2 [184 kB] Get: 127 http://deb.debian.org/debian unstable/main armhf libwebp7 armhf 1.5.0-0.1 [273 kB] Get: 128 http://deb.debian.org/debian unstable/main armhf libtiff6 armhf 4.5.1+git230720-5 [302 kB] Get: 129 http://deb.debian.org/debian unstable/main armhf libwebpdemux2 armhf 1.5.0-0.1 [112 kB] Get: 130 http://deb.debian.org/debian unstable/main armhf libwebpmux3 armhf 1.5.0-0.1 [123 kB] Get: 131 http://deb.debian.org/debian unstable/main armhf libxslt1.1 armhf 1.1.35-1.1+b1 [212 kB] Get: 132 http://deb.debian.org/debian unstable/main armhf libyaml-0-2 armhf 0.2.5-2 [45.4 kB] Get: 133 http://deb.debian.org/debian unstable/main armhf python3-packaging all 24.2-1 [55.3 kB] Get: 134 http://deb.debian.org/debian unstable/main armhf python3-pyproject-hooks all 1.2.0-1 [11.7 kB] Get: 135 http://deb.debian.org/debian unstable/main armhf python3-toml all 0.10.2-1 [16.2 kB] Get: 136 http://deb.debian.org/debian unstable/main armhf python3-wheel all 0.45.1-1 [56.7 kB] Get: 137 http://deb.debian.org/debian unstable/main armhf python3-build all 1.2.2-1 [36.0 kB] Get: 138 http://deb.debian.org/debian unstable/main armhf python3-installer all 0.7.0+dfsg1-3 [18.6 kB] Get: 139 http://deb.debian.org/debian unstable/main armhf pybuild-plugin-pyproject all 6.20250108 [11.6 kB] Get: 140 http://deb.debian.org/debian unstable/main armhf python-matplotlib-data all 3.8.3-7 [2735 kB] Get: 141 http://deb.debian.org/debian unstable/main armhf python3-all armhf 3.13.2-2 [1044 B] Get: 142 http://deb.debian.org/debian unstable/main armhf python3-annotated-types all 0.7.0-1 [18.8 kB] Get: 143 http://deb.debian.org/debian unstable/main armhf python3-attr all 25.1.0-1 [68.7 kB] Get: 144 http://deb.debian.org/debian unstable/main armhf python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 145 http://deb.debian.org/debian unstable/main armhf python3.13-tk armhf 3.13.2-1 [100 kB] Get: 146 http://deb.debian.org/debian unstable/main armhf python3-tk armhf 3.13.2-1 [9516 B] Get: 147 http://deb.debian.org/debian unstable/main armhf python3-pil.imagetk armhf 11.1.0-5+b1 [81.2 kB] Get: 148 http://deb.debian.org/debian unstable/main armhf python3-pil armhf 11.1.0-5+b1 [481 kB] Get: 149 http://deb.debian.org/debian unstable/main armhf python3-cairo armhf 1.26.1-2+b2 [108 kB] Get: 150 http://deb.debian.org/debian unstable/main armhf python3-freetype all 2.5.1-1 [89.3 kB] Get: 151 http://deb.debian.org/debian unstable/main armhf python3-rlpycairo all 0.3.0-3 [9904 B] Get: 152 http://deb.debian.org/debian unstable/main armhf python3-reportlab all 4.3.1-1 [1158 kB] Get: 153 http://deb.debian.org/debian unstable/main armhf xml-core all 0.19 [20.1 kB] Get: 154 http://deb.debian.org/debian unstable/main armhf w3c-sgml-lib all 1.3-3 [273 kB] Get: 155 http://deb.debian.org/debian unstable/main armhf python3-biopython armhf 1.85+dfsg-2+b1 [1645 kB] Get: 156 http://deb.debian.org/debian unstable/main armhf python3-brotli armhf 1.1.0-2+b7 [293 kB] Get: 157 http://deb.debian.org/debian unstable/main armhf python3-bson all 4.10.1-5 [87.1 kB] Get: 158 http://deb.debian.org/debian unstable/main armhf python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 159 http://deb.debian.org/debian unstable/main armhf python3-charset-normalizer armhf 3.4.1-1+b1 [118 kB] Get: 160 http://deb.debian.org/debian unstable/main armhf python3-lxml armhf 5.3.1-1+b1 [1192 kB] Get: 161 http://deb.debian.org/debian unstable/main armhf python3-citeproc all 0.7.0-1 [98.3 kB] Get: 162 http://deb.debian.org/debian unstable/main armhf python3-contourpy armhf 1.3.1-1+b1 [181 kB] Get: 163 http://deb.debian.org/debian unstable/main armhf python3-dateutil all 2.9.0-3 [79.3 kB] Get: 164 http://deb.debian.org/debian unstable/main armhf python3-pytz all 2025.1-3 [150 kB] Get: 165 http://deb.debian.org/debian unstable/main armhf python3-tz all 2025.1-3 [4004 B] Get: 166 http://deb.debian.org/debian unstable/main armhf python3-pandas-lib armhf 2.2.3+dfsg-8+b1 [4141 kB] Get: 167 http://deb.debian.org/debian unstable/main armhf python3-pandas all 2.2.3+dfsg-8 [3097 kB] Get: 168 http://deb.debian.org/debian unstable/main armhf python3-pydantic-core armhf 2.27.2-1+b2 [1313 kB] Get: 169 http://deb.debian.org/debian unstable/main armhf python3-dnspython all 2.7.0-1 [164 kB] Get: 170 http://deb.debian.org/debian unstable/main armhf python3-idna all 3.10-1 [42.0 kB] Get: 171 http://deb.debian.org/debian unstable/main armhf python3-email-validator all 2.2.0-1 [31.6 kB] Get: 172 http://deb.debian.org/debian unstable/main armhf python3-pydantic armhf 2.10.6-1 [346 kB] Get: 173 http://deb.debian.org/debian unstable/main armhf python3-tqdm all 4.67.1-2 [91.1 kB] Get: 174 http://deb.debian.org/debian unstable/main armhf python3-ruamel.yaml.clib armhf 0.2.12+ds-1+b1 [118 kB] Get: 175 http://deb.debian.org/debian unstable/main armhf python3-ruamel.yaml all 0.18.10+ds-1 [147 kB] Get: 176 http://deb.debian.org/debian unstable/main armhf python3-monty all 2025.1.9-1 [45.7 kB] Get: 177 http://deb.debian.org/debian unstable/main armhf python3-psutil armhf 5.9.8-2 [225 kB] Get: 178 http://deb.debian.org/debian unstable/main armhf python3-pyparsing all 3.1.2-1 [146 kB] Get: 179 http://deb.debian.org/debian unstable/main armhf python3-cycler all 0.12.1-1 [9496 B] Get: 180 http://deb.debian.org/debian unstable/main armhf python3-platformdirs all 4.3.6-1 [16.6 kB] Get: 181 http://deb.debian.org/debian unstable/main armhf python3-fs all 2.4.16-7 [95.2 kB] Get: 182 http://deb.debian.org/debian unstable/main armhf python3-lz4 armhf 4.4.0+dfsg-1+b1 [24.1 kB] Get: 183 http://deb.debian.org/debian unstable/main armhf python3-decorator all 5.1.1-5 [15.1 kB] Get: 184 http://deb.debian.org/debian unstable/main armhf python3-scipy armhf 1.14.1-4+b1 [15.5 MB] Get: 185 http://deb.debian.org/debian unstable/main armhf python3-mpmath all 1.3.0-1 [419 kB] Get: 186 http://deb.debian.org/debian unstable/main armhf python3-sympy all 1.13.3-5 [4148 kB] Get: 187 http://deb.debian.org/debian unstable/main armhf python3-ufolib2 all 0.17.0+dfsg1-1 [33.0 kB] Get: 188 http://deb.debian.org/debian unstable/main armhf unicode-data all 15.1.0-1 [8547 kB] Get: 189 http://deb.debian.org/debian unstable/main armhf python3-fonttools armhf 4.55.3-2+b1 [1393 kB] Get: 190 http://deb.debian.org/debian unstable/main armhf python3-kiwisolver armhf 1.4.7-3+b1 [54.7 kB] Get: 191 http://deb.debian.org/debian unstable/main armhf python3-matplotlib armhf 3.8.3-7+b1 [22.9 MB] Get: 192 http://deb.debian.org/debian unstable/main armhf python3-urllib3 all 2.3.0-1 [114 kB] Get: 193 http://deb.debian.org/debian unstable/main armhf python3-sentry-sdk all 2.18.0-1 [236 kB] Get: 194 http://deb.debian.org/debian unstable/main armhf python3-custodian all 2024.10.16-1 [95.9 kB] Get: 195 http://deb.debian.org/debian unstable/main armhf python3-dotenv all 1.0.1-1 [26.6 kB] Get: 196 http://deb.debian.org/debian unstable/main armhf python3-looseversion all 1.3.0-3 [8964 B] Get: 197 http://deb.debian.org/debian unstable/main armhf python3-requests all 2.32.3+dfsg-4 [72.1 kB] Get: 198 http://deb.debian.org/debian unstable/main armhf python3-duecredit all 0.10.2-2 [70.6 kB] Get: 199 http://deb.debian.org/debian unstable/main armhf python3-monotonic all 1.6-3 [5340 B] Get: 200 http://deb.debian.org/debian unstable/main armhf python3-fasteners all 0.18-2 [14.0 kB] Get: 201 http://deb.debian.org/debian unstable/main armhf python3-fastjsonschema all 2.21.1-1 [22.4 kB] Get: 202 http://deb.debian.org/debian unstable/main armhf sphinx-rtd-theme-common all 3.0.2+dfsg-2 [1023 kB] Get: 203 http://deb.debian.org/debian unstable/main armhf python3-mrcfile all 1.5.4-2 [118 kB] Get: 204 http://deb.debian.org/debian unstable/main armhf python3-griddataformats all 1.0.2-2 [2048 kB] Get: 205 http://deb.debian.org/debian unstable/main armhf python3-iniconfig all 1.1.1-2 [6396 B] Get: 206 http://deb.debian.org/debian unstable/main armhf python3-joblib all 1.4.2-3 [216 kB] Get: 207 http://deb.debian.org/debian unstable/main armhf python3-rpds-py armhf 0.21.0-2+b1 [231 kB] Get: 208 http://deb.debian.org/debian unstable/main armhf python3-referencing all 0.35.1-2 [23.5 kB] Get: 209 http://deb.debian.org/debian unstable/main armhf python3-jsonschema-specifications all 2023.12.1-2 [9020 B] Get: 210 http://deb.debian.org/debian unstable/main armhf python3-jsonschema all 4.19.2-6 [71.4 kB] Get: 211 http://deb.debian.org/debian unstable/main armhf python3-traitlets all 5.14.3+really5.14.3-1 [70.9 kB] Get: 212 http://deb.debian.org/debian unstable/main armhf python3-jupyter-core all 5.7.2-5 [35.3 kB] Get: 213 http://deb.debian.org/debian unstable/main armhf python3-latexcodec all 3.0.0-1 [17.5 kB] Get: 214 http://deb.debian.org/debian unstable/main armhf python3-mda-xdrlib all 0.2.0-3 [11.6 kB] Get: 215 http://deb.debian.org/debian unstable/main armhf python3-msgpack armhf 1.0.3-3+b4 [78.5 kB] Get: 216 http://deb.debian.org/debian unstable/main armhf python3-mmtf all 1.1.3-1 [17.0 kB] Get: 217 http://deb.debian.org/debian unstable/main armhf python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get: 218 http://deb.debian.org/debian unstable/main armhf python3-mdanalysis armhf 2.8.0-4+b1 [4068 kB] Get: 219 http://deb.debian.org/debian unstable/main armhf python3-nbformat all 5.9.1-1 [45.1 kB] Get: 220 http://deb.debian.org/debian unstable/main armhf python3-networkx all 3.2.1-5 [13.0 MB] Get: 221 http://deb.debian.org/debian unstable/main armhf python3-openbabel armhf 3.1.1+dfsg-11+b2 [520 kB] Get: 222 http://deb.debian.org/debian unstable/main armhf python3-openmm armhf 8.1.2+dfsg-4+b1 [6471 kB] Get: 223 http://deb.debian.org/debian unstable/main armhf python3-palettable all 3.3.3-1 [69.7 kB] Get: 224 http://deb.debian.org/debian unstable/main armhf python3-tenacity all 8.4.2+really8.4.1-2 [46.0 kB] Get: 225 http://deb.debian.org/debian unstable/main armhf python3-plotly all 5.20.0+dfsg-1 [2726 kB] Get: 226 http://deb.debian.org/debian unstable/main armhf python3-pluggy all 1.5.0-1 [26.9 kB] Get: 227 http://deb.debian.org/debian unstable/main armhf python3-six all 1.17.0-1 [16.5 kB] Get: 228 http://deb.debian.org/debian unstable/main armhf python3-yaml armhf 6.0.2-1+b2 [126 kB] Get: 229 http://deb.debian.org/debian unstable/main armhf python3-pybtex all 0.24.0-4 [74.6 kB] Get: 230 http://deb.debian.org/debian unstable/main armhf python3-pydantic-settings all 2.8.1-1 [44.9 kB] Get: 231 http://deb.debian.org/debian unstable/main armhf python3-spglib armhf 2.5.0-2+b2 [51.3 kB] Get: 232 http://deb.debian.org/debian unstable/main armhf python3-tabulate all 0.9.0-1 [45.9 kB] Get: 233 http://deb.debian.org/debian unstable/main armhf python3-uncertainties all 3.2.2-1 [54.7 kB] Get: 234 http://deb.debian.org/debian unstable/main armhf python3-pymatgen armhf 2025.2.18+dfsg1-4 [2580 kB] Get: 235 http://deb.debian.org/debian unstable/main armhf python3-pytest all 8.3.4-1 [250 kB] Get: 236 http://deb.debian.org/debian unstable/main armhf python3-setuptools-scm all 8.2.0-1 [41.0 kB] Fetched 178 MB in 5s (33.9 MB/s) Preconfiguring packages ... Selecting previously unselected package fonts-lato. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19508 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package libpython3.13-minimal:armhf. Preparing to unpack .../libpython3.13-minimal_3.13.2-1_armhf.deb ... Unpacking libpython3.13-minimal:armhf (3.13.2-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.4-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.4-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.2-1_armhf.deb ... Unpacking python3.13-minimal (3.13.2-1) ... Setting up libpython3.13-minimal:armhf (3.13.2-1) ... Setting up libexpat1:armhf (2.6.4-1) ... Setting up python3.13-minimal (3.13.2-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19868 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.2-2_armhf.deb ... Unpacking python3-minimal (3.13.2-2) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_12.0.0_all.deb ... Unpacking media-types (12.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... 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Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:armhf. Preparing to unpack .../7-libpython3.13-stdlib_3.13.2-1_armhf.deb ... Unpacking libpython3.13-stdlib:armhf (3.13.2-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.2-1_armhf.deb ... Unpacking python3.13 (3.13.2-1) ... 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Setting up python3-openmm (8.1.2+dfsg-4+b1) ... /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:416: SyntaxWarning: invalid escape sequence '\S' """ Tokenizer method for the mmCIF syntax file - /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:444: SyntaxWarning: invalid escape sequence '\S' "(?:_(.+?)[.](\S+))" "|" # _category.attribute /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:446: SyntaxWarning: invalid escape sequence '\s' "(?:['\"](.*?)(?:['\"]\s|['\"]$))" "|" # quoted strings /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:448: SyntaxWarning: invalid escape sequence '\s' "(?:\s*#.*$)" "|" # comments (dumped) /usr/lib/python3/dist-packages/openmm/app/internal/pdbx/reader/PdbxParser.py:450: SyntaxWarning: invalid escape sequence '\S' "(\S+)" # unquoted words Setting up python3-looseversion (1.3.0-3) ... Setting up python3-lxml:armhf (5.3.1-1+b1) ... 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Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/python-emmet-core-0.84.2/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../python-emmet-core_0.84.2-2_source.changes dpkg-buildpackage: info: source package python-emmet-core dpkg-buildpackage: info: source version 0.84.2-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Drew Parsons dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf dpkg-source: info: using options from python-emmet-core-0.84.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core * Building wheel... WARNING setuptools_scm.pyproject_reading toml section missing 'pyproject.toml does not contain a tool.setuptools_scm section' Traceback (most recent call last): File "/usr/lib/python3/dist-packages/setuptools_scm/_integration/pyproject_reading.py", line 36, in read_pyproject section = defn.get("tool", {})[tool_name] ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^ KeyError: 'setuptools_scm' running bdist_wheel running build running build_py creating build/lib/emmet/core copying emmet/core/electrode.py -> build/lib/emmet/core copying emmet/core/bonds.py -> build/lib/emmet/core copying emmet/core/polar.py -> build/lib/emmet/core copying emmet/core/substrates.py -> build/lib/emmet/core copying emmet/core/corrected_entries.py -> build/lib/emmet/core copying emmet/core/material.py -> build/lib/emmet/core copying emmet/core/ml.py -> build/lib/emmet/core copying emmet/core/xrd.py -> build/lib/emmet/core copying emmet/core/_general_store.py -> build/lib/emmet/core copying emmet/core/spectrum.py -> build/lib/emmet/core copying emmet/core/formula_autocomplete.py -> build/lib/emmet/core copying emmet/core/common.py -> build/lib/emmet/core copying emmet/core/surface_properties.py -> build/lib/emmet/core copying emmet/core/structure.py -> build/lib/emmet/core copying emmet/core/structure_group.py -> build/lib/emmet/core copying emmet/core/stubs.py -> build/lib/emmet/core copying emmet/core/task.py -> build/lib/emmet/core copying emmet/core/_messages.py -> build/lib/emmet/core copying emmet/core/_user_settings.py -> build/lib/emmet/core copying emmet/core/tasks.py -> build/lib/emmet/core copying emmet/core/xas.py -> build/lib/emmet/core copying emmet/core/optimade.py -> build/lib/emmet/core copying emmet/core/chemenv.py -> build/lib/emmet/core copying emmet/core/molecules_jcesr.py -> build/lib/emmet/core copying emmet/core/electronic_structure.py -> build/lib/emmet/core copying emmet/core/magnetism.py -> build/lib/emmet/core copying emmet/core/base.py -> build/lib/emmet/core copying emmet/core/eos.py -> build/lib/emmet/core copying emmet/core/grain_boundary.py -> build/lib/emmet/core copying emmet/core/dois.py -> build/lib/emmet/core copying emmet/core/alloys.py -> build/lib/emmet/core copying emmet/core/material_property.py -> build/lib/emmet/core copying emmet/core/fermi.py -> build/lib/emmet/core copying emmet/core/provenance.py -> build/lib/emmet/core copying emmet/core/symmetry.py -> build/lib/emmet/core copying emmet/core/robocrys.py -> build/lib/emmet/core copying emmet/core/phonon.py -> build/lib/emmet/core copying emmet/core/math.py -> build/lib/emmet/core copying emmet/core/summary.py -> build/lib/emmet/core copying emmet/core/mpcomplete.py -> build/lib/emmet/core copying emmet/core/defect.py -> build/lib/emmet/core copying emmet/core/elasticity_legacy.py -> build/lib/emmet/core copying emmet/core/elasticity.py -> build/lib/emmet/core copying emmet/core/__init__.py -> build/lib/emmet/core copying emmet/core/charge_density.py -> build/lib/emmet/core copying emmet/core/mpid.py -> build/lib/emmet/core copying emmet/core/absorption.py -> build/lib/emmet/core copying emmet/core/find_structure.py -> build/lib/emmet/core copying emmet/core/similarity.py -> build/lib/emmet/core copying emmet/core/settings.py -> build/lib/emmet/core copying emmet/core/oxidation_states.py -> build/lib/emmet/core copying emmet/core/utils.py -> build/lib/emmet/core copying emmet/core/thermo.py -> build/lib/emmet/core copying emmet/core/qc_tasks.py -> build/lib/emmet/core creating build/lib/emmet/core/openmm copying emmet/core/openmm/calculations.py -> build/lib/emmet/core/openmm copying emmet/core/openmm/tasks.py -> build/lib/emmet/core/openmm copying emmet/core/openmm/__init__.py -> build/lib/emmet/core/openmm creating build/lib/emmet/core/qchem copying emmet/core/qchem/task.py -> build/lib/emmet/core/qchem copying emmet/core/qchem/molecule.py -> build/lib/emmet/core/qchem copying emmet/core/qchem/calculation.py -> build/lib/emmet/core/qchem copying emmet/core/qchem/__init__.py -> build/lib/emmet/core/qchem creating build/lib/emmet/core/feff copying emmet/core/feff/task.py -> build/lib/emmet/core/feff copying emmet/core/feff/__init__.py -> build/lib/emmet/core/feff creating build/lib/emmet/core/synthesis copying emmet/core/synthesis/operations.py -> build/lib/emmet/core/synthesis copying emmet/core/synthesis/materials.py -> build/lib/emmet/core/synthesis copying emmet/core/synthesis/core.py -> build/lib/emmet/core/synthesis copying emmet/core/synthesis/__init__.py -> build/lib/emmet/core/synthesis copying emmet/core/synthesis/reaction.py -> build/lib/emmet/core/synthesis creating build/lib/emmet/core/molecules copying emmet/core/molecules/molecule_property.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/bonds.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/redox.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/atomic.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/summary.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/orbitals.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/__init__.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/metal_binding.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/vibration.py -> build/lib/emmet/core/molecules copying emmet/core/molecules/thermo.py -> build/lib/emmet/core/molecules creating build/lib/emmet/core/openff copying emmet/core/openff/tasks.py -> build/lib/emmet/core/openff copying emmet/core/openff/__init__.py -> build/lib/emmet/core/openff copying emmet/core/openff/benchmarking.py -> build/lib/emmet/core/openff copying emmet/core/openff/solvation.py -> build/lib/emmet/core/openff creating build/lib/emmet/core/vasp copying emmet/core/vasp/material.py -> build/lib/emmet/core/vasp copying emmet/core/vasp/task_valid.py -> build/lib/emmet/core/vasp copying emmet/core/vasp/calculation.py -> build/lib/emmet/core/vasp copying emmet/core/vasp/__init__.py -> build/lib/emmet/core/vasp copying emmet/core/vasp/validation.py -> build/lib/emmet/core/vasp creating build/lib/emmet/core/mobility copying emmet/core/mobility/migrationgraph.py -> build/lib/emmet/core/mobility creating build/lib/emmet/core/qchem/calc_types copying emmet/core/qchem/calc_types/enums.py -> build/lib/emmet/core/qchem/calc_types copying emmet/core/qchem/calc_types/calc_types.py -> build/lib/emmet/core/qchem/calc_types copying emmet/core/qchem/calc_types/em_utils.py -> build/lib/emmet/core/qchem/calc_types copying emmet/core/qchem/calc_types/__init__.py -> build/lib/emmet/core/qchem/calc_types copying emmet/core/qchem/calc_types/utils.py -> build/lib/emmet/core/qchem/calc_types creating build/lib/emmet/core/vasp/calc_types copying emmet/core/vasp/calc_types/enums.py -> build/lib/emmet/core/vasp/calc_types copying emmet/core/vasp/calc_types/__init__.py -> build/lib/emmet/core/vasp/calc_types copying emmet/core/vasp/calc_types/utils.py -> build/lib/emmet/core/vasp/calc_types running egg_info writing emmet_core.egg-info/PKG-INFO writing dependency_links to emmet_core.egg-info/dependency_links.txt writing requirements to emmet_core.egg-info/requires.txt writing top-level names to emmet_core.egg-info/top_level.txt reading manifest file 'emmet_core.egg-info/SOURCES.txt' writing manifest file 'emmet_core.egg-info/SOURCES.txt' copying emmet/core/qchem/calc_types/calc_types.yaml -> build/lib/emmet/core/qchem/calc_types copying emmet/core/vasp/calc_types/calc_types.yaml -> build/lib/emmet/core/vasp/calc_types installing to build/bdist.linux-armv7l/wheel running install running install_lib creating build/bdist.linux-armv7l/wheel creating build/bdist.linux-armv7l/wheel/emmet creating build/bdist.linux-armv7l/wheel/emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/openmm copying build/lib/emmet/core/openmm/calculations.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openmm copying build/lib/emmet/core/openmm/tasks.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openmm copying build/lib/emmet/core/openmm/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openmm copying build/lib/emmet/core/electrode.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/qchem copying build/lib/emmet/core/qchem/task.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem creating build/bdist.linux-armv7l/wheel/emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/calc_types/enums.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/calc_types/calc_types.yaml -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/calc_types/calc_types.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/calc_types/em_utils.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/calc_types/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/calc_types/utils.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem/calc_types copying build/lib/emmet/core/qchem/molecule.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem copying build/lib/emmet/core/qchem/calculation.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem copying build/lib/emmet/core/qchem/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/qchem copying build/lib/emmet/core/bonds.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/polar.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/feff copying build/lib/emmet/core/feff/task.py -> build/bdist.linux-armv7l/wheel/./emmet/core/feff copying build/lib/emmet/core/feff/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/feff copying build/lib/emmet/core/substrates.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/corrected_entries.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/material.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/ml.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/xrd.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/_general_store.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/spectrum.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/formula_autocomplete.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/synthesis copying build/lib/emmet/core/synthesis/operations.py -> build/bdist.linux-armv7l/wheel/./emmet/core/synthesis copying build/lib/emmet/core/synthesis/materials.py -> build/bdist.linux-armv7l/wheel/./emmet/core/synthesis copying build/lib/emmet/core/synthesis/core.py -> build/bdist.linux-armv7l/wheel/./emmet/core/synthesis copying build/lib/emmet/core/synthesis/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/synthesis copying build/lib/emmet/core/synthesis/reaction.py -> build/bdist.linux-armv7l/wheel/./emmet/core/synthesis copying build/lib/emmet/core/common.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/surface_properties.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/structure.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/structure_group.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/stubs.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/task.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/_messages.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/_user_settings.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/tasks.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/xas.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/optimade.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/chemenv.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/molecules_jcesr.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/electronic_structure.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/magnetism.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/base.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/eos.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/grain_boundary.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/molecules copying build/lib/emmet/core/molecules/molecule_property.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/bonds.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/redox.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/atomic.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/summary.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/orbitals.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/metal_binding.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/vibration.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/molecules/thermo.py -> build/bdist.linux-armv7l/wheel/./emmet/core/molecules copying build/lib/emmet/core/dois.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/alloys.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/material_property.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/fermi.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/provenance.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/symmetry.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/robocrys.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/phonon.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/math.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/summary.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/mpcomplete.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/openff copying build/lib/emmet/core/openff/tasks.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openff copying build/lib/emmet/core/openff/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openff copying build/lib/emmet/core/openff/benchmarking.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openff copying build/lib/emmet/core/openff/solvation.py -> build/bdist.linux-armv7l/wheel/./emmet/core/openff copying build/lib/emmet/core/defect.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/elasticity_legacy.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/elasticity.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/vasp copying build/lib/emmet/core/vasp/material.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp copying build/lib/emmet/core/vasp/task_valid.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp creating build/bdist.linux-armv7l/wheel/emmet/core/vasp/calc_types copying build/lib/emmet/core/vasp/calc_types/enums.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp/calc_types copying build/lib/emmet/core/vasp/calc_types/calc_types.yaml -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp/calc_types copying build/lib/emmet/core/vasp/calc_types/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp/calc_types copying build/lib/emmet/core/vasp/calc_types/utils.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp/calc_types copying build/lib/emmet/core/vasp/calculation.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp copying build/lib/emmet/core/vasp/__init__.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp copying build/lib/emmet/core/vasp/validation.py -> build/bdist.linux-armv7l/wheel/./emmet/core/vasp copying build/lib/emmet/core/charge_density.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/mpid.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/absorption.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/find_structure.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/similarity.py -> build/bdist.linux-armv7l/wheel/./emmet/core creating build/bdist.linux-armv7l/wheel/emmet/core/mobility copying build/lib/emmet/core/mobility/migrationgraph.py -> build/bdist.linux-armv7l/wheel/./emmet/core/mobility copying build/lib/emmet/core/settings.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/oxidation_states.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/utils.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/thermo.py -> build/bdist.linux-armv7l/wheel/./emmet/core copying build/lib/emmet/core/qc_tasks.py -> build/bdist.linux-armv7l/wheel/./emmet/core running install_egg_info Copying emmet_core.egg-info to build/bdist.linux-armv7l/wheel/./emmet_core-0.84.2.egg-info running install_scripts creating build/bdist.linux-armv7l/wheel/emmet_core-0.84.2.dist-info/WHEEL creating '/build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/.tmp-eymm4tzr/emmet_core-0.84.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it adding 'emmet/core/__init__.py' adding 'emmet/core/_general_store.py' adding 'emmet/core/_messages.py' adding 'emmet/core/_user_settings.py' adding 'emmet/core/absorption.py' adding 'emmet/core/alloys.py' adding 'emmet/core/base.py' adding 'emmet/core/bonds.py' adding 'emmet/core/charge_density.py' adding 'emmet/core/chemenv.py' adding 'emmet/core/common.py' adding 'emmet/core/corrected_entries.py' adding 'emmet/core/defect.py' adding 'emmet/core/dois.py' adding 'emmet/core/elasticity.py' adding 'emmet/core/elasticity_legacy.py' adding 'emmet/core/electrode.py' adding 'emmet/core/electronic_structure.py' adding 'emmet/core/eos.py' adding 'emmet/core/fermi.py' adding 'emmet/core/find_structure.py' adding 'emmet/core/formula_autocomplete.py' adding 'emmet/core/grain_boundary.py' adding 'emmet/core/magnetism.py' adding 'emmet/core/material.py' adding 'emmet/core/material_property.py' adding 'emmet/core/math.py' adding 'emmet/core/ml.py' adding 'emmet/core/molecules_jcesr.py' adding 'emmet/core/mpcomplete.py' adding 'emmet/core/mpid.py' adding 'emmet/core/optimade.py' adding 'emmet/core/oxidation_states.py' adding 'emmet/core/phonon.py' adding 'emmet/core/polar.py' adding 'emmet/core/provenance.py' adding 'emmet/core/qc_tasks.py' adding 'emmet/core/robocrys.py' adding 'emmet/core/settings.py' adding 'emmet/core/similarity.py' adding 'emmet/core/spectrum.py' adding 'emmet/core/structure.py' adding 'emmet/core/structure_group.py' adding 'emmet/core/stubs.py' adding 'emmet/core/substrates.py' adding 'emmet/core/summary.py' adding 'emmet/core/surface_properties.py' adding 'emmet/core/symmetry.py' adding 'emmet/core/task.py' adding 'emmet/core/tasks.py' adding 'emmet/core/thermo.py' adding 'emmet/core/utils.py' adding 'emmet/core/xas.py' adding 'emmet/core/xrd.py' adding 'emmet/core/feff/__init__.py' adding 'emmet/core/feff/task.py' adding 'emmet/core/mobility/migrationgraph.py' adding 'emmet/core/molecules/__init__.py' adding 'emmet/core/molecules/atomic.py' adding 'emmet/core/molecules/bonds.py' adding 'emmet/core/molecules/metal_binding.py' adding 'emmet/core/molecules/molecule_property.py' adding 'emmet/core/molecules/orbitals.py' adding 'emmet/core/molecules/redox.py' adding 'emmet/core/molecules/summary.py' adding 'emmet/core/molecules/thermo.py' adding 'emmet/core/molecules/vibration.py' adding 'emmet/core/openff/__init__.py' adding 'emmet/core/openff/benchmarking.py' adding 'emmet/core/openff/solvation.py' adding 'emmet/core/openff/tasks.py' adding 'emmet/core/openmm/__init__.py' adding 'emmet/core/openmm/calculations.py' adding 'emmet/core/openmm/tasks.py' adding 'emmet/core/qchem/__init__.py' adding 'emmet/core/qchem/calculation.py' adding 'emmet/core/qchem/molecule.py' adding 'emmet/core/qchem/task.py' adding 'emmet/core/qchem/calc_types/__init__.py' adding 'emmet/core/qchem/calc_types/calc_types.py' adding 'emmet/core/qchem/calc_types/calc_types.yaml' adding 'emmet/core/qchem/calc_types/em_utils.py' adding 'emmet/core/qchem/calc_types/enums.py' adding 'emmet/core/qchem/calc_types/utils.py' adding 'emmet/core/synthesis/__init__.py' adding 'emmet/core/synthesis/core.py' adding 'emmet/core/synthesis/materials.py' adding 'emmet/core/synthesis/operations.py' adding 'emmet/core/synthesis/reaction.py' adding 'emmet/core/vasp/__init__.py' adding 'emmet/core/vasp/calculation.py' adding 'emmet/core/vasp/material.py' adding 'emmet/core/vasp/task_valid.py' adding 'emmet/core/vasp/validation.py' adding 'emmet/core/vasp/calc_types/__init__.py' adding 'emmet/core/vasp/calc_types/calc_types.yaml' adding 'emmet/core/vasp/calc_types/enums.py' adding 'emmet/core/vasp/calc_types/utils.py' adding 'emmet_core-0.84.2.dist-info/METADATA' adding 'emmet_core-0.84.2.dist-info/WHEEL' adding 'emmet_core-0.84.2.dist-info/top_level.txt' adding 'emmet_core-0.84.2.dist-info/RECORD' removing build/bdist.linux-armv7l/wheel Successfully built emmet_core-0.84.2-py3-none-any.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/python-emmet-core-0.84.2' set -e; \ for py in 3.13; do \ SKIP_TESTS=""; \ list_initialised=0; \ for t in test_from_url test_seriallization test_task_doc; do \ if [ ${list_initialised} = 0 ]; then \ SKIP_TESTS=$t; \ list_initialised=1; \ else \ SKIP_TESTS="${SKIP_TESTS} or $t"; \ fi; \ done; \ if [ "x${SKIP_TESTS}" != "x" ]; then \ SKIP_TESTS="not ( ${SKIP_TESTS} )"; \ fi; \ echo "skipping tests: ${SKIP_TESTS}"; \ pybuilddir=`pybuild --pyver $py --print build_dir | awk '{print $3}'`; \ testdir=/build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python$py; \ mkdir $testdir; cp -a tests $testdir; \ (cd $testdir; \ PMG_TEST_FILES_DIR=/build/reproducible-path/python-emmet-core-0.84.2/debian/test_files PYTHONPATH=$pybuilddir \ python$py -m pytest -v -k "${SKIP_TESTS}" $testdir); \ done skipping tests: not ( test_from_url or test_seriallization or test_task_doc ) ============================= test session starts ============================== platform linux -- Python 3.13.2, pytest-8.3.4, pluggy-1.5.0 -- /usr/bin/python3.13 cachedir: .pytest_cache rootdir: /build/reproducible-path/python-emmet-core-0.84.2 plugins: typeguard-4.4.2 collecting ... collected 195 items / 9 deselected / 4 skipped / 186 selected tests/molecules/test_atomic.py::test_partial_charges PASSED [ 0%] tests/molecules/test_atomic.py::test_partial_spins PASSED [ 1%] tests/molecules/test_bonds.py::test_bonding PASSED [ 1%] tests/molecules/test_metal_binding.py::test_metal_binding PASSED [ 2%] tests/molecules/test_mol_thermo.py::test_thermo PASSED [ 2%] tests/molecules/test_orbitals.py::test_orbital PASSED [ 3%] tests/molecules/test_redox.py::test_redox PASSED [ 3%] tests/molecules/test_summary.py::test_summary_doc PASSED [ 4%] tests/molecules/test_vibration.py::test_vibration PASSED [ 4%] tests/openmm_md/test_tasks.py::test_calc_output_from_directory PASSED [ 5%] tests/qchem/test_calc_types.py::test_enums PASSED [ 5%] tests/qchem/test_molecules.py::test_make_mol SKIPPED (Pymatgen OBAli...) [ 6%] tests/qchem/test_molecules.py::test_make_deprecated_mol SKIPPED (Pym...) 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[ 54%] tests/test_settings.py::test_default_config_path PASSED [ 54%] tests/test_settings.py::test_allow_extra_fields PASSED [ 55%] tests/test_structure_group.py::test_StructureGroupDoc_from_grouped_entries PASSED [ 55%] tests/test_structure_group.py::test_StructureGroupDoc_from_ungrouped_entries SKIPPED [ 56%] tests/test_structure_group.py::test_lexi_id PASSED [ 56%] tests/test_structure_metadata.py::test_symmetry PASSED [ 57%] tests/test_structure_metadata.py::test_structure_metadata PASSED [ 58%] tests/test_structure_metadata.py::test_structure_metadata_fewer_fields PASSED [ 58%] tests/test_structure_metadata.py::test_composition PASSED [ 59%] tests/test_structure_metadata.py::test_schema PASSED [ 59%] tests/test_task.py::test_analysis_summary[SiOptimizeDouble] PASSED [ 60%] tests/test_task.py::test_analysis_summary[SiStatic] PASSED [ 60%] tests/test_task.py::test_analysis_summary[SiNonSCFUniform] PASSED [ 61%] tests/test_task.py::test_input_summary[SiOptimizeDouble] PASSED [ 61%] 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tests/vasp/test_vasp.py::test_validator_failed_symmetry PASSED [ 97%] tests/vasp/test_vasp.py::test_computed_entry PASSED [ 98%] tests/vasp/test_vasp.py::test_ldau PASSED [ 98%] tests/vasp/test_vasp.py::test_ldau_validation PASSED [ 99%] tests/vasp/test_vasp.py::test_potcar_stats_check PASSED [100%] =============================== warnings summary =============================== ../cpython3_3.13_emmet-core/build/emmet/core/vasp/calculation.py:304 /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/calculation.py:304: PydanticDeprecatedSince20: `pydantic.config.Extra` is deprecated, use literal values instead (e.g. `extra='allow'`). Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ class ElectronicStep(BaseModel, extra=Extra.allow): # type: ignore ../cpython3_3.13_emmet-core/build/emmet/core/vasp/calculation.py:328 /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/calculation.py:328: PydanticDeprecatedSince20: `pydantic.config.Extra` is deprecated, use literal values instead (e.g. `extra='allow'`). Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ class IonicStep(BaseModel, extra=Extra.allow): # type: ignore :488 :488: DeprecationWarning: builtin type SwigPyPacked has no __module__ attribute :488 :488: DeprecationWarning: builtin type SwigPyObject has no __module__ attribute :488 :488: DeprecationWarning: builtin type swigvarlink has no __module__ attribute ../../../../../usr/lib/python3/dist-packages/pybtex/plugin/__init__.py:26 /usr/lib/python3/dist-packages/pybtex/plugin/__init__.py:26: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html import pkg_resources .pybuild/test_python3.13/tests/molecules/test_atomic.py::test_partial_charges /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/molecules/test_atomic.py:15: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "liec_tasks.json.gz") as f: .pybuild/test_python3.13/tests/molecules/test_atomic.py: 12 warnings .pybuild/test_python3.13/tests/molecules/test_bonds.py: 6 warnings .pybuild/test_python3.13/tests/molecules/test_metal_binding.py: 1 warning .pybuild/test_python3.13/tests/molecules/test_mol_thermo.py: 4 warnings .pybuild/test_python3.13/tests/molecules/test_orbitals.py: 4 warnings .pybuild/test_python3.13/tests/molecules/test_redox.py: 3 warnings .pybuild/test_python3.13/tests/molecules/test_summary.py: 1 warning .pybuild/test_python3.13/tests/molecules/test_vibration.py: 2 warnings .pybuild/test_python3.13/tests/test_absorption.py: 1 warning .pybuild/test_python3.13/tests/test_chemenv.py: 14 warnings .pybuild/test_python3.13/tests/test_elasticity.py: 1 warning .pybuild/test_python3.13/tests/test_magnetism.py: 10 warnings .pybuild/test_python3.13/tests/test_oxidation_states.py: 14 warnings .pybuild/test_python3.13/tests/test_polar.py: 2 warnings .pybuild/test_python3.13/tests/test_provenance.py: 2 warnings .pybuild/test_python3.13/tests/test_thermo.py: 5 warnings .pybuild/test_python3.13/tests/test_xrd.py: 48 warnings .pybuild/test_python3.13/tests/vasp/test_vasp.py: 12 warnings /usr/lib/python3/dist-packages/pydantic/main.py:214: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). validated_self = self.__pydantic_validator__.validate_python(data, self_instance=self) .pybuild/test_python3.13/tests/molecules/test_bonds.py::test_bonding /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/molecules/test_bonds.py:15: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "liec_tasks.json.gz") as f: .pybuild/test_python3.13/tests/molecules/test_bonds.py::test_bonding /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/utils.py:255: FutureWarning: with_local_env_strategy is deprecated, and will be removed on 2025-03-20 Use from_local_env_strategy in pymatgen.analysis.graphs instead. Deprecated on 2024-03-29. mol_graph = MoleculeGraph.with_local_env_strategy(mol, OpenBabelNN()) .pybuild/test_python3.13/tests/molecules/test_bonds.py::test_bonding /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/molecules/bonds.py:278: FutureWarning: with_empty_graph is deprecated, and will be removed on 2025-03-20 Use from_empty_graph in pymatgen.analysis.graphs instead. Deprecated on 2024-03-29. mg = MoleculeGraph.with_empty_graph(mol) .pybuild/test_python3.13/tests/molecules/test_mol_thermo.py::test_thermo /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/molecules/test_mol_thermo.py:15: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "liec_tasks.json.gz") as f: .pybuild/test_python3.13/tests/molecules/test_vibration.py::test_vibration /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/molecules/test_vibration.py:14: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "liec_tasks.json.gz") as f: .pybuild/test_python3.13/tests/qchem/test_molecules.py::test_schema /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/qchem/test_molecules.py:84: PydanticDeprecatedSince20: The `schema` method is deprecated; use `model_json_schema` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ MoleculeDoc.schema() .pybuild/test_python3.13/tests/test_calculation.py: 8 warnings .pybuild/test_python3.13/tests/test_task.py: 6 warnings /usr/lib/python3/dist-packages/pymatgen/io/vasp/outputs.py:1260: UserWarning: No POTCAR file with matching TITEL fields was found in if potcar := self.get_potcars(path): .pybuild/test_python3.13/tests/test_calculation.py: 8 warnings .pybuild/test_python3.13/tests/test_task.py: 6 warnings /usr/lib/python3/dist-packages/pymatgen/io/vasp/outputs.py:1278: UserWarning: No POTCAR file with matching TITEL fields was found in potcar = self.get_potcars(path) .pybuild/test_python3.13/tests/test_elasticity.py: 84834 warnings /usr/lib/python3/dist-packages/pymatgen/core/tensors.py:287: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return sum(np.transpose(self, ind) for ind in perms) / len(perms) .pybuild/test_python3.13/tests/test_elasticity.py: 226232 warnings .pybuild/test_python3.13/tests/test_polar.py: 176 warnings /usr/lib/python3/dist-packages/numpy/_core/numeric.py:2447: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) result = (less_equal(abs(x-y), atol + rtol * abs(y)) .pybuild/test_python3.13/tests/test_elasticity.py: 28279 warnings .pybuild/test_python3.13/tests/test_polar.py: 22 warnings /usr/lib/python3/dist-packages/numpy/_core/numeric.py:2448: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) & isfinite(y) .pybuild/test_python3.13/tests/test_elasticity.py: 28279 warnings .pybuild/test_python3.13/tests/test_polar.py: 22 warnings /usr/lib/python3/dist-packages/numpy/_core/numeric.py:2449: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) | (x == y)) .pybuild/test_python3.13/tests/test_elasticity.py: 28279 warnings .pybuild/test_python3.13/tests/test_polar.py: 22 warnings /usr/lib/python3/dist-packages/numpy/_core/_methods.py:73: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return umr_all(a, axis, dtype, out, keepdims) .pybuild/test_python3.13/tests/test_elasticity.py: 24 warnings /usr/lib/python3/dist-packages/pymatgen/analysis/elasticity/strain.py:196: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return cls(0.5 * (np.dot(dfm.trans, dfm) - np.eye(3))) .pybuild/test_python3.13/tests/test_elasticity.py: 48 warnings /usr/lib/python3/dist-packages/pymatgen/analysis/elasticity/stress.py:101: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return def_grad.det * np.dot(np.dot(def_grad.inv, self), def_grad.inv.trans) .pybuild/test_python3.13/tests/test_elasticity.py: 72 warnings /usr/lib/python3/dist-packages/pymatgen/analysis/elasticity/strain.py:253: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) ft_dot_f = 2 * strain + np.eye(3) .pybuild/test_python3.13/tests/test_elasticity.py: 96 warnings .pybuild/test_python3.13/tests/test_polar.py: 6 warnings /usr/lib/python3/dist-packages/pymatgen/core/tensors.py:110: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) new_tensor[abs(new_tensor) < tol] = 0 .pybuild/test_python3.13/tests/test_elasticity.py: 5940 warnings .pybuild/test_python3.13/tests/test_polar.py: 16 warnings /usr/lib/python3/dist-packages/pymatgen/core/tensors.py:364: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) if (self - self.transpose(transpose_seq) > tol).any(): .pybuild/test_python3.13/tests/test_elasticity.py: 2970 warnings .pybuild/test_python3.13/tests/test_polar.py: 8 warnings /usr/lib/python3/dist-packages/numpy/_core/_methods.py:64: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return umr_any(a, axis, dtype, out, keepdims) .pybuild/test_python3.13/tests/test_elasticity.py: 2 warnings .pybuild/test_python3.13/tests/test_polar.py: 10 warnings /usr/lib/python3/dist-packages/pymatgen/core/tensors.py:1021: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return vec if norm < 1e-8 else vec / norm .pybuild/test_python3.13/tests/test_elasticity.py: 2 warnings .pybuild/test_python3.13/tests/test_polar.py: 10 warnings /usr/lib/python3/dist-packages/pymatgen/core/tensors.py:992: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) new_y = y - np.dot(new_x, y) * new_x .pybuild/test_python3.13/tests/test_elasticity.py: 49 warnings .pybuild/test_python3.13/tests/test_polar.py: 113 warnings /usr/lib/python3/dist-packages/pymatgen/core/tensors.py:327: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return sum(self.transform(symm_op) for symm_op in symm_ops) / len(symm_ops) .pybuild/test_python3.13/tests/test_elasticity.py::test_from_deformations_and_stresses .pybuild/test_python3.13/tests/test_elasticity.py::test_from_deformations_and_stresses /usr/lib/python3/dist-packages/numpy/_core/fromnumeric.py:48: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) return conv.wrap(result, to_scalar=False) .pybuild/test_python3.13/tests/test_elasticity.py::test_from_deformations_and_stresses /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/elasticity.py:324: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) raw=(compliance * 1000).voigt.tolist(), .pybuild/test_python3.13/tests/test_elasticity.py::test_from_deformations_and_stresses /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/elasticity.py:325: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) ieee_format=(compliance_ieee * 1000).round(0).voigt.tolist(), .pybuild/test_python3.13/tests/test_electrodes.py::test_InsertionDocs /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/electrode.py:304: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). d["last_updated"] = datetime.utcnow() .pybuild/test_python3.13/tests/test_electrodes.py: 12 warnings /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/electrode.py:540: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). "last_updated": datetime.utcnow(), .pybuild/test_python3.13/tests/test_polar.py::test_dielectric /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/polar.py:57: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) total = ionic_tensor + electronic_tensor .pybuild/test_python3.13/tests/test_polar.py::test_dielectric .pybuild/test_python3.13/tests/test_polar.py::test_dielectric .pybuild/test_python3.13/tests/test_polar.py::test_dielectric .pybuild/test_python3.13/tests/test_polar.py::test_dielectric /usr/lib/python3/dist-packages/numpy/_core/_methods.py:135: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) ret = umr_sum(arr, axis, dtype, out, keepdims, where=where) .pybuild/test_python3.13/tests/test_polar.py::test_piezoelectric /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/polar.py:109: DeprecationWarning: __array_wrap__ must accept context and return_scalar arguments (positionally) in the future. (Deprecated NumPy 2.0) total: BasePiezoTensor = ionic_tensor + electronic_tensor # type: ignore[assignment] .pybuild/test_python3.13/tests/test_provenance.py::test_from_snls .pybuild/test_python3.13/tests/test_provenance.py::test_from_snls .pybuild/test_python3.13/tests/test_provenance.py::test_from_snls /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/test_provenance.py:24: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). created_at=datetime.utcnow(), .pybuild/test_python3.13/tests/test_provenance.py::test_from_snls /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/test_provenance.py:58: PydanticDeprecatedSince20: The `dict` method is deprecated; use `model_dump` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ assert doc.dict(exclude_none=True)["property_name"] == "provenance" .pybuild/test_python3.13/tests/test_structure_metadata.py::test_schema /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/test_structure_metadata.py:63: PydanticDeprecatedSince20: The `schema` method is deprecated; use `model_json_schema` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ StructureMetadata.schema() .pybuild/test_python3.13/tests/test_thermo.py::test_from_entries .pybuild/test_python3.13/tests/test_thermo.py::test_from_entries .pybuild/test_python3.13/tests/test_thermo.py::test_from_entries .pybuild/test_python3.13/tests/test_thermo.py::test_from_entries .pybuild/test_python3.13/tests/test_thermo.py::test_from_entries /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/thermo.py:254: DeprecationWarning: datetime.datetime.utcnow() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.now(datetime.UTC). last_updated=d.get("last_updated", datetime.utcnow()), .pybuild/test_python3.13/tests/test_xrd.py::test_schema /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/test_xrd.py:45: PydanticDeprecatedSince20: The `schema` method is deprecated; use `model_json_schema` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ XRDDoc.schema() .pybuild/test_python3.13/tests/vasp/test_materials.py::test_make_mat .pybuild/test_python3.13/tests/vasp/test_materials.py::test_make_deprecated_mat /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_materials.py:13: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "test_si_tasks.json.gz") as f: .pybuild/test_python3.13/tests/vasp/test_materials.py::test_schema /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_materials.py:48: PydanticDeprecatedSince20: The `schema` method is deprecated; use `model_json_schema` instead. Deprecated in Pydantic V2.0 to be removed in V3.0. See Pydantic V2 Migration Guide at https://errors.pydantic.dev/2.10/migration/ MaterialsDoc.schema() .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_task_type /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/calc_types/utils.py:77: DeprecationWarning: NotImplemented should not be used in a boolean context num_kpt_labels = len(list(filter(None.__ne__, kpt_labels))) .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_validator /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_vasp.py:46: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "test_si_tasks.json.gz") as f: .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_validator_magmom /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_vasp.py:61: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "task_doc_mp-2766060.json.gz") as f: .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_validator_failed_symmetry /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_vasp.py:91: FutureWarning: We strongly discourage using implicit binary/text `mode`, and this would not be allowed after 2025-06-01. I.e. you should pass t/b in `mode`. with zopen(test_dir / "failed_elastic_task.json.gz", "r") as f: .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_ldau /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_vasp.py:106: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "test_task.json") as f: .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_ldau_validation /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/validation.py:182: UserWarning: Co without an oxidation state is initialized as low spin by default in Pymatgen. If this default behavior is not desired, please set the spin on the magmom on the site directly to ensure correct initialization. valid_ismear = valid_input_set.incar.get("ISMEAR", 1) .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_ldau_validation /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/validation.py:193: UserWarning: Co without an oxidation state is initialized as low spin by default in Pymatgen. If this default behavior is not desired, please set the spin on the magmom on the site directly to ensure correct initialization. valid_encut = valid_input_set.incar["ENCUT"] .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_ldau_validation /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/validation.py:278: UserWarning: Co without an oxidation state is initialized as low spin by default in Pymatgen. If this default behavior is not desired, please set the spin on the magmom on the site directly to ensure correct initialization. if valid_input_set.incar.get("LDAU", False) or len(input_hubbards) > 0: .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_ldau_validation /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/cpython3_3.13_emmet-core/build/emmet/core/vasp/validation.py:283: UserWarning: Co without an oxidation state is initialized as low spin by default in Pymatgen. If this default behavior is not desired, please set the spin on the magmom on the site directly to ensure correct initialization. valid_input_set.incar.get("LDAUU", []), .pybuild/test_python3.13/tests/vasp/test_vasp.py::test_potcar_stats_check /build/reproducible-path/python-emmet-core-0.84.2/.pybuild/test_python3.13/tests/vasp/test_vasp.py:133: FutureWarning: We strongly discourage using a default `mode`, it would be set to `r` now but would not be allowed after 2025-06-01 with zopen(test_dir / "CoF_TaskDoc.json") as f: -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html == 167 passed, 23 skipped, 9 deselected, 405741 warnings in 169.66s (0:02:49) == make[1]: Leaving directory '/build/reproducible-path/python-emmet-core-0.84.2' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install --destdir=debian/python3-emmet-core/ -O--buildsystem=pybuild I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir dh_installdocs -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild dh_missing -O--buildsystem=pybuild dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'python3-emmet-core' in '../python3-emmet-core_0.84.2-2_all.deb'. dpkg-genbuildinfo --build=binary -O../python-emmet-core_0.84.2-2_armhf.buildinfo dpkg-genchanges --build=binary -O../python-emmet-core_0.84.2-2_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-source: info: using options from python-emmet-core-0.84.2/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/10678 and its subdirectories I: Current time: Wed Mar 5 19:13:43 -12 2025 I: pbuilder-time-stamp: 1741245223