I: pbuilder: network access will be disabled during build
I: Current time: Tue Dec 24 21:35:42 +14 2024
I: pbuilder-time-stamp: 1735025742
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/trixie-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 [lammps_20240207+dfsg-2.dsc]
I: copying [./lammps_20240207+dfsg.orig.tar.xz]
I: copying [./lammps_20240207+dfsg-2.debian.tar.xz]
I: Extracting source
gpgv: Signature made Fri Dec 13 06:14:29 2024 
gpgv:                using RSA key BBBD45EA818AB86FF67E7285D3E17383CFA7FF06
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./lammps_20240207+dfsg-2.dsc: no acceptable signature found
dpkg-source: info: extracting lammps in lammps-20240207+dfsg
dpkg-source: info: unpacking lammps_20240207+dfsg.orig.tar.xz
dpkg-source: info: unpacking lammps_20240207+dfsg-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 20_set_potentials_path.patch
dpkg-source: info: applying 30_build_docs.patch
dpkg-source: info: applying do-not-install-potentials.patch
I: using fakeroot in build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/D01_modify_environment starting
debug: Running on codethink02-arm64.
I: Changing host+domainname to test build reproducibility
I: Adding a custom variable just for the fun of it...
I: Changing /bin/sh to bash
'/bin/sh' -> '/bin/bash'
lrwxrwxrwx 1 root root 9 Dec 24 07:35 /bin/sh -> /bin/bash
I: Setting pbuilder2's login shell to /bin/bash
I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/D01_modify_environment finished
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/D02_print_environment starting
I: set
  BASH=/bin/sh
  BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath
  BASH_ALIASES=()
  BASH_ARGC=()
  BASH_ARGV=()
  BASH_CMDS=()
  BASH_LINENO=([0]="12" [1]="0")
  BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:.
  BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
  BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu")
  BASH_VERSION='5.2.37(1)-release'
  BUILDDIR=/build/reproducible-path
  BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
  BUILDUSERNAME=pbuilder2
  BUILD_ARCH=arm64
  DEBIAN_FRONTEND=noninteractive
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
  DIRSTACK=()
  DISTRIBUTION=trixie
  EUID=0
  FUNCNAME=([0]="Echo" [1]="main")
  GROUPS=()
  HOME=/root
  HOSTNAME=i-capture-the-hostname
  HOSTTYPE=aarch64
  HOST_ARCH=arm64
  IFS=' 	
  '
  INVOCATION_ID=c4788d7bf46e425589ccb8308729b0a0
  LANG=C
  LANGUAGE=nl_BE:nl
  LC_ALL=C
  MACHTYPE=aarch64-unknown-linux-gnu
  MAIL=/var/mail/root
  OPTERR=1
  OPTIND=1
  OSTYPE=linux-gnu
  PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path
  PBCURRENTCOMMANDLINEOPERATION=build
  PBUILDER_OPERATION=build
  PBUILDER_PKGDATADIR=/usr/share/pbuilder
  PBUILDER_PKGLIBDIR=/usr/lib/pbuilder
  PBUILDER_SYSCONFDIR=/etc
  PIPESTATUS=([0]="0")
  POSIXLY_CORRECT=y
  PPID=2474727
  PS4='+ '
  PWD=/
  SHELL=/bin/bash
  SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
  SHLVL=3
  SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.rLdjvLHA/pbuilderrc_OVQ1 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.rLdjvLHA/b2 --logfile b2/build.log lammps_20240207+dfsg-2.dsc'
  SUDO_GID=109
  SUDO_UID=104
  SUDO_USER=jenkins
  TERM=unknown
  TZ=/usr/share/zoneinfo/Etc/GMT-14
  UID=0
  USER=root
  _='I: set'
  http_proxy=http://192.168.101.4:3128
I: uname -a
  Linux i-capture-the-hostname 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/2474727/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: arm64
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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: dpkg-dev (>= 1.22.5), cmake, debhelper-compat (= 13), dh-python, pybuild-plugin-pyproject, python3-setuptools, gfortran | fortran-compiler, libavcodec-dev, libeigen3-dev, libfftw3-dev, libhdf5-mpi-dev, libjpeg-dev, libkim-api-dev, libnetcdf-dev, libpnetcdf-dev, libsymspg-dev, libvtk9-dev, libvtk9-qt-dev, mpi-default-bin, mpi-default-dev, ocl-icd-opencl-dev | opencl-dev, python3-all-dev, python3-sphinx, voro++-dev, libjs-sphinxdoc, libjs-jquery, libjs-mathjax, libjs-underscore, texlive-latex-recommended, texlive-fonts-recommended, texlive-latex-extra, tex-gyre, doxygen, sphinx-rtd-theme-common, latexmk, htmldoc, python3-sphinx-tabs, python3-sphinxcontrib.jquery, python3-sphinxcontrib.spelling, python3-breathe, python3-venv, git
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 20082 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 cmake; however:
  Package cmake is not installed.
 pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
  Package debhelper-compat is not installed.
 pbuilder-satisfydepends-dummy depends on dh-python; however:
  Package dh-python 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 gfortran | fortran-compiler; however:
  Package gfortran is not installed.
  Package fortran-compiler is not installed.
 pbuilder-satisfydepends-dummy depends on libavcodec-dev; however:
  Package libavcodec-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libeigen3-dev; however:
  Package libeigen3-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libfftw3-dev; however:
  Package libfftw3-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libhdf5-mpi-dev; however:
  Package libhdf5-mpi-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libjpeg-dev; however:
  Package libjpeg-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libkim-api-dev; however:
  Package libkim-api-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libnetcdf-dev; however:
  Package libnetcdf-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libpnetcdf-dev; however:
  Package libpnetcdf-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libsymspg-dev; however:
  Package libsymspg-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libvtk9-dev; however:
  Package libvtk9-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libvtk9-qt-dev; however:
  Package libvtk9-qt-dev is not installed.
 pbuilder-satisfydepends-dummy depends on mpi-default-bin; however:
  Package mpi-default-bin is not installed.
 pbuilder-satisfydepends-dummy depends on mpi-default-dev; however:
  Package mpi-default-dev is not installed.
 pbuilder-satisfydepends-dummy depends on ocl-icd-opencl-dev | opencl-dev; however:
  Package ocl-icd-opencl-dev is not installed.
  Package opencl-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-all-dev; however:
  Package python3-all-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-sphinx; however:
  Package python3-sphinx is not installed.
 pbuilder-satisfydepends-dummy depends on voro++-dev; however:
  Package voro++-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libjs-sphinxdoc; however:
  Package libjs-sphinxdoc is not installed.
 pbuilder-satisfydepends-dummy depends on libjs-jquery; however:
  Package libjs-jquery is not installed.
 pbuilder-satisfydepends-dummy depends on libjs-mathjax; however:
  Package libjs-mathjax is not installed.
 pbuilder-satisfydepends-dummy depends on libjs-underscore; however:
  Package libjs-underscore is not installed.
 pbuilder-satisfydepends-dummy depends on texlive-latex-recommended; however:
  Package texlive-latex-recommended is not installed.
 pbuilder-satisfydepends-dummy depends on texlive-fonts-recommended; however:
  Package texlive-fonts-recommended is not installed.
 pbuilder-satisfydepends-dummy depends on texlive-latex-extra; however:
  Package texlive-latex-extra is not installed.
 pbuilder-satisfydepends-dummy depends on tex-gyre; however:
  Package tex-gyre is not installed.
 pbuilder-satisfydepends-dummy depends on doxygen; however:
  Package doxygen is not installed.
 pbuilder-satisfydepends-dummy depends on sphinx-rtd-theme-common; however:
  Package sphinx-rtd-theme-common is not installed.
 pbuilder-satisfydepends-dummy depends on latexmk; however:
  Package latexmk is not installed.
 pbuilder-satisfydepends-dummy depends on htmldoc; however:
  Package htmldoc is not installed.
 pbuilder-satisfydepends-dummy depends on python3-sphinx-tabs; however:
  Package python3-sphinx-tabs is not installed.
 pbuilder-satisfydepends-dummy depends on python3-sphinxcontrib.jquery; however:
  Package python3-sphinxcontrib.jquery is not installed.
 pbuilder-satisfydepends-dummy depends on python3-sphinxcontrib.spelling; however:
  Package python3-sphinxcontrib.spelling is not installed.
 pbuilder-satisfydepends-dummy depends on python3-breathe; however:
  Package python3-breathe is not installed.
 pbuilder-satisfydepends-dummy depends on python3-venv; however:
  Package python3-venv is not installed.
 pbuilder-satisfydepends-dummy depends on git; however:
  Package git 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:
  adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cfortran{a} cmake{a} cmake-data{a} comerr-dev{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} default-libmysqlclient-dev{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dictionaries-common{a} dirmngr{a} docutils-common{a} doxygen{a} dwz{a} emacsen-common{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-font-awesome{a} fonts-lato{a} fonts-lmodern{a} fonts-mathjax{a} gdal-data{a} gdal-plugins{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-aarch64-linux-gnu{a} gfortran-aarch64-linux-gnu{a} git{a} git-man{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} graphviz{a} groff-base{a} gtk-update-icon-cache{a} hdf5-helpers{a} hicolor-icon-theme{a} htmldoc{a} htmldoc-common{a} hunspell-en-us{a} ibverbs-providers{a} icu-devtools{a} intltool-debian{a} iso-codes{a} java-common{a} krb5-multidev{a} latexmk{a} libabsl20230802{a} libaec-dev{a} libaec0{a} libamd-comgr2{a} libamdhip64-5{a} libann0{a} libaom3{a} libapache-pom-java{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libarmadillo-dev{a} libarmadillo14{a} libarpack2-dev{a} libarpack2t64{a} libasound2-data{a} libasound2t64{a} libaspell15{a} libassuan9{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libavcodec-dev{a} libavcodec61{a} libavformat-dev{a} libavformat61{a} libavif16{a} libavutil-dev{a} libavutil59{a} libblas-dev{a} libblas3{a} libblosc-dev{a} libblosc1{a} libbluray2{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libcap2-bin{a} libcbor0.10{a} libcdt5{a} libcfitsio-dev{a} libcfitsio10t64{a} libcgraph6{a} libchromaprint1{a} libcjson1{a} libclang-cpp19{a} libclang1-19{a} libcloudproviders0{a} libcodec2-1.2{a} libcolord2{a} libcom-err2{a} libcommons-logging-java{a} libcommons-parent-java{a} libcups2t64{a} libcurl3t64-gnutls{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdatrie1{a} libdav1d7{a} libdbus-1-3{a} libdconf1{a} libde265-0{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdouble-conversion-dev{a} libdouble-conversion3{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-radeon1{a} libdrm2{a} libdvdnav4{a} libdvdread8t64{a} libdw1t64{a} libedit2{a} libegl-dev{a} libegl-mesa0{a} libegl1{a} libeigen3-dev{a} libelf1t64{a} libenchant-2-2{a} libepoxy0{a} liberror-perl{a} libevdev2{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfftw3-bin{a} libfftw3-dev{a} libfftw3-double3{a} libfftw3-long3{a} libfftw3-single3{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libfltk-images1.3t64{a} libfltk1.3t64{a} libfmt10{a} libfontbox-java{a} libfontconfig-dev{a} libfontconfig1{a} libfontconfig1-dev{a} libfontenc1{a} libfreetype-dev{a} libfreetype6{a} libfreexl-dev{a} libfreexl1{a} libfribidi0{a} libfyba-dev{a} libfyba0t64{a} libgav1-1{a} libgbm1{a} libgd3{a} libgdal-dev{a} libgdal35{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgeos-c1t64{a} libgeos-dev{a} libgeos3.13.0{a} libgeotiff-dev{a} libgeotiff5{a} libgfortran-14-dev{a} libgfortran5{a} libgif-dev{a} libgif7{a} libgl-dev{a} libgl1{a} libgl1-mesa-dri{a} libgl2ps-dev{a} libgl2ps1.4{a} libglapi-mesa{a} libglew-dev{a} libglew2.2{a} libglib2.0-0t64{a} libglu1-mesa{a} libglu1-mesa-dev{a} libglvnd0{a} libglx-dev{a} libglx-mesa0{a} libglx0{a} libgme0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgpgme11t64{a} libgpgmepp6t64{a} libgraphite2-3{a} libgsm1{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgstreamer-plugins-base1.0-0{a} libgstreamer1.0-0{a} libgtk-3-0t64{a} libgtk-3-common{a} libgts-0.7-5t64{a} libgudev-1.0-0{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libhdf4-0-alt{a} libhdf4-alt-dev{a} libhdf5-310{a} libhdf5-cpp-310{a} libhdf5-dev{a} libhdf5-fortran-310{a} libhdf5-hl-310{a} libhdf5-hl-cpp-310{a} libhdf5-hl-fortran-310{a} libhdf5-mpi-dev{a} libhdf5-openmpi-310{a} libhdf5-openmpi-cpp-310{a} libhdf5-openmpi-dev{a} libhdf5-openmpi-fortran-310{a} libhdf5-openmpi-hl-310{a} libhdf5-openmpi-hl-cpp-310{a} libhdf5-openmpi-hl-fortran-310{a} libheif-dev{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libhsa-runtime64-1{a} libhsakmt1{a} libhunspell-1.7-0{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libhwy1t64{a} libhyphen0{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libice-dev{a} libice6{a} libicu-dev{a} libicu72{a} libidn2-dev{a} libimagequant0{a} libimath-3-1-29t64{a} libinput-bin{a} libinput10{a} libjbig-dev{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-c-dev{a} libjson-c5{a} libjson-perl{a} libjsoncpp-dev{a} libjsoncpp26{a} libjxl0.9{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkim-api-dev{a} libkim-api2{a} libkml-dev{a} libkmlbase1t64{a} libkmlconvenience1t64{a} libkmldom1t64{a} libkmlengine1t64{a} libkmlregionator1t64{a} libkmlxsd1t64{a} libkpathsea6{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblab-gamut1{a} liblapack-dev{a} liblapack3{a} liblcms2-2{a} libldap-2.5-0{a} libldap-dev{a} liblerc-dev{a} liblerc4{a} libllvm17t64{a} libllvm19{a} libltdl-dev{a} libltdl7{a} liblz4-dev{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmariadb-dev{a} libmariadb-dev-compat{a} libmariadb3{a} libmbedcrypto16{a} libmd4c0{a} libminizip-dev{a} libminizip1t64{a} libmp3lame0{a} libmpfi0{a} libmpg123-0t64{a} libmtdev1t64{a} libmunge2{a} libnetcdf-dev{a} libnetcdf19t64{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnorm1t64{a} libnpth0t64{a} libnsl2{a} libnspr4{a} libnss3{a} libnuma-dev{a} libnuma1{a} libodbc2{a} libodbccr2{a} libodbcinst2{a} libogdi-dev{a} libogdi4.1{a} libogg-dev{a} libogg0{a} libopenexr-3-1-30{a} libopengl-dev{a} libopengl0{a} libopenjp2-7{a} libopenjp2-7-dev{a} libopenmpi-dev{a} libopenmpi40{a} libopenmpt0t64{a} libopus0{a} liborc-0.4-0t64{a} libp11-kit-dev{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpathplan4{a} libpciaccess0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcsclite1{a} libpdfbox-java{a} libpgm-5.3-0t64{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpmix-dev{a} libpmix2t64{a} libpnetcdf-dev{a} libpnetcdf6{a} libpng-dev{a} libpng16-16t64{a} libpoppler-dev{a} libpoppler-private-dev{a} libpoppler140{a} libpotrace0{a} libpq-dev{a} libpq5{a} libproc2-0{a} libproj-dev{a} libproj25{a} libpsl-dev{a} libpsl5t64{a} libptexenc1{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-dev{a} libqhull-r8.0{a} libqhull8.0{a} libqhullcpp8.0{a} libqt5concurrent5t64{a} libqt5core5t64{a} libqt5dbus5t64{a} libqt5designer5{a} libqt5designercomponents5{a} libqt5gui5t64{a} libqt5help5{a} libqt5network5t64{a} libqt5opengl5-dev{a} libqt5opengl5t64{a} libqt5positioning5{a} libqt5printsupport5t64{a} libqt5qml5{a} libqt5qmlmodels5{a} libqt5qmlworkerscript5{a} libqt5quick5{a} libqt5quickparticles5{a} libqt5quickshapes5{a} libqt5quicktest5{a} libqt5quickwidgets5{a} libqt5sensors5{a} libqt5sql5-sqlite{a} libqt5sql5t64{a} libqt5test5t64{a} libqt5webchannel5{a} libqt5webkit5{a} libqt5webkit5-dev{a} libqt5widgets5t64{a} libqt5xml5t64{a} librabbitmq4{a} libraqm0{a} librav1e0.7{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librist4{a} librsvg2-2{a} librtmp-dev{a} librtmp1{a} librttopo-dev{a} librttopo1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsharpyuv-dev{a} libsharpyuv0{a} libshine3{a} libsm-dev{a} libsm6{a} libsnappy1v5{a} libsodium23{a} libsoxr0{a} libspatialite-dev{a} libspatialite8t64{a} libspeex1{a} libsqlite3-dev{a} libsrt1.5-gnutls{a} libssh-4{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsuperlu-dev{a} libsuperlu7{a} libsvtav1enc2{a} libswresample-dev{a} libswresample5{a} libswscale-dev{a} libswscale8{a} libsymspg-dev{a} libsymspg2{a} libsynctex2{a} libsystemd-shared{a} libsz2{a} libtasn1-6-dev{a} libtbb-dev{a} libtbb12{a} libtbbbind-2-5{a} libtbbmalloc2{a} libtcl8.6{a} libteckit0{a} libtexlua53-5{a} libtext-iconv-perl{a} libthai-data{a} libthai0{a} libtheora-dev{a} libtheora0{a} libtiff-dev{a} libtiff6{a} libtiffxx6{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtwolame0{a} libuchardet0{a} libucx0{a} libudfread0{a} libunbound8{a} libunwind8{a} liburiparser-dev{a} liburiparser1{a} libutfcpp-dev{a} libuv1t64{a} libva-drm2{a} libva-x11-2{a} libva2{a} libvdpau1{a} libvorbis0a{a} libvorbisenc2{a} libvorbisfile3{a} libvoro++1{a} libvpx9{a} libvtk9-dev{a} libvtk9-java{a} libvtk9-qt-dev{a} libvtk9.3{a} libvtk9.3-qt{a} libvulkan-dev{a} libvulkan1{a} libwacom-common{a} libwacom9{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp-dev{a} libwebp7{a} libwebpdecoder3{a} libwebpdemux2{a} libwebpmux3{a} libwoff1{a} libx11-6{a} libx11-data{a} libx11-dev{a} libx11-xcb1{a} libx264-164{a} libx265-209{a} libxau-dev{a} libxau6{a} libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-icccm4{a} libxcb-image0{a} libxcb-keysyms1{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render-util0{a} libxcb-render0{a} libxcb-shape0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-util1{a} libxcb-xfixes0{a} libxcb-xinerama0{a} libxcb-xinput0{a} libxcb-xkb1{a} libxcb1{a} libxcb1-dev{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp-dev{a} libxdmcp6{a} libxerces-c-dev{a} libxerces-c3.2t64{a} libxext-dev{a} libxext6{a} libxfixes3{a} libxft-dev{a} libxft2{a} libxi6{a} libxinerama1{a} libxkbcommon-x11-0{a} libxkbcommon0{a} libxml2{a} libxml2-dev{a} libxmu6{a} libxnvctrl0{a} libxpm4{a} libxrandr2{a} libxrender-dev{a} libxrender1{a} libxshmfence1{a} libxslt1.1{a} libxss-dev{a} libxss1{a} libxt-dev{a} libxt6t64{a} libxtst6{a} libxvidcore4{a} libxxf86vm1{a} libyuv0{a} libz3-4{a} libzmq5{a} libzstd-dev{a} libzvbi-common{a} libzvbi0t64{a} libzzip-0-13t64{a} m4{a} man-db{a} mariadb-common{a} media-types{a} mesa-libgallium{a} mpi-default-bin{a} mpi-default-dev{a} mysql-common{a} netbase{a} nettle-dev{a} ocl-icd-libopencl1{a} ocl-icd-opencl-dev{a} opencl-c-headers{a} opencl-clhpp-headers{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} pinentry-curses{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} preview-latex-style{a} procps{a} proj-data{a} pybuild-plugin-pyproject{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-babel{a} python3-breathe{a} python3-build{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-dev{a} python3-docutils{a} python3-enchant{a} python3-idna{a} python3-imagesize{a} python3-importlib-metadata{a} python3-inflect{a} python3-installer{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-mpi4py{a} python3-packaging{a} python3-pip-whl{a} python3-pkg-resources{a} python3-pygments{a} python3-pyproject-hooks{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-setuptools-whl{a} python3-snowballstemmer{a} python3-sphinx{a} python3-sphinx-tabs{a} python3-sphinxcontrib.jquery{a} python3-sphinxcontrib.spelling{a} python3-toml{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-venv{a} python3-vtk9{a} python3-wheel{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} python3.12-venv{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} qdoc-qt5{a} qhelpgenerator-qt5{a} qt5-assistant{a} qt5-qmake{a} qt5-qmake-bin{a} qt5-qmltooling-plugins{a} qtattributionsscanner-qt5{a} qtbase5-dev{a} qtbase5-dev-tools{a} qtchooser{a} qtdeclarative5-dev{a} qtdeclarative5-dev-tools{a} qttools5-dev{a} qttools5-dev-tools{a} qttools5-private-dev{a} readline-common{a} sensible-utils{a} sgml-base{a} shared-mime-info{a} sphinx-common{a} sphinx-rtd-theme-common{a} systemd{a} systemd-sysv{a} t1utils{a} tcl{a} tcl-dev{a} tcl8.6{a} tcl8.6-dev{a} tex-common{a} tex-gyre{a} texlive-base{a} texlive-binaries{a} texlive-fonts-recommended{a} texlive-latex-base{a} texlive-latex-extra{a} texlive-latex-recommended{a} texlive-pictures{a} tk{a} tk-dev{a} tk8.6{a} tk8.6-dev{a} tzdata{a} ucf{a} unixodbc-common{a} unixodbc-dev{a} uuid-dev{a} voro++-dev{a} vtk9{a} x11-common{a} x11proto-dev{a} xdg-utils{a} xfonts-encodings{a} xfonts-utils{a} xkb-data{a} xml-core{a} xorg-sgml-doctools{a} xtrans-dev{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  alsa-topology-conf alsa-ucm-conf apvlv aspell-am aspell-ar aspell-ar-large aspell-bg aspell-br aspell-ca aspell-cs aspell-cy aspell-da aspell-de aspell-de-1901 aspell-el aspell-en aspell-eo aspell-eo-cx7 aspell-es aspell-et aspell-eu aspell-fa aspell-fo aspell-fr aspell-ga aspell-gl-minimos aspell-he aspell-hr aspell-hsb aspell-hu aspell-hy aspell-is aspell-it aspell-kk aspell-ku aspell-lt aspell-lv aspell-nl aspell-no aspell-pl aspell-pt-br aspell-pt-pt aspell-ro aspell-ru aspell-sk aspell-sl aspell-sv aspell-tl aspell-uk aspell-uz at-spi2-core bzip2-doc chrony curl dvisvgm enchant-2 evince fonts-dejavu-extra fonts-liberation fonts-texgyre fonts-texgyre-math geoclue-2.0 ghostscript gnupg-utils gpg-wks-client gstreamer1.0-plugins-base gv javascript-common krb5-locales less libaacs0 libarchive-cpio-perl libatk-wrapper-java-jni libcfitsio-doc libcoarrays-openmpi-dev libfile-mimeinfo-perl libgdk-pixbuf2.0-bin libglib2.0-data libgtk-3-bin libgts-bin libheif-plugin-aomenc libheif-plugin-x265 libjson-xs-perl libkmod2 libldap-common libmail-sendmail-perl libnet-dbus-perl libnss-systemd libpam-cap libpng-tools libqt5svg5 librsvg2-common libsasl2-modules libspreadsheet-parseexcel-perl libtasn1-doc libvdpau-va-gl1 libx11-protocol-perl linux-sysctl-defaults lmodern lynx mesa-va-drivers mesa-vdpau-drivers mesa-vulkan-drivers mupdf ntpsec okular openntpd poppler-data proj-bin psmisc publicsuffix python3-pil qpdfview qpdfview-ps-plugin qt5-gtk-platformtheme qttranslations5-l10n qtwayland5 ruby systemd-cryptsetup systemd-timesyncd texlive-plain-generic tipa va-driver-all vdpau-driver-all viewpdf.app wget x11-utils x11-xserver-utils xauth xdg-user-dirs xpdf zathura-pdf-poppler zathura-ps 
0 packages upgraded, 791 newly installed, 0 to remove and 0 not upgraded.
Need to get 731 MB of archives. After unpacking 3143 MB will be used.
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Get: 1 http://deb.debian.org/debian trixie/main arm64 libapparmor1 arm64 3.1.7-1+b3 [41.8 kB]
Get: 2 http://deb.debian.org/debian trixie/main arm64 libsystemd-shared arm64 257-2 [1905 kB]
Get: 3 http://deb.debian.org/debian trixie/main arm64 systemd arm64 257-2 [3370 kB]
Get: 4 http://deb.debian.org/debian trixie/main arm64 systemd-sysv arm64 257-2 [59.5 kB]
Get: 5 http://deb.debian.org/debian trixie/main arm64 libdbus-1-3 arm64 1.16.0-1 [168 kB]
Get: 6 http://deb.debian.org/debian trixie/main arm64 dbus-bin arm64 1.16.0-1 [77.7 kB]
Get: 7 http://deb.debian.org/debian trixie/main arm64 dbus-session-bus-common all 1.16.0-1 [51.1 kB]
Get: 8 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB]
Get: 9 http://deb.debian.org/debian trixie/main arm64 dbus-daemon arm64 1.16.0-1 [150 kB]
Get: 10 http://deb.debian.org/debian trixie/main arm64 dbus-system-bus-common all 1.16.0-1 [52.2 kB]
Get: 11 http://deb.debian.org/debian trixie/main arm64 dbus arm64 1.16.0-1 [69.4 kB]
Get: 12 http://deb.debian.org/debian trixie/main arm64 fonts-lato all 2.015-1 [2780 kB]
Get: 13 http://deb.debian.org/debian trixie/main arm64 libglib2.0-0t64 arm64 2.82.4-1 [1411 kB]
Get: 14 http://deb.debian.org/debian trixie/main arm64 libdrm-common all 2.4.123-1 [8084 B]
Get: 15 http://deb.debian.org/debian trixie/main arm64 libdrm2 arm64 2.4.123-1 [38.0 kB]
Get: 16 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB]
Get: 17 http://deb.debian.org/debian trixie/main arm64 libdw1t64 arm64 0.192-4 [237 kB]
Get: 18 http://deb.debian.org/debian trixie/main arm64 libunwind8 arm64 1.6.2-3.1 [47.7 kB]
Get: 19 http://deb.debian.org/debian trixie/main arm64 libcap2-bin arm64 1:2.66-5+b1 [34.3 kB]
Get: 20 http://deb.debian.org/debian trixie/main arm64 libgstreamer1.0-0 arm64 1.24.10-2 [1279 kB]
Get: 21 http://deb.debian.org/debian trixie/main arm64 liborc-0.4-0t64 arm64 1:0.4.40-1 [171 kB]
Get: 22 http://deb.debian.org/debian trixie/main arm64 iso-codes all 4.17.0-1 [3055 kB]
Get: 23 http://deb.debian.org/debian trixie/main arm64 libgstreamer-plugins-base1.0-0 arm64 1.24.10-1 [906 kB]
Get: 24 http://deb.debian.org/debian trixie/main arm64 libhyphen0 arm64 2.8.8-7+b2 [30.2 kB]
Get: 25 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB]
Get: 26 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo arm64 1:2.1.5-3+b1 [173 kB]
Get: 27 http://deb.debian.org/debian trixie/main arm64 libpng16-16t64 arm64 1.6.44-3 [273 kB]
Get: 28 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB]
Get: 29 http://deb.debian.org/debian trixie/main arm64 shared-mime-info arm64 2.4-5+b1 [755 kB]
Get: 30 http://deb.debian.org/debian trixie/main arm64 libdouble-conversion3 arm64 3.3.0-1+b2 [37.3 kB]
Get: 31 http://deb.debian.org/debian trixie/main arm64 libpcre2-16-0 arm64 10.44-5 [230 kB]
Get: 32 http://deb.debian.org/debian trixie/main arm64 libqt5core5t64 arm64 5.15.15+dfsg-2 [1733 kB]
Get: 33 http://deb.debian.org/debian trixie/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB]
Get: 34 http://deb.debian.org/debian trixie/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB]
Get: 35 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 36 http://deb.debian.org/debian trixie/main arm64 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 37 http://deb.debian.org/debian trixie/main arm64 fontconfig-config arm64 2.15.0-1.1+b1 [318 kB]
Get: 38 http://deb.debian.org/debian trixie/main arm64 libfontconfig1 arm64 2.15.0-1.1+b1 [387 kB]
Get: 39 http://deb.debian.org/debian trixie/main arm64 fontconfig arm64 2.15.0-1.1+b1 [463 kB]
Get: 40 http://deb.debian.org/debian trixie/main arm64 libglvnd0 arm64 1.7.0-1+b2 [41.6 kB]
Get: 41 http://deb.debian.org/debian trixie/main arm64 libwayland-server0 arm64 1.23.0-1+b1 [33.4 kB]
Get: 42 http://deb.debian.org/debian trixie/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB]
Get: 43 http://deb.debian.org/debian trixie/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB]
Get: 44 http://deb.debian.org/debian trixie/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB]
Get: 45 http://deb.debian.org/debian trixie/main arm64 libxcb-randr0 arm64 1.17.0-2+b1 [117 kB]
Get: 46 http://deb.debian.org/debian trixie/main arm64 libdrm-amdgpu1 arm64 2.4.123-1 [21.6 kB]
Get: 47 http://deb.debian.org/debian trixie/main arm64 libdrm-radeon1 arm64 2.4.123-1 [21.3 kB]
Get: 48 http://deb.debian.org/debian trixie/main arm64 libglapi-mesa arm64 24.2.8-1 [48.2 kB]
Get: 49 http://deb.debian.org/debian trixie/main arm64 libedit2 arm64 3.1-20240808-1 [89.2 kB]
Get: 50 http://deb.debian.org/debian trixie/main arm64 libz3-4 arm64 4.13.3-1 [7507 kB]
Get: 51 http://deb.debian.org/debian trixie/main arm64 libllvm19 arm64 1:19.1.6-1 [23.3 MB]
Get: 52 http://deb.debian.org/debian trixie/main arm64 libsensors-config all 1:3.6.0-10 [14.6 kB]
Get: 53 http://deb.debian.org/debian trixie/main arm64 libsensors5 arm64 1:3.6.0-10+b1 [34.3 kB]
Get: 54 http://deb.debian.org/debian trixie/main arm64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 55 http://deb.debian.org/debian trixie/main arm64 libx11-6 arm64 2:1.8.10-2 [789 kB]
Get: 56 http://deb.debian.org/debian trixie/main arm64 libx11-xcb1 arm64 2:1.8.10-2 [241 kB]
Get: 57 http://deb.debian.org/debian trixie/main arm64 libxcb-dri2-0 arm64 1.17.0-2+b1 [107 kB]
Get: 58 http://deb.debian.org/debian trixie/main arm64 libxcb-dri3-0 arm64 1.17.0-2+b1 [107 kB]
Get: 59 http://deb.debian.org/debian trixie/main arm64 libxcb-present0 arm64 1.17.0-2+b1 [106 kB]
Get: 60 http://deb.debian.org/debian trixie/main arm64 libxcb-sync1 arm64 1.17.0-2+b1 [109 kB]
Get: 61 http://deb.debian.org/debian trixie/main arm64 libxcb-xfixes0 arm64 1.17.0-2+b1 [110 kB]
Get: 62 http://deb.debian.org/debian trixie/main arm64 libxshmfence1 arm64 1.3-1+b2 [9076 B]
Get: 63 http://deb.debian.org/debian trixie/main arm64 mesa-libgallium arm64 24.2.8-1 [7689 kB]
Get: 64 http://deb.debian.org/debian trixie/main arm64 libgbm1 arm64 24.2.8-1 [42.0 kB]
Get: 65 http://deb.debian.org/debian trixie/main arm64 libwayland-client0 arm64 1.23.0-1+b1 [26.0 kB]
Get: 66 http://deb.debian.org/debian trixie/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB]
Get: 67 http://deb.debian.org/debian trixie/main arm64 libegl-mesa0 arm64 24.2.8-1 [124 kB]
Get: 68 http://deb.debian.org/debian trixie/main arm64 libegl1 arm64 1.7.0-1+b2 [34.0 kB]
Get: 69 http://deb.debian.org/debian trixie/main arm64 libxcb-glx0 arm64 1.17.0-2+b1 [123 kB]
Get: 70 http://deb.debian.org/debian trixie/main arm64 libxext6 arm64 2:1.3.4-1+b2 [49.3 kB]
Get: 71 http://deb.debian.org/debian trixie/main arm64 libxfixes3 arm64 1:6.0.0-2+b3 [20.4 kB]
Get: 72 http://deb.debian.org/debian trixie/main arm64 libxxf86vm1 arm64 1:1.1.4-1+b3 [19.2 kB]
Get: 73 http://deb.debian.org/debian trixie/main arm64 libvulkan1 arm64 1.3.296.0-1 [123 kB]
Get: 74 http://deb.debian.org/debian trixie/main arm64 libgl1-mesa-dri arm64 24.2.8-1 [43.6 kB]
Get: 75 http://deb.debian.org/debian trixie/main arm64 libglx-mesa0 arm64 24.2.8-1 [152 kB]
Get: 76 http://deb.debian.org/debian trixie/main arm64 libglx0 arm64 1.7.0-1+b2 [31.1 kB]
Get: 77 http://deb.debian.org/debian trixie/main arm64 libgl1 arm64 1.7.0-1+b2 [90.9 kB]
Get: 78 http://deb.debian.org/debian trixie/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB]
Get: 79 http://deb.debian.org/debian trixie/main arm64 libharfbuzz0b arm64 10.1.0-1 [442 kB]
Get: 80 http://deb.debian.org/debian trixie/main arm64 x11-common all 1:7.7+23.1 [216 kB]
Get: 81 http://deb.debian.org/debian trixie/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB]
Get: 82 http://deb.debian.org/debian trixie/main arm64 libevdev2 arm64 1.13.3+dfsg-1 [30.6 kB]
Get: 83 http://deb.debian.org/debian trixie/main arm64 libmtdev1t64 arm64 1.1.6-1.2+b1 [22.5 kB]
Get: 84 http://deb.debian.org/debian trixie/main arm64 libgudev-1.0-0 arm64 238-5+b1 [14.0 kB]
Get: 85 http://deb.debian.org/debian trixie/main arm64 libwacom-common all 2.13.0-1 [98.0 kB]
Get: 86 http://deb.debian.org/debian trixie/main arm64 libwacom9 arm64 2.13.0-1 [22.9 kB]
Get: 87 http://deb.debian.org/debian trixie/main arm64 libinput-bin arm64 1.26.2-1 [25.4 kB]
Get: 88 http://deb.debian.org/debian trixie/main arm64 libinput10 arm64 1.26.2-1 [118 kB]
Get: 89 http://deb.debian.org/debian trixie/main arm64 libmd4c0 arm64 0.5.2-2+b1 [46.1 kB]
Get: 90 http://deb.debian.org/debian trixie/main arm64 libqt5dbus5t64 arm64 5.15.15+dfsg-2 [206 kB]
Get: 91 http://deb.debian.org/debian trixie/main arm64 libkrb5support0 arm64 1.21.3-3 [32.1 kB]
Get: 92 http://deb.debian.org/debian trixie/main arm64 libcom-err2 arm64 1.47.2~rc1-2 [23.7 kB]
Get: 93 http://deb.debian.org/debian trixie/main arm64 libk5crypto3 arm64 1.21.3-3 [80.8 kB]
Get: 94 http://deb.debian.org/debian trixie/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B]
Get: 95 http://deb.debian.org/debian trixie/main arm64 libkrb5-3 arm64 1.21.3-3 [310 kB]
Get: 96 http://deb.debian.org/debian trixie/main arm64 libgssapi-krb5-2 arm64 1.21.3-3 [126 kB]
Get: 97 http://deb.debian.org/debian trixie/main arm64 libqt5network5t64 arm64 5.15.15+dfsg-2 [650 kB]
Get: 98 http://deb.debian.org/debian trixie/main arm64 libsm6 arm64 2:1.2.4-1 [34.2 kB]
Get: 99 http://deb.debian.org/debian trixie/main arm64 libxcb-icccm4 arm64 0.4.2-1 [27.2 kB]
Get: 100 http://deb.debian.org/debian trixie/main arm64 libxcb-util1 arm64 0.4.0-1+b2 [22.6 kB]
Get: 101 http://deb.debian.org/debian trixie/main arm64 libxcb-image0 arm64 0.4.0-2+b2 [21.9 kB]
Get: 102 http://deb.debian.org/debian trixie/main arm64 libxcb-keysyms1 arm64 0.4.0-1+b3 [15.8 kB]
Get: 103 http://deb.debian.org/debian trixie/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB]
Get: 104 http://deb.debian.org/debian trixie/main arm64 libxcb-render-util0 arm64 0.3.9-1+b2 [17.5 kB]
Get: 105 http://deb.debian.org/debian trixie/main arm64 libxcb-shape0 arm64 1.17.0-2+b1 [106 kB]
Get: 106 http://deb.debian.org/debian trixie/main arm64 libxcb-xinerama0 arm64 1.17.0-2+b1 [105 kB]
Get: 107 http://deb.debian.org/debian trixie/main arm64 libxcb-xinput0 arm64 1.17.0-2+b1 [130 kB]
Get: 108 http://deb.debian.org/debian trixie/main arm64 libxcb-xkb1 arm64 1.17.0-2+b1 [129 kB]
Get: 109 http://deb.debian.org/debian trixie/main arm64 xkb-data all 2.42-1 [790 kB]
Get: 110 http://deb.debian.org/debian trixie/main arm64 libxkbcommon0 arm64 1.7.0-2 [106 kB]
Get: 111 http://deb.debian.org/debian trixie/main arm64 libxkbcommon-x11-0 arm64 1.7.0-2 [15.2 kB]
Get: 112 http://deb.debian.org/debian trixie/main arm64 libxrender1 arm64 1:0.9.10-1.1+b3 [27.2 kB]
Get: 113 http://deb.debian.org/debian trixie/main arm64 libqt5gui5t64 arm64 5.15.15+dfsg-2 [3196 kB]
Get: 114 http://deb.debian.org/debian trixie/main arm64 libqt5positioning5 arm64 5.15.15+dfsg-2 [192 kB]
Get: 115 http://deb.debian.org/debian trixie/main arm64 libavahi-common-data arm64 0.8-15 [112 kB]
Get: 116 http://deb.debian.org/debian trixie/main arm64 libavahi-common3 arm64 0.8-15 [43.3 kB]
Get: 117 http://deb.debian.org/debian trixie/main arm64 libavahi-client3 arm64 0.8-15 [46.8 kB]
Get: 118 http://deb.debian.org/debian trixie/main arm64 libcups2t64 arm64 2.4.10-2 [235 kB]
Get: 119 http://deb.debian.org/debian trixie/main arm64 libqt5widgets5t64 arm64 5.15.15+dfsg-2 [2287 kB]
Get: 120 http://deb.debian.org/debian trixie/main arm64 libqt5printsupport5t64 arm64 5.15.15+dfsg-2 [198 kB]
Get: 121 http://deb.debian.org/debian trixie/main arm64 libqt5qml5 arm64 5.15.15+dfsg-3 [1289 kB]
Get: 122 http://deb.debian.org/debian trixie/main arm64 libqt5qmlmodels5 arm64 5.15.15+dfsg-3 [185 kB]
Get: 123 http://deb.debian.org/debian trixie/main arm64 libqt5quick5 arm64 5.15.15+dfsg-3 [1522 kB]
Get: 124 http://deb.debian.org/debian trixie/main arm64 libqt5sensors5 arm64 5.15.15-2 [109 kB]
Get: 125 http://deb.debian.org/debian trixie/main arm64 libqt5webchannel5 arm64 5.15.15-2 [56.3 kB]
Get: 126 http://deb.debian.org/debian trixie/main arm64 libsharpyuv0 arm64 1.4.0-0.1+b1 [112 kB]
Get: 127 http://deb.debian.org/debian trixie/main arm64 libwebp7 arm64 1.4.0-0.1+b1 [268 kB]
Get: 128 http://deb.debian.org/debian trixie/main arm64 libwoff1 arm64 1.0.2-2+b2 [41.7 kB]
Get: 129 http://deb.debian.org/debian trixie/main arm64 libxslt1.1 arm64 1.1.35-1.1+b1 [222 kB]
Get: 130 http://deb.debian.org/debian trixie/main arm64 libqt5webkit5 arm64 5.212.0~alpha4-41 [10.5 MB]
Get: 131 http://deb.debian.org/debian trixie/main arm64 xorg-sgml-doctools all 1:1.11-1.1 [22.1 kB]
Get: 132 http://deb.debian.org/debian trixie/main arm64 x11proto-dev all 2024.1-1 [603 kB]
Get: 133 http://deb.debian.org/debian trixie/main arm64 libxau-dev arm64 1:1.0.11-1 [23.9 kB]
Get: 134 http://deb.debian.org/debian trixie/main arm64 libxdmcp-dev arm64 1:1.1.5-1 [44.2 kB]
Get: 135 http://deb.debian.org/debian trixie/main arm64 xtrans-dev all 1.4.0-1 [98.7 kB]
Get: 136 http://deb.debian.org/debian trixie/main arm64 libxcb1-dev arm64 1.17.0-2+b1 [182 kB]
Get: 137 http://deb.debian.org/debian trixie/main arm64 libx11-dev arm64 2:1.8.10-2 [877 kB]
Get: 138 http://deb.debian.org/debian trixie/main arm64 libglx-dev arm64 1.7.0-1+b2 [15.8 kB]
Get: 139 http://deb.debian.org/debian trixie/main arm64 libgl-dev arm64 1.7.0-1+b2 [101 kB]
Get: 140 http://deb.debian.org/debian trixie/main arm64 libegl-dev arm64 1.7.0-1+b2 [19.5 kB]
Get: 141 http://deb.debian.org/debian trixie/main arm64 libopengl0 arm64 1.7.0-1+b2 [32.1 kB]
Get: 142 http://deb.debian.org/debian trixie/main arm64 libglu1-mesa arm64 9.0.2-1.1+b2 [162 kB]
Get: 143 http://deb.debian.org/debian trixie/main arm64 libopengl-dev arm64 1.7.0-1+b2 [5376 B]
Get: 144 http://deb.debian.org/debian trixie/main arm64 libglu1-mesa-dev arm64 9.0.2-1.1+b2 [203 kB]
Get: 145 http://deb.debian.org/debian trixie/main arm64 libqt5concurrent5t64 arm64 5.15.15+dfsg-2 [44.7 kB]
Get: 146 http://deb.debian.org/debian trixie/main arm64 libqt5sql5t64 arm64 5.15.15+dfsg-2 [120 kB]
Get: 147 http://deb.debian.org/debian trixie/main arm64 libqt5test5t64 arm64 5.15.15+dfsg-2 [139 kB]
Get: 148 http://deb.debian.org/debian trixie/main arm64 libqt5xml5t64 arm64 5.15.15+dfsg-2 [121 kB]
Get: 149 http://deb.debian.org/debian trixie/main arm64 libpython3.12-minimal arm64 3.12.8-3 [810 kB]
Get: 150 http://deb.debian.org/debian trixie/main arm64 python3.12-minimal arm64 3.12.8-3 [1941 kB]
Get: 151 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.12.7-1 [26.8 kB]
Get: 152 http://deb.debian.org/debian trixie/main arm64 media-types all 10.1.0 [26.9 kB]
Get: 153 http://deb.debian.org/debian trixie/main arm64 netbase all 6.4 [12.8 kB]
Get: 154 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024b-4 [256 kB]
Get: 155 http://deb.debian.org/debian trixie/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get: 156 http://deb.debian.org/debian trixie/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3+b1 [78.7 kB]
Get: 157 http://deb.debian.org/debian trixie/main arm64 libnsl2 arm64 1.3.0-3+b3 [37.9 kB]
Get: 158 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-6 [69.4 kB]
Get: 159 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-6 [159 kB]
Get: 160 http://deb.debian.org/debian trixie/main arm64 libpython3.12-stdlib arm64 3.12.8-3 [1906 kB]
Get: 161 http://deb.debian.org/debian trixie/main arm64 python3.12 arm64 3.12.8-3 [677 kB]
Get: 162 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.12.7-1 [9708 B]
Get: 163 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.12.7-1 [27.8 kB]
Get: 164 http://deb.debian.org/debian trixie/main arm64 libvulkan-dev arm64 1.3.296.0-1 [1397 kB]
Get: 165 http://deb.debian.org/debian trixie/main arm64 libxext-dev arm64 2:1.3.4-1+b2 [105 kB]
Get: 166 http://deb.debian.org/debian trixie/main arm64 qt5-qmake-bin arm64 5.15.15+dfsg-2 [922 kB]
Get: 167 http://deb.debian.org/debian trixie/main arm64 qtchooser arm64 66-2+b1 [24.5 kB]
Get: 168 http://deb.debian.org/debian trixie/main arm64 qt5-qmake arm64 5.15.15+dfsg-2 [224 kB]
Get: 169 http://deb.debian.org/debian trixie/main arm64 qtbase5-dev-tools arm64 5.15.15+dfsg-2 [718 kB]
Get: 170 http://deb.debian.org/debian trixie/main arm64 qtbase5-dev arm64 5.15.15+dfsg-2 [1120 kB]
Get: 171 http://deb.debian.org/debian trixie/main arm64 libqt5qmlworkerscript5 arm64 5.15.15+dfsg-3 [34.8 kB]
Get: 172 http://deb.debian.org/debian trixie/main arm64 libqt5quickparticles5 arm64 5.15.15+dfsg-3 [200 kB]
Get: 173 http://deb.debian.org/debian trixie/main arm64 libqt5quickshapes5 arm64 5.15.15+dfsg-3 [95.7 kB]
Get: 174 http://deb.debian.org/debian trixie/main arm64 libqt5quicktest5 arm64 5.15.15+dfsg-3 [55.1 kB]
Get: 175 http://deb.debian.org/debian trixie/main arm64 libqt5quickwidgets5 arm64 5.15.15+dfsg-3 [39.7 kB]
Get: 176 http://deb.debian.org/debian trixie/main arm64 qt5-qmltooling-plugins arm64 5.15.15+dfsg-3 [172 kB]
Get: 177 http://deb.debian.org/debian trixie/main arm64 qtdeclarative5-dev-tools arm64 5.15.15+dfsg-3 [597 kB]
Get: 178 http://deb.debian.org/debian trixie/main arm64 qtdeclarative5-dev arm64 5.15.15+dfsg-3 [458 kB]
Get: 179 http://deb.debian.org/debian trixie/main arm64 libqt5webkit5-dev arm64 5.212.0~alpha4-41 [55.4 kB]
Get: 180 http://deb.debian.org/debian trixie/main arm64 libpython3.13-minimal arm64 3.13.1-2 [852 kB]
Get: 181 http://deb.debian.org/debian trixie/main arm64 python3.13-minimal arm64 3.13.1-2 [1987 kB]
Get: 182 http://deb.debian.org/debian trixie/main arm64 sgml-base all 1.31 [15.4 kB]
Get: 183 http://deb.debian.org/debian trixie/main arm64 libproc2-0 arm64 2:4.0.4-6 [62.3 kB]
Get: 184 http://deb.debian.org/debian trixie/main arm64 procps arm64 2:4.0.4-6 [872 kB]
Get: 185 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB]
Get: 186 http://deb.debian.org/debian trixie/main arm64 openssl arm64 3.3.2-2 [1347 kB]
Get: 187 http://deb.debian.org/debian trixie/main arm64 ca-certificates all 20240203 [158 kB]
Get: 188 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB]
Get: 189 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB]
Get: 190 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3+b1 [43.4 kB]
Get: 191 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.22.5-3 [198 kB]
Get: 192 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB]
Get: 193 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-6 [1130 kB]
Get: 194 http://deb.debian.org/debian trixie/main arm64 libpam-systemd arm64 257-2 [270 kB]
Get: 195 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.2-12 [91.4 kB]
Get: 196 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB]
Get: 197 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB]
Get: 198 http://deb.debian.org/debian trixie/main arm64 libcbor0.10 arm64 0.10.2-2 [27.4 kB]
Get: 199 http://deb.debian.org/debian trixie/main arm64 libfido2-1 arm64 1.15.0-1+b1 [74.3 kB]
Get: 200 http://deb.debian.org/debian trixie/main arm64 openssh-client arm64 1:9.9p1-3 [928 kB]
Get: 201 http://deb.debian.org/debian trixie/main arm64 ucf all 3.0045 [45.2 kB]
Get: 202 http://deb.debian.org/debian trixie/main arm64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB]
Get: 203 http://deb.debian.org/debian trixie/main arm64 libdeflate0 arm64 1.22-1 [42.2 kB]
Get: 204 http://deb.debian.org/debian trixie/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB]
Get: 205 http://deb.debian.org/debian trixie/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB]
Get: 206 http://deb.debian.org/debian trixie/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB]
Get: 207 http://deb.debian.org/debian trixie/main arm64 libgdk-pixbuf-2.0-0 arm64 2.42.12+dfsg-1+b1 [131 kB]
Get: 208 http://deb.debian.org/debian trixie/main arm64 gtk-update-icon-cache arm64 4.16.7+ds-1 [49.8 kB]
Get: 209 http://deb.debian.org/debian trixie/main arm64 hicolor-icon-theme all 0.18-1 [12.0 kB]
Get: 210 http://deb.debian.org/debian trixie/main arm64 adwaita-icon-theme all 47.0-2 [463 kB]
Get: 211 http://deb.debian.org/debian trixie/main arm64 at-spi2-common all 2.54.0-1 [170 kB]
Get: 212 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB]
Get: 213 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB]
Get: 214 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get: 215 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB]
Get: 216 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.22.5-3 [723 kB]
Get: 217 http://deb.debian.org/debian trixie/main arm64 ca-certificates-java all 20240118 [11.6 kB]
Get: 218 http://deb.debian.org/debian trixie/main arm64 cfortran all 20210827-1 [67.7 kB]
Get: 219 http://deb.debian.org/debian trixie/main arm64 cmake-data all 3.30.5-1 [2223 kB]
Get: 220 http://deb.debian.org/debian trixie/main arm64 libarchive13t64 arm64 3.7.4-1.1 [323 kB]
Get: 221 http://deb.debian.org/debian trixie/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8 [20.0 kB]
Get: 222 http://deb.debian.org/debian trixie/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8 [55.4 kB]
Get: 223 http://deb.debian.org/debian trixie/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3+b1 [175 kB]
Get: 224 http://deb.debian.org/debian trixie/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB]
Get: 225 http://deb.debian.org/debian trixie/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB]
Get: 226 http://deb.debian.org/debian trixie/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB]
Get: 227 http://deb.debian.org/debian trixie/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB]
Get: 228 http://deb.debian.org/debian trixie/main arm64 libcurl4t64 arm64 8.11.1-1 [325 kB]
Get: 229 http://deb.debian.org/debian trixie/main arm64 libjsoncpp26 arm64 1.9.6-3 [72.9 kB]
Get: 230 http://deb.debian.org/debian trixie/main arm64 librhash1 arm64 1.4.5-1 [129 kB]
Get: 231 http://deb.debian.org/debian trixie/main arm64 libuv1t64 arm64 1.48.0-7 [143 kB]
Get: 232 http://deb.debian.org/debian trixie/main arm64 cmake arm64 3.30.5-1 [9403 kB]
Get: 233 http://deb.debian.org/debian trixie/main arm64 comerr-dev arm64 2.1-1.47.2~rc1-2 [55.7 kB]
Get: 234 http://deb.debian.org/debian trixie/main arm64 dbus-user-session arm64 1.16.0-1 [51.0 kB]
Get: 235 http://deb.debian.org/debian trixie/main arm64 libdconf1 arm64 0.40.0-4+b3 [40.4 kB]
Get: 236 http://deb.debian.org/debian trixie/main arm64 dconf-service arm64 0.40.0-4+b3 [31.1 kB]
Get: 237 http://deb.debian.org/debian trixie/main arm64 dconf-gsettings-backend arm64 0.40.0-4+b3 [27.4 kB]
Get: 238 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.20 [89.7 kB]
Get: 239 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-8 [517 kB]
Get: 240 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 241 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 242 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 243 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 244 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB]
Get: 245 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.22.5-3 [1532 kB]
Get: 246 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 247 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 248 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.20 [915 kB]
Get: 249 http://deb.debian.org/debian trixie/main arm64 java-common all 0.76 [6776 B]
Get: 250 http://deb.debian.org/debian trixie/main arm64 liblcms2-2 arm64 2.16-2 [151 kB]
Get: 251 http://deb.debian.org/debian trixie/main arm64 libnspr4 arm64 2:4.36-1 [102 kB]
Get: 252 http://deb.debian.org/debian trixie/main arm64 libnss3 arm64 2:3.106-1 [1292 kB]
Get: 253 http://deb.debian.org/debian trixie/main arm64 libpcsclite1 arm64 2.3.0-3 [55.1 kB]
Get: 254 http://deb.debian.org/debian trixie/main arm64 openjdk-21-jre-headless arm64 21.0.5+11-1 [40.6 MB]
Get: 255 http://deb.debian.org/debian trixie/main arm64 default-jre-headless arm64 2:1.21-76 [3192 B]
Get: 256 http://deb.debian.org/debian trixie/main arm64 libatk1.0-0t64 arm64 2.54.0-1 [49.7 kB]
Get: 257 http://deb.debian.org/debian trixie/main arm64 libxi6 arm64 2:1.8.2-1 [77.8 kB]
Get: 258 http://deb.debian.org/debian trixie/main arm64 libatspi2.0-0t64 arm64 2.54.0-1 [72.9 kB]
Get: 259 http://deb.debian.org/debian trixie/main arm64 libatk-bridge2.0-0t64 arm64 2.54.0-1 [64.4 kB]
Get: 260 http://deb.debian.org/debian trixie/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB]
Get: 261 http://deb.debian.org/debian trixie/main arm64 libcairo2 arm64 1.18.2-2 [483 kB]
Get: 262 http://deb.debian.org/debian trixie/main arm64 libcairo-gobject2 arm64 1.18.2-2 [130 kB]
Get: 263 http://deb.debian.org/debian trixie/main arm64 libcloudproviders0 arm64 0.3.6-1+b1 [27.7 kB]
Get: 264 http://deb.debian.org/debian trixie/main arm64 libcolord2 arm64 1.4.7-1+b2 [130 kB]
Get: 265 http://deb.debian.org/debian trixie/main arm64 libepoxy0 arm64 1.5.10-2 [200 kB]
Get: 266 http://deb.debian.org/debian trixie/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB]
Get: 267 http://deb.debian.org/debian trixie/main arm64 libthai-data all 0.1.29-2 [168 kB]
Get: 268 http://deb.debian.org/debian trixie/main arm64 libdatrie1 arm64 0.2.13-3+b1 [37.6 kB]
Get: 269 http://deb.debian.org/debian trixie/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB]
Get: 270 http://deb.debian.org/debian trixie/main arm64 libpango-1.0-0 arm64 1.55.0+ds-3 [212 kB]
Get: 271 http://deb.debian.org/debian trixie/main arm64 libpangoft2-1.0-0 arm64 1.55.0+ds-3 [52.1 kB]
Get: 272 http://deb.debian.org/debian trixie/main arm64 libpangocairo-1.0-0 arm64 1.55.0+ds-3 [33.4 kB]
Get: 273 http://deb.debian.org/debian trixie/main arm64 libwayland-cursor0 arm64 1.23.0-1+b1 [11.5 kB]
Get: 274 http://deb.debian.org/debian trixie/main arm64 libwayland-egl1 arm64 1.23.0-1+b1 [5768 B]
Get: 275 http://deb.debian.org/debian trixie/main arm64 libxcomposite1 arm64 1:0.4.6-1 [16.4 kB]
Get: 276 http://deb.debian.org/debian trixie/main arm64 libxcursor1 arm64 1:1.2.2-1+b1 [37.1 kB]
Get: 277 http://deb.debian.org/debian trixie/main arm64 libxdamage1 arm64 1:1.1.6-1+b2 [15.6 kB]
Get: 278 http://deb.debian.org/debian trixie/main arm64 libxinerama1 arm64 2:1.1.4-3+b3 [16.1 kB]
Get: 279 http://deb.debian.org/debian trixie/main arm64 libxrandr2 arm64 2:1.5.4-1+b2 [36.0 kB]
Get: 280 http://deb.debian.org/debian trixie/main arm64 libgtk-3-common all 3.24.43-4 [4657 kB]
Get: 281 http://deb.debian.org/debian trixie/main arm64 libgtk-3-0t64 arm64 3.24.43-4 [2546 kB]
Get: 282 http://deb.debian.org/debian trixie/main arm64 libasound2-data all 1.2.12-1 [21.0 kB]
Get: 283 http://deb.debian.org/debian trixie/main arm64 libasound2t64 arm64 1.2.12-1+b1 [336 kB]
Get: 284 http://deb.debian.org/debian trixie/main arm64 libgif7 arm64 5.2.2-1+b1 [44.2 kB]
Get: 285 http://deb.debian.org/debian trixie/main arm64 libxtst6 arm64 2:1.2.3-1.1+b3 [26.0 kB]
Get: 286 http://deb.debian.org/debian trixie/main arm64 openjdk-21-jre arm64 21.0.5+11-1 [193 kB]
Get: 287 http://deb.debian.org/debian trixie/main arm64 default-jre arm64 2:1.21-76 [1068 B]
Get: 288 http://deb.debian.org/debian trixie/main arm64 openjdk-21-jdk-headless arm64 21.0.5+11-1 [81.9 MB]
Get: 289 http://deb.debian.org/debian trixie/main arm64 default-jdk-headless arm64 2:1.21-76 [1124 B]
Get: 290 http://deb.debian.org/debian trixie/main arm64 openjdk-21-jdk arm64 21.0.5+11-1 [3422 kB]
Get: 291 http://deb.debian.org/debian trixie/main arm64 default-jdk arm64 2:1.21-76 [1076 B]
Get: 292 http://deb.debian.org/debian trixie/main arm64 mysql-common all 5.8+1.1.1 [6784 B]
Get: 293 http://deb.debian.org/debian trixie/main arm64 mariadb-common all 1:11.4.3-1 [27.1 kB]
Get: 294 http://deb.debian.org/debian trixie/main arm64 libmariadb3 arm64 1:11.4.3-1 [170 kB]
Get: 295 http://deb.debian.org/debian trixie/main arm64 libssl-dev arm64 3.3.2-2 [3185 kB]
Get: 296 http://deb.debian.org/debian trixie/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB]
Get: 297 http://deb.debian.org/debian trixie/main arm64 libmariadb-dev arm64 1:11.4.3-1 [266 kB]
Get: 298 http://deb.debian.org/debian trixie/main arm64 libmariadb-dev-compat arm64 1:11.4.3-1 [26.0 kB]
Get: 299 http://deb.debian.org/debian trixie/main arm64 default-libmysqlclient-dev arm64 1.1.1 [3252 B]
Get: 300 http://deb.debian.org/debian trixie/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 301 http://deb.debian.org/debian trixie/main arm64 python3-more-itertools all 10.5.0-1 [63.8 kB]
Get: 302 http://deb.debian.org/debian trixie/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 303 http://deb.debian.org/debian trixie/main arm64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 304 http://deb.debian.org/debian trixie/main arm64 python3-importlib-metadata all 8.5.0-1 [21.0 kB]
Get: 305 http://deb.debian.org/debian trixie/main arm64 python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 306 http://deb.debian.org/debian trixie/main arm64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 307 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 308 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 309 http://deb.debian.org/debian trixie/main arm64 python3-pkg-resources all 75.6.0-1 [222 kB]
Get: 310 http://deb.debian.org/debian trixie/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 311 http://deb.debian.org/debian trixie/main arm64 python3-setuptools all 75.6.0-1 [720 kB]
Get: 312 http://deb.debian.org/debian trixie/main arm64 dh-python all 6.20241217 [113 kB]
Get: 313 http://deb.debian.org/debian trixie/main arm64 libtext-iconv-perl arm64 1.7-8+b4 [14.2 kB]
Get: 314 http://deb.debian.org/debian trixie/main arm64 emacsen-common all 3.0.5 [12.3 kB]
Get: 315 http://deb.debian.org/debian trixie/main arm64 dictionaries-common all 1.30.2 [172 kB]
Get: 316 http://deb.debian.org/debian trixie/main arm64 libassuan9 arm64 3.0.1-2 [58.1 kB]
Get: 317 http://deb.debian.org/debian trixie/main arm64 gpgconf arm64 2.2.45-2 [114 kB]
Get: 318 http://deb.debian.org/debian trixie/main arm64 libksba8 arm64 1.6.7-2+b1 [125 kB]
Get: 319 http://deb.debian.org/debian trixie/main arm64 libnpth0t64 arm64 1.8-2 [22.8 kB]
Get: 320 http://deb.debian.org/debian trixie/main arm64 dirmngr arm64 2.2.45-2 [343 kB]
Get: 321 http://deb.debian.org/debian trixie/main arm64 xml-core all 0.19 [20.1 kB]
Get: 322 http://deb.debian.org/debian trixie/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB]
Get: 323 http://deb.debian.org/debian trixie/main arm64 libclang-cpp19 arm64 1:19.1.6-1 [12.0 MB]
Get: 324 http://deb.debian.org/debian trixie/main arm64 libclang1-19 arm64 1:19.1.6-1 [6860 kB]
Get: 325 http://deb.debian.org/debian trixie/main arm64 libfmt10 arm64 10.1.1+ds1-4 [121 kB]
Get: 326 http://deb.debian.org/debian trixie/main arm64 doxygen arm64 1.9.8+ds-2+b3 [4515 kB]
Get: 327 http://deb.debian.org/debian trixie/main arm64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB]
Get: 328 http://deb.debian.org/debian trixie/main arm64 fonts-lmodern all 2.005-1 [4540 kB]
Get: 329 http://deb.debian.org/debian trixie/main arm64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB]
Get: 330 http://deb.debian.org/debian trixie/main arm64 gdal-data all 3.9.3+dfsg-1 [564 kB]
Get: 331 http://deb.debian.org/debian trixie/main arm64 gdal-plugins arm64 3.9.3+dfsg-1+b2 [343 kB]
Get: 332 http://deb.debian.org/debian trixie/main arm64 libgfortran5 arm64 14.2.0-8 [361 kB]
Get: 333 http://deb.debian.org/debian trixie/main arm64 libgfortran-14-dev arm64 14.2.0-8 [418 kB]
Get: 334 http://deb.debian.org/debian trixie/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-8 [9791 kB]
Get: 335 http://deb.debian.org/debian trixie/main arm64 gfortran-14 arm64 14.2.0-8 [12.2 kB]
Get: 336 http://deb.debian.org/debian trixie/main arm64 gfortran-aarch64-linux-gnu arm64 4:14.2.0-1 [1284 B]
Get: 337 http://deb.debian.org/debian trixie/main arm64 gfortran arm64 4:14.2.0-1 [1424 B]
Get: 338 http://deb.debian.org/debian trixie/main arm64 libnghttp3-9 arm64 1.6.0-2 [60.5 kB]
Get: 339 http://deb.debian.org/debian trixie/main arm64 libngtcp2-16 arm64 1.9.1-1 [109 kB]
Get: 340 http://deb.debian.org/debian trixie/main arm64 libngtcp2-crypto-gnutls8 arm64 1.9.1-1 [17.3 kB]
Get: 341 http://deb.debian.org/debian trixie/main arm64 libcurl3t64-gnutls arm64 8.11.1-1 [332 kB]
Get: 342 http://deb.debian.org/debian trixie/main arm64 liberror-perl all 0.17029-2 [29.0 kB]
Get: 343 http://deb.debian.org/debian trixie/main arm64 git-man all 1:2.45.2-1 [2158 kB]
Get: 344 http://deb.debian.org/debian trixie/main arm64 git arm64 1:2.45.2-1 [8513 kB]
Get: 345 http://deb.debian.org/debian trixie/main arm64 gnupg-l10n all 2.2.45-2 [705 kB]
Get: 346 http://deb.debian.org/debian trixie/main arm64 gpg arm64 2.2.45-2 [481 kB]
Get: 347 http://deb.debian.org/debian trixie/main arm64 pinentry-curses arm64 1.2.1-4+b1 [76.7 kB]
Get: 348 http://deb.debian.org/debian trixie/main arm64 gpg-agent arm64 2.2.45-2 [230 kB]
Get: 349 http://deb.debian.org/debian trixie/main arm64 gpgsm arm64 2.2.45-2 [232 kB]
Get: 350 http://deb.debian.org/debian trixie/main arm64 gnupg all 2.2.45-2 [376 kB]
Get: 351 http://deb.debian.org/debian trixie/main arm64 libann0 arm64 1.1.2+doc-9+b2 [24.1 kB]
Get: 352 http://deb.debian.org/debian trixie/main arm64 libcdt5 arm64 2.42.4-2+b1 [39.4 kB]
Get: 353 http://deb.debian.org/debian trixie/main arm64 libcgraph6 arm64 2.42.4-2+b1 [61.3 kB]
Get: 354 http://deb.debian.org/debian trixie/main arm64 libaom3 arm64 3.11.0-1 [1690 kB]
Get: 355 http://deb.debian.org/debian trixie/main arm64 libdav1d7 arm64 1.5.0-1+b1 [248 kB]
Get: 356 http://deb.debian.org/debian trixie/main arm64 libabsl20230802 arm64 20230802.1-4 [432 kB]
Get: 357 http://deb.debian.org/debian trixie/main arm64 libgav1-1 arm64 0.19.0-2+b2 [493 kB]
Get: 358 http://deb.debian.org/debian trixie/main arm64 librav1e0.7 arm64 0.7.1-7+b3 [655 kB]
Get: 359 http://deb.debian.org/debian trixie/main arm64 libsvtav1enc2 arm64 2.3.0+dfsg-1 [1558 kB]
Get: 360 http://deb.debian.org/debian trixie/main arm64 libyuv0 arm64 0.0.1898.20241125-1 [136 kB]
Get: 361 http://deb.debian.org/debian trixie/main arm64 libavif16 arm64 1.1.1-1 [109 kB]
Get: 362 http://deb.debian.org/debian trixie/main arm64 libheif-plugin-dav1d arm64 1.19.3-1 [11.2 kB]
Get: 363 http://deb.debian.org/debian trixie/main arm64 libde265-0 arm64 1.0.15-1+b2 [153 kB]
Get: 364 http://deb.debian.org/debian trixie/main arm64 libheif-plugin-libde265 arm64 1.19.3-1 [14.9 kB]
Get: 365 http://deb.debian.org/debian trixie/main arm64 libheif1 arm64 1.19.3-1 [419 kB]
Get: 366 http://deb.debian.org/debian trixie/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB]
Get: 367 http://deb.debian.org/debian trixie/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB]
Get: 368 http://deb.debian.org/debian trixie/main arm64 libxpm4 arm64 1:3.5.17-1+b2 [53.2 kB]
Get: 369 http://deb.debian.org/debian trixie/main arm64 libgd3 arm64 2.3.3-12+b1 [115 kB]
Get: 370 http://deb.debian.org/debian trixie/main arm64 libgts-0.7-5t64 arm64 0.7.6+darcs121130-5.2+b1 [145 kB]
Get: 371 http://deb.debian.org/debian trixie/main arm64 libltdl7 arm64 2.4.7-8 [392 kB]
Get: 372 http://deb.debian.org/debian trixie/main arm64 libpathplan4 arm64 2.42.4-2+b1 [41.4 kB]
Get: 373 http://deb.debian.org/debian trixie/main arm64 libgvc6 arm64 2.42.4-2+b1 [628 kB]
Get: 374 http://deb.debian.org/debian trixie/main arm64 libgvpr2 arm64 2.42.4-2+b1 [182 kB]
Get: 375 http://deb.debian.org/debian trixie/main arm64 liblab-gamut1 arm64 2.42.4-2+b1 [198 kB]
Get: 376 http://deb.debian.org/debian trixie/main arm64 libxt6t64 arm64 1:1.2.1-1.2+b1 [173 kB]
Get: 377 http://deb.debian.org/debian trixie/main arm64 libxmu6 arm64 2:1.1.3-3+b3 [55.6 kB]
Get: 378 http://deb.debian.org/debian trixie/main arm64 libxaw7 arm64 2:1.0.16-1 [195 kB]
Get: 379 http://deb.debian.org/debian trixie/main arm64 graphviz arm64 2.42.4-2+b1 [574 kB]
Get: 380 http://deb.debian.org/debian trixie/main arm64 hdf5-helpers arm64 1.14.5+repack-1 [26.3 kB]
Get: 381 http://deb.debian.org/debian trixie/main arm64 htmldoc-common all 1.9.20-1 [1994 kB]
Get: 382 http://deb.debian.org/debian trixie/main arm64 libxft2 arm64 2.3.6-1+b3 [51.6 kB]
Get: 383 http://deb.debian.org/debian trixie/main arm64 libfltk1.3t64 arm64 1.3.8-6.1+b1 [520 kB]
Get: 384 http://deb.debian.org/debian trixie/main arm64 libfltk-images1.3t64 arm64 1.3.8-6.1+b1 [48.2 kB]
Get: 385 http://deb.debian.org/debian trixie/main arm64 htmldoc arm64 1.9.20-1 [152 kB]
Get: 386 http://deb.debian.org/debian trixie/main arm64 hunspell-en-us all 1:2020.12.07-3 [559 kB]
Get: 387 http://deb.debian.org/debian trixie/main arm64 libnl-3-200 arm64 3.7.0-0.3+b1 [57.0 kB]
Get: 388 http://deb.debian.org/debian trixie/main arm64 libnl-route-3-200 arm64 3.7.0-0.3+b1 [167 kB]
Get: 389 http://deb.debian.org/debian trixie/main arm64 libibverbs1 arm64 52.0-2+b1 [58.8 kB]
Get: 390 http://deb.debian.org/debian trixie/main arm64 ibverbs-providers arm64 52.0-2+b1 [321 kB]
Get: 391 http://deb.debian.org/debian trixie/main arm64 icu-devtools arm64 72.1-5+b1 [195 kB]
Get: 392 http://deb.debian.org/debian trixie/main arm64 libgssrpc4t64 arm64 1.21.3-3 [56.7 kB]
Get: 393 http://deb.debian.org/debian trixie/main arm64 libkadm5clnt-mit12 arm64 1.21.3-3 [40.3 kB]
Get: 394 http://deb.debian.org/debian trixie/main arm64 libkdb5-10t64 arm64 1.21.3-3 [40.8 kB]
Get: 395 http://deb.debian.org/debian trixie/main arm64 libkadm5srv-mit12 arm64 1.21.3-3 [52.2 kB]
Get: 396 http://deb.debian.org/debian trixie/main arm64 krb5-multidev arm64 1.21.3-3 [126 kB]
Get: 397 http://deb.debian.org/debian trixie/main arm64 tex-common all 6.18 [32.5 kB]
Get: 398 http://deb.debian.org/debian trixie/main arm64 libpaper1 arm64 1.1.29+b2 [13.0 kB]
Get: 399 http://deb.debian.org/debian trixie/main arm64 libpaper-utils arm64 1.1.29+b2 [9128 B]
Get: 400 http://deb.debian.org/debian trixie/main arm64 libkpathsea6 arm64 2024.20240313.70630+ds-5 [153 kB]
Get: 401 http://deb.debian.org/debian trixie/main arm64 libptexenc1 arm64 2024.20240313.70630+ds-5 [47.9 kB]
Get: 402 http://deb.debian.org/debian trixie/main arm64 libsynctex2 arm64 2024.20240313.70630+ds-5 [60.3 kB]
Get: 403 http://deb.debian.org/debian trixie/main arm64 libtexlua53-5 arm64 2024.20240313.70630+ds-5 [106 kB]
Get: 404 http://deb.debian.org/debian trixie/main arm64 t1utils arm64 1.41-4+b1 [57.6 kB]
Get: 405 http://deb.debian.org/debian trixie/main arm64 libmpfi0 arm64 1.5.4+ds-4 [34.5 kB]
Get: 406 http://deb.debian.org/debian trixie/main arm64 libpotrace0 arm64 1.16-2+b2 [23.4 kB]
Get: 407 http://deb.debian.org/debian trixie/main arm64 libteckit0 arm64 2.5.12+ds1-1+b1 [303 kB]
Get: 408 http://deb.debian.org/debian trixie/main arm64 libzzip-0-13t64 arm64 0.13.72+dfsg.1-1.2+b1 [56.7 kB]
Get: 409 http://deb.debian.org/debian trixie/main arm64 texlive-binaries arm64 2024.20240313.70630+ds-5 [7358 kB]
Get: 410 http://deb.debian.org/debian trixie/main arm64 xdg-utils all 1.2.1-2 [75.8 kB]
Get: 411 http://deb.debian.org/debian trixie/main arm64 texlive-base all 2024.20241115-1 [22.7 MB]
Get: 412 http://deb.debian.org/debian trixie/main arm64 texlive-latex-base all 2024.20241115-1 [1278 kB]
Get: 413 http://deb.debian.org/debian trixie/main arm64 latexmk all 1:4.85-1 [501 kB]
Get: 414 http://deb.debian.org/debian trixie/main arm64 libaec0 arm64 1.1.3-1+b1 [22.5 kB]
Get: 415 http://deb.debian.org/debian trixie/main arm64 libsz2 arm64 1.1.3-1+b1 [8044 B]
Get: 416 http://deb.debian.org/debian trixie/main arm64 libaec-dev arm64 1.1.3-1+b1 [20.2 kB]
Get: 417 http://deb.debian.org/debian trixie/main arm64 libllvm17t64 arm64 1:17.0.6-18 [21.3 MB]
Get: 418 http://deb.debian.org/debian trixie/main arm64 libamd-comgr2 arm64 6.0+git20231212.4510c28+dfsg-3+b2 [12.1 MB]
Get: 419 http://deb.debian.org/debian trixie/main arm64 libnuma1 arm64 2.0.18-1+b1 [21.8 kB]
Get: 420 http://deb.debian.org/debian trixie/main arm64 libhsakmt1 arm64 5.7.0-1 [57.6 kB]
Get: 421 http://deb.debian.org/debian trixie/main arm64 libhsa-runtime64-1 arm64 5.7.1-3 [278 kB]
Get: 422 http://deb.debian.org/debian trixie/main arm64 libamdhip64-5 arm64 5.7.1-5 [8823 kB]
Get: 423 http://deb.debian.org/debian trixie/main arm64 libapache-pom-java all 33-2 [5852 B]
Get: 424 http://deb.debian.org/debian trixie/main arm64 libblas3 arm64 3.12.0-4 [98.7 kB]
Get: 425 http://deb.debian.org/debian trixie/main arm64 liblapack3 arm64 3.12.0-4 [1812 kB]
Get: 426 http://deb.debian.org/debian trixie/main arm64 libarpack2t64 arm64 3.9.1-4 [83.7 kB]
Get: 427 http://deb.debian.org/debian trixie/main arm64 libarmadillo14 arm64 1:14.2.1+dfsg-1 [102 kB]
Get: 428 http://deb.debian.org/debian trixie/main arm64 libblas-dev arm64 3.12.0-4 [106 kB]
Get: 429 http://deb.debian.org/debian trixie/main arm64 liblapack-dev arm64 3.12.0-4 [3709 kB]
Get: 430 http://deb.debian.org/debian trixie/main arm64 libarpack2-dev arm64 3.9.1-4 [102 kB]
Get: 431 http://deb.debian.org/debian trixie/main arm64 libhdf5-310 arm64 1.14.5+repack-1 [1157 kB]
Get: 432 http://deb.debian.org/debian trixie/main arm64 libhdf5-fortran-310 arm64 1.14.5+repack-1 [109 kB]
Get: 433 http://deb.debian.org/debian trixie/main arm64 libhdf5-hl-310 arm64 1.14.5+repack-1 [65.8 kB]
Get: 434 http://deb.debian.org/debian trixie/main arm64 libhdf5-hl-fortran-310 arm64 1.14.5+repack-1 [41.9 kB]
Get: 435 http://deb.debian.org/debian trixie/main arm64 libhdf5-cpp-310 arm64 1.14.5+repack-1 [121 kB]
Get: 436 http://deb.debian.org/debian trixie/main arm64 libhdf5-hl-cpp-310 arm64 1.14.5+repack-1 [24.2 kB]
Get: 437 http://deb.debian.org/debian trixie/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-3+b1 [293 kB]
Get: 438 http://deb.debian.org/debian trixie/main arm64 libjpeg-dev arm64 1:2.1.5-3+b1 [72.2 kB]
Get: 439 http://deb.debian.org/debian trixie/main arm64 libbrotli-dev arm64 1.1.0-2+b6 [308 kB]
Get: 440 http://deb.debian.org/debian trixie/main arm64 libidn2-dev arm64 2.3.7-2+b1 [122 kB]
Get: 441 http://deb.debian.org/debian trixie/main arm64 libkrb5-dev arm64 1.21.3-3 [15.8 kB]
Get: 442 http://deb.debian.org/debian trixie/main arm64 libldap-dev arm64 2.5.18+dfsg-3+b1 [300 kB]
Get: 443 http://deb.debian.org/debian trixie/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB]
Get: 444 http://deb.debian.org/debian trixie/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB]
Get: 445 http://deb.debian.org/debian trixie/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB]
Get: 446 http://deb.debian.org/debian trixie/main arm64 libnghttp2-dev arm64 1.64.0-1 [112 kB]
Get: 447 http://deb.debian.org/debian trixie/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB]
Get: 448 http://deb.debian.org/debian trixie/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB]
Get: 449 http://deb.debian.org/debian trixie/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB]
Get: 450 http://deb.debian.org/debian trixie/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB]
Get: 451 http://deb.debian.org/debian trixie/main arm64 libunbound8 arm64 1.22.0-1 [553 kB]
Get: 452 http://deb.debian.org/debian trixie/main arm64 libgnutls-dane0t64 arm64 3.8.8-2 [446 kB]
Get: 453 http://deb.debian.org/debian trixie/main arm64 libgnutls-openssl27t64 arm64 3.8.8-2 [446 kB]
Get: 454 http://deb.debian.org/debian trixie/main arm64 libp11-kit-dev arm64 0.25.5-2+b1 [208 kB]
Get: 455 http://deb.debian.org/debian trixie/main arm64 libtasn1-6-dev arm64 4.19.0-3+b3 [96.5 kB]
Get: 456 http://deb.debian.org/debian trixie/main arm64 nettle-dev arm64 3.10-1+b1 [1324 kB]
Get: 457 http://deb.debian.org/debian trixie/main arm64 libgnutls28-dev arm64 3.8.8-2 [1404 kB]
Get: 458 http://deb.debian.org/debian trixie/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB]
Get: 459 http://deb.debian.org/debian trixie/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB]
Get: 460 http://deb.debian.org/debian trixie/main arm64 libzstd-dev arm64 1.5.6+dfsg-1+b1 [329 kB]
Get: 461 http://deb.debian.org/debian trixie/main arm64 libcurl4-openssl-dev arm64 8.11.1-1 [449 kB]
Get: 462 http://deb.debian.org/debian trixie/main arm64 libhdf5-dev arm64 1.14.5+repack-1 [3224 kB]
Get: 463 http://deb.debian.org/debian trixie/main arm64 libsuperlu7 arm64 7.0.0+dfsg1-2 [144 kB]
Get: 464 http://deb.debian.org/debian trixie/main arm64 libsuperlu-dev arm64 7.0.0+dfsg1-2 [21.9 kB]
Get: 465 http://deb.debian.org/debian trixie/main arm64 libarmadillo-dev arm64 1:14.2.1+dfsg-1 [414 kB]
Get: 466 http://deb.debian.org/debian trixie/main arm64 libaspell15 arm64 0.60.8.1-2 [308 kB]
Get: 467 http://deb.debian.org/debian trixie/main arm64 libva2 arm64 2.22.0-1+b1 [74.0 kB]
Get: 468 http://deb.debian.org/debian trixie/main arm64 libva-drm2 arm64 2.22.0-1+b1 [18.7 kB]
Get: 469 http://deb.debian.org/debian trixie/main arm64 libva-x11-2 arm64 2.22.0-1+b1 [23.3 kB]
Get: 470 http://deb.debian.org/debian trixie/main arm64 libvdpau1 arm64 1.5-3+b1 [24.4 kB]
Get: 471 http://deb.debian.org/debian trixie/main arm64 ocl-icd-libopencl1 arm64 2.3.2-1+b2 [39.3 kB]
Get: 472 http://deb.debian.org/debian trixie/main arm64 libavutil59 arm64 7:7.1-3 [376 kB]
Get: 473 http://deb.debian.org/debian trixie/main arm64 libcodec2-1.2 arm64 1.2.0-2+b2 [8167 kB]
Get: 474 http://deb.debian.org/debian trixie/main arm64 libgsm1 arm64 1.0.22-1+b2 [27.3 kB]
Get: 475 http://deb.debian.org/debian trixie/main arm64 libhwy1t64 arm64 1.2.0-2+b1 [500 kB]
Get: 476 http://deb.debian.org/debian trixie/main arm64 libimath-3-1-29t64 arm64 3.1.12-1+b1 [38.3 kB]
Get: 477 http://deb.debian.org/debian trixie/main arm64 libopenexr-3-1-30 arm64 3.1.5-5.1+b3 [856 kB]
Get: 478 http://deb.debian.org/debian trixie/main arm64 libjxl0.9 arm64 0.9.2-10+b1 [811 kB]
Get: 479 http://deb.debian.org/debian trixie/main arm64 libmp3lame0 arm64 3.100-6+b3 [355 kB]
Get: 480 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7 arm64 2.5.0-2+b4 [185 kB]
Get: 481 http://deb.debian.org/debian trixie/main arm64 libopus0 arm64 1.5.2-2 [2813 kB]
Get: 482 http://deb.debian.org/debian trixie/main arm64 librsvg2-2 arm64 2.59.1+dfsg-1 [1675 kB]
Get: 483 http://deb.debian.org/debian trixie/main arm64 libshine3 arm64 3.1.1-2+b2 [24.6 kB]
Get: 484 http://deb.debian.org/debian trixie/main arm64 libsnappy1v5 arm64 1.2.1-1+b1 [28.7 kB]
Get: 485 http://deb.debian.org/debian trixie/main arm64 libspeex1 arm64 1.2.1-3 [50.4 kB]
Get: 486 http://deb.debian.org/debian trixie/main arm64 libsoxr0 arm64 0.1.3-4+b2 [54.9 kB]
Get: 487 http://deb.debian.org/debian trixie/main arm64 libswresample5 arm64 7:7.1-3 [85.7 kB]
Get: 488 http://deb.debian.org/debian trixie/main arm64 libogg0 arm64 1.3.5-3+b2 [23.6 kB]
Get: 489 http://deb.debian.org/debian trixie/main arm64 libtheora0 arm64 1.1.1+dfsg.1-17 [148 kB]
Get: 490 http://deb.debian.org/debian trixie/main arm64 libtwolame0 arm64 0.4.0-2+b2 [49.3 kB]
Get: 491 http://deb.debian.org/debian trixie/main arm64 libvorbis0a arm64 1.3.7-2+b1 [84.5 kB]
Get: 492 http://deb.debian.org/debian trixie/main arm64 libvorbisenc2 arm64 1.3.7-2+b1 [76.3 kB]
Get: 493 http://deb.debian.org/debian trixie/main arm64 libvpx9 arm64 1.15.0-1 [1158 kB]
Get: 494 http://deb.debian.org/debian trixie/main arm64 libwebpmux3 arm64 1.4.0-0.1+b1 [122 kB]
Get: 495 http://deb.debian.org/debian trixie/main arm64 libx264-164 arm64 2:0.164.3108+git31e19f9-2 [453 kB]
Get: 496 http://deb.debian.org/debian trixie/main arm64 libx265-209 arm64 3.6-3+b1 [724 kB]
Get: 497 http://deb.debian.org/debian trixie/main arm64 libxvidcore4 arm64 2:1.3.7-1+b2 [202 kB]
Get: 498 http://deb.debian.org/debian trixie/main arm64 libzvbi-common all 0.2.43-2 [71.2 kB]
Get: 499 http://deb.debian.org/debian trixie/main arm64 libzvbi0t64 arm64 0.2.43-2 [262 kB]
Get: 500 http://deb.debian.org/debian trixie/main arm64 libavcodec61 arm64 7:7.1-3 [5369 kB]
Get: 501 http://deb.debian.org/debian trixie/main arm64 libavutil-dev arm64 7:7.1-3 [533 kB]
Get: 502 http://deb.debian.org/debian trixie/main arm64 libswresample-dev arm64 7:7.1-3 [96.7 kB]
Get: 503 http://deb.debian.org/debian trixie/main arm64 libavcodec-dev arm64 7:7.1-3 [6047 kB]
Get: 504 http://deb.debian.org/debian trixie/main arm64 libudfread0 arm64 1.1.2-1+b2 [17.3 kB]
Get: 505 http://deb.debian.org/debian trixie/main arm64 libbluray2 arm64 1:1.3.4-1+b2 [126 kB]
Get: 506 http://deb.debian.org/debian trixie/main arm64 libchromaprint1 arm64 1.5.1-6 [38.7 kB]
Get: 507 http://deb.debian.org/debian trixie/main arm64 libdvdread8t64 arm64 6.1.3-2 [81.2 kB]
Get: 508 http://deb.debian.org/debian trixie/main arm64 libdvdnav4 arm64 6.1.1-3+b1 [41.0 kB]
Get: 509 http://deb.debian.org/debian trixie/main arm64 libgme0 arm64 0.6.3-7+b2 [120 kB]
Get: 510 http://deb.debian.org/debian trixie/main arm64 libmpg123-0t64 arm64 1.32.9-1 [143 kB]
Get: 511 http://deb.debian.org/debian trixie/main arm64 libvorbisfile3 arm64 1.3.7-2+b1 [20.8 kB]
Get: 512 http://deb.debian.org/debian trixie/main arm64 libopenmpt0t64 arm64 0.7.12-1 [744 kB]
Get: 513 http://deb.debian.org/debian trixie/main arm64 librabbitmq4 arm64 0.15.0-1 [40.6 kB]
Get: 514 http://deb.debian.org/debian trixie/main arm64 libcjson1 arm64 1.7.18-3+b1 [29.0 kB]
Get: 515 http://deb.debian.org/debian trixie/main arm64 libmbedcrypto16 arm64 3.6.2-3 [341 kB]
Get: 516 http://deb.debian.org/debian trixie/main arm64 librist4 arm64 0.2.11+dfsg-1 [69.0 kB]
Get: 517 http://deb.debian.org/debian trixie/main arm64 libsrt1.5-gnutls arm64 1.5.4-1 [300 kB]
Get: 518 http://deb.debian.org/debian trixie/main arm64 libssh-4 arm64 0.11.1-1 [195 kB]
Get: 519 http://deb.debian.org/debian trixie/main arm64 libnorm1t64 arm64 1.5.9+dfsg-3.1+b1 [205 kB]
Get: 520 http://deb.debian.org/debian trixie/main arm64 libpgm-5.3-0t64 arm64 5.3.128~dfsg-2.1+b1 [152 kB]
Get: 521 http://deb.debian.org/debian trixie/main arm64 libsodium23 arm64 1.0.18-1+b2 [121 kB]
Get: 522 http://deb.debian.org/debian trixie/main arm64 libzmq5 arm64 4.3.5-1+b3 [253 kB]
Get: 523 http://deb.debian.org/debian trixie/main arm64 libavformat61 arm64 7:7.1-3 [1118 kB]
Get: 524 http://deb.debian.org/debian trixie/main arm64 libavformat-dev arm64 7:7.1-3 [1374 kB]
Get: 525 http://deb.debian.org/debian trixie/main arm64 libblosc1 arm64 1.21.5+ds-1+b2 [39.2 kB]
Get: 526 http://deb.debian.org/debian trixie/main arm64 libblosc-dev arm64 1.21.5+ds-1+b2 [50.5 kB]
Get: 527 http://deb.debian.org/debian trixie/main arm64 libboost1.83-dev arm64 1.83.0-3.2+b2 [10.6 MB]
Get: 528 http://deb.debian.org/debian trixie/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B]
Get: 529 http://deb.debian.org/debian trixie/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB]
Get: 530 http://deb.debian.org/debian trixie/main arm64 libcfitsio10t64 arm64 4.5.0-5 [521 kB]
Get: 531 http://deb.debian.org/debian trixie/main arm64 libcfitsio-dev arm64 4.5.0-5 [598 kB]
Get: 532 http://deb.debian.org/debian trixie/main arm64 libcommons-parent-java all 56-1 [10.8 kB]
Get: 533 http://deb.debian.org/debian trixie/main arm64 libcommons-logging-java all 1.3.0-1 [68.6 kB]
Get: 534 http://deb.debian.org/debian trixie/main arm64 libdeflate-dev arm64 1.22-1 [51.2 kB]
Get: 535 http://deb.debian.org/debian trixie/main arm64 libdouble-conversion-dev arm64 3.3.0-1+b2 [59.1 kB]
Get: 536 http://deb.debian.org/debian trixie/main arm64 pkg-config arm64 1.8.1-4 [14.0 kB]
Get: 537 http://deb.debian.org/debian trixie/main arm64 libeigen3-dev all 3.4.0-4 [1041 kB]
Get: 538 http://deb.debian.org/debian trixie/main arm64 libhunspell-1.7-0 arm64 1.7.2+really1.7.2-10+b3 [218 kB]
Get: 539 http://deb.debian.org/debian trixie/main arm64 libenchant-2-2 arm64 2.8.2+dfsg1-1 [51.8 kB]
Get: 540 http://deb.debian.org/debian trixie/main arm64 libevent-core-2.1-7t64 arm64 2.1.12-stable-10+b1 [126 kB]
Get: 541 http://deb.debian.org/debian trixie/main arm64 libevent-extra-2.1-7t64 arm64 2.1.12-stable-10+b1 [102 kB]
Get: 542 http://deb.debian.org/debian trixie/main arm64 libevent-pthreads-2.1-7t64 arm64 2.1.12-stable-10+b1 [54.4 kB]
Get: 543 http://deb.debian.org/debian trixie/main arm64 libevent-openssl-2.1-7t64 arm64 2.1.12-stable-10+b1 [60.4 kB]
Get: 544 http://deb.debian.org/debian trixie/main arm64 libevent-dev arm64 2.1.12-stable-10+b1 [304 kB]
Get: 545 http://deb.debian.org/debian trixie/main arm64 libexpat1-dev arm64 2.6.4-1 [143 kB]
Get: 546 http://deb.debian.org/debian trixie/main arm64 librdmacm1t64 arm64 52.0-2+b1 [67.4 kB]
Get: 547 http://deb.debian.org/debian trixie/main arm64 libfabric1 arm64 1.17.0-3.1 [480 kB]
Get: 548 http://deb.debian.org/debian trixie/main arm64 libfftw3-double3 arm64 3.3.10-2+b1 [337 kB]
Get: 549 http://deb.debian.org/debian trixie/main arm64 libfftw3-long3 arm64 3.3.10-2+b1 [546 kB]
Get: 550 http://deb.debian.org/debian trixie/main arm64 libfftw3-single3 arm64 3.3.10-2+b1 [517 kB]
Get: 551 http://deb.debian.org/debian trixie/main arm64 libfftw3-bin arm64 3.3.10-2+b1 [44.3 kB]
Get: 552 http://deb.debian.org/debian trixie/main arm64 libfftw3-dev arm64 3.3.10-2+b1 [1280 kB]
Get: 553 http://deb.debian.org/debian trixie/main arm64 libfontbox-java all 1:1.8.16-5 [211 kB]
Get: 554 http://deb.debian.org/debian trixie/main arm64 libpng-dev arm64 1.6.44-3 [360 kB]
Get: 555 http://deb.debian.org/debian trixie/main arm64 libfreetype-dev arm64 2.13.3+dfsg-1 [600 kB]
Get: 556 http://deb.debian.org/debian trixie/main arm64 uuid-dev arm64 2.40.2-12 [48.0 kB]
Get: 557 http://deb.debian.org/debian trixie/main arm64 libfontconfig-dev arm64 2.15.0-1.1+b1 [411 kB]
Get: 558 http://deb.debian.org/debian trixie/main arm64 libfontconfig1-dev arm64 2.15.0-1.1+b1 [269 kB]
Get: 559 http://deb.debian.org/debian trixie/main arm64 libfontenc1 arm64 1:1.1.8-1+b1 [22.5 kB]
Get: 560 http://deb.debian.org/debian trixie/main arm64 libminizip1t64 arm64 1:1.3.dfsg+really1.3.1-1+b1 [52.6 kB]
Get: 561 http://deb.debian.org/debian trixie/main arm64 libfreexl1 arm64 2.0.0-1+b3 [38.3 kB]
Get: 562 http://deb.debian.org/debian trixie/main arm64 libminizip-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [60.9 kB]
Get: 563 http://deb.debian.org/debian trixie/main arm64 libfreexl-dev arm64 2.0.0-1+b3 [40.8 kB]
Get: 564 http://deb.debian.org/debian trixie/main arm64 libfyba0t64 arm64 4.1.1-11+b1 [107 kB]
Get: 565 http://deb.debian.org/debian trixie/main arm64 libfyba-dev arm64 4.1.1-11+b1 [170 kB]
Get: 566 http://deb.debian.org/debian trixie/main arm64 libgeos3.13.0 arm64 3.13.0-1 [883 kB]
Get: 567 http://deb.debian.org/debian trixie/main arm64 libgeos-c1t64 arm64 3.13.0-1 [92.7 kB]
Get: 568 http://deb.debian.org/debian trixie/main arm64 proj-data all 9.5.1-1 [6284 kB]
Get: 569 http://deb.debian.org/debian trixie/main arm64 libproj25 arm64 9.5.1-1 [1216 kB]
Get: 570 http://deb.debian.org/debian trixie/main arm64 libgeotiff5 arm64 1.7.3-1+b1 [65.5 kB]
Get: 571 http://deb.debian.org/debian trixie/main arm64 libhdf4-0-alt arm64 4.3.0-1+b1 [238 kB]
Get: 572 http://deb.debian.org/debian trixie/main arm64 libjson-c5 arm64 0.18+ds-1 [45.2 kB]
Get: 573 http://deb.debian.org/debian trixie/main arm64 liburiparser1 arm64 0.9.8+dfsg-2 [42.5 kB]
Get: 574 http://deb.debian.org/debian trixie/main arm64 libkmlbase1t64 arm64 1.3.0-12+b1 [45.8 kB]
Get: 575 http://deb.debian.org/debian trixie/main arm64 libkmldom1t64 arm64 1.3.0-12+b1 [142 kB]
Get: 576 http://deb.debian.org/debian trixie/main arm64 libkmlengine1t64 arm64 1.3.0-12+b1 [72.1 kB]
Get: 577 http://deb.debian.org/debian trixie/main arm64 libnetcdf19t64 arm64 1:4.9.2-7+b1 [445 kB]
Get: 578 http://deb.debian.org/debian trixie/main arm64 libodbc2 arm64 2.3.12-2 [135 kB]
Get: 579 http://deb.debian.org/debian trixie/main arm64 unixodbc-common all 2.3.12-2 [8640 B]
Get: 580 http://deb.debian.org/debian trixie/main arm64 libodbcinst2 arm64 2.3.12-2 [36.8 kB]
Get: 581 http://deb.debian.org/debian trixie/main arm64 libogdi4.1 arm64 4.1.1+ds-5 [202 kB]
Get: 582 http://deb.debian.org/debian trixie/main arm64 libgpgme11t64 arm64 1.24.0-2 [328 kB]
Get: 583 http://deb.debian.org/debian trixie/main arm64 libgpgmepp6t64 arm64 1.24.0-2 [326 kB]
Get: 584 http://deb.debian.org/debian trixie/main arm64 libpoppler140 arm64 24.08.0-3 [1853 kB]
Get: 585 http://deb.debian.org/debian trixie/main arm64 libpq5 arm64 17.2-1 [216 kB]
Get: 586 http://deb.debian.org/debian trixie/main arm64 libqhull-r8.0 arm64 2020.2-6+b2 [229 kB]
Get: 587 http://deb.debian.org/debian trixie/main arm64 librttopo1 arm64 1.1.0-3+b2 [166 kB]
Get: 588 http://deb.debian.org/debian trixie/main arm64 libspatialite8t64 arm64 5.1.0-3+b2 [1610 kB]
Get: 589 http://deb.debian.org/debian trixie/main arm64 libxerces-c3.2t64 arm64 3.2.4+debian-1.3+b1 [790 kB]
Get: 590 http://deb.debian.org/debian trixie/main arm64 libgdal35 arm64 3.9.3+dfsg-1+b2 [7962 kB]
Get: 591 http://deb.debian.org/debian trixie/main arm64 libgeos-dev arm64 3.13.0-1 [58.2 kB]
Get: 592 http://deb.debian.org/debian trixie/main arm64 libsqlite3-dev arm64 3.46.1-1 [1058 kB]
Get: 593 http://deb.debian.org/debian trixie/main arm64 libjbig-dev arm64 2.1-6.1+b2 [30.5 kB]
Get: 594 http://deb.debian.org/debian trixie/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB]
Get: 595 http://deb.debian.org/debian trixie/main arm64 libwebpdemux2 arm64 1.4.0-0.1+b1 [110 kB]
Get: 596 http://deb.debian.org/debian trixie/main arm64 libwebpdecoder3 arm64 1.4.0-0.1+b1 [179 kB]
Get: 597 http://deb.debian.org/debian trixie/main arm64 libsharpyuv-dev arm64 1.4.0-0.1+b1 [115 kB]
Get: 598 http://deb.debian.org/debian trixie/main arm64 libwebp-dev arm64 1.4.0-0.1+b1 [400 kB]
Get: 599 http://deb.debian.org/debian trixie/main arm64 libtiffxx6 arm64 4.5.1+git230720-5 [149 kB]
Get: 600 http://deb.debian.org/debian trixie/main arm64 liblerc-dev arm64 4.0.0+ds-5 [164 kB]
Get: 601 http://deb.debian.org/debian trixie/main arm64 libtiff-dev arm64 4.5.1+git230720-5 [451 kB]
Get: 602 http://deb.debian.org/debian trixie/main arm64 libproj-dev arm64 9.5.1-1 [135 kB]
Get: 603 http://deb.debian.org/debian trixie/main arm64 libgeotiff-dev arm64 1.7.3-1+b1 [96.3 kB]
Get: 604 http://deb.debian.org/debian trixie/main arm64 libgif-dev arm64 5.2.2-1+b1 [47.3 kB]
Get: 605 http://deb.debian.org/debian trixie/main arm64 libicu-dev arm64 72.1-5+b1 [10.3 MB]
Get: 606 http://deb.debian.org/debian trixie/main arm64 libxml2-dev arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [751 kB]
Get: 607 http://deb.debian.org/debian trixie/main arm64 libnetcdf-dev arm64 1:4.9.2-7+b1 [104 kB]
Get: 608 http://deb.debian.org/debian trixie/main arm64 libhdf4-alt-dev arm64 4.3.0-1+b1 [317 kB]
Get: 609 http://deb.debian.org/debian trixie/main arm64 libheif-dev arm64 1.19.3-1 [50.8 kB]
Get: 610 http://deb.debian.org/debian trixie/main arm64 libjson-c-dev arm64 0.18+ds-1 [75.1 kB]
Get: 611 http://deb.debian.org/debian trixie/main arm64 libkmlconvenience1t64 arm64 1.3.0-12+b1 [45.3 kB]
Get: 612 http://deb.debian.org/debian trixie/main arm64 libkmlregionator1t64 arm64 1.3.0-12+b1 [20.8 kB]
Get: 613 http://deb.debian.org/debian trixie/main arm64 libkmlxsd1t64 arm64 1.3.0-12+b1 [29.3 kB]
Get: 614 http://deb.debian.org/debian trixie/main arm64 liburiparser-dev arm64 0.9.8+dfsg-2 [26.7 kB]
Get: 615 http://deb.debian.org/debian trixie/main arm64 libkml-dev arm64 1.3.0-12+b1 [662 kB]
Get: 616 http://deb.debian.org/debian trixie/main arm64 libltdl-dev arm64 2.4.7-8 [165 kB]
Get: 617 http://deb.debian.org/debian trixie/main arm64 liblz4-dev arm64 1.9.4-3+b1 [79.1 kB]
Get: 618 http://deb.debian.org/debian trixie/main arm64 libtirpc-dev arm64 1.3.4+ds-1.3+b1 [192 kB]
Get: 619 http://deb.debian.org/debian trixie/main arm64 libogdi-dev arm64 4.1.1+ds-5 [35.5 kB]
Get: 620 http://deb.debian.org/debian trixie/main arm64 libopenjp2-7-dev arm64 2.5.0-2+b4 [264 kB]
Get: 621 http://deb.debian.org/debian trixie/main arm64 libpcre2-32-0 arm64 10.44-5 [220 kB]
Get: 622 http://deb.debian.org/debian trixie/main arm64 libpcre2-posix3 arm64 10.44-5 [60.5 kB]
Get: 623 http://deb.debian.org/debian trixie/main arm64 libpcre2-dev arm64 10.44-5 [704 kB]
Get: 624 http://deb.debian.org/debian trixie/main arm64 libpoppler-dev arm64 24.08.0-3 [8484 B]
Get: 625 http://deb.debian.org/debian trixie/main arm64 libpoppler-private-dev arm64 24.08.0-3 [193 kB]
Get: 626 http://deb.debian.org/debian trixie/main arm64 libpq-dev arm64 17.2-1 [144 kB]
Get: 627 http://deb.debian.org/debian trixie/main arm64 libqhull8.0 arm64 2020.2-6+b2 [228 kB]
Get: 628 http://deb.debian.org/debian trixie/main arm64 libqhullcpp8.0 arm64 2020.2-6+b2 [104 kB]
Get: 629 http://deb.debian.org/debian trixie/main arm64 libqhull-dev arm64 2020.2-6+b2 [478 kB]
Get: 630 http://deb.debian.org/debian trixie/main arm64 librttopo-dev arm64 1.1.0-3+b2 [212 kB]
Get: 631 http://deb.debian.org/debian trixie/main arm64 libspatialite-dev arm64 5.1.0-3+b2 [1930 kB]
Get: 632 http://deb.debian.org/debian trixie/main arm64 libxerces-c-dev arm64 3.2.4+debian-1.3+b1 [1650 kB]
Get: 633 http://deb.debian.org/debian trixie/main arm64 libodbccr2 arm64 2.3.12-2 [17.1 kB]
Get: 634 http://deb.debian.org/debian trixie/main arm64 unixodbc-dev arm64 2.3.12-2 [216 kB]
Get: 635 http://deb.debian.org/debian trixie/main arm64 libgdal-dev arm64 3.9.3+dfsg-1+b2 [537 kB]
Get: 636 http://deb.debian.org/debian trixie/main arm64 libgl2ps1.4 arm64 1.4.2+dfsg1-2+b1 [37.0 kB]
Get: 637 http://deb.debian.org/debian trixie/main arm64 libgl2ps-dev arm64 1.4.2+dfsg1-2+b1 [23.5 kB]
Get: 638 http://deb.debian.org/debian trixie/main arm64 libglew2.2 arm64 2.2.0-4+b2 [162 kB]
Get: 639 http://deb.debian.org/debian trixie/main arm64 libglew-dev arm64 2.2.0-4+b2 [261 kB]
Get: 640 http://deb.debian.org/debian trixie/main arm64 libhwloc15 arm64 2.11.2-1 [141 kB]
Get: 641 http://deb.debian.org/debian trixie/main arm64 libmunge2 arm64 0.5.15-4+b1 [19.4 kB]
Get: 642 http://deb.debian.org/debian trixie/main arm64 libpciaccess0 arm64 0.17-3+b2 [51.2 kB]
Get: 643 http://deb.debian.org/debian trixie/main arm64 libxnvctrl0 arm64 535.171.04-1+b1 [14.1 kB]
Get: 644 http://deb.debian.org/debian trixie/main arm64 libhwloc-plugins arm64 2.11.2-1 [17.9 kB]
Get: 645 http://deb.debian.org/debian trixie/main arm64 libpmix2t64 arm64 5.0.5-1 [576 kB]
Get: 646 http://deb.debian.org/debian trixie/main arm64 libibumad3 arm64 52.0-2+b1 [27.1 kB]
Get: 647 http://deb.debian.org/debian trixie/main arm64 libibmad5 arm64 52.0-2+b1 [41.5 kB]
Get: 648 http://deb.debian.org/debian trixie/main arm64 libucx0 arm64 1.17.0+ds-3 [959 kB]
Get: 649 http://deb.debian.org/debian trixie/main arm64 libopenmpi40 arm64 5.0.6-3 [2087 kB]
Get: 650 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-310 arm64 1.14.5+repack-1 [1207 kB]
Get: 651 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-fortran-310 arm64 1.14.5+repack-1 [110 kB]
Get: 652 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-hl-310 arm64 1.14.5+repack-1 [66.0 kB]
Get: 653 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-hl-fortran-310 arm64 1.14.5+repack-1 [41.9 kB]
Get: 654 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-cpp-310 arm64 1.14.5+repack-1 [121 kB]
Get: 655 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-hl-cpp-310 arm64 1.14.5+repack-1 [24.2 kB]
Get: 656 http://deb.debian.org/debian trixie/main arm64 openmpi-common all 5.0.6-3 [97.0 kB]
Get: 657 http://deb.debian.org/debian trixie/main arm64 libnl-3-dev arm64 3.7.0-0.3+b1 [101 kB]
Get: 658 http://deb.debian.org/debian trixie/main arm64 libnl-route-3-dev arm64 3.7.0-0.3+b1 [198 kB]
Get: 659 http://deb.debian.org/debian trixie/main arm64 libibverbs-dev arm64 52.0-2+b1 [625 kB]
Get: 660 http://deb.debian.org/debian trixie/main arm64 libnuma-dev arm64 2.0.18-1+b1 [37.8 kB]
Get: 661 http://deb.debian.org/debian trixie/main arm64 libhwloc-dev arm64 2.11.2-1 [237 kB]
Get: 662 http://deb.debian.org/debian trixie/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB]
Get: 663 http://deb.debian.org/debian trixie/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 664 http://deb.debian.org/debian trixie/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 665 http://deb.debian.org/debian trixie/main arm64 libjs-sphinxdoc all 8.1.3-2 [30.3 kB]
Get: 666 http://deb.debian.org/debian trixie/main arm64 libjson-perl all 4.10000-1 [87.5 kB]
Get: 667 http://deb.debian.org/debian trixie/main arm64 sphinx-common all 8.1.3-2 [616 kB]
Get: 668 http://deb.debian.org/debian trixie/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB]
Get: 669 http://deb.debian.org/debian trixie/main arm64 python-babel-localedata all 2.16.0-1 [5696 kB]
Get: 670 http://deb.debian.org/debian trixie/main arm64 python3-babel all 2.16.0-1 [114 kB]
Get: 671 http://deb.debian.org/debian trixie/main arm64 python3-roman all 4.2-1 [10.4 kB]
Get: 672 http://deb.debian.org/debian trixie/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB]
Get: 673 http://deb.debian.org/debian trixie/main arm64 python3-imagesize all 1.4.1-1 [6688 B]
Get: 674 http://deb.debian.org/debian trixie/main arm64 python3-markupsafe arm64 2.1.5-1+b3 [14.0 kB]
Get: 675 http://deb.debian.org/debian trixie/main arm64 python3-jinja2 all 3.1.3-1.1 [120 kB]
Get: 676 http://deb.debian.org/debian trixie/main arm64 python3-packaging all 24.2-1 [55.3 kB]
Get: 677 http://deb.debian.org/debian trixie/main arm64 python3-pygments all 2.18.0+dfsg-1 [836 kB]
Get: 678 http://deb.debian.org/debian trixie/main arm64 python3-certifi all 2024.8.30+dfsg-1 [9576 B]
Get: 679 http://deb.debian.org/debian trixie/main arm64 python3-charset-normalizer arm64 3.4.0-1+b1 [129 kB]
Get: 680 http://deb.debian.org/debian trixie/main arm64 python3-idna all 3.8-2 [41.6 kB]
Get: 681 http://deb.debian.org/debian trixie/main arm64 python3-urllib3 all 2.2.3-4 [112 kB]
Get: 682 http://deb.debian.org/debian trixie/main arm64 python3-chardet all 5.2.0+dfsg-1 [107 kB]
Get: 683 http://deb.debian.org/debian trixie/main arm64 python3-requests all 2.32.3+dfsg-1 [71.9 kB]
Get: 684 http://deb.debian.org/debian trixie/main arm64 python3-snowballstemmer all 2.2.0-4 [58.0 kB]
Get: 685 http://deb.debian.org/debian trixie/main arm64 python3-sphinx all 8.1.3-2 [468 kB]
Get: 686 http://deb.debian.org/debian trixie/main arm64 libpmix-dev arm64 5.0.5-1 [3931 kB]
Get: 687 http://deb.debian.org/debian trixie/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB]
Get: 688 http://deb.debian.org/debian trixie/main arm64 openmpi-bin arm64 5.0.6-3 [180 kB]
Get: 689 http://deb.debian.org/debian trixie/main arm64 libopenmpi-dev arm64 5.0.6-3 [1088 kB]
Get: 690 http://deb.debian.org/debian trixie/main arm64 libhdf5-openmpi-dev arm64 1.14.5+repack-1 [3344 kB]
Get: 691 http://deb.debian.org/debian trixie/main arm64 mpi-default-dev arm64 1.17 [3148 B]
Get: 692 http://deb.debian.org/debian trixie/main arm64 libhdf5-mpi-dev arm64 1.14.5+repack-1 [18.5 kB]
Get: 693 http://deb.debian.org/debian trixie/main arm64 libice-dev arm64 2:1.1.1-1 [73.0 kB]
Get: 694 http://deb.debian.org/debian trixie/main arm64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB]
Get: 695 http://deb.debian.org/debian trixie/main arm64 libjsoncpp-dev arm64 1.9.6-3 [25.0 kB]
Get: 696 http://deb.debian.org/debian trixie/main arm64 libkim-api2 arm64 2.3.0-1+b2 [532 kB]
Get: 697 http://deb.debian.org/debian trixie/main arm64 libkim-api-dev arm64 2.3.0-1+b2 [104 kB]
Get: 698 http://deb.debian.org/debian trixie/main arm64 libogg-dev arm64 1.3.5-3+b2 [200 kB]
Get: 699 http://deb.debian.org/debian trixie/main arm64 libpdfbox-java all 1:1.8.16-5 [5527 kB]
Get: 700 http://deb.debian.org/debian trixie/main arm64 libpnetcdf6 arm64 1.14.0-2 [797 kB]
Get: 701 http://deb.debian.org/debian trixie/main arm64 libpnetcdf-dev arm64 1.14.0-2 [1060 kB]
Get: 702 http://deb.debian.org/debian trixie/main arm64 libpython3.12t64 arm64 3.12.8-3 [1983 kB]
Get: 703 http://deb.debian.org/debian trixie/main arm64 libpython3.12-dev arm64 3.12.8-3 [4823 kB]
Get: 704 http://deb.debian.org/debian trixie/main arm64 libpython3-dev arm64 3.12.7-1 [9980 B]
Get: 705 http://deb.debian.org/debian trixie/main arm64 libpython3.13-stdlib arm64 3.13.1-2 [1913 kB]
Get: 706 http://deb.debian.org/debian trixie/main arm64 libpython3.13 arm64 3.13.1-2 [1971 kB]
Get: 707 http://deb.debian.org/debian trixie/main arm64 libpython3.13-dev arm64 3.13.1-2 [4709 kB]
Get: 708 http://deb.debian.org/debian trixie/main arm64 libpython3-all-dev arm64 3.12.7-1 [1072 B]
Get: 709 http://deb.debian.org/debian trixie/main arm64 libqt5designer5 arm64 5.15.15-4 [2721 kB]
Get: 710 http://deb.debian.org/debian trixie/main arm64 libqt5designercomponents5 arm64 5.15.15-4 [707 kB]
Get: 711 http://deb.debian.org/debian trixie/main arm64 libqt5help5 arm64 5.15.15-4 [145 kB]
Get: 712 http://deb.debian.org/debian trixie/main arm64 libqt5opengl5t64 arm64 5.15.15+dfsg-2 [144 kB]
Get: 713 http://deb.debian.org/debian trixie/main arm64 libqt5opengl5-dev arm64 5.15.15+dfsg-2 [51.4 kB]
Get: 714 http://deb.debian.org/debian trixie/main arm64 libqt5sql5-sqlite arm64 5.15.15+dfsg-2 [58.2 kB]
Get: 715 http://deb.debian.org/debian trixie/main arm64 libsm-dev arm64 2:1.2.4-1 [38.0 kB]
Get: 716 http://deb.debian.org/debian trixie/main arm64 libswscale8 arm64 7:7.1-3 [198 kB]
Get: 717 http://deb.debian.org/debian trixie/main arm64 libswscale-dev arm64 7:7.1-3 [219 kB]
Get: 718 http://deb.debian.org/debian trixie/main arm64 libsymspg2 arm64 2.5.0-1+b1 [192 kB]
Get: 719 http://deb.debian.org/debian trixie/main arm64 libsymspg-dev arm64 2.5.0-1+b1 [37.2 kB]
Get: 720 http://deb.debian.org/debian trixie/main arm64 libtbbmalloc2 arm64 2021.12.0-1 [35.2 kB]
Get: 721 http://deb.debian.org/debian trixie/main arm64 libtbbbind-2-5 arm64 2021.12.0-1 [14.1 kB]
Get: 722 http://deb.debian.org/debian trixie/main arm64 libtbb12 arm64 2021.12.0-1 [63.5 kB]
Get: 723 http://deb.debian.org/debian trixie/main arm64 libtbb-dev arm64 2021.12.0-1 [193 kB]
Get: 724 http://deb.debian.org/debian trixie/main arm64 libtcl8.6 arm64 8.6.15+dfsg-2 [982 kB]
Get: 725 http://deb.debian.org/debian trixie/main arm64 libtheora-dev arm64 1.1.1+dfsg.1-17 [170 kB]
Get: 726 http://deb.debian.org/debian trixie/main arm64 libxss1 arm64 1:1.2.3-1+b2 [17.1 kB]
Get: 727 http://deb.debian.org/debian trixie/main arm64 libtk8.6 arm64 8.6.15-1 [738 kB]
Get: 728 http://deb.debian.org/debian trixie/main arm64 libutfcpp-dev all 4.0.5-1 [12.9 kB]
Get: 729 http://deb.debian.org/debian trixie/main arm64 libvoro++1 arm64 0.5+revert-to-0.4.6+dfsg1-1+b1 [109 kB]
Get: 730 http://deb.debian.org/debian trixie/main arm64 libvtk9.3 arm64 9.3.0+dfsg1-1.1+b2 [20.7 MB]
Get: 731 http://deb.debian.org/debian trixie/main arm64 libvtk9.3-qt arm64 9.3.0+dfsg1-1.1+b2 [163 kB]
Get: 732 http://deb.debian.org/debian trixie/main arm64 libvtk9-java arm64 9.3.0+dfsg1-1.1+b2 [6339 kB]
Get: 733 http://deb.debian.org/debian trixie/main arm64 libxrender-dev arm64 1:0.9.10-1.1+b3 [35.7 kB]
Get: 734 http://deb.debian.org/debian trixie/main arm64 libxft-dev arm64 2.3.6-1+b3 [72.0 kB]
Get: 735 http://deb.debian.org/debian trixie/main arm64 libxss-dev arm64 1:1.2.3-1+b2 [22.8 kB]
Get: 736 http://deb.debian.org/debian trixie/main arm64 libxt-dev arm64 1:1.2.1-1.2+b1 [403 kB]
Get: 737 http://deb.debian.org/debian trixie/main arm64 mpi-default-bin arm64 1.17 [2372 B]
Get: 738 http://deb.debian.org/debian trixie/main arm64 python3-mpi4py arm64 4.0.1-6+b1 [806 kB]
Get: 739 http://deb.debian.org/debian trixie/main arm64 python3-vtk9 arm64 9.3.0+dfsg1-1.1+b2 [7011 kB]
Get: 740 http://deb.debian.org/debian trixie/main arm64 tcl8.6 arm64 8.6.15+dfsg-2 [121 kB]
Get: 741 http://deb.debian.org/debian trixie/main arm64 tcl8.6-dev arm64 8.6.15+dfsg-2 [1009 kB]
Get: 742 http://deb.debian.org/debian trixie/main arm64 tcl arm64 8.6.14 [4032 B]
Get: 743 http://deb.debian.org/debian trixie/main arm64 tcl-dev arm64 8.6.14 [6572 B]
Get: 744 http://deb.debian.org/debian trixie/main arm64 tk8.6 arm64 8.6.15-1 [69.7 kB]
Get: 745 http://deb.debian.org/debian trixie/main arm64 tk8.6-dev arm64 8.6.15-1 [761 kB]
Get: 746 http://deb.debian.org/debian trixie/main arm64 tk arm64 8.6.14 [4076 B]
Get: 747 http://deb.debian.org/debian trixie/main arm64 tk-dev arm64 8.6.14 [3892 B]
Get: 748 http://deb.debian.org/debian trixie/main arm64 vtk9 arm64 9.3.0+dfsg1-1.1+b2 [19.6 kB]
Get: 749 http://deb.debian.org/debian trixie/main arm64 libvtk9-dev arm64 9.3.0+dfsg1-1.1+b2 [3052 kB]
Get: 750 http://deb.debian.org/debian trixie/main arm64 qdoc-qt5 arm64 5.15.15-4 [546 kB]
Get: 751 http://deb.debian.org/debian trixie/main arm64 qhelpgenerator-qt5 arm64 5.15.15-4 [57.2 kB]
Get: 752 http://deb.debian.org/debian trixie/main arm64 qt5-assistant arm64 5.15.15-4 [346 kB]
Get: 753 http://deb.debian.org/debian trixie/main arm64 qtattributionsscanner-qt5 arm64 5.15.15-4 [30.8 kB]
Get: 754 http://deb.debian.org/debian trixie/main arm64 qttools5-dev-tools arm64 5.15.15-4 [1007 kB]
Get: 755 http://deb.debian.org/debian trixie/main arm64 qttools5-dev arm64 5.15.15-4 [191 kB]
Get: 756 http://deb.debian.org/debian trixie/main arm64 qttools5-private-dev arm64 5.15.15-4 [73.9 kB]
Get: 757 http://deb.debian.org/debian trixie/main arm64 libvtk9-qt-dev arm64 9.3.0+dfsg1-1.1+b2 [32.4 kB]
Get: 758 http://deb.debian.org/debian trixie/main arm64 opencl-c-headers all 3.0~2024.10.24-2 [46.8 kB]
Get: 759 http://deb.debian.org/debian trixie/main arm64 opencl-clhpp-headers all 3.0~2024.10.24-2 [50.7 kB]
Get: 760 http://deb.debian.org/debian trixie/main arm64 ocl-icd-opencl-dev arm64 2.3.2-1+b2 [8660 B]
Get: 761 http://deb.debian.org/debian trixie/main arm64 preview-latex-style all 13.2-1 [350 kB]
Get: 762 http://deb.debian.org/debian trixie/main arm64 python3-pyproject-hooks all 1.2.0-1 [11.7 kB]
Get: 763 http://deb.debian.org/debian trixie/main arm64 python3-toml all 0.10.2-1 [16.2 kB]
Get: 764 http://deb.debian.org/debian trixie/main arm64 python3-wheel all 0.45.1-1 [56.7 kB]
Get: 765 http://deb.debian.org/debian trixie/main arm64 python3-build all 1.2.2-1 [36.0 kB]
Get: 766 http://deb.debian.org/debian trixie/main arm64 python3-installer all 0.7.0+dfsg1-3 [18.6 kB]
Get: 767 http://deb.debian.org/debian trixie/main arm64 pybuild-plugin-pyproject all 6.20241217 [11.5 kB]
Get: 768 http://deb.debian.org/debian trixie/main arm64 python3.13 arm64 3.13.1-2 [740 kB]
Get: 769 http://deb.debian.org/debian trixie/main arm64 python3-all arm64 3.12.7-1 [1052 B]
Get: 770 http://deb.debian.org/debian trixie/main arm64 python3.12-dev arm64 3.12.8-3 [505 kB]
Get: 771 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.12.7-1 [26.1 kB]
Get: 772 http://deb.debian.org/debian trixie/main arm64 python3.13-dev arm64 3.13.1-2 [504 kB]
Get: 773 http://deb.debian.org/debian trixie/main arm64 python3-all-dev arm64 3.12.7-1 [1076 B]
Get: 774 http://deb.debian.org/debian trixie/main arm64 python3-breathe all 4.35.0-3 [78.2 kB]
Get: 775 http://deb.debian.org/debian trixie/main arm64 python3-enchant all 3.2.2-1 [39.2 kB]
Get: 776 http://deb.debian.org/debian trixie/main arm64 python3-pip-whl all 24.3.1+dfsg-1 [1501 kB]
Get: 777 http://deb.debian.org/debian trixie/main arm64 python3-setuptools-whl all 75.6.0-1 [1239 kB]
Get: 778 http://deb.debian.org/debian trixie/main arm64 python3-sphinx-tabs all 3.4.7-1 [14.7 kB]
Get: 779 http://deb.debian.org/debian trixie/main arm64 python3-sphinxcontrib.jquery all 4.1-5 [7348 B]
Get: 780 http://deb.debian.org/debian trixie/main arm64 python3-sphinxcontrib.spelling all 7.7.0-1 [34.3 kB]
Get: 781 http://deb.debian.org/debian trixie/main arm64 python3.12-venv arm64 3.12.8-3 [5836 B]
Get: 782 http://deb.debian.org/debian trixie/main arm64 python3-venv arm64 3.12.7-1 [1180 B]
Get: 783 http://deb.debian.org/debian trixie/main arm64 sphinx-rtd-theme-common all 3.0.2+dfsg-1 [1023 kB]
Get: 784 http://deb.debian.org/debian trixie/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 785 http://deb.debian.org/debian trixie/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB]
Get: 786 http://deb.debian.org/debian trixie/main arm64 tex-gyre all 20180621-6 [6209 kB]
Get: 787 http://deb.debian.org/debian trixie/main arm64 texlive-fonts-recommended all 2024.20241115-1 [4991 kB]
Get: 788 http://deb.debian.org/debian trixie/main arm64 texlive-latex-recommended all 2024.20241115-1 [8757 kB]
Get: 789 http://deb.debian.org/debian trixie/main arm64 texlive-pictures all 2024.20241115-1 [17.0 MB]
Get: 790 http://deb.debian.org/debian trixie/main arm64 texlive-latex-extra all 2024.20241115-1 [24.6 MB]
Get: 791 http://deb.debian.org/debian trixie/main arm64 voro++-dev arm64 0.5+revert-to-0.4.6+dfsg1-1+b1 [139 kB]
Fetched 731 MB in 4s (163 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package libapparmor1:arm64.
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Preparing to unpack .../libapparmor1_3.1.7-1+b3_arm64.deb ...
Unpacking libapparmor1:arm64 (3.1.7-1+b3) ...
Selecting previously unselected package libsystemd-shared:arm64.
Preparing to unpack .../libsystemd-shared_257-2_arm64.deb ...
Unpacking libsystemd-shared:arm64 (257-2) ...
Selecting previously unselected package systemd.
Preparing to unpack .../systemd_257-2_arm64.deb ...
Unpacking systemd (257-2) ...
Setting up libapparmor1:arm64 (3.1.7-1+b3) ...
Setting up libsystemd-shared:arm64 (257-2) ...
Setting up systemd (257-2) ...
Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'.

Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'.

Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'.

Initializing machine ID from random generator.

Creating group 'systemd-journal' with GID 999.

Creating group 'systemd-network' with GID 998.

Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998.

/usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring.

Selecting previously unselected package systemd-sysv.
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Setting up sgml-base (1.31) ...
Setting up cmake-data (3.30.5-1) ...
Setting up librhash1:arm64 (1.4.5-1) ...
Setting up libcdt5:arm64 (2.42.4-2+b1) ...
Setting up libkrb5-3:arm64 (1.21.3-3) ...
Setting up libcgraph6:arm64 (2.42.4-2+b1) ...
Setting up libboost-dev:arm64 (1.83.0.2+b2) ...
Setting up libevent-core-2.1-7t64:arm64 (2.1.12-stable-10+b1) ...
Setting up libglu1-mesa:arm64 (9.0.2-1.1+b2) ...
Setting up libwayland-egl1:arm64 (1.23.0-1+b1) ...
Setting up libmbedcrypto16:arm64 (3.6.2-3) ...
Setting up libssh2-1t64:arm64 (1.11.1-1) ...
Setting up libopengl-dev:arm64 (1.7.0-1+b2) ...
Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
Setting up libhunspell-1.7-0:arm64 (1.7.2+really1.7.2-10+b3) ...
Setting up dbus-system-bus-common (1.16.0-1) ...
useradd: Warning: missing or non-executable shell '/usr/sbin/nologin'
Setting up libfido2-1:arm64 (1.15.0-1+b1) ...
Setting up libde265-0:arm64 (1.0.15-1+b2) ...
Setting up libsharpyuv-dev:arm64 (1.4.0-0.1+b1) ...
Setting up libkmlbase1t64:arm64 (1.3.0-12+b1) ...
Setting up libvoro++1 (0.5+revert-to-0.4.6+dfsg1-1+b1) ...
Setting up libtasn1-6-dev:arm64 (4.19.0-3+b3) ...
Setting up openssl (3.3.2-2) ...
Setting up libwebpmux3:arm64 (1.4.0-0.1+b1) ...
Setting up libtiffxx6:arm64 (4.5.1+git230720-5) ...
Setting up libdeflate-dev:arm64 (1.22-1) ...
Setting up libdrm-common (2.4.123-1) ...
Setting up libyuv0:arm64 (0.0.1898.20241125-1) ...
Setting up libxcomposite1:arm64 (1:0.4.6-1) ...
Setting up libjson-c5:arm64 (0.18+ds-1) ...
Setting up libevdev2:arm64 (1.13.3+dfsg-1) ...
Setting up readline-common (8.2-6) ...
Setting up libicu-dev:arm64 (72.1-5+b1) ...
Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ...
Setting up sphinx-rtd-theme-common (3.0.2+dfsg-1) ...
Setting up xdg-utils (1.2.1-2) ...
update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
Setting up iso-codes (4.17.0-1) ...
Setting up dbus-bin (1.16.0-1) ...
Setting up libbrotli-dev:arm64 (1.1.0-2+b6) ...
Setting up libgudev-1.0-0:arm64 (238-5+b1) ...
Setting up libfmt10:arm64 (10.1.1+ds1-4) ...
Setting up libzvbi-common (0.2.43-2) ...
Setting up libngtcp2-crypto-gnutls8:arm64 (1.9.1-1) ...
Setting up qtchooser (66-2+b1) ...
Setting up libgstreamer1.0-0:arm64 (1.24.10-2) ...
Setcap worked! gst-ptp-helper is not suid!
Setting up libp11-kit-dev:arm64 (0.25.5-2+b1) ...
Setting up libmp3lame0:arm64 (3.100-6+b3) ...
Setting up libblas-dev:arm64 (3.12.0-4) ...
update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode
Setting up libsz2:arm64 (1.1.3-1+b1) ...
Setting up libvorbisenc2:arm64 (1.3.7-2+b1) ...
Setting up libsynctex2:arm64 (2024.20240313.70630+ds-5) ...
Setting up libdvdnav4:arm64 (6.1.1-3+b1) ...
Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ...
Setting up libodbccr2:arm64 (2.3.12-2) ...
Setting up gdal-plugins:arm64 (3.9.3+dfsg-1+b2) ...
Setting up libwacom-common (2.13.0-1) ...
Setting up libbz2-dev:arm64 (1.0.8-6) ...
Setting up libxkbcommon0:arm64 (1.7.0-2) ...
Setting up libpotrace0:arm64 (1.16-2+b2) ...
Setting up libwayland-client0:arm64 (1.23.0-1+b1) ...
Setting up automake (1:1.16.5-1.3) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libgfortran-14-dev:arm64 (14.2.0-8) ...
Setting up pinentry-curses (1.2.1-4+b1) ...
Setting up x11proto-dev (2024.1-1) ...
Setting up libfile-stripnondeterminism-perl (1.14.0-1) ...
Setting up libxcb-dri3-0:arm64 (1.17.0-2+b1) ...
Setting up libllvm19:arm64 (1:19.1.6-1) ...
Setting up libx11-xcb1:arm64 (2:1.8.10-2) ...
Setting up libice6:arm64 (2:1.1.1-1) ...
Setting up libjsoncpp-dev:arm64 (1.9.6-3) ...
Setting up libodbcinst2:arm64 (2.3.12-2) ...
Setting up tcl8.6 (8.6.15+dfsg-2) ...
Setting up liblapack3:arm64 (3.12.0-4) ...
update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode
Setting up libkmlxsd1t64:arm64 (1.3.0-12+b1) ...
Setting up gettext (0.22.5-3) ...
Setting up libarpack2t64:arm64 (3.9.1-4) ...
Setting up libxdamage1:arm64 (1:1.1.6-1+b2) ...
Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ...
Setting up libatk1.0-0t64:arm64 (2.54.0-1) ...
Setting up libclang1-19 (1:19.1.6-1) ...
Setting up libpdfbox-java (1:1.8.16-5) ...
Setting up libxau-dev:arm64 (1:1.0.11-1) ...
Setting up libxpm4:arm64 (1:3.5.17-1+b2) ...
Setting up libsymspg-dev:arm64 (2.5.0-1+b1) ...
Setting up qt5-qmake:arm64 (5.15.15+dfsg-2) ...
Setting up libpcre2-dev:arm64 (10.44-5) ...
Setting up libzvbi0t64:arm64 (0.2.43-2) ...
Setting up nettle-dev:arm64 (3.10-1+b1) ...
Setting up libwoff1:arm64 (1.0.2-2+b2) ...
Setting up libxrender1:arm64 (1:0.9.10-1.1+b3) ...
Setting up libice-dev:arm64 (2:1.1.1-1) ...
Setting up dictionaries-common (1.30.2) ...
Setting up voro++-dev (0.5+revert-to-0.4.6+dfsg1-1+b1) ...
Setting up libtool (2.4.7-8) ...
Setting up libblosc-dev:arm64 (1.21.5+ds-1+b2) ...
Setting up libfftw3-bin (3.3.10-2+b1) ...
Setting up libwacom9:arm64 (2.13.0-1) ...
Setting up libevent-pthreads-2.1-7t64:arm64 (2.1.12-stable-10+b1) ...
Setting up fontconfig-config (2.15.0-1.1+b1) ...
Setting up libjson-c-dev:arm64 (0.18+ds-1) ...
Setting up libgeos-c1t64:arm64 (3.13.0-1) ...
Setting up libfyba-dev:arm64 (4.1.1-11+b1) ...
Setting up libwebpdemux2:arm64 (1.4.0-0.1+b1) ...
Setting up tcl8.6-dev:arm64 (8.6.15+dfsg-2) ...
Setting up libevent-openssl-2.1-7t64:arm64 (2.1.12-stable-10+b1) ...
Setting up libpng-dev:arm64 (1.6.44-3) ...
Setting up libcommons-parent-java (56-1) ...
Setting up libaec-dev:arm64 (1.1.3-1+b1) ...
Setting up libavahi-common3:arm64 (0.8-15) ...
Setting up libjpeg-dev:arm64 (1:2.1.5-3+b1) ...
Setting up libjbig-dev:arm64 (2.1-6.1+b2) ...
Setting up libcloudproviders0:arm64 (0.3.6-1+b1) ...
Setting up libcommons-logging-java (1.3.0-1) ...
Setting up libxext6:arm64 (2:1.3.4-1+b2) ...
Setting up libnss3:arm64 (2:3.106-1) ...
Setting up dbus-daemon (1.16.0-1) ...
Setting up libkim-api2:arm64 (2.3.0-1+b2) ...
Setting up libkim-api-dev (2.3.0-1+b2) ...
Setting up libldap-2.5-0:arm64 (2.5.18+dfsg-3+b1) ...
Setting up libcolord2:arm64 (1.4.7-1+b2) ...
Setting up libsuperlu7:arm64 (7.0.0+dfsg1-2) ...
Setting up pkgconf:arm64 (1.8.1-4) ...
Setting up libxxf86vm1:arm64 (1:1.1.4-1+b3) ...
Setting up libinput-bin (1.26.2-1) ...
Setting up libtbbbind-2-5:arm64 (2021.12.0-1) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up liburiparser-dev (0.9.8+dfsg-2) ...
Setting up libnuma-dev:arm64 (2.0.18-1+b1) ...
Setting up libnl-route-3-200:arm64 (3.7.0-0.3+b1) ...
Setting up libxnvctrl0:arm64 (535.171.04-1+b1) ...
Setting up librist4:arm64 (0.2.11+dfsg-1) ...
Setting up libdconf1:arm64 (0.40.0-4+b3) ...
Setting up libkmldom1t64:arm64 (1.3.0-12+b1) ...
Setting up dh-autoreconf (20) ...
Setting up libminizip-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ...
Setting up libltdl-dev:arm64 (2.4.7-8) ...
Setting up libthai0:arm64 (0.1.29-2+b1) ...
Setting up ca-certificates (20240203) ...
Updating certificates in /etc/ssl/certs...
146 added, 0 removed; done.
Setting up libvorbisfile3:arm64 (1.3.7-2+b1) ...
Setting up libxdmcp-dev:arm64 (1:1.1.5-1) ...
Setting up libxml2-dev:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ...
Setting up libwebp-dev:arm64 (1.4.0-0.1+b1) ...
Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
Setting up libptexenc1:arm64 (2024.20240313.70630+ds-5) ...
Setting up libllvm17t64:arm64 (1:17.0.6-18) ...
Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ...
Setting up libtiff-dev:arm64 (4.5.1+git230720-5) ...
Setting up libopenjp2-7-dev:arm64 (2.5.0-2+b4) ...
Setting up libxfixes3:arm64 (1:6.0.0-2+b3) ...
Setting up libldap-dev:arm64 (2.5.18+dfsg-3+b1) ...
Setting up libgeos-dev (3.13.0-1) ...
Setting up dbus (1.16.0-1) ...
Running in chroot, ignoring request.

invoke-rc.d: policy-rc.d denied execution of start.
Setting up libopenexr-3-1-30:arm64 (3.1.5-5.1+b3) ...
Setting up shared-mime-info (2.4-5+b1) ...
Setting up libxinerama1:arm64 (2:1.1.4-3+b3) ...
Setting up opencl-clhpp-headers (3.0~2024.10.24-2) ...
Setting up libx265-209:arm64 (3.6-3+b1) ...
Setting up libxkbcommon-x11-0:arm64 (1.7.0-2) ...
Setting up liblapack-dev:arm64 (3.12.0-4) ...
update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode
Setting up libeigen3-dev (3.4.0-4) ...
Setting up libgssapi-krb5-2:arm64 (1.21.3-3) ...
Setting up libxrandr2:arm64 (2:1.5.4-1+b2) ...
Setting up pkg-config:arm64 (1.8.1-4) ...
Setting up libgav1-1:arm64 (0.19.0-2+b2) ...
Setting up ucf (3.0045) ...
Setting up libssh2-1-dev:arm64 (1.11.1-1) ...
Setting up libjs-sphinxdoc (8.1.3-2) ...
Setting up ocl-icd-opencl-dev:arm64 (2.3.2-1+b2) ...
Setting up libssh-4:arm64 (0.11.1-1) ...
Setting up libevent-extra-2.1-7t64:arm64 (2.1.12-stable-10+b1) ...
Setting up libhdf4-0-alt:arm64 (4.3.0-1+b1) ...
Setting up libmariadb-dev (1:11.4.3-1) ...
Setting up libreadline8t64:arm64 (8.2-6) ...
Setting up dh-strip-nondeterminism (1.14.0-1) ...
Setting up libgvpr2:arm64 (2.42.4-2+b1) ...
Setting up libdrm2:arm64 (2.4.123-1) ...
Setting up librttopo1:arm64 (1.1.0-3+b2) ...
Setting up libnl-3-dev:arm64 (3.7.0-0.3+b1) ...
Setting up libfreexl1:arm64 (2.0.0-1+b3) ...
Setting up libva-drm2:arm64 (2.22.0-1+b1) ...
Setting up groff-base (1.23.0-6) ...
Setting up libvdpau1:arm64 (1.5-3+b1) ...
Setting up libwayland-cursor0:arm64 (1.23.0-1+b1) ...
Setting up xml-core (0.19) ...
Setting up tcl (8.6.14) ...
Setting up gfortran-14-aarch64-linux-gnu (14.2.0-8) ...
Setting up libxslt1.1:arm64 (1.1.35-1.1+b1) ...
Setting up gpgconf (2.2.45-2) ...
Setting up hunspell-en-us (1:2020.12.07-3) ...
Setting up libpam-systemd:arm64 (257-2) ...
Setting up libharfbuzz0b:arm64 (10.1.0-1) ...
Setting up gfortran-aarch64-linux-gnu (4:14.2.0-1) ...
Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.12+dfsg-1+b1) ...
Setting up libarmadillo14 (1:14.2.1+dfsg-1) ...
Setting up libhwloc-dev:arm64 (2.11.2-1) ...
Setting up libamd-comgr2:arm64 (6.0+git20231212.4510c28+dfsg-3+b2) ...
Setting up libxss1:arm64 (1:1.2.3-1+b2) ...
Setting up libfontconfig1:arm64 (2.15.0-1.1+b1) ...
Setting up ca-certificates-java (20240118) ...
No JRE found. Skipping Java certificates setup.
Setting up libbluray2:arm64 (1:1.3.4-1+b2) ...
Setting up gfortran-14 (14.2.0-8) ...
Setting up libsuperlu-dev:arm64 (7.0.0+dfsg1-2) ...
Setting up libva-x11-2:arm64 (2.22.0-1+b1) ...
Setting up libsm6:arm64 (2:1.2.4-1) ...
Setting up libarchive13t64:arm64 (3.7.4-1.1) ...
Setting up libpython3.13-stdlib:arm64 (3.13.1-2) ...
Setting up libfftw3-dev:arm64 (3.3.10-2+b1) ...
Setting up unixodbc-dev:arm64 (2.3.12-2) ...
Setting up libopenmpt0t64:arm64 (0.7.12-1) ...
Setting up libavahi-client3:arm64 (0.8-15) ...
Setting up gpg (2.2.45-2) ...
Setting up libclang-cpp19 (1:19.1.6-1) ...
Setting up libdrm-amdgpu1:arm64 (2.4.123-1) ...
Setting up libpython3.13:arm64 (3.13.1-2) ...
Setting up libgnutls28-dev:arm64 (3.8.8-2) ...
Setting up libmariadb-dev-compat (1:11.4.3-1) ...
Setting up libinput10:arm64 (1.26.2-1) ...
Setting up libpaper1:arm64 (1.1.29+b2) ...
Creating config file /etc/papersize with new version
Setting up gtk-update-icon-cache (4.16.7+ds-1) ...
Setting up librttopo-dev:arm64 (1.1.0-3+b2) ...
Setting up libnghttp2-dev:arm64 (1.64.0-1) ...
Setting up libibverbs1:arm64 (52.0-2+b1) ...
Setting up fontconfig (2.15.0-1.1+b1) ...
Regenerating fonts cache... done.
Setting up libavif16:arm64 (1.1.1-1) ...
Setting up libxft2:arm64 (2.3.6-1+b3) ...
Setting up libarpack2-dev:arm64 (3.9.1-4) ...
Setting up gpg-agent (2.2.45-2) ...
Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'.

Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'.

Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'.

Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'.

Setting up libxcb1-dev:arm64 (1.17.0-2+b1) ...
Setting up libzmq5:arm64 (4.3.5-1+b3) ...
Setting up openjdk-21-jre-headless:arm64 (21.0.5+11-1) ...
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode
Setting up libxi6:arm64 (2:1.8.2-1) ...
Setting up libcurl4t64:arm64 (8.11.1-1) ...
Setting up libtirpc3t64:arm64 (1.3.4+ds-1.3+b1) ...
Setting up ibverbs-providers:arm64 (52.0-2+b1) ...
Setting up libogdi4.1:arm64 (4.1.1+ds-5) ...
Setting up libenchant-2-2:arm64 (2.8.2+dfsg1-1) ...
Setting up python3.13 (3.13.1-2) ...
Setting up python3-pip-whl (24.3.1+dfsg-1) ...
Setting up libsm-dev:arm64 (2:1.2.4-1) ...
Setting up libdrm-radeon1:arm64 (2.4.123-1) ...
Setting up openssh-client (1:9.9p1-3) ...
Setting up libfreexl-dev:arm64 (2.0.0-1+b3) ...
Setting up libxtst6:arm64 (2:1.2.3-1.1+b3) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libtk8.6:arm64 (8.6.15-1) ...
Setting up libxcursor1:arm64 (1:1.2.2-1+b1) ...
Setting up gpgsm (2.2.45-2) ...
Setting up libpango-1.0-0:arm64 (1.55.0+ds-3) ...
Setting up libpq5:arm64 (17.2-1) ...
Setting up libx11-dev:arm64 (2:1.8.10-2) ...
Setting up libcurl3t64-gnutls:arm64 (8.11.1-1) ...
Setting up libjxl0.9:arm64 (0.9.2-10+b1) ...
Setting up libgstreamer-plugins-base1.0-0:arm64 (1.24.10-1) ...
Setting up libpq-dev (17.2-1) ...
Setting up libtbb12:arm64 (2021.12.0-1) ...
Setting up libkmlengine1t64:arm64 (1.3.0-12+b1) ...
Setting up libpaper-utils (1.1.29+b2) ...
Setting up libxerces-c3.2t64:arm64 (3.2.4+debian-1.3+b1) ...
Setting up xfonts-utils (1:7.7+7) ...
Setting up libhwloc-plugins:arm64 (2.11.2-1) ...
Setting up man-db (2.13.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'.

Setting up libavutil59:arm64 (7:7.1-3) ...
Setting up gfortran (4:14.2.0-1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libcairo2:arm64 (1.18.2-2) ...
Setting up libfreetype-dev:arm64 (2.13.3+dfsg-1) ...
Setting up tex-common (6.18) ...
update-language: texlive-base not installed and configured, doing nothing!
Setting up libnl-route-3-dev:arm64 (3.7.0-0.3+b1) ...
Setting up dirmngr (2.2.45-2) ...
Created symlink '/etc/systemd/user/sockets.target.wants/dirmngr.socket' -> '/usr/lib/systemd/user/dirmngr.socket'.

Setting up dbus-user-session (1.16.0-1) ...
Setting up libswresample5:arm64 (7:7.1-3) ...
Setting up libqt5core5t64:arm64 (5.15.15+dfsg-2) ...
Setting up libswscale8:arm64 (7:7.1-3) ...
Setting up doxygen (1.9.8+ds-2+b3) ...
Setting up libtirpc-dev:arm64 (1.3.4+ds-1.3+b1) ...
Setting up libcfitsio10t64:arm64 (4.5.0-5) ...
Setting up adwaita-icon-theme (47.0-2) ...
update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode
Setting up libxerces-c-dev:arm64 (3.2.4+debian-1.3+b1) ...
Setting up libgssrpc4t64:arm64 (1.21.3-3) ...
Setting up libatspi2.0-0t64:arm64 (2.54.0-1) ...
Setting up libraqm0:arm64 (0.10.2-1) ...
Setting up libpython3.13-dev:arm64 (3.13.1-2) ...
Setting up sphinx-common (8.1.3-2) ...
Setting up libxt6t64:arm64 (1:1.2.1-1.2+b1) ...
Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ...
Setting up qtattributionsscanner-qt5 (5.15.15-4) ...
Setting up libevent-dev (2.1.12-stable-10+b1) ...
Setting up libpmix2t64:arm64 (5.0.5-1) ...
Setting up git (1:2.45.2-1) ...
Setting up tcl-dev:arm64 (8.6.14) ...
Setting up libxext-dev:arm64 (2:1.3.4-1+b2) ...
Setting up libhdf5-310:arm64 (1.14.5+repack-1) ...
Setting up libtheora0:arm64 (1.1.1+dfsg.1-17) ...
Setting up libnsl2:arm64 (1.3.0-3+b3) ...
Setting up gnupg (2.2.45-2) ...
Setting up libqt5sql5t64:arm64 (5.15.15+dfsg-2) ...
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/usr/lib/python3/dist-packages/vtkmodules/util/vtkMethodParser.py:304: SyntaxWarning: invalid escape sequence '\S'
  patn = re.compile ("  \S")
/usr/lib/python3/dist-packages/vtkmodules/util/vtkMethodParser.py:304: SyntaxWarning: invalid escape sequence '\S'
  patn = re.compile ("  \S")
Setting up libqt5opengl5-dev:arm64 (5.15.15+dfsg-2) ...
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Processing triggers for libc-bin (2.40-4) ...
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Processing triggers for ca-certificates-java (20240118) ...
Adding debian:ACCVRAIZ1.pem
Adding debian:AC_RAIZ_FNMT-RCM.pem
Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem
Adding debian:ANF_Secure_Server_Root_CA.pem
Adding debian:Actalis_Authentication_Root_CA.pem
Adding debian:AffirmTrust_Commercial.pem
Adding debian:AffirmTrust_Networking.pem
Adding debian:AffirmTrust_Premium.pem
Adding debian:AffirmTrust_Premium_ECC.pem
Adding debian:Amazon_Root_CA_1.pem
Adding debian:Amazon_Root_CA_2.pem
Adding debian:Amazon_Root_CA_3.pem
Adding debian:Amazon_Root_CA_4.pem
Adding debian:Atos_TrustedRoot_2011.pem
Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem
Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem
Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem
Adding debian:BJCA_Global_Root_CA1.pem
Adding debian:BJCA_Global_Root_CA2.pem
Adding debian:Baltimore_CyberTrust_Root.pem
Adding debian:Buypass_Class_2_Root_CA.pem
Adding debian:Buypass_Class_3_Root_CA.pem
Adding debian:CA_Disig_Root_R2.pem
Adding debian:CFCA_EV_ROOT.pem
Adding debian:COMODO_Certification_Authority.pem
Adding debian:COMODO_ECC_Certification_Authority.pem
Adding debian:COMODO_RSA_Certification_Authority.pem
Adding debian:Certainly_Root_E1.pem
Adding debian:Certainly_Root_R1.pem
Adding debian:Certigna.pem
Adding debian:Certigna_Root_CA.pem
Adding debian:Certum_EC-384_CA.pem
Adding debian:Certum_Trusted_Network_CA.pem
Adding debian:Certum_Trusted_Network_CA_2.pem
Adding debian:Certum_Trusted_Root_CA.pem
Adding debian:CommScope_Public_Trust_ECC_Root-01.pem
Adding debian:CommScope_Public_Trust_ECC_Root-02.pem
Adding debian:CommScope_Public_Trust_RSA_Root-01.pem
Adding debian:CommScope_Public_Trust_RSA_Root-02.pem
Adding debian:Comodo_AAA_Services_root.pem
Adding debian:D-TRUST_BR_Root_CA_1_2020.pem
Adding debian:D-TRUST_EV_Root_CA_1_2020.pem
Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem
Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem
Adding debian:DigiCert_Assured_ID_Root_CA.pem
Adding debian:DigiCert_Assured_ID_Root_G2.pem
Adding debian:DigiCert_Assured_ID_Root_G3.pem
Adding debian:DigiCert_Global_Root_CA.pem
Adding debian:DigiCert_Global_Root_G2.pem
Adding debian:DigiCert_Global_Root_G3.pem
Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem
Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem
Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem
Adding debian:DigiCert_Trusted_Root_G4.pem
Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem
Adding debian:Entrust_Root_Certification_Authority.pem
Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem
Adding debian:Entrust_Root_Certification_Authority_-_G2.pem
Adding debian:Entrust_Root_Certification_Authority_-_G4.pem
Adding debian:GDCA_TrustAUTH_R5_ROOT.pem
Adding debian:GLOBALTRUST_2020.pem
Adding debian:GTS_Root_R1.pem
Adding debian:GTS_Root_R2.pem
Adding debian:GTS_Root_R3.pem
Adding debian:GTS_Root_R4.pem
Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem
Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem
Adding debian:GlobalSign_Root_CA.pem
Adding debian:GlobalSign_Root_CA_-_R3.pem
Adding debian:GlobalSign_Root_CA_-_R6.pem
Adding debian:GlobalSign_Root_E46.pem
Adding debian:GlobalSign_Root_R46.pem
Adding debian:Go_Daddy_Class_2_CA.pem
Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem
Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem
Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem
Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem
Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem
Adding debian:HiPKI_Root_CA_-_G1.pem
Adding debian:Hongkong_Post_Root_CA_3.pem
Adding debian:ISRG_Root_X1.pem
Adding debian:ISRG_Root_X2.pem
Adding debian:IdenTrust_Commercial_Root_CA_1.pem
Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem
Adding debian:Izenpe.com.pem
Adding debian:Microsec_e-Szigno_Root_CA_2009.pem
Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem
Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem
Adding debian:NAVER_Global_Root_Certification_Authority.pem
Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem
Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem
Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem
Adding debian:QuoVadis_Root_CA_1_G3.pem
Adding debian:QuoVadis_Root_CA_2.pem
Adding debian:QuoVadis_Root_CA_2_G3.pem
Adding debian:QuoVadis_Root_CA_3.pem
Adding debian:QuoVadis_Root_CA_3_G3.pem
Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem
Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem
Adding debian:SSL.com_Root_Certification_Authority_ECC.pem
Adding debian:SSL.com_Root_Certification_Authority_RSA.pem
Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem
Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem
Adding debian:SZAFIR_ROOT_CA2.pem
Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem
Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem
Adding debian:SecureSign_RootCA11.pem
Adding debian:SecureTrust_CA.pem
Adding debian:Secure_Global_CA.pem
Adding debian:Security_Communication_ECC_RootCA1.pem
Adding debian:Security_Communication_RootCA2.pem
Adding debian:Security_Communication_RootCA3.pem
Adding debian:Security_Communication_Root_CA.pem
Adding debian:Starfield_Class_2_CA.pem
Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem
Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem
Adding debian:SwissSign_Gold_CA_-_G2.pem
Adding debian:SwissSign_Silver_CA_-_G2.pem
Adding debian:T-TeleSec_GlobalRoot_Class_2.pem
Adding debian:T-TeleSec_GlobalRoot_Class_3.pem
Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem
Adding debian:TWCA_Global_Root_CA.pem
Adding debian:TWCA_Root_Certification_Authority.pem
Adding debian:TeliaSonera_Root_CA_v1.pem
Adding debian:Telia_Root_CA_v2.pem
Adding debian:TrustAsia_Global_Root_CA_G3.pem
Adding debian:TrustAsia_Global_Root_CA_G4.pem
Adding debian:Trustwave_Global_Certification_Authority.pem
Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem
Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem
Adding debian:TunTrust_Root_CA.pem
Adding debian:UCA_Extended_Validation_Root.pem
Adding debian:UCA_Global_G2_Root.pem
Adding debian:USERTrust_ECC_Certification_Authority.pem
Adding debian:USERTrust_RSA_Certification_Authority.pem
Adding debian:XRamp_Global_CA_Root.pem
Adding debian:certSIGN_ROOT_CA.pem
Adding debian:certSIGN_Root_CA_G2.pem
Adding debian:e-Szigno_Root_CA_2017.pem
Adding debian:ePKI_Root_Certification_Authority.pem
Adding debian:emSign_ECC_Root_CA_-_C3.pem
Adding debian:emSign_ECC_Root_CA_-_G3.pem
Adding debian:emSign_Root_CA_-_C1.pem
Adding debian:emSign_Root_CA_-_G1.pem
Adding debian:vTrus_ECC_Root_CA.pem
Adding debian:vTrus_Root_CA.pem
done.
Setting up openjdk-21-jre:arm64 (21.0.5+11-1) ...
Setting up openjdk-21-jdk-headless:arm64 (21.0.5+11-1) ...
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jar to provide /usr/bin/jar (jar) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javac to provide /usr/bin/javac (javac) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javap to provide /usr/bin/javap (javap) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jps to provide /usr/bin/jps (jps) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode
Setting up default-jre-headless (2:1.21-76) ...
Setting up default-jre (2:1.21-76) ...
Setting up openjdk-21-jdk:arm64 (21.0.5+11-1) ...
update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode
Setting up default-jdk-headless (2:1.21-76) ...
Setting up default-jdk (2:1.21-76) ...
Processing triggers for sgml-base (1.31) ...
Setting up docutils-common (0.21.2+dfsg-2) ...
Processing triggers for sgml-base (1.31) ...
Setting up python3-docutils (0.21.2+dfsg-2) ...
Setting up python3-sphinx (8.1.3-2) ...
Setting up libpmix-dev:arm64 (5.0.5-1) ...
Setting up python3-sphinxcontrib.spelling (7.7.0-1) ...
Setting up python3-breathe (4.35.0-3) ...
Setting up python3-sphinxcontrib.jquery (4.1-5) ...
Setting up python3-sphinx-tabs (3.4.7-1) ...
Setting up libopenmpi-dev:arm64 (5.0.6-3) ...
update-alternatives: using /usr/lib/aarch64-linux-gnu/openmpi/include to provide /usr/include/aarch64-linux-gnu/mpi (mpi-aarch64-linux-gnu) in auto mode
Setting up libhdf5-openmpi-dev (1.14.5+repack-1) ...
update-alternatives: using /usr/bin/h5pcc.openmpi to provide /usr/bin/h5pcc (h5pcc) in auto mode
update-alternatives: using /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5-openmpi.pc to provide /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode
update-alternatives: updating alternative /usr/bin/mpicc.openmpi because link group mpi has changed slave links
update-alternatives: using /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5-mpi.pc to provide /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode
Setting up mpi-default-dev (1.17) ...
Setting up libhdf5-mpi-dev:arm64 (1.14.5+repack-1) ...
Setting up libvtk9-dev:arm64 (9.3.0+dfsg1-1.1+b2) ...
Setting up libvtk9-qt-dev:arm64 (9.3.0+dfsg1-1.1+b2) ...
Processing triggers for dictionaries-common (1.30.2) ...
Processing triggers for ca-certificates (20240203) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
Processing triggers for tex-common (6.18) ...
Running updmap-sys. This may take some time... done.
Running mktexlsr /var/lib/texmf ... done.
Building format(s) --all.
	This may take some time... done.
Processing triggers for ca-certificates-java (20240118) ...
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
Reading package lists...
Building dependency tree...
Reading state information...
fakeroot is already the newest version (1.36.2-1).
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
I: Building the package
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/A99_set_merged_usr starting
Not re-configuring usrmerge for trixie
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/A99_set_merged_usr finished
hostname: Name or service not known
I: Running cd /build/reproducible-path/lammps-20240207+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S  > ../lammps_20240207+dfsg-2_source.changes
dpkg-buildpackage: info: source package lammps
dpkg-buildpackage: info: source version 20240207+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Anton Gladky <gladk@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
 fakeroot debian/rules clean
dh clean --with python3,sphinxdoc --sourcedirectory=cmake --builddirectory=/build/reproducible-path/lammps-20240207+dfsg/debian/build
   dh_auto_clean -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules execute_after_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
rm -rf /build/reproducible-path/lammps-20240207+dfsg/debian/build
rm -rf .pybuild
rm -rf python/build
rm -rf python/lammps.egg-info
rm -f python/examples/log.lammps
if [ -d doc/html.orig ]; then \
  rm -rf doc/html; \
  mv doc/html.orig doc/html; \
fi
rm -rf doc/docenv doc/doctrees doc/utils/sphinx-config/conf.py
rm -rf doc/doxygen/xml doc/doxygen-warn.log doc/doxygen/Doxyfile
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_autoreconf_clean -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_clean -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
 debian/rules build
dh build --with python3,sphinxdoc --sourcedirectory=cmake --builddirectory=/build/reproducible-path/lammps-20240207+dfsg/debian/build
   dh_update_autotools_config -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_autoreconf -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
dh_auto_configure -- \
	-DBUILD_SHARED_LIBS=ON \
	-DCMAKE_SKIP_INSTALL_RPATH=TRUE \
	-DPKG_ASPHERE=ON \
	-DPKG_ATC=ON \
	-DPKG_AWPMD=ON \
	-DPKG_BOCS=ON \
	-DPKG_BODY=ON \
	-DPKG_CG-DNA=ON \
	-DPKG_CG-SPICA=ON \
	-DPKG_CLASS2=ON \
	-DPKG_COLLOID=ON \
	-DPKG_COMPRESS=ON \
	-DPKG_CORESHELL=ON \
	-DPKG_EXTRA-PAIR=ON \
	-DPKG_DIELECTRIC=ON \
	-DPKG_DIFFRACTION=ON \
	-DPKG_DIPOLE=ON \
	-DPKG_DPD-BASIC=ON \
	-DPKG_DRUDE=ON \
	-DPKG_EFF=ON \
	-DPKG_ELECTRODE=ON \
	-DUSE_INTERNAL_LINALG=no \
	-DPKG_FEP=ON \
	-DPKG_GPU=OFF \
	-DPKG_GRANULAR=ON \
	-DPKG_H5MD=ON \
	-DPKG_KIM=ON \
	-DPKG_KSPACE=ON \
	-DPKG_LATBOLTZ=ON \
	-DPKG_MANIFOLD=ON \
	-DPKG_MANYBODY=ON \
	-DPKG_MC=ON \
	-DPKG_MEAM=ON \
	-DPKG_MGPT=ON \
	-DPKG_MISC=ON \
	-DPKG_MOFFF=ON \
	-DPKG_MOLFILE=ON \
	-DPKG_MPIIO=ON \
	-DPKG_MOLECULE=ON \
	-DPKG_NETCDF=ON \
	-DPKG_OPENMP==ON \
	-DPKG_OPT=ON \
	-DPKG_ORIENT=ON \
	-DPKG_PERI=ON \
	-DPKG_PHONON=ON \
	-DPKG_POEMS=ON \
	-DPKG_PYTHON=ON \
	-DPKG_QEQ=ON \
	-DPKG_QTB=ON \
	-DPKG_REAXFF=OFF \
	-DPKG_REPLICA=ON \
	-DPKG_RIGID=ON \
	-DPKG_SHOCK=ON \
	-DPKG_SMTBQ=ON \
	-DPKG_SNAP=ON \
	-DPKG_SPH=ON \
	-DPKG_SRD=ON \
	-DPKG_TALLY=ON \
	-DPKG_UEF=ON \
	-DPKG_VTK=ON \
	-DPKG_VORONOI=ON
	cd debian/build && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu -DBUILD_SHARED_LIBS=ON -DCMAKE_SKIP_INSTALL_RPATH=TRUE -DPKG_ASPHERE=ON -DPKG_ATC=ON -DPKG_AWPMD=ON -DPKG_BOCS=ON -DPKG_BODY=ON -DPKG_CG-DNA=ON -DPKG_CG-SPICA=ON -DPKG_CLASS2=ON -DPKG_COLLOID=ON -DPKG_COMPRESS=ON -DPKG_CORESHELL=ON -DPKG_EXTRA-PAIR=ON -DPKG_DIELECTRIC=ON -DPKG_DIFFRACTION=ON -DPKG_DIPOLE=ON -DPKG_DPD-BASIC=ON -DPKG_DRUDE=ON -DPKG_EFF=ON -DPKG_ELECTRODE=ON -DUSE_INTERNAL_LINALG=no -DPKG_FEP=ON -DPKG_GPU=OFF -DPKG_GRANULAR=ON -DPKG_H5MD=ON -DPKG_KIM=ON -DPKG_KSPACE=ON -DPKG_LATBOLTZ=ON -DPKG_MANIFOLD=ON -DPKG_MANYBODY=ON -DPKG_MC=ON -DPKG_MEAM=ON -DPKG_MGPT=ON -DPKG_MISC=ON -DPKG_MOFFF=ON -DPKG_MOLFILE=ON -DPKG_MPIIO=ON -DPKG_MOLECULE=ON -DPKG_NETCDF=ON -DPKG_OPENMP==ON -DPKG_OPT=ON -DPKG_ORIENT=ON -DPKG_PERI=ON -DPKG_PHONON=ON -DPKG_POEMS=ON -DPKG_PYTHON=ON -DPKG_QEQ=ON -DPKG_QTB=ON -DPKG_REAXFF=OFF -DPKG_REPLICA=ON -DPKG_RIGID=ON -DPKG_SHOCK=ON -DPKG_SMTBQ=ON -DPKG_SNAP=ON -DPKG_SPH=ON -DPKG_SRD=ON -DPKG_TALLY=ON -DPKG_UEF=ON -DPKG_VTK=ON -DPKG_VORONOI=ON ../../cmake
-- The CXX compiler identification is GNU 14.2.0
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found Git: /usr/bin/git (found version "2.45.2")
-- Running check for auto-generated files from make-based build system
-- Found MPI_CXX: /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1")
-- Found MPI: TRUE (found version "3.1")
-- Looking for C++ include omp.h
-- Looking for C++ include omp.h - found
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5") found components: CXX
-- The C compiler identification is GNU 14.2.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Looking for sgemm_
-- Looking for sgemm_ - not found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: /usr/lib/aarch64-linux-gnu/libblas.so
-- Looking for cheev_
-- Looking for cheev_ - not found
-- Looking for cheev_
-- Looking for cheev_ - found
-- Found LAPACK: /usr/lib/aarch64-linux-gnu/liblapack.so;/usr/lib/aarch64-linux-gnu/libblas.so
-- Found JPEG: /usr/lib/aarch64-linux-gnu/libjpeg.so (found version "62")
-- Found PNG: /usr/lib/aarch64-linux-gnu/libpng.so (found version "1.6.44")
-- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.3.1")
-- Found GZIP: /usr/bin/gzip
-- Could NOT find FFMPEG (missing: FFMPEG_EXECUTABLE) 
-- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1")
-- Checking for module 'fftw3'
--   Found fftw3, version 3.3.10
-- Found FFTW3: /usr/lib/aarch64-linux-gnu/libfftw3.so
-- Found Python: /usr/bin/python3 (found version "3.12.8") found components: Interpreter
-- Found Python: /usr/bin/python3 (found version "3.12.8") found components: Interpreter Development Development.Module Development.Embed
-- Found VORO: /usr/lib/aarch64-linux-gnu/libvoro++.so
-- Found NetCDF: /usr/lib/aarch64-linux-gnu/libnetcdf.so
-- Found PNetCDF: /usr/lib/aarch64-linux-gnu/libpnetcdf.so
-- Found Python3: /usr/bin/python3 (found suitable version "3.12.8", minimum required is "3.12") found components: Interpreter Development.Module Development.Embed
-- Found GLEW: /usr/lib/aarch64-linux-gnu/libGLEW.so
-- Found OpenGL: /usr/lib/aarch64-linux-gnu/libOpenGL.so  found components: OpenGL GLX
-- Found MPI_C: /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1")
-- Found MPI: TRUE (found version "3.1") found components: C
-- Found HDF5: /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/aarch64-linux-gnu/libcrypto.so;/usr/lib/aarch64-linux-gnu/libcurl.so;/usr/lib/aarch64-linux-gnu/libpthread.a;/usr/lib/aarch64-linux-gnu/libsz.so;/usr/lib/aarch64-linux-gnu/libz.so;/usr/lib/aarch64-linux-gnu/libdl.a;/usr/lib/aarch64-linux-gnu/libm.so (found version "1.14.5") found components: C HL
-- Found NetCDF: /usr/include (found version "4.9.2")
-- Found OGG: /usr/lib/aarch64-linux-gnu/libogg.so
-- Found THEORA: /usr/lib/aarch64-linux-gnu/libtheora.so
-- Found LibPROJ: /usr/lib/aarch64-linux-gnu/libproj.so (found version "9.5.1")
-- Found JsonCpp: /usr/lib/aarch64-linux-gnu/libjsoncpp.so (found suitable version "1.9.6", minimum required is "0.7.0")
-- Found LibXml2: /usr/lib/aarch64-linux-gnu/libxml2.so (found version "2.9.14")
-- Found GL2PS: /usr/lib/aarch64-linux-gnu/libgl2ps.so (found suitable version "1.4.2", minimum required is "1.4.2")
-- Found SQLite3: /usr/include (found version "3.46.1")
-- Found Eigen3: /usr/include/eigen3 (found version "3.4.0")
-- Found X11: /usr/include
-- Looking for XOpenDisplay in /usr/lib/aarch64-linux-gnu/libX11.so;/usr/lib/aarch64-linux-gnu/libXext.so
-- Looking for XOpenDisplay in /usr/lib/aarch64-linux-gnu/libX11.so;/usr/lib/aarch64-linux-gnu/libXext.so - found
-- Looking for gethostbyname
-- Looking for gethostbyname - found
-- Looking for connect
-- Looking for connect - found
-- Looking for remove
-- Looking for remove - found
-- Looking for shmat
-- Looking for shmat - found
-- Looking for IceConnectionNumber in ICE
-- Looking for IceConnectionNumber in ICE - found
-- Found EXPAT: /usr/lib/aarch64-linux-gnu/libexpat.so (found version "2.6.4")
-- Found double-conversion: /usr/lib/aarch64-linux-gnu/libdouble-conversion.so
-- Found LZ4: /usr/lib/aarch64-linux-gnu/liblz4.so (found version "1.9.4")
-- Found LZMA: /usr/lib/aarch64-linux-gnu/liblzma.so (found version "5.6.3")
-- Found TIFF: /usr/lib/aarch64-linux-gnu/libtiff.so (found version "4.5.1")
-- Could NOT find freetype (missing: freetype_DIR)
-- Found Freetype: /usr/lib/aarch64-linux-gnu/libfreetype.so (found version "2.13.3")
-- Found utf8cpp: /usr/include/utf8cpp
-- Found CURL: /usr/lib/aarch64-linux-gnu/libcurl.so (found version "8.11.1")
-- Found KIM-API: /usr/lib/aarch64-linux-gnu/libkim-api.so.2.3.0
-- Checking for module 'libzstd>=1.4'
--   Found libzstd, version 1.5.6
-- Looking for C++ include cmath
-- Looking for C++ include cmath - found
-- Found HDF5: /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/aarch64-linux-gnu/libcrypto.so;/usr/lib/aarch64-linux-gnu/libcurl.so;/usr/lib/aarch64-linux-gnu/libpthread.a;/usr/lib/aarch64-linux-gnu/libsz.so;/usr/lib/aarch64-linux-gnu/libz.so;/usr/lib/aarch64-linux-gnu/libdl.a;/usr/lib/aarch64-linux-gnu/libm.so (found version "1.14.5")
-- Generating style headers...
-- Generating package headers...
-- Generating lmpinstalledpkgs.h...
-- Found Python: /usr/bin/python3 (found version "3.12.8") found components: Interpreter
-- Found Python3: /usr/bin/python3 (found version "3.12.8") found components: Interpreter
-- Could NOT find ClangFormat (missing: ClangFormat_EXECUTABLE) (Required is at least version "8.0")
-- The following tools and libraries have been found and configured:
 * Git
 * OpenMP
 * LAPACK
 * BLAS
 * FFTW3
 * VORO
 * PNetCDF
 * Qt5Core (required version >= 5.15.15)
 * Qt5Gui (required version >= 5.15.15)
 * GLEW
 * OpenGL
 * MPI
 * NetCDF
 * THEORA
 * OGG
 * LibPROJ
 * JsonCpp (required version >= 0.7.0)
 * LibXml2
 * GL2PS (required version >= 1.4.2)
 * PNG
 * SQLite3
 * Qt5OpenGL
 * Qt5Widgets
 * Qt5 (required version >= 5.15)
 * Eigen3
 * X11
 * EXPAT
 * double-conversion
 * LZ4
 * LZMA
 * JPEG
 * TIFF
 * freetype
 * Freetype
 * TBB
 * Threads
 * utf8cpp
 * VTK
 * CURL
 * KIM-API (required version >= 2.2.0)
 * ZLIB
 * HDF5
 * Python
 * Python3

-- <<< Build configuration >>>
   LAMMPS Version:   20240207 
   Operating System: Linux Debian 
   CMake Version:    3.30.5
   Build type:       None
   Install path:     /usr
   Generator:        Unix Makefiles using /usr/bin/gmake
-- Enabled packages: ASPHERE;ATC;AWPMD;BOCS;BODY;CG-DNA;CG-SPICA;CLASS2;COLLOID;COMPRESS;CORESHELL;DIELECTRIC;DIFFRACTION;DIPOLE;DPD-BASIC;DRUDE;EFF;ELECTRODE;EXTRA-PAIR;FEP;GRANULAR;H5MD;KIM;KSPACE;LATBOLTZ;MANIFOLD;MANYBODY;MC;MEAM;MGPT;MISC;MOFFF;MOLECULE;MOLFILE;NETCDF;OPENMP;OPT;ORIENT;PERI;PHONON;POEMS;PYTHON;QEQ;QTB;REPLICA;RIGID;SHOCK;SMTBQ;SPH;SRD;TALLY;UEF;VORONOI;VTK
-- <<< Compilers and Flags: >>>
-- C++ Compiler:     /usr/bin/c++
      Type:          GNU
      Version:       14.2.0
      C++ Flags:    -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 
      Defines:       LAMMPS_SMALLBIG;LAMMPS_MEMALIGN=64;LAMMPS_OMP_COMPAT=4;LAMMPS_JPEG;LAMMPS_PNG;LAMMPS_GZIP;FFT_FFTW3;FFT_FFTW_THREADS;LMP_PYTHON;LMP_HAS_NETCDF;LMP_HAS_PNETCDF;NC_64BIT_DATA=0x0020;LAMMPS_VTK;LMP_KIM_CURL;LAMMPS_ZSTD;LMP_OPENMP
-- C compiler:       /usr/bin/cc
      Type:          GNU
      Version:       14.2.0
      C Flags:      -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 
-- <<< Linker flags: >>>
-- Executable name:  lmp
-- Executable linker flags: -Wl,-z,relro
-- Shared library flags:    -Wl,-z,relro
-- <<< MPI flags >>>
-- MPI_defines:      MPICH_SKIP_MPICXX;OMPI_SKIP_MPICXX;_MPICC_H
-- MPI includes:     /usr/lib/aarch64-linux-gnu/openmpi/include;/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi
-- MPI libraries:    /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so;
-- <<< FFT settings >>>
-- Primary FFT lib:  FFTW3
-- Using double precision FFTs
-- Using threaded FFTs
-- Using builtin distributed FFT algorithms
-- Configuring done (13.3s)
-- Generating done (0.2s)
-- Build files have been written to: /build/reproducible-path/lammps-20240207+dfsg/debian/build
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[  0%] Generating includes/lammps/comm.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/comm.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/comm.h
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[  0%] Built target gitversion
make  -f CMakeFiles/compute.h.dir/build.make CMakeFiles/compute.h.dir/depend
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/compute.h.dir/DependInfo.cmake "--color="
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[  0%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/body23joint.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/body23joint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/body23joint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/body23joint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/body23joint.cpp
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[  0%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.cpp
make  -f CMakeFiles/compute.h.dir/build.make CMakeFiles/compute.h.dir/build
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/dihedral.h.dir/DependInfo.cmake "--color="
[  0%] Built target comm.h
[  0%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatmap.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatmap.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatmap.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatmap.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatmap.cpp
make  -f CMakeFiles/domain.h.dir/build.make CMakeFiles/domain.h.dir/depend
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/domain.h.dir/DependInfo.cmake "--color="
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make  -f CMakeFiles/dihedral.h.dir/build.make CMakeFiles/dihedral.h.dir/build
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[  0%] Building CXX object CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd.cpp.o
[  0%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMass.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMass.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMass.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMass.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMass.cpp
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/ivutils/include -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd.cpp.o -MF CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd.cpp.o.d -o CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd.cpp
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/compute.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/compute.h
[  0%] Generating includes/lammps/dihedral.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/dihedral.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/dihedral.h
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/error.h.dir/DependInfo.cmake "--color="
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/domain.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/domain.h
[  0%] Built target compute.h
make  -f CMakeFiles/exceptions.h.dir/build.make CMakeFiles/exceptions.h.dir/depend
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/exceptions.h.dir/DependInfo.cmake "--color="
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[  0%] Generating includes/lammps/error.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/error.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/error.h
make  -f CMakeFiles/exceptions.h.dir/build.make CMakeFiles/exceptions.h.dir/build
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[  1%] Built target domain.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/fix.h.dir/DependInfo.cmake "--color="
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[  1%] Built target error.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/force.h.dir/DependInfo.cmake "--color="
/usr/bin/cmake -E cmake_link_script CMakeFiles/h5md.dir/link.txt --verbose=1
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/group.h.dir/DependInfo.cmake "--color="
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make  -f CMakeFiles/force.h.dir/build.make CMakeFiles/force.h.dir/build
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/usr/bin/ar qc liblammps_h5md.a "CMakeFiles/h5md.dir/build/reproducible-path/lammps-20240207+dfsg/lib/h5md/src/ch5md.c.o"
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/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/force.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/force.h
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[  1%] Built target fix.h
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/improper.h.dir/DependInfo.cmake "--color="
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[  2%] Building CXX object CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd_split.cpp.o
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/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/ivutils/include -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd_split.cpp.o -MF CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd_split.cpp.o.d -o CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd_split.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd_split.cpp
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
make  -f CMakeFiles/improper.h.dir/build.make CMakeFiles/improper.h.dir/build
[  2%] Built target force.h
[  2%] Built target h5md
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/input.h.dir/DependInfo.cmake "--color="
[  2%] Built target group.h
make  -f CMakeFiles/info.h.dir/build.make CMakeFiles/info.h.dir/depend
[  2%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatrix.cpp.o
[  2%] Generating includes/lammps/improper.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/improper.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/improper.h
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatrix.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatrix.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/colmatrix.cpp
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/info.h.dir/DependInfo.cmake "--color="
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make  -f CMakeFiles/kspace.h.dir/build.make CMakeFiles/kspace.h.dir/depend
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/kspace.h.dir/DependInfo.cmake "--color="
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[  3%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/eulerparameters.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/eulerparameters.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/eulerparameters.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/eulerparameters.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/eulerparameters.cpp
make  -f CMakeFiles/kspace.h.dir/build.make CMakeFiles/kspace.h.dir/build
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[  3%] Generating includes/lammps/kspace.h
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/lammps.h.dir/DependInfo.cmake "--color="
[  3%] Built target info.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/lattice.h.dir/DependInfo.cmake "--color="
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[  3%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fastmatrixops.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fastmatrixops.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fastmatrixops.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fastmatrixops.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/fastmatrixops.cpp
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
[  3%] Built target kspace.h
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[  3%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.cpp.o
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/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.cpp
make  -f CMakeFiles/library.h.dir/build.make CMakeFiles/library.h.dir/depend
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
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[  3%] Generating includes/lammps/lattice.h
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[  3%] Built target lattice.h
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/lmppython.h.dir/DependInfo.cmake "--color="
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/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fixedpoint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fixedpoint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/fixedpoint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/fixedpoint.cpp
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/modify.h.dir/DependInfo.cmake "--color="
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[  3%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/freebodyjoint.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/freebodyjoint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/freebodyjoint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/freebodyjoint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/freebodyjoint.cpp
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[  3%] Built target memory.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/neighbor.h.dir/DependInfo.cmake "--color="
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[  3%] Built target modify.h
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[  4%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/inertialframe.cpp.o
[  4%] Generating includes/lammps/neighbor.h
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/inertialframe.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/inertialframe.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/inertialframe.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/inertialframe.cpp
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/neighbor.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/neighbor.h
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
make  -f CMakeFiles/neigh_list.h.dir/build.make CMakeFiles/neigh_list.h.dir/build
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[  5%] Generating includes/lammps/neigh_list.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/neigh_list.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/neigh_list.h
[  5%] Built target neighbor.h
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/output.h.dir/DependInfo.cmake "--color="
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/pair.h.dir/DependInfo.cmake "--color="
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/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/output.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/output.h
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[  5%] Generating includes/lammps/pair.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/pair.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/pair.h
[  5%] Built target output.h
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[  5%] Built target pair.h
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
make  -f CMakeFiles/pointers.h.dir/build.make CMakeFiles/pointers.h.dir/depend
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/pointers.h.dir/DependInfo.cmake "--color="
[  5%] Generating includes/lammps/platform.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/platform.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/platform.h
[  5%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/joint.cpp.o
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/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/joint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/joint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/joint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/joint.cpp
make  -f CMakeFiles/pointers.h.dir/build.make CMakeFiles/pointers.h.dir/build
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[  5%] Built target platform.h
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[  5%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat3x3.cpp.o
[  5%] Generating includes/lammps/pointers.h
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat3x3.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat3x3.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat3x3.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat3x3.cpp
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/region.h.dir/DependInfo.cmake "--color="
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/pointers.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/pointers.h
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make  -f CMakeFiles/region.h.dir/build.make CMakeFiles/region.h.dir/build
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[  5%] Built target pointers.h
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/timer.h.dir/DependInfo.cmake "--color="
[  5%] Generating includes/lammps/region.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/region.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/region.h
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make  -f CMakeFiles/timer.h.dir/build.make CMakeFiles/timer.h.dir/build
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[  5%] Generating includes/lammps/timer.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/timer.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/timer.h
[  5%] Built target region.h
make  -f CMakeFiles/universe.h.dir/build.make CMakeFiles/universe.h.dir/depend
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/universe.h.dir/DependInfo.cmake "--color="
[  5%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat4x4.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat4x4.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat4x4.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat4x4.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat4x4.cpp
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
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[  5%] Built target timer.h
make  -f CMakeFiles/update.h.dir/build.make CMakeFiles/update.h.dir/depend
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/update.h.dir/DependInfo.cmake "--color="
[  5%] Generating includes/lammps/universe.h
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[  5%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat6x6.cpp.o
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make  -f CMakeFiles/update.h.dir/build.make CMakeFiles/update.h.dir/build
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat6x6.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat6x6.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat6x6.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/mat6x6.cpp
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[  5%] Built target universe.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/utils.h.dir/DependInfo.cmake "--color="
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/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/utils.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/utils.h
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[  5%] Built target update.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/variable.h.dir/DependInfo.cmake "--color="
[  5%] Built target utils.h
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cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/fmt_core.h.dir/DependInfo.cmake "--color="
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[  6%] Generating includes/lammps/variable.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/variable.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/variable.h
[  6%] Generating includes/lammps/fmt/core.h
/usr/bin/cmake -E copy_if_different /build/reproducible-path/lammps-20240207+dfsg/src/fmt/core.h /build/reproducible-path/lammps-20240207+dfsg/debian/build/includes/lammps/fmt/core.h
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[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrix.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrix.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrix.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrix.cpp
[  6%] Built target variable.h
[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrixfun.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrixfun.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrixfun.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrixfun.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/matrixfun.cpp
[  6%] Built target fmt_core.h
[  6%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.cpp
[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mixedjoint.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mixedjoint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mixedjoint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/mixedjoint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/mixedjoint.cpp
[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/norm.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/norm.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/norm.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/norm.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/norm.cpp
[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onbody.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onbody.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onbody.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onbody.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/onbody.cpp
[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onfunctions.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onfunctions.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onfunctions.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onfunctions.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/onfunctions.cpp
[  6%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onsolver.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onsolver.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onsolver.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/onsolver.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/onsolver.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/particle.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/particle.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/particle.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/particle.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/particle.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemsobject.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemsobject.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemsobject.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemsobject.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemsobject.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemstreenode.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemstreenode.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemstreenode.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemstreenode.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/poemstreenode.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/point.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/point.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/point.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/point.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/point.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/prismaticjoint.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/prismaticjoint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/prismaticjoint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/prismaticjoint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/prismaticjoint.cpp
[  7%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/revolutejoint.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/revolutejoint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/revolutejoint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/revolutejoint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/revolutejoint.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Coupling.h:10,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingEnergy.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rigidbody.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rigidbody.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rigidbody.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rigidbody.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/rigidbody.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rowmatrix.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rowmatrix.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rowmatrix.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/rowmatrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/rowmatrix.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/solver.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/solver.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/solver.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/solver.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/solver.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/sphericaljoint.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/sphericaljoint.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/sphericaljoint.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/sphericaljoint.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/sphericaljoint.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Coupling.h:10,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentum.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Coupling.h:10,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Coupling.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/system.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/system.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/system.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/system.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/system.cpp
[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect3.cpp.o
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[  7%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect4.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect4.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect4.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect4.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect4.cpp
[  8%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect6.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect6.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect6.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect6.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/vect6.cpp
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[  8%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/virtualrowmatrix.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/virtualrowmatrix.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/virtualrowmatrix.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/virtualrowmatrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/virtualrowmatrix.cpp
[  8%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.cpp
[  8%] Building CXX object CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/workspace.cpp.o
/usr/bin/c++  -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/workspace.cpp.o -MF CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/workspace.cpp.o.d -o CMakeFiles/poems.dir/build/reproducible-path/lammps-20240207+dfsg/lib/poems/workspace.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/poems/workspace.cpp
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/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferKernel.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferKernel.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferKernel.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferKernel.cpp
[  8%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferPartitionOfUnity.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferPartitionOfUnity.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferPartitionOfUnity.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferPartitionOfUnity.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TransferPartitionOfUnity.cpp
[  8%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomToMoleculeTransfer.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomToMoleculeTransfer.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomToMoleculeTransfer.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomToMoleculeTransfer.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomToMoleculeTransfer.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Coupling.h:10,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_CouplingMomentumEnergy.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  8%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomicRegulator.cpp.o
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[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/BodyForce.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/BodyForce.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/BodyForce.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/BodyForce.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/BodyForce.cpp
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/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CBLattice.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CBLattice.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CBLattice.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CBLattice.cpp
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/usr/bin/ranlib liblammps_poems.a
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
[  9%] Built target poems
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CBLattice.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CBLattice.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CbPotential.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CbPotential.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CbPotential.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CbPotential.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CbPotential.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.h:4,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/CauchyBorn.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ChargeRegulator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ChargeRegulator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ChargeRegulator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ChargeRegulator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ChargeRegulator.cpp
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ConcentrationRegulator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ConcentrationRegulator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ConcentrationRegulator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ConcentrationRegulator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ConcentrationRegulator.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomicRegulator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomicRegulator.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElasticTimeIntegrator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElasticTimeIntegrator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElasticTimeIntegrator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElasticTimeIntegrator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElasticTimeIntegrator.cpp
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronChargeDensity.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronChargeDensity.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronChargeDensity.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronChargeDensity.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronChargeDensity.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Method.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_Transfer.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronDragPower.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronDragPower.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronDragPower.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronDragPower.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronDragPower.cpp
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.cpp
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatCapacity.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatCapacity.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatCapacity.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatCapacity.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatCapacity.cpp
[  9%] Linking CXX static library liblammps_awpmd.a
/usr/bin/cmake -P CMakeFiles/awpmd.dir/cmake_clean_target.cmake
/usr/bin/cmake -E cmake_link_script CMakeFiles/awpmd.dir/link.txt --verbose=1
/usr/bin/ar qc liblammps_awpmd.a "CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/ivutils/src/logexc.cpp.o" "CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd.cpp.o" "CMakeFiles/awpmd.dir/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact/TCP/wpmd_split.cpp.o"
/usr/bin/ranlib liblammps_awpmd.a
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatFlux.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatFlux.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatFlux.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatFlux.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronHeatFlux.cpp
[  9%] Built target awpmd
[  9%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronPhononExchange.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronPhononExchange.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronPhononExchange.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronPhononExchange.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronPhononExchange.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ElectronFlux.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Interpolate.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Interpolate.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Interpolate.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Interpolate.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Interpolate.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.cpp:3:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Interpolate.cpp:3:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldManager.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldManager.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldManager.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldManager.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldManager.cpp
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Function.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Function.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Function.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Function.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Function.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelElectrostatic.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 10%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FundamentalAtomicQuantity.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FundamentalAtomicQuantity.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FundamentalAtomicQuantity.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/FundamentalAtomicQuantity.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FundamentalAtomicQuantity.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/GhostManager.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/GhostManager.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/GhostManager.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/GhostManager.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/GhostManager.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModel.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelTwoTemperature.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ExtrinsicModelDriftDiffusion.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Element.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Mesh.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.h:9,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FE_Engine.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/InterscaleOperators.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/InterscaleOperators.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/InterscaleOperators.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/InterscaleOperators.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/InterscaleOperators.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KD_Tree.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KD_Tree.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KD_Tree.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KD_Tree.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/KD_Tree.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/FieldEulerIntegrator.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KernelFunction.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KernelFunction.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KernelFunction.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KernelFunction.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/KernelFunction.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Kinetostat.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Kinetostat.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Kinetostat.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Kinetostat.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Kinetostat.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ImplicitSolveOperator.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LinearSolver.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LinearSolver.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LinearSolver.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/LinearSolver.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LinearSolver.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MPI_Wrappers.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MPI_Wrappers.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MPI_Wrappers.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MPI_Wrappers.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MPI_Wrappers.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Matrix.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Matrix.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Matrix.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Matrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Matrix.cpp
[ 11%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MeshReader.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MeshReader.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MeshReader.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MeshReader.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MeshReader.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.h:25,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 12%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MoleculeSet.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MoleculeSet.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MoleculeSet.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/MoleculeSet.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MoleculeSet.cpp
[ 12%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/NonLinearSolver.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/NonLinearSolver.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/NonLinearSolver.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/NonLinearSolver.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/NonLinearSolver.cpp
[ 12%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/OutputManager.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/OutputManager.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/OutputManager.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/OutputManager.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/OutputManager.cpp
[ 12%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PaqAtcUtility.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PaqAtcUtility.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PaqAtcUtility.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PaqAtcUtility.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PaqAtcUtility.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomicRegulator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.h:4,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/KinetoThermostat.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Material.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 12%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParDiagonalMatrix.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParDiagonalMatrix.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParDiagonalMatrix.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParDiagonalMatrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParDiagonalMatrix.cpp
[ 12%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParSparseMatrix.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParSparseMatrix.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParSparseMatrix.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParSparseMatrix.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ParSparseMatrix.cpp
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/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PoissonSolver.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PoissonSolver.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/PoissonSolver.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PoissonSolver.cpp
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/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ThermalTimeIntegrator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ThermalTimeIntegrator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ThermalTimeIntegrator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ThermalTimeIntegrator.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeFilter.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeFilter.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeFilter.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeFilter.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeFilter.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.h:25,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantity.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantityLibrary.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantityLibrary.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LinearSolver.h:5,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PoissonSolver.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PoissonSolver.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PhysicsModel.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PhysicsModel.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Stress.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Stress.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeIntegrator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeIntegrator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeIntegrator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeIntegrator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TimeIntegrator.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Vector.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Vector.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Vector.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/Vector.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Vector.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.cpp
[ 13%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationChargeDiffusion.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationChargeDiffusion.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationChargeDiffusion.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationChargeDiffusion.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationChargeDiffusion.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.h:8,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ViscousStress.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationDiffusion.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationDiffusion.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationDiffusion.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationDiffusion.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationDiffusion.cpp
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronContinuity.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronContinuity.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronContinuity.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronContinuity.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronContinuity.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/AtomicRegulator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.h:4,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/Thermostat.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.h:25,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantity.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantityLibrary.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.h:11,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferLibrary.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.cpp
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronTemperature.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronTemperature.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronTemperature.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronTemperature.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronTemperature.cpp
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMassDiffusion.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMassDiffusion.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMassDiffusion.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMassDiffusion.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMassDiffusion.cpp
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/LammpsInterface.h:25,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantity.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/PerAtomQuantityLibrary.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.h:6,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/TransferOperator.cpp:2:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPhononTemperature.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPhononTemperature.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPhononTemperature.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPhononTemperature.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPhononTemperature.cpp
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPoisson.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPoisson.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPoisson.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPoisson.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationPoisson.cpp
[ 14%] Building CXX object CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationSchrodinger.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/src -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -MD -MT CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationSchrodinger.cpp.o -MF CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationSchrodinger.cpp.o.d -o CMakeFiles/atc.dir/build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationSchrodinger.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationSchrodinger.cpp
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquation.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationElectronMomentum.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
In file included from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/MatrixLibrary.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/ATC_TypeDefs.h:17,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquation.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.h:7,
                 from /build/reproducible-path/lammps-20240207+dfsg/lib/atc/WeakEquationMomentum.cpp:1:
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h: In member function 'T& ATC_matrix::CloneVector<T>::operator[](ATC_matrix::INDEX) [with T = double]':
/build/reproducible-path/lammps-20240207+dfsg/lib/atc/CloneVector.h:117:19: warning: 'this' pointer is null [-Wnonnull]
  117 |   return (*_baseV)(i);
      |          ~~~~~~~~~^~~
[ 14%] Linking CXX static library liblammps_atc.a
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/build/reproducible-path/lammps-20240207+dfsg/src/angle_write.cpp: In member function 'virtual void LAMMPS_NS::AngleWrite::command(int, char**)':
/build/reproducible-path/lammps-20240207+dfsg/src/angle_write.cpp:153:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  153 |       fgets(line, MAXLINE, coeffs);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
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/build/reproducible-path/lammps-20240207+dfsg/src/dihedral_write.cpp: In member function 'virtual void LAMMPS_NS::DihedralWrite::command(int, char**)':
/build/reproducible-path/lammps-20240207+dfsg/src/dihedral_write.cpp:154:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  154 |       fgets(line, MAXLINE, coeffs);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
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[ 31%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/irregular.cpp.o
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[ 32%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/kspace.cpp.o
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[ 32%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/kspace_deprecated.cpp.o
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[ 32%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/lammps.cpp.o
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[ 32%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/math_special.cpp.o
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[ 33%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/minimize.cpp.o
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[ 34%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/neigh_list.cpp.o
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[ 34%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/neigh_request.cpp.o
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[ 34%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/neighbor.cpp.o
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[ 34%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/npair.cpp.o
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[ 34%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/npair_bin.cpp.o
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[ 34%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/npair_copy.cpp.o
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[ 38%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/pair_zero.cpp.o
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[ 39%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/random_mars.cpp.o
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[ 39%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/read_dump.cpp.o
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[ 39%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/reader_xyz.cpp.o
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[ 40%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/region_sphere.cpp.o
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[ 40%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/replicate.cpp.o
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[ 40%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/rerun.cpp.o
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[ 40%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/reset_atoms_id.cpp.o
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[ 41%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/tabular_function.cpp.o
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[ 41%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/thermo.cpp.o
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[ 41%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/timer.cpp.o
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[ 41%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/tokenizer.cpp.o
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[ 41%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/update.cpp.o
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[ 42%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/write_data.cpp.o
/usr/bin/c++ -DFFT_FFTW3 -DFFT_FFTW_THREADS -DLAMMPS_GZIP -DLAMMPS_JPEG -DLAMMPS_MEMALIGN=64 -DLAMMPS_OMP_COMPAT=4 -DLAMMPS_PNG -DLAMMPS_SMALLBIG -DLAMMPS_VTK -DLAMMPS_ZSTD -DLMP_HAS_NETCDF -DLMP_HAS_PNETCDF -DLMP_KIM_CURL -DLMP_OPENMP -DLMP_PYTHON -DMPICH_SKIP_MPICXX -DNC_64BIT_DATA=0x0020 -DOMPI_SKIP_MPICXX -D_MPICC_H -Dkiss_fft_scalar=double -Dlammps_EXPORTS -I/build/reproducible-path/lammps-20240207+dfsg/src -I/build/reproducible-path/lammps-20240207+dfsg/src/ASPHERE -I/build/reproducible-path/lammps-20240207+dfsg/src/ATC -I/build/reproducible-path/lammps-20240207+dfsg/src/AWPMD -I/build/reproducible-path/lammps-20240207+dfsg/src/BOCS -I/build/reproducible-path/lammps-20240207+dfsg/src/BODY -I/build/reproducible-path/lammps-20240207+dfsg/src/CG-DNA -I/build/reproducible-path/lammps-20240207+dfsg/src/CG-SPICA -I/build/reproducible-path/lammps-20240207+dfsg/src/CLASS2 -I/build/reproducible-path/lammps-20240207+dfsg/src/COLLOID -I/build/reproducible-path/lammps-20240207+dfsg/src/COMPRESS -I/build/reproducible-path/lammps-20240207+dfsg/src/DIELECTRIC -I/build/reproducible-path/lammps-20240207+dfsg/src/DIFFRACTION -I/build/reproducible-path/lammps-20240207+dfsg/src/DIPOLE -I/build/reproducible-path/lammps-20240207+dfsg/src/DPD-BASIC -I/build/reproducible-path/lammps-20240207+dfsg/src/DRUDE -I/build/reproducible-path/lammps-20240207+dfsg/src/EFF -I/build/reproducible-path/lammps-20240207+dfsg/src/ELECTRODE -I/build/reproducible-path/lammps-20240207+dfsg/src/EXTRA-PAIR -I/build/reproducible-path/lammps-20240207+dfsg/src/FEP -I/build/reproducible-path/lammps-20240207+dfsg/src/GRANULAR -I/build/reproducible-path/lammps-20240207+dfsg/src/H5MD -I/build/reproducible-path/lammps-20240207+dfsg/src/KIM -I/build/reproducible-path/lammps-20240207+dfsg/src/KSPACE -I/build/reproducible-path/lammps-20240207+dfsg/src/LATBOLTZ -I/build/reproducible-path/lammps-20240207+dfsg/src/MANIFOLD -I/build/reproducible-path/lammps-20240207+dfsg/src/MANYBODY -I/build/reproducible-path/lammps-20240207+dfsg/src/MC -I/build/reproducible-path/lammps-20240207+dfsg/src/MEAM -I/build/reproducible-path/lammps-20240207+dfsg/src/MGPT -I/build/reproducible-path/lammps-20240207+dfsg/src/MISC -I/build/reproducible-path/lammps-20240207+dfsg/src/MOFFF -I/build/reproducible-path/lammps-20240207+dfsg/src/MOLECULE -I/build/reproducible-path/lammps-20240207+dfsg/src/MOLFILE -I/build/reproducible-path/lammps-20240207+dfsg/src/NETCDF -I/build/reproducible-path/lammps-20240207+dfsg/src/ORIENT -I/build/reproducible-path/lammps-20240207+dfsg/src/PERI -I/build/reproducible-path/lammps-20240207+dfsg/src/PHONON -I/build/reproducible-path/lammps-20240207+dfsg/src/POEMS -I/build/reproducible-path/lammps-20240207+dfsg/src/PYTHON -I/build/reproducible-path/lammps-20240207+dfsg/src/QEQ -I/build/reproducible-path/lammps-20240207+dfsg/src/QTB -I/build/reproducible-path/lammps-20240207+dfsg/src/REPLICA -I/build/reproducible-path/lammps-20240207+dfsg/src/RIGID -I/build/reproducible-path/lammps-20240207+dfsg/src/SHOCK -I/build/reproducible-path/lammps-20240207+dfsg/src/SMTBQ -I/build/reproducible-path/lammps-20240207+dfsg/src/SPH -I/build/reproducible-path/lammps-20240207+dfsg/src/SRD -I/build/reproducible-path/lammps-20240207+dfsg/src/TALLY -I/build/reproducible-path/lammps-20240207+dfsg/src/UEF -I/build/reproducible-path/lammps-20240207+dfsg/src/VORONOI -I/build/reproducible-path/lammps-20240207+dfsg/src/VTK -I/build/reproducible-path/lammps-20240207+dfsg/src/CORESHELL -I/build/reproducible-path/lammps-20240207+dfsg/src/OPENMP -I/build/reproducible-path/lammps-20240207+dfsg/src/OPT -I/build/reproducible-path/lammps-20240207+dfsg/debian/build/styles -I/build/reproducible-path/lammps-20240207+dfsg/lib/molfile -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/ivutils/include -I/build/reproducible-path/lammps-20240207+dfsg/lib/h5md/include -I/usr/include/hdf5/serial -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -isystem /usr/include/python3.12 -isystem /usr/include/voro++ -isystem /usr/include/vtk-9.3 -isystem /usr/lib/aarch64-linux-gnu/kim-api/mod -isystem /usr/include/kim-api -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -fopenmp -MD -MT CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/write_data.cpp.o -MF CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/write_data.cpp.o.d -o CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/write_data.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/src/write_data.cpp
/build/reproducible-path/lammps-20240207+dfsg/src/variable.cpp: In member function 'int LAMMPS_NS::Variable::next(int, char**)':
/build/reproducible-path/lammps-20240207+dfsg/src/variable.cpp:787:14: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  787 |         fread(buf,1,64,fp);
      |         ~~~~~^~~~~~~~~~~~~
[ 42%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/write_dump.cpp.o
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[ 42%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/write_restart.cpp.o
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[ 70%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/MISC/compute_viscosity_cos.cpp.o
/usr/bin/c++ -DFFT_FFTW3 -DFFT_FFTW_THREADS -DLAMMPS_GZIP -DLAMMPS_JPEG -DLAMMPS_MEMALIGN=64 -DLAMMPS_OMP_COMPAT=4 -DLAMMPS_PNG -DLAMMPS_SMALLBIG -DLAMMPS_VTK -DLAMMPS_ZSTD -DLMP_HAS_NETCDF -DLMP_HAS_PNETCDF -DLMP_KIM_CURL -DLMP_OPENMP -DLMP_PYTHON -DMPICH_SKIP_MPICXX -DNC_64BIT_DATA=0x0020 -DOMPI_SKIP_MPICXX -D_MPICC_H -Dkiss_fft_scalar=double -Dlammps_EXPORTS -I/build/reproducible-path/lammps-20240207+dfsg/src -I/build/reproducible-path/lammps-20240207+dfsg/src/ASPHERE -I/build/reproducible-path/lammps-20240207+dfsg/src/ATC -I/build/reproducible-path/lammps-20240207+dfsg/src/AWPMD -I/build/reproducible-path/lammps-20240207+dfsg/src/BOCS -I/build/reproducible-path/lammps-20240207+dfsg/src/BODY -I/build/reproducible-path/lammps-20240207+dfsg/src/CG-DNA -I/build/reproducible-path/lammps-20240207+dfsg/src/CG-SPICA -I/build/reproducible-path/lammps-20240207+dfsg/src/CLASS2 -I/build/reproducible-path/lammps-20240207+dfsg/src/COLLOID -I/build/reproducible-path/lammps-20240207+dfsg/src/COMPRESS -I/build/reproducible-path/lammps-20240207+dfsg/src/DIELECTRIC -I/build/reproducible-path/lammps-20240207+dfsg/src/DIFFRACTION -I/build/reproducible-path/lammps-20240207+dfsg/src/DIPOLE -I/build/reproducible-path/lammps-20240207+dfsg/src/DPD-BASIC -I/build/reproducible-path/lammps-20240207+dfsg/src/DRUDE -I/build/reproducible-path/lammps-20240207+dfsg/src/EFF -I/build/reproducible-path/lammps-20240207+dfsg/src/ELECTRODE -I/build/reproducible-path/lammps-20240207+dfsg/src/EXTRA-PAIR -I/build/reproducible-path/lammps-20240207+dfsg/src/FEP -I/build/reproducible-path/lammps-20240207+dfsg/src/GRANULAR -I/build/reproducible-path/lammps-20240207+dfsg/src/H5MD -I/build/reproducible-path/lammps-20240207+dfsg/src/KIM -I/build/reproducible-path/lammps-20240207+dfsg/src/KSPACE -I/build/reproducible-path/lammps-20240207+dfsg/src/LATBOLTZ -I/build/reproducible-path/lammps-20240207+dfsg/src/MANIFOLD -I/build/reproducible-path/lammps-20240207+dfsg/src/MANYBODY -I/build/reproducible-path/lammps-20240207+dfsg/src/MC -I/build/reproducible-path/lammps-20240207+dfsg/src/MEAM -I/build/reproducible-path/lammps-20240207+dfsg/src/MGPT -I/build/reproducible-path/lammps-20240207+dfsg/src/MISC -I/build/reproducible-path/lammps-20240207+dfsg/src/MOFFF -I/build/reproducible-path/lammps-20240207+dfsg/src/MOLECULE -I/build/reproducible-path/lammps-20240207+dfsg/src/MOLFILE -I/build/reproducible-path/lammps-20240207+dfsg/src/NETCDF -I/build/reproducible-path/lammps-20240207+dfsg/src/ORIENT -I/build/reproducible-path/lammps-20240207+dfsg/src/PERI -I/build/reproducible-path/lammps-20240207+dfsg/src/PHONON -I/build/reproducible-path/lammps-20240207+dfsg/src/POEMS -I/build/reproducible-path/lammps-20240207+dfsg/src/PYTHON -I/build/reproducible-path/lammps-20240207+dfsg/src/QEQ -I/build/reproducible-path/lammps-20240207+dfsg/src/QTB -I/build/reproducible-path/lammps-20240207+dfsg/src/REPLICA -I/build/reproducible-path/lammps-20240207+dfsg/src/RIGID -I/build/reproducible-path/lammps-20240207+dfsg/src/SHOCK -I/build/reproducible-path/lammps-20240207+dfsg/src/SMTBQ -I/build/reproducible-path/lammps-20240207+dfsg/src/SPH -I/build/reproducible-path/lammps-20240207+dfsg/src/SRD -I/build/reproducible-path/lammps-20240207+dfsg/src/TALLY -I/build/reproducible-path/lammps-20240207+dfsg/src/UEF -I/build/reproducible-path/lammps-20240207+dfsg/src/VORONOI -I/build/reproducible-path/lammps-20240207+dfsg/src/VTK -I/build/reproducible-path/lammps-20240207+dfsg/src/CORESHELL -I/build/reproducible-path/lammps-20240207+dfsg/src/OPENMP -I/build/reproducible-path/lammps-20240207+dfsg/src/OPT -I/build/reproducible-path/lammps-20240207+dfsg/debian/build/styles -I/build/reproducible-path/lammps-20240207+dfsg/lib/molfile -I/build/reproducible-path/lammps-20240207+dfsg/lib/poems -I/build/reproducible-path/lammps-20240207+dfsg/lib/atc -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/systems/interact -I/build/reproducible-path/lammps-20240207+dfsg/lib/awpmd/ivutils/include -I/build/reproducible-path/lammps-20240207+dfsg/lib/h5md/include -I/usr/include/hdf5/serial -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -isystem /usr/include/python3.12 -isystem /usr/include/voro++ -isystem /usr/include/vtk-9.3 -isystem /usr/lib/aarch64-linux-gnu/kim-api/mod -isystem /usr/include/kim-api -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIC -fopenmp -MD -MT CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/MISC/compute_viscosity_cos.cpp.o -MF CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/MISC/compute_viscosity_cos.cpp.o.d -o CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/MISC/compute_viscosity_cos.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/src/MISC/compute_viscosity_cos.cpp
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp: In member function 'void potdata::readpot(const char*, const char*, double)':
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:188:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  188 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:204:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  204 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:247:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  247 |       fgets(line,sizeof(line),in);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:307:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  307 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:330:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  330 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:332:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  332 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:335:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  335 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:344:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  344 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:346:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  346 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:359:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  359 |       fgets(line,sizeof(line),in);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp: In function 'void getparmindata(const char*, int*, double*, double*, double*)':
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:110:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  110 |     fgets(line,sizeof(line),in);
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:120:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  120 |       fgets(line,sizeof(line),in);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/lammps-20240207+dfsg/src/MGPT/mgpt_readpot.cpp:124:12: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result]
  124 |       fgets(line,sizeof(line),in);
      |       ~~~~~^~~~~~~~~~~~~~~~~~~~~~
[ 70%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/MISC/fix_accelerate_cos.cpp.o
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[ 70%] Building CXX object CMakeFiles/lammps.dir/build/reproducible-path/lammps-20240207+dfsg/src/MISC/fix_imd.cpp.o
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/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-rpath -Wl,/usr/lib/aarch64-linux-gnu/openmpi/lib -Wl,-z,relro -shared -Wl,-soname,liblammps.so.0 -o liblammps.so.0 @CMakeFiles/lammps.dir/objects1.rsp  -Wl,-rpath,/usr/lib/aarch64-linux-gnu/openmpi/lib:/usr/lib/aarch64-linux-gnu/hdf5/serial: /usr/lib/aarch64-linux-gnu/libjpeg.so /usr/lib/aarch64-linux-gnu/libpng.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libfftw3.so /usr/lib/aarch64-linux-gnu/libfftw3_omp.so /usr/lib/aarch64-linux-gnu/libpython3.12.so /usr/lib/aarch64-linux-gnu/libvoro++.so /usr/lib/aarch64-linux-gnu/libnetcdf.so /usr/lib/aarch64-linux-gnu/libpnetcdf.so /usr/lib/aarch64-linux-gnu/libvtkIOParallelXML-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libkim-api.so.2.3.0 /usr/lib/aarch64-linux-gnu/libz.so -lm liblammps_poems.a liblammps_atc.a liblammps_awpmd.a liblammps_h5md.a /usr/lib/aarch64-linux-gnu/liblapack.so /usr/lib/aarch64-linux-gnu/libblas.so /usr/lib/aarch64-linux-gnu/libblas.so -ldl /usr/lib/gcc/aarch64-linux-gnu/14/libgomp.so /usr/lib/aarch64-linux-gnu/libnetcdf.so /usr/lib/aarch64-linux-gnu/libvtkIOXML-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkIOXMLParser-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkIOLegacy-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkIOCore-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkCommonExecutionModel-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkCommonDataModel-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkCommonTransforms-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkCommonMath-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkkissfft-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libvtkCommonCore-9.3.so.9.3 /usr/lib/aarch64-linux-gnu/libtbb.so.12.12 /usr/lib/aarch64-linux-gnu/libvtksys-9.3.so.9.3 -ldl /usr/lib/aarch64-linux-gnu/libzstd.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libpthread.a /usr/lib/aarch64-linux-gnu/libsz.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libdl.a -lm
/usr/bin/cmake -E cmake_symlink_library liblammps.so.0 liblammps.so.0 liblammps.so
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
[100%] Built target lammps
make  -f CMakeFiles/lmp.dir/build.make CMakeFiles/lmp.dir/depend
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
cd /build/reproducible-path/lammps-20240207+dfsg/debian/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/cmake /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/lmp.dir/DependInfo.cmake "--color="
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
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make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
[100%] Building CXX object CMakeFiles/lmp.dir/build/reproducible-path/lammps-20240207+dfsg/src/main.cpp.o
/usr/bin/c++ -DLAMMPS_SMALLBIG -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX -D_MPICC_H -I/build/reproducible-path/lammps-20240207+dfsg/src -I/build/reproducible-path/lammps-20240207+dfsg/debian/build/includes -isystem /usr/lib/aarch64-linux-gnu/openmpi/include -isystem /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -fPIE -fopenmp -MD -MT CMakeFiles/lmp.dir/build/reproducible-path/lammps-20240207+dfsg/src/main.cpp.o -MF CMakeFiles/lmp.dir/build/reproducible-path/lammps-20240207+dfsg/src/main.cpp.o.d -o CMakeFiles/lmp.dir/build/reproducible-path/lammps-20240207+dfsg/src/main.cpp.o -c /build/reproducible-path/lammps-20240207+dfsg/src/main.cpp
[100%] Linking CXX executable lmp
/usr/bin/cmake -E cmake_link_script CMakeFiles/lmp.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/lammps-20240207+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-rpath -Wl,/usr/lib/aarch64-linux-gnu/openmpi/lib "CMakeFiles/lmp.dir/build/reproducible-path/lammps-20240207+dfsg/src/main.cpp.o" -o lmp  -Wl,-rpath,/build/reproducible-path/lammps-20240207+dfsg/debian/build:/usr/lib/aarch64-linux-gnu/openmpi/lib: liblammps.so.0 /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/gcc/aarch64-linux-gnu/14/libgomp.so /usr/lib/aarch64-linux-gnu/libpthread.a
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
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   debian/rules execute_after_dh_auto_build-indep
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
if [ ! -d doc/html.orig ]; then mv doc/html doc/html.orig; fi
/usr/bin/make -C doc html
make[2]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/doc'
sed -e 's/@LAMMPS_SOURCE_DIR@/..\/..\/src/g' doxygen/Doxyfile.in > doxygen/Doxyfile
warning: Tag 'OUTPUT_TEXT_DIRECTION' at line 11 of file 'Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
Doxygen version used: 1.9.8
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Building macro definition list...
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Building page list...
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Computing page relations...
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Adding members to member groups.
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Computing dependencies between directories...
Generating citations page...
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Resolving user defined references...
Finding anchors and sections in the documentation...
Transferring function references...
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Adding members to index pages...
Correcting members for VHDL...
Computing tooltip texts...
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Generating file documentation...
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Generating docs for compound LAMMPS_NS::Atom...
Generating docs for compound LAMMPS_NS::Input...
Generating docs for compound LAMMPS_NS::InvalidFloatException...
Generating docs for compound LAMMPS_NS::InvalidIntegerException...
Generating docs for compound LAMMPS_NS::LAMMPS...
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Generating docs for compound LAMMPS_NS::ubuf...
Generating graph info page...
Generating directory documentation...
finalizing index lists...
writing tag file...
Generating XML output...
Generating XML output for class LAMMPS_NS::ArgInfo
Generating XML output for class LAMMPS_NS::Atom
Generating XML output for class compress_info
Generating XML output for class LAMMPS_NS::EOFException
Generating XML output for class LAMMPS_NS::FileReaderException
Generating XML output for class LAMMPS_NS::Atom::HashElem
Generating XML output for class LAMMPS_NS::HyperOneCoeff
Generating XML output for class LAMMPS_NS::Input
Generating XML output for class LAMMPS_NS::InvalidFloatException
Generating XML output for class LAMMPS_NS::InvalidIntegerException
Generating XML output for class LAMMPS_NS::LAMMPS
Generating XML output for class LAMMPS_NS::multitype
Generating XML output for class LAMMPS_NS::MyPage
Generating XML output for class LAMMPS_NS::MyPoolChunk
Generating XML output for class LAMMPS_NS::package_styles_lists
Generating XML output for class LAMMPS_NS::Atom::PerAtom
Generating XML output for class LAMMPS_NS::Pointers
Generating XML output for class LAMMPS_NS::PotentialFileReader
Generating XML output for class regex_context_t
Generating XML output for class regex_t
Generating XML output for class LAMMPS_NS::TextFileReader
Generating XML output for class LAMMPS_NS::Tokenizer
Generating XML output for class LAMMPS_NS::TokenizerException
Generating XML output for class LAMMPS_NS::ubuf
Generating XML output for class udi_t
Generating XML output for class LAMMPS_NS::ValueTokenizer
Generating XML output for namespace LAMMPS_NS
Generating XML output for namespace LAMMPS_NS::MathSpecial
Generating XML output for namespace LAMMPS_NS::platform
Generating XML output for namespace LAMMPS_NS::utils
Generating XML output for namespace MathConst
Generating XML output for namespace MathEigen
Generating XML output for namespace std
Generating XML output for file arg_info.cpp
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Generating XML output for file atom.h
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Generating XML output for file input.h
Generating XML output for file lammps.cpp
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Generating XML output for file utils.h
Generate XML output for dir /build/reproducible-path/lammps-20240207+dfsg/src/
Running plantuml with JAVA...
Running dot...
type lookup cache used 7693/262144 hits=62872 misses=7925
symbol lookup cache used 5303/262144 hits=49970 misses=5303
finished...
sed -e 's,@DOXYGEN_XML_DIR@,/build/reproducible-path/lammps-20240207+dfsg/doc/doxygen/xml,g'   \
    -e 's,@LAMMPS_SOURCE_DIR@,/build/reproducible-path/lammps-20240207+dfsg/doc/../src,g'    \
    -e 's,@LAMMPS_PYTHON_DIR@,/build/reproducible-path/lammps-20240207+dfsg/doc/../python,g' \
    -e 's,@LAMMPS_DOC_DIR@,/build/reproducible-path/lammps-20240207+dfsg/doc,g' /build/reproducible-path/lammps-20240207+dfsg/doc/utils/sphinx-config/conf.py.in > /build/reproducible-path/lammps-20240207+dfsg/doc/utils/sphinx-config/conf.py
WARNING: The directory '/nonexistent/second-build/.cache/pip' or its parent directory is not owned or is not writable by the current user. The cache has been disabled. Check the permissions and owner of that directory. If executing pip with sudo, you should use sudo's -H flag.
Obtaining file:///build/reproducible-path/lammps-20240207%2Bdfsg/doc/utils/converters
  Installing build dependencies: started
  Installing build dependencies: finished with status 'error'
  error: subprocess-exited-with-error
  
  × pip subprocess to install build dependencies did not run successfully.
  │ exit code: 1
  ╰─> [8 lines of output]
      WARNING: The directory '/nonexistent/second-build/.cache/pip' or its parent directory is not owned or is not writable by the current user. The cache has been disabled. Check the permissions and owner of that directory. If executing pip with sudo, you should use sudo's -H flag.
      WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0xffffa27b86e0>: Failed to establish a new connection: [Errno 111] Connection refused'))': /simple/setuptools/
      WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0xffffa27d90a0>: Failed to establish a new connection: [Errno 111] Connection refused'))': /simple/setuptools/
      WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0xffffa2840d40>: Failed to establish a new connection: [Errno 111] Connection refused'))': /simple/setuptools/
      WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0xffffa2840e30>: Failed to establish a new connection: [Errno 111] Connection refused'))': /simple/setuptools/
      WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0xffffa2840f80>: Failed to establish a new connection: [Errno 111] Connection refused'))': /simple/setuptools/
      ERROR: Could not find a version that satisfies the requirement setuptools>=40.8.0 (from versions: none)
      ERROR: No matching distribution found for setuptools>=40.8.0
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error

× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> See above for output.

note: This error originates from a subprocess, and is likely not a problem with pip.
make[3]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/doc/graphviz'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/doc/graphviz'
Running Sphinx v8.1.3
loading translations [en]... done
Initializing Spelling Checker 7.7.0
making output directory... done
Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`.
building [mo]: targets for 0 po files that are out of date
writing output... 
building [html]: targets for 987 source files that are out of date
updating environment: [new config] 987 added, 0 changed, 0 removed
reading sources... [  3%] Bibliography .. Commands_parse
reading sources... [  6%] Commands_removed .. Errors_common
reading sources... [  8%] Errors_debug .. Howto_lammps_gui
reading sources... [ 11%] Howto_library .. Install
reading sources... [ 14%] Install_conda .. Manual_version
reading sources... [ 17%] Modify .. Python_examples
reading sources... [ 19%] Python_execute .. Speed_opt
reading sources... [ 22%] Speed_packages .. angle_spica
reading sources... [ 25%] angle_style .. atc_hardy_fields
reading sources... [ 28%] atc_hardy_gradients .. atc_output_nodeset
reading sources... [ 31%] atc_output_volume_integral .. bond_coeff
reading sources... [ 33%] bond_fene .. comm_style
reading sources... [ 36%] commands_list .. compute_dihedral_local
reading sources... [ 39%] compute_dilatation_atom .. compute_improper
reading sources... [ 42%] compute_improper_local .. compute_property_grid
reading sources... [ 44%] compute_property_local .. compute_smd_ulsph_num_neighs
reading sources... [ 47%] compute_smd_ulsph_strain .. compute_temp_ramp
reading sources... [ 50%] compute_temp_region .. dihedral_lepton
reading sources... [ 53%] dihedral_multi_harmonic .. fix_accelerate_cos
reading sources... [ 56%] fix_acks2_reaxff .. fix_box_relax
reading sources... [ 58%] fix_brownian .. fix_freeze
reading sources... [ 61%] fix_gcmc .. fix_mol_swap
reading sources... [ 64%] fix_momentum .. fix_nve_dotc_langevin
reading sources... [ 67%] fix_nve_eff .. fix_precession_spin
reading sources... [ 69%] fix_press_berendsen .. fix_smd_adjust_dt
reading sources... [ 72%] fix_smd_integrate_tlsph .. fix_viscous
reading sources... [ 75%] fix_viscous_sphere .. improper_hybrid
reading sources... [ 78%] improper_inversion_harmonic .. neb_spin
reading sources... [ 81%] neigh_modify .. pair_colloid
reading sources... [ 83%] pair_comb .. pair_gromacs
reading sources... [ 86%] pair_gw .. pair_lj_switch3_coulgauss_long
reading sources... [ 89%] pair_local_density .. pair_python
reading sources... [ 92%] pair_quip .. pair_style
reading sources... [ 94%] pair_sw .. quit
reading sources... [ 97%] read_data .. unfix
reading sources... [100%] units .. write_restart

WARNING: unknown directive or role name: f:mod
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WARNING: unknown directive or role name: f:mod
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WARNING: unknown directive or role name: f:func
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WARNING: unknown directive or role name: f:func
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WARNING: unknown directive or role name: f:module
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:257: ERROR: Unknown directive type "f:module".

.. f:module:: LIBLAMMPS [docutils]
WARNING: unknown directive or role name: f:mod
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:259: ERROR: Unknown interpreted text role "f:mod". [docutils]
WARNING: unknown directive or role name: f:currentmodule
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:262: ERROR: Unknown directive type "f:currentmodule".

.. f:currentmodule:: None [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:264: ERROR: Unknown directive type "f:type".

.. f:type:: lammps

   Derived type that is the general class of the Fortran interface.
   It holds a reference to the :cpp:class:`LAMMPS <LAMMPS_NS::LAMMPS>`
   class instance to which any of the included calls are forwarded.

   :f handle: reference to the LAMMPS class
   :ftype handle: c_ptr
   :f style: derived type to access lammps style constants
   :ftype style: type(lammps_style)
   :f type: derived type to access lammps type constants
   :ftype type: type(lammps_type)
   :f dtype: derived type to access lammps data type constants
   :ftype dtype: type(lammps_dtype)
   :f close: :f:subr:`close`
   :ftype close: subroutine
   :f subroutine error: :f:subr:`error`
   :ftype error: subroutine
   :f file: :f:subr:`file`
   :ftype file: subroutine
   :f command: :f:subr:`command`
   :ftype command: subroutine
   :f commands_list: :f:subr:`commands_list`
   :ftype commands_list: subroutine
   :f commands_string: :f:subr:`commands_string`
   :ftype commands_string: subroutine
   :f get_natoms: :f:func:`get_natoms`
   :ftype get_natoms: function
   :f get_thermo: :f:func:`get_thermo`
   :ftype get_thermo: function
   :f last_thermo: :f:func:`last_thermo`
   :ftype last_thermo: function
   :f extract_box: :f:subr:`extract_box`
   :ftype extract_box: subroutine
   :f reset_box: :f:subr:`reset_box`
   :ftype reset_box: subroutine
   :f memory_usage: :f:subr:`memory_usage`
   :ftype memory_usage: subroutine
   :f get_mpi_comm: :f:func:`get_mpi_comm`
   :ftype get_mpi_comm: function
   :f extract_setting: :f:func:`extract_setting`
   :ftype extract_setting: function
   :f extract_global: :f:func:`extract_global`
   :ftype extract_global: function
   :f extract_atom: :f:func:`extract_atom`
   :ftype extract_atom: function
   :f extract_compute: :f:func:`extract_compute`
   :ftype extract_compute: function
   :f extract_fix: :f:func:`extract_fix`
   :ftype extract_fix: function
   :f extract_variable: :f:func:`extract_variable`
   :ftype extract_variable: function
   :f set_variable: :f:subr:`set_variable`
   :ftype set_variable: subroutine
   :f set_string_variable: :f:subr:`set_set_string_variable`
   :ftype set_string_variable: subroutine
   :f set_internal_variable: :f:subr:`set_internal_variable`
   :ftype set_internal_variable: subroutine
   :f gather_atoms: :f:subr:`gather_atoms`
   :ftype gather_atoms: subroutine
   :f gather_atoms_concat: :f:subr:`gather_atoms_concat`
   :ftype gather_atoms_concat: subroutine
   :f gather_atoms_subset: :f:subr:`gather_atoms_subset`
   :ftype gather_atoms_subset: subroutine
   :f scatter_atoms: :f:subr:`scatter_atoms`
   :ftype scatter_atoms: subroutine
   :f scatter_atoms_subset: :f:subr:`scatter_atoms_subset`
   :ftype scatter_atoms_subset: subroutine
   :f gather_bonds: :f:subr:`gather_bonds`
   :ftype gather_bonds: subroutine
   :f gather_angles: :f:subr:`gather_angles`
   :ftype gather_angles: subroutine
   :f gather_dihedrals: :f:subr:`gather_dihedrals`
   :ftype gather_dihedrals: subroutine
   :f gather_impropers: :f:subr:`gather_impropers`
   :ftype gather_impropers: subroutine
   :f gather: :f:subr:`gather`
   :ftype gather: subroutine
   :f gather_concat: :f:subr:`gather_concat`
   :ftype gather_concat: subroutine
   :f gather_subset: :f:subr:`gather_subset`
   :ftype gather_subset: subroutine
   :f scatter: :f:subr:`scatter`
   :ftype scatter: subroutine
   :f scatter_subset: :f:subr:`scatter_subset`
   :ftype scatter_subset: subroutine
   :f create_atoms: :f:subr:`create_atoms`
   :ftype create_atoms: subroutine
   :f find_pair_neighlist: :f:func:`find_pair_neighlist`
   :ftype find_pair_neighlist: function
   :f find_fix_neighlist: :f:func:`find_fix_neighlist`
   :ftype find_fix_neighlist: function
   :f find_compute_neighlist: :f:func:`find_compute_neighlist`
   :ftype find_compute_neighlist: function
   :f neighlist_num_elements: :f:func:`neighlist_num_elements`
   :ftype neighlist_num_elements: function
   :f neighlist_element_neighbors: :f:subr:`neighlist_element_neighbors`
   :ftype neighlist_element_neighbors: subroutine
   :f version: :f:func:`version`
   :ftype version: function
   :f get_os_info: :f:subr:`get_os_info`
   :ftype get_os_info: subroutine
   :f config_has_mpi_support: :f:func:`config_has_mpi_support`
   :ftype config_has_mpi_support: function
   :f config_has_gzip_support: :f:func:`config_has_gzip_support`
   :ftype config_has_gzip_support: function
   :f config_has_png_support: :f:func:`config_has_png_support`
   :ftype config_has_png_support: function
   :f config_has_jpeg_support: :f:func:`config_has_jpeg_support`
   :ftype config_has_jpeg_support: function
   :f config_has_ffmpeg_support: :f:func:`config_has_ffmpeg_support`
   :ftype config_has_ffmpeg_support: function
   :f config_has_exceptions: :f:func:`config_has_exceptions`
   :ftype config_has_exceptions: function
   :f config_has_package: :f:func:`config_has_package`
   :ftype config_has_package: function
   :f config_package_count: :f:func:`config_package_count`
   :ftype config_package_count: function
   :f config_package_name: :f:func:`config_package_name`
   :ftype config_package_name: function
   :f installed_packages: :f:subr:`installed_packages`
   :ftype installed_packages: subroutine
   :f config_accelerator: :f:func:`config_accelerator`
   :ftype config_accelerator: function
   :f has_gpu_device: :f:func:`has_gpu_device`
   :ftype has_gpu_device: function
   :f get_gpu_device_info: :f:subr:`get_gpu_device_info`
   :ftype get_gpu_device_info: subroutine
   :f has_style: :f:func:`has_style`
   :ftype has_style: function
   :f style_count: :f:func:`style_count`
   :ftype style_count: function
   :f style_name: :f:func:`style_name`
   :ftype style_name: function
   :f has_id: :f:func:`has_id`
   :ftype has_id: function
   :f id_count: :f:func:`id_count`
   :ftype id_count: function
   :f id_name: :f:subr:`id_name`
   :ftype id_name: subroutine
   :f plugin_count: :f:func:`plugin_count`
   :ftype plugin_count: function
   :f plugin_name: :f:subr:`plugin_name`
   :ftype plugin_count: subroutine
   :f encode_image_flags: :f:func:`encode_image_flags`
   :ftype encode_image_flags: function
   :f decode_image_flags: :f:subr:`decode_image_flags`
   :ftype decode_image_flags: subroutine
   :f set_fix_external_callback: :f:subr:`set_fix_external_callback`
   :ftype set_fix_external_callback: subroutine
   :f fix_external_get_force: :f:func:`fix_external_get_force`
   :ftype fix_external_get_force: function
   :f fix_external_set_energy_global: :f:subr:`fix_external_set_energy_global`
   :ftype fix_external_set_energy_global: subroutine
   :f fix_external_set_virial_global: :f:subr:`fix_external_set_virial_global`
   :ftype fix_external_set_virial_global: subroutine
   :f fix_external_set_energy_peratom: :f:subr:`fix_external_set_energy_peratom`
   :ftype fix_external_set_energy_peratom: subroutine
   :f fix_external_set_virial_peratom: :f:subr:`fix_external_set_virial_peratom`
   :ftype fix_external_set_virial_peratom: subroutine
   :f fix_external_set_vector_length: :f:subr:`fix_external_set_vector_length`
   :ftype fix_external_set_vector_length: subroutine
   :f fix_external_set_vector: :f:subr:`fix_external_set_vector`
   :ftype fix_external_set_vector: subroutine
   :f flush_buffers: :f:subr:`flush_buffers`
   :ftype flush_buffers: subroutine
   :f is_running: :f:func:`is_running`
   :ftype is_running: function
   :f force_timeout: :f:subr:`force_timeout`
   :ftype force_timeout: subroutine
   :f has_error: :f:func:`has_error`
   :ftype has_error: function
   :f get_last_error_message: :f:subr:`get_last_error_message`
   :ftype get_last_error_message: subroutine [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:441: ERROR: Unknown directive type "f:function".

.. f:function:: lammps([args][,comm])

   This is the constructor for the Fortran class and will forward
   the arguments to a call to either :cpp:func:`lammps_open_fortran`
   or :cpp:func:`lammps_open_no_mpi`. If the LAMMPS library has been
   compiled with MPI support, it will also initialize MPI, if it has
   not already been initialized before.

   The *args* argument with the list of command line parameters is
   optional and so it the *comm* argument with the MPI communicator.
   If *comm* is not provided, ``MPI_COMM_WORLD`` is assumed. For
   more details please see the documentation of :cpp:func:`lammps_open`.

   :o args: arguments as list of strings
   :otype args: character(len=\*),dimension(:),optional
   :o comm: MPI communicator
   :otype comm: integer,optional
   :to: :cpp:func:`lammps_open_fortran`
   :to: :cpp:func:`lammps_open_no_mpi`
   :r lammps: an instance of the :f:type:`lammps` derived type

   .. note::

      The :f:mod:`MPI_F08` module, which defines Fortran 2008 bindings for MPI,
      is not directly supported by this interface due to the complexities of
      supporting both the :f:mod:`MPI_F08` and :f:mod:`MPI` modules at the same
      time. However, you should be able to use the ``MPI_VAL`` member of the
      ``MPI_comm`` derived type to access the integer value of the
      communicator, such as in

      .. code-block:: fortran

         PROGRAM testmpi
           USE LIBLAMMPS
           USE MPI_F08
           TYPE(lammps) :: lmp
           lmp = lammps(comm=MPI_COMM_SELF%MPI_VAL)
         END PROGRAM testmpi [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:480: ERROR: Unknown directive type "f:type".

.. f:type:: lammps_style

   This derived type is there to provide a convenient interface for the style
   constants used with :f:func:`extract_compute`, :f:func:`extract_fix`, and
   :f:func:`extract_variable`. Assuming your LAMMPS instance is called ``lmp``,
   these constants will be ``lmp%style%global``, ``lmp%style%atom``,
   and ``lmp%style%local``. These values are identical to the values described
   in :cpp:enum:`_LMP_STYLE_CONST` for the C library interface.

   :f integer(c_int) global: used to request global data
   :f integer(c_int) atom:   used to request per-atom data
   :f integer(c_int) local:  used to request local data [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:493: ERROR: Unknown directive type "f:type".

.. f:type:: lammps_type

   This derived type is there to provide a convenient interface for the type
   constants used with :f:func:`extract_compute`, :f:func:`extract_fix`, and
   :f:func:`extract_variable`. Assuming your LAMMPS instance is called ``lmp``,
   these constants will be ``lmp%type%scalar``, ``lmp%type%vector``, and
   ``lmp%type%array``. These values are identical to the values described
   in :cpp:enum:`_LMP_TYPE_CONST` for the C library interface.

   :f integer(c_int) scalar: used to request scalars
   :f integer(c_int) vector: used to request vectors
   :f integer(c_int) array:  used to request arrays (matrices) [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:506: ERROR: Unknown interpreted text role "f:type". [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:509: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: close([finalize])

   This method will close down the LAMMPS instance through calling
   :cpp:func:`lammps_close`.  If the *finalize* argument is present and
   has a value of ``.TRUE.``, then this subroutine also calls
   :cpp:func:`lammps_kokkos_finalize` and
   :cpp:func:`lammps_mpi_finalize`.

   :o finalize: shut down the MPI environment of the LAMMPS
    library if ``.TRUE.``.
   :otype finalize: logical,optional
   :to: :cpp:func:`lammps_close`
   :to: :cpp:func:`lammps_mpi_finalize`
   :to: :cpp:func:`lammps_kokkos_finalize` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:526: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: error(error_type, error_text)

   This method is a wrapper around the :cpp:func:`lammps_error` function and
   will dispatch an error through the LAMMPS Error class.

   .. versionadded:: 3Nov2022

   :p error_type: constant to select which Error class function to call
   :ptype error_type: integer(c_int)
   :p character(len=\*) error_text: error message
   :to: :cpp:func:`lammps_error` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:540: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: file(filename)

   This method will call :cpp:func:`lammps_file` to have LAMMPS read
   and process commands from a file.

   :p character(len=\*) filename: name of file with LAMMPS commands
   :to: :cpp:func:`lammps_file` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:550: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: command(cmd)

   This method will call :cpp:func:`lammps_command` to have LAMMPS
   execute a single command.

   :p character(len=\*) cmd: single LAMMPS command
   :to: :cpp:func:`lammps_command` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:560: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: commands_list(cmds)

   This method will call :cpp:func:`lammps_commands_list` to have LAMMPS
   execute a list of input lines.

   :p character(len=\*) cmd [dimension(:)]: list of LAMMPS input lines
   :to: :cpp:func:`lammps_commands_list` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:570: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: commands_string(str)

   This method will call :cpp:func:`lammps_commands_string` to have LAMMPS
   execute a block of commands from a string.

   :p character(len=\*) str: LAMMPS input in string
   :to: :cpp:func:`lammps_commands_string` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:580: ERROR: Unknown directive type "f:function".

.. f:function:: get_natoms()

   This function will call :cpp:func:`lammps_get_natoms` and return the number
   of atoms in the system.

   :to: :cpp:func:`lammps_get_natoms`
   :r real(c_double) natoms: number of atoms

   .. note::

      If you would prefer to get the number of atoms in its native format
      (i.e., as a 32- or 64-bit integer, depending on how LAMMPS was compiled),
      this can be extracted with :f:func:`extract_global`. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:596: ERROR: Unknown directive type "f:function".

.. f:function:: get_thermo(name)

   This function will call :cpp:func:`lammps_get_thermo` and return the value
   of the corresponding thermodynamic keyword.

   .. versionadded:: 3Nov2022

   :p character(len=\*) name: string with the name of the thermo keyword
   :to: :cpp:func:`lammps_get_thermo`
   :r value [real(c_double)]: value of the requested thermo property or `0.0_c_double` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:609: ERROR: Unknown directive type "f:function".

.. f:function:: last_thermo(what, index)

   This function will call :cpp:func:`lammps_last_thermo` and returns
   either a string or a pointer to a cached copy of LAMMPS last thermodynamic
   output, depending on the data requested through *what*.  Note that *index*
   uses 1-based indexing to access thermo output columns.

   .. versionadded:: 15Jun2023

   Note that this function actually does not return a value, but rather
   associates the pointer on the left side of the assignment to point to
   internal LAMMPS data (with the exception of string data, which are
   copied and returned as ordinary Fortran strings).  Pointers must be
   of the correct data type to point to said data (typically
   ``INTEGER(c_int)``, ``INTEGER(c_int64_t)``, or ``REAL(c_double)``).
   The pointer being associated with LAMMPS data is type-checked at
   run-time via an overloaded assignment operator.  The pointers
   returned by this function point to temporary, read-only data that may
   be overwritten at any time, so their target values need to be copied
   to local storage if they are supposed to persist.

   For example,

   .. code-block:: fortran

      PROGRAM thermo
        USE LIBLAMMPS
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_double, c_int64_t, c_int
        TYPE(lammps) :: lmp
        INTEGER(KIND=c_int64_t), POINTER :: ntimestep, bval
        REAL(KIND=c_double), POINTER :: dval
        INTEGER(KIND=c_int), POINTER :: nfield, typ, ival
        INTEGER(KIND=c_int) :: i
        CHARACTER(LEN=11) :: key

        lmp = lammps()
        CALL lmp%file('in.sysinit')

        ntimestep = lmp%last_thermo('step', 0)
        nfield = lmp%last_thermo('num', 0)
        PRINT*, 'Last thermo output on step: ', ntimestep, '  Number of fields: ', nfield
        DO i=1, nfield
            key = lmp%last_thermo('keyword',i)
            typ = lmp%last_thermo('type',i)
            IF (typ == lmp%dtype%i32) THEN
                ival = lmp%last_thermo('data',i)
                PRINT*, key, ':', ival
            ELSE IF (typ == lmp%dtype%i64) THEN
                bval = lmp%last_thermo('data',i)
                PRINT*, key, ':', bval
            ELSE IF (typ == lmp%dtype%r64) THEN
                dval = lmp%last_thermo('data',i)
                PRINT*, key, ':', dval
            END IF
        END DO
        CALL lmp%close(.TRUE.)
      END PROGRAM thermo

   would extract the last timestep where thermo output was done and the number
   of columns it printed.  Then it loops over the columns to print out column
   header keywords and the corresponding data.

   .. note::

      If :f:func:`last_thermo` returns a string, the string must have a length
      greater than or equal to the length of the string (not including the
      terminal ``NULL`` character) that LAMMPS returns. If the variable's
      length is too short, the string will be truncated.  As usual in Fortran,
      strings are padded with spaces at the end.  If you use an allocatable
      string, the string **must be allocated** prior to calling this function.

   :p character(len=\*) what: string with the name of the thermo keyword
   :p integer(c_int) index: 1-based column index
   :to: :cpp:func:`lammps_last_thermo`
   :r pointer [polymorphic]: pointer to LAMMPS data. The left-hand side of the
    assignment should be either a string (if expecting string data) or a
    C-compatible pointer (e.g., ``INTEGER(c_int), POINTER :: nlocal``) to the
    extracted property.

   .. warning::

       Modifying the data in the location pointed to by the returned pointer
       may lead to inconsistent internal data and thus may cause failures,
       crashes, or bogus simulations.  In general, it is much better
       to use a LAMMPS input command that sets or changes these parameters.
       Using an input command will take care of all side effects and necessary
       updates of settings derived from such settings. [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:699: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: extract_box([boxlo][, boxhi][, xy][, yz][, xz][, pflags][, boxflag])

   This subroutine will call :cpp:func:`lammps_extract_box`. All
   parameters are optional, though obviously at least one should be
   present. The parameters *pflags* and *boxflag* are stored in LAMMPS
   as integers, but should be declared as ``LOGICAL`` variables when
   calling from Fortran.

   .. versionadded:: 3Nov2022

   :o real(c_double) boxlo [dimension(3),optional]: vector in which to store
    lower-bounds of simulation box
   :o real(c_double) boxhi [dimension(3),optional]: vector in which to store
    upper-bounds of simulation box
   :o real(c_double) xy [optional]: variable in which to store *xy* tilt factor
   :o real(c_double) yz [optional]: variable in which to store *yz* tilt factor
   :o real(c_double) xz [optional]: variable in which to store *xz* tilt factor
   :o pflags: vector in which to store
    periodicity flags (``.TRUE.`` means periodic in that dimension)
   :otype pflags: logical,dimension(3),optional
   :o boxflag: variable in which to store boolean denoting
    whether the box will change during a simulation
    (``.TRUE.`` means box will change)
   :otype boxflag: logical,optional
   :to: :cpp:func:`lammps_extract_box` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:741: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: reset_box(boxlo, boxhi, xy, yz, xz)

   This subroutine will call :cpp:func:`lammps_reset_box`. All parameters
   are required.

   .. versionadded:: 3Nov2022

   :p real(c_double) boxlo [dimension(3)]: vector of three doubles containing
    the lower box boundary
   :p real(c_double) boxhi [dimension(3)]: vector of three doubles containing
    the upper box boundary
   :p real(c_double) xy: *x--y* tilt factor
   :p real(c_double) yz: *y--z* tilt factor
   :p real(c_double) xz: *x--z* tilt factor
   :to: :cpp:func:`lammps_reset_box` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:759: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: memory_usage(meminfo)

   This subroutine will call :cpp:func:`lammps_memory_usage` and store the
   result in the three-element array *meminfo*.

   .. versionadded:: 3Nov2022

   :p real(c_double) meminfo [dimension(3)]: vector of three doubles in which
    to store memory usage data
   :to: :cpp:func:`lammps_memory_usage` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:772: ERROR: Unknown directive type "f:function".

.. f:function:: get_mpi_comm()

   This function returns a Fortran representation of the LAMMPS "world"
   communicator.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_get_mpi_comm`
   :r comm: Fortran integer equivalent to the MPI communicator LAMMPS is
    using
   :rtype comm: integer

   .. note::

       The C library interface currently returns type ``int`` instead of
       type ``MPI_Fint``, which is the C type corresponding to Fortran
       ``INTEGER`` types of the default kind.  On most compilers, these
       are the same anyway, but this interface exchanges values this way
       to avoid warning messages.

   .. note::

      The :f:mod:`MPI_F08` module, which defines Fortran 2008 bindings for MPI,
      is not directly supported by this function.  However, you should be
      able to convert between the two using the `MPI_VAL` member of the
      communicator.  For example,

      .. code-block:: fortran

         USE MPI_F08
         USE LIBLAMMPS
         TYPE(lammps) :: lmp
         TYPE(MPI_Comm) :: comm
         ! ... [commands to set up LAMMPS/etc.]
         comm%MPI_VAL = lmp%get_mpi_comm()

      should assign an :f:mod:`MPI_F08` communicator properly. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:812: ERROR: Unknown directive type "f:function".

.. f:function:: extract_setting(keyword)

   Query LAMMPS about global settings. See the documentation for the
   :cpp:func:`lammps_extract_setting` function from the C library.

   .. versionadded:: 3Nov2022

   :p character(len=\*) keyword: string containing the name of the thermo keyword
   :to: :cpp:func:`lammps_extract_setting`
   :r integer(c_int) setting: value of the queried setting or :math:`-1` if
    unknown [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:826: ERROR: Unknown directive type "f:function".

.. f:function:: extract_global(name)

   This function calls :cpp:func:`lammps_extract_global` and returns
   either a string or a pointer to internal global LAMMPS data,
   depending on the data requested through *name*.

   .. versionadded:: 3Nov2022

   Note that this function actually does not return a value, but rather
   associates the pointer on the left side of the assignment to point to
   internal LAMMPS data (with the exception of string data, which are
   copied and returned as ordinary Fortran strings). Pointers must be of
   the correct data type to point to said data (typically
   ``INTEGER(c_int)``, ``INTEGER(c_int64_t)``, or ``REAL(c_double)``)
   and have compatible kind and rank.  The pointer being associated with
   LAMMPS data is type-, kind-, and rank-checked at run-time via an
   overloaded assignment operator.  The pointers returned by this
   function are generally persistent; therefore it is not necessary to
   call the function again unless a :doc:`clear` command has been
   issued, which wipes out and recreates the contents of the
   :cpp:class:`LAMMPS <LAMMPS_NS::LAMMPS>` class.

   For example,

   .. code-block:: fortran

      PROGRAM demo
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int64_t, c_int, c_double
        USE LIBLAMMPS
        TYPE(lammps) :: lmp
        INTEGER(c_int), POINTER :: nlocal => NULL()
        INTEGER(c_int64_t), POINTER :: ntimestep => NULL()
        REAL(c_double), POINTER :: dt => NULL()
        CHARACTER(LEN=10) :: units
        lmp = lammps()
        ! other commands
        nlocal = lmp%extract_global('nlocal')
        ntimestep = lmp%extract_global('ntimestep')
        dt = lmp%extract_global('dt')
        units = lmp%extract_global('units')
        ! more commands
        lmp.close(.TRUE.)
      END PROGRAM demo

   would extract the number of atoms on this processor, the current time step,
   the size of the current time step, and the units being used into the
   variables *nlocal*, *ntimestep*, *dt*, and *units*, respectively.

   .. note::

      If :f:func:`extract_global` returns a string, the string must have
      a length greater than or equal to the length of the string (not
      including the terminal ``NULL`` character) that LAMMPS returns. If
      the variable's length is too short, the string will be
      truncated. As usual in Fortran, strings are padded with spaces at
      the end. If you use an allocatable string, the string **must be
      allocated** prior to calling this function, but you can
      automatically reallocate it to the correct length after the
      function returns, viz.,

      .. code-block :: fortran

         PROGRAM test
           USE LIBLAMMPS
           TYPE(lammps) :: lmp
           CHARACTER(LEN=:), ALLOCATABLE :: str
           lmp = lammps()
           CALL lmp%command('units metal')
           ALLOCATE(CHARACTER(LEN=80) :: str)
           str = lmp%extract_global('units')
           str = TRIM(str) ! re-allocates to length len_trim(str) here
           PRINT*, LEN(str), LEN_TRIM(str)
         END PROGRAM test

      will print the number 5 (the length of the word "metal") twice.

   :p character(len=\*) name: string with the name of the property to extract
   :to: :cpp:func:`lammps_extract_global`
   :r pointer [polymorphic]: pointer to LAMMPS data. The left-hand side of the
    assignment should be either a string (if expecting string data) or a
    C-compatible pointer (e.g., ``INTEGER(c_int), POINTER :: nlocal``) to the
    extracted property. If expecting vector data, the pointer should have
    dimension ":".

   .. warning::

       Modifying the data in the location pointed to by the returned pointer
       may lead to inconsistent internal data and thus may cause failures,
       crashes, or bogus simulations.  In general, it is much better
       to use a LAMMPS input command that sets or changes these parameters.
       Using an input command will take care of all side effects and necessary
       updates of settings derived from such settings. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:921: ERROR: Unknown directive type "f:function".

.. f:function:: extract_atom(name)

   This function calls :cpp:func:`lammps_extract_atom` and returns a pointer to
   LAMMPS data tied to the :cpp:class:`Atom` class, depending on the data
   requested through *name*.

   .. versionadded:: 3Nov2022

   Note that this function actually does not return a pointer, but rather
   associates the pointer on the left side of the assignment to point
   to internal LAMMPS data. Pointers must be of the correct type, kind, and
   rank (e.g., ``INTEGER(c_int), DIMENSION(:)`` for "type", "mask", or "id";
   ``INTEGER(c_int64_t), DIMENSION(:)`` for "id" if LAMMPS was compiled
   with the ``-DLAMMPS_BIGBIG`` flag; ``REAL(c_double), DIMENSION(:,:)`` for
   "x", "v", or "f"; and so forth). The pointer being associated with LAMMPS
   data is type-, kind-, and rank-checked at run-time.

   :p character(len=\*) name: string with the name of the property to extract
   :to: :cpp:func:`lammps_extract_atom`
   :r pointer: pointer to LAMMPS data. The left-hand side of the
    assignment should be a C-interoperable pointer of appropriate kind and rank
    (e.g., ``INTEGER(c_int), POINTER :: mask(:)``) to the extracted
    property. If expecting vector data, the pointer should have dimension ":";
    if expecting matrix data, the pointer should have dimension ":,:".
   :rtype pointer: polymorphic

   .. warning::

      Pointers returned by this function are generally not persistent, as
      per-atom data may be redistributed, reallocated, and reordered at every
      re-neighboring operation. It is advisable to re-bind pointers using
      :f:func:`extract_atom` between runs.

   .. admonition:: Array index order

      Two-dimensional arrays returned from :f:func:`extract_atom` will be
      **transposed** from equivalent arrays in C, and they will be indexed
      from 1 instead of 0. For example, in C,

      .. code-block:: c

         void *lmp;
         double **x;
         /* more code to setup, etc. */
         x = lammps_extract_atom(lmp, "x");
         printf("%f\n", x[5][1]);

      will print the *y*-coordinate of the sixth atom on this processor.
      Conversely,

      .. code-block:: fortran

         TYPE(lammps) :: lmp
         REAL(c_double), DIMENSION(:,:), POINTER :: x => NULL()
         ! more code to setup, etc.
         x = lmp%extract_atom("x")
         PRINT '(f0.6)', x(2,6)

      will print the *y*-coordinate of the sixth atom on this processor
      (note the transposition of the two indices). This is not a choice, but
      rather a consequence of the different conventions adopted by the Fortran
      and C standards decades ago: in C, the block of data

      .. parsed-literal::

         1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16

      interpreted as a :math:`4\times4` matrix would be

      .. math::

         \begin{bmatrix}
           1 & 2 & 3 & 4 \\
           5 & 6 & 7 & 8 \\
           9 & 10 & 11 & 12 \\
           13 & 14 & 15 & 16
         \end{bmatrix},

      that is, in row-major order. In Fortran, the same block of data is
      interpreted in column-major order, namely,

      .. math::

         \begin{bmatrix}
           1 & 5 & 9  & 13 \\
           2 & 6 & 10 & 14 \\
           3 & 7 & 11 & 15 \\
           4 & 8 & 12 & 16
         \end{bmatrix}.

      This difference in interpretation of the same block of data by the two
      languages means, in effect, that matrices from C or C++ will be
      transposed when interpreted in Fortran.

   .. note::

      If you would like the indices to start at 0 instead of 1 (which follows
      typical notation in C and C++, but not Fortran), you can create another
      pointer and associate it thus:

      .. code-block:: fortran

         REAL(c_double), DIMENSION(:,:), POINTER :: x, x0
         x = lmp%extract_atom("x")
         x0(0:,0:) => x

      The above would cause the dimensions of *x* to be (1:3, 1:nmax)
      and those of *x0* to be (0:2, 0:nmax\ :math:`-`\ 1). [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1032: ERROR: Unknown directive type "f:function".

.. f:function:: extract_compute(id, style, type)

   This function calls :cpp:func:`lammps_extract_compute` and returns a pointer
   to LAMMPS data tied to the :cpp:class:`Compute` class, specifically data
   provided by the compute identified by *id*. Computes may provide global,
   per-atom, or local data, and those data may be a scalar, a vector, or an
   array. Since computes may provide multiple kinds of data, the user is
   required to specify which set of data is to be returned through the
   *style* and *type* variables.

   .. versionadded:: 3Nov2022

   Note that this function actually does not return a value, but rather
   associates the pointer on the left side of the assignment to point to
   internal LAMMPS data. Pointers must be of the correct data type to point to
   said data (i.e., ``REAL(c_double)``) and have compatible rank.  The pointer
   being associated with LAMMPS data is type-, kind-, and rank-checked at
   run-time via an overloaded assignment operator.

   For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double), DIMENSION(:), POINTER :: COM
      ! code to setup, create atoms, etc.
      CALL lmp%command('compute COM all com')
      COM = lmp%extract_compute('COM', lmp%style%global, lmp%style%type)

   will bind the variable *COM* to the center of mass of the atoms created in
   your simulation. The vector in this case has length 3; the length (or, in
   the case of array data, the number of rows and columns) is determined for
   you based on data from the :cpp:class:`Compute` class.

   .. admonition:: Array index order

      Two-dimensional arrays returned from :f:func:`extract_compute` will be
      **transposed** from equivalent arrays in C, and they will be indexed
      from 1 instead of 0. See the note at :f:func:`extract_atom` for
      further details.

   The following combinations are possible (assuming ``lmp`` is the name of
   your LAMMPS instance):

   .. list-table::
      :header-rows: 1
      :widths: auto

      * - Style
        - Type
        - Type to assign to
        - Returned data
      * - ``lmp%style%global``
        - ``lmp%type%scalar``
        - ``REAL(c_double), POINTER``
        - Global scalar
      * - ``lmp%style%global``
        - ``lmp%type%vector``
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Global vector
      * - ``lmp%style%global``
        - ``lmp%type%array``
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Global array
      * - ``lmp%style%atom``
        - ``lmp%type%vector``
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Per-atom vector
      * - ``lmp%style%atom``
        - ``lmp%type%array``
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Per-atom array
      * - ``lmp%style%local``
        - ``lmp%type%vector``
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Local vector
      * - ``lmp%style%local``
        - ``lmp%type%array``
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Local array

   :p character(len=\*) id: compute ID from which to extract data
   :p integer(c_int) style: value indicating the style of data to extract
    (global, per-atom, or local)
   :p integer(c_int) type: value indicating the type of data to extract
    (scalar, vector, or array)
   :to: :cpp:func:`lammps_extract_compute`
   :r pointer: pointer to LAMMPS data. The left-hand side of the assignment
    should be a C-compatible pointer (e.g., ``REAL(c_double), POINTER :: x``)
    to the extracted property. If expecting vector data, the pointer should
    have dimension ":"; if expecting array (matrix) data, the pointer should
    have dimension ":,:".
   :rtype pointer: polymorphic

   .. note::

      If the compute's data are not already computed for the current step, the
      compute will be invoked. LAMMPS cannot easily check at that time if it is
      valid to invoke a compute, so it may fail with an error. The caller has
      to check to avoid such an error.

   .. warning::

      The pointers returned by this function are generally not persistent,
      since the computed data may be re-distributed, re-allocated, and
      re-ordered at every invocation. It is advisable to re-invoke this
      function before the data are accessed or make a copy if the data are to
      be used after other LAMMPS commands have been issued. Do **not** modify
      the data returned by this function. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1144: ERROR: Unknown directive type "f:function".

.. f:function:: extract_fix(id, style, type[, nrow][, ncol])

   This function calls :cpp:func:`lammps_extract_fix` and returns a pointer to
   LAMMPS data tied to the :cpp:class:`Fix` class, specifically data provided
   by the fix identified by *id*. Fixes may provide global, per-atom, or
   local data, and those data may be a scalar, a vector, or an array. Since
   many fixes provide multiple kinds of data, the user is required to specify
   which set of data is to be returned through the *style* and *type*
   variables.

   .. versionadded:: 3Nov2022

   Global data are calculated at the time they are requested and are only
   available element-by-element. As such, the user is expected to provide
   the *nrow* variable to specify which element of a global vector or the
   *nrow* and *ncol* variables to specify which element of a global array the
   user wishes LAMMPS to return. The *ncol* variable is optional for global
   scalar or vector data, and both *nrow* and *ncol* are optional when a
   global scalar is requested, as well as when per-atom or local data are
   requested. The following combinations are possible (assuming ``lmp`` is the
   name of your LAMMPS instance):

   .. list-table::
      :header-rows: 1
      :widths: auto

      * - Style
        - Type
        - nrow
        - ncol
        - Type to assign to
        - Returned data
      * - ``lmp%style%global``
        - ``lmp%type%scalar``
        - Ignored
        - Ignored
        - ``REAL(c_double)``
        - Global scalar
      * - ``lmp%style%global``
        - ``lmp%type%vector``
        - Required
        - Ignored
        - ``REAL(c_double)``
        - Element of global vector
      * - ``lmp%style%global``
        - ``lmp%type%array``
        - Required
        - Required
        - ``REAL(c_double)``
        - Element of global array
      * - ``lmp%style%atom``
        - ``lmp%type%scalar``
        -
        -
        -
        - (not allowed)
      * - ``lmp%style%atom``
        - ``lmp%type%vector``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Per-atom vector
      * - ``lmp%style%atom``
        - ``lmp%type%array``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Per-atom array
      * - ``lmp%style%local``
        - ``lmp%type%scalar``
        -
        -
        -
        - (not allowed)
      * - ``lmp%style%local``
        - ``lmp%type%vector``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Per-atom vector
      * - ``lmp%style%local``
        - ``lmp%type%array``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Per-atom array

   In the case of global data, this function returns a value of type
   ``REAL(c_double)``. For per-atom or local data, this function does not
   return a value but instead associates the pointer on the left side of the
   assignment to point to internal LAMMPS data. Pointers must be of the correct
   type and kind to point to said data (i.e., ``REAL(c_double)``) and have
   compatible rank.  The pointer being associated with LAMMPS data is type-,
   kind-, and rank-checked at run-time via an overloaded assignment operator.

   For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double) :: dr, dx, dy, dz
      ! more code to set up, etc.
      lmp%command('fix george all recenter 2 2 2')
      ! more code
      dr = lmp%extract_fix("george", lmp%style%global, lmp%style%scalar)
      dx = lmp%extract_fix("george", lmp%style%global, lmp%style%vector, 1)
      dy = lmp%extract_fix("george", lmp%style%global, lmp%style%vector, 2)
      dz = lmp%extract_fix("george", lmp%style%global, lmp%style%vector, 3)

   will extract the global scalar calculated by
   :doc:`fix recenter <fix_recenter>` into the variable *dr* and the
   three elements of the global vector calculated by fix recenter into the
   variables *dx*, *dy*, and *dz*, respectively.

   If asked for per-atom or local data, :f:func:`extract_compute` returns a
   pointer to actual LAMMPS data. The pointer so returned will have the
   appropriate size to match the internal data, and will be
   type/kind/rank-checked at the time of the assignment. For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double), DIMENSION(:), POINTER :: r
      ! more code to set up, etc.
      lmp%command('fix state all store/state 0 x y z')
      ! more code
      r = lmp%extract_fix('state', lmp%style%atom, lmp%type%array)

   will bind the pointer *r* to internal LAMMPS data representing the per-atom
   array computed by :doc:`fix store/state <fix_store_state>` when three
   inputs are specified. Similarly,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double), DIMENSION(:), POINTER :: x
      ! more code to set up, etc.
      lmp%command('fix state all store/state 0 x')
      ! more code
      x = lmp%extract_fix('state', lmp%style%atom, lmp%type%vector)

   will associate the pointer *x* with internal LAMMPS data corresponding to
   the per-atom vector computed by :doc:`fix store/state <fix_store_state>`
   when only one input is specified. Similar examples with ``lmp%style%atom``
   replaced by ``lmp%style%local`` will extract local data from fixes that
   define local vectors and/or arrays.

   .. warning::

      The pointers returned by this function for per-atom or local data are
      generally not persistent, since the computed data may be redistributed,
      reallocated, and reordered at every invocation of the fix.  It is thus
      advisable to re-invoke this function before the data are accessed or to
      make a copy if the data are to be used after other LAMMPS commands have
      been issued.

   .. note::

      LAMMPS cannot easily check if it is valid to access the data, so it
      may fail with an error.  The caller has to avoid such an error.

   :p character(len=\*) id: string with the name of the fix from which
    to extract data
   :p integer(c_int) style: value indicating the style of data to extract
    (global, per-atom, or local)
   :p integer(c_int) type: value indicating the type of data to extract
    (scalar, vector, or array)
   :p integer(c_int) nrow: row index (used only for global vectors and arrays)
   :p integer(c_int) ncol: column index (only used for global arrays)
   :to: :cpp:func:`lammps_extract_fix`
   :r data: LAMMPS data (for global data) or a pointer to LAMMPS data
    (for per-atom or local data). The left-hand side of the assignment should
    be of type ``REAL(c_double)`` and have appropriate rank (i.e.,
    ``DIMENSION(:)`` if expecting per-atom or local vector data and
    ``DIMENSION(:,:)`` if expecting per-atom or local array data). If expecting
    local or per-atom data, it should have the ``POINTER`` attribute, but
    if expecting global data, it should be an ordinary (non-``POINTER``)
    variable.
   :rtype data: polymorphic

   .. admonition:: Array index order

      Two-dimensional global, per-atom, or local array data from
      :f:func:`extract_fix` will be **transposed** from equivalent arrays in
      C (or in the ordinary LAMMPS interface accessed through thermodynamic
      output), and they will be indexed from 1, not 0. This is true even for
      global data, which are returned as scalars---this is done primarily so
      the interface is consistent, as there is no choice but to transpose the
      indices for per-atom or local array data. See the similar note under
      :f:func:`extract_atom` for further details. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1337: ERROR: Unknown directive type "f:function".

.. f:function:: extract_variable(name[,group])

   This function calls :cpp:func:`lammps_extract_variable` and returns a
   scalar, vector, or string containing the value of the variable identified by
   *name*. When the variable is an *equal*-style variable (or one compatible
   with that style such as *internal*), the variable is evaluated and the
   corresponding value returned. When the variable is an *atom*-style variable,
   the variable is evaluated and a vector of values is returned. With all
   other variables, a string is returned. The *group* argument is only used
   for *atom* style variables and is ignored otherwise. If *group* is absent
   for *atom*-style variables, the group is assumed to be "all".

   .. versionadded:: 3Nov2022

   This function returns the values of the variables, not pointers to them.
   Vectors pointing to *atom*-style variables should be of type
   ``REAL(c_double)``, be of rank 1 (i.e., ``DIMENSION(:)``), and have the
   ``ALLOCATABLE`` attribute.

   .. note::

      Unlike the C library interface, the Fortran interface does not require
      you to deallocate memory when you are through; this is done for you,
      behind the scenes.

   For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double) :: area
      ! more code to set up, etc.
      lmp%command('variable A equal lx*ly')
      ! more code
      area = lmp%extract_variable("A")

   will extract the *x*\ --*y* cross-sectional area of the simulation into the
   variable *area*.

   :p character(len=\*) name: variable name to evaluate
   :o character(len=\*) group [optional]: group for which to extract per-atom
    data (if absent, use "all")
   :to: :cpp:func:`lammps_extract_variable`
   :r data: scalar of type ``REAL(c_double)`` (for *equal*-style
    variables and others that are *equal*-compatible), vector of type
    ``REAL(c_double), DIMENSION(:), ALLOCATABLE`` for *atom*- or *vector*-style
    variables, or ``CHARACTER(LEN=*)`` for *string*-style and compatible
    variables. Strings whose length is too short to hold the result will be
    truncated. Allocatable strings must be allocated before this function is
    called; see note at :f:func:`extract_global` regarding allocatable strings.
    Allocatable arrays (for *atom*- and *vector*-style data) will be
    reallocated on assignment.
   :rtype data: polymorphic [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1401: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_variable(name, str)

   Set the value of a string-style variable.

   .. deprecated:: 7Feb2024

   This function assigns a new value from the string *str* to the string-style
   variable *name*\ . If *name* does not exist or is not a string-style
   variable, an error is generated.

   .. warning::

      This subroutine is deprecated and :f:subr:`set_string_variable`
      should be used instead.

   :p character(len=*) name: name of the variable
   :p character(len=*) str:  new value to assign to the variable
   :to: :cpp:func:`lammps_set_variable` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1422: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_string_variable(name, str)

   Set the value of a string-style variable.

   .. versionadded:: 7Feb2024

   This function assigns a new value from the string *str* to the string-style
   variable *name*\ . If *name* does not exist or is not a string-style
   variable, an error is generated.

   :p character(len=*) name: name of the variable
   :p character(len=*) str:  new value to assign to the variable
   :to: :cpp:func:`lammps_set_string_variable` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1438: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_internal_variable(name, val)

   Set the value of a internal-style variable.

   .. versionadded:: 7Feb2024

   This function assigns a new value from the floating-point number *val* to
   the internal-style variable *name*\ . If *name* does not exist or is not
   an internal-style variable, an error is generated.

   :p character(len=*) name: name of the variable
   :p read(c_double) val:  new value to assign to the variable
   :to: :cpp:func:`lammps_set_internal_variable` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1454: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_atoms(name, count, data)

   This function calls :cpp:func:`lammps_gather_atoms` to gather the named
   atom-based entity for all atoms on all processors and return it in the
   vector *data*. The vector *data* will be ordered by atom
   ID, which requires consecutive atom IDs (1 to *natoms*).

   .. versionadded:: 3Nov2022

   If you need a similar array but have non-consecutive atom IDs, see
   :f:func:`gather_atoms_concat`; for a similar array but for a subset
   of atoms, see :f:func:`gather_atoms_subset`.

   The *data* array will be ordered in groups of *count* values, sorted by atom
   ID (e.g., if *name* is *x* and *count* = 3, then *data* = [*x*\ (1,1),
   *x*\ (2,1), *x*\ (3,1), *x*\ (1,2), *x*\ (2,2), *x*\ (3,2), *x*\ (1,3),
   :math:`\dots`]); *data* must be ``ALLOCATABLE`` and will be allocated to
   length (*count* :math:`\times` *natoms*), as queried by
   :f:func:`get_natoms`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., *x* or *mask*)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_atoms`

   .. note::

      If you want data from this function to be accessible as a two-dimensional
      array, you can declare a rank-2 pointer and reassign it, like so:

      .. code-block:: fortran

         USE, INTRINSIC :: ISO_C_BINDING
         USE LIBLAMMPS
         TYPE(lammps) :: lmp
         REAL(c_double), DIMENSION(:), ALLOCATABLE, TARGET :: xdata
         REAL(c_double), DIMENSION(:,:), POINTER :: x
         ! other code to set up, etc.
         CALL lmp%gather_atoms('x',3,xdata)
         x(1:3,1:size(xdata)/3) => xdata

      You can then access the *y*\ -component of atom 3 with ``x(2,3)``.
      See the note about array index order at :f:func:`extract_atom`. [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1511: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_atoms_concat(name, count, data)

   This function calls :cpp:func:`lammps_gather_atoms_concat` to gather the
   named atom-based entity for all atoms on all processors and return it in the
   vector *data*.

   .. versionadded:: 3Nov2022

   The vector *data* will not be ordered by atom ID, and there is no
   restriction on the IDs being consecutive. If you need the IDs, you can do
   another :f:func:`gather_atoms_concat` with *name* set to ``id``.

   If you need a similar array but have consecutive atom IDs, see
   :f:func:`gather_atoms`; for a similar array but for a subset of atoms, see
   :f:func:`gather_atoms_subset`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., *x* or *mask*)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_atoms_concat` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1545: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_atoms_subset(name, count, ids, data)

   This function calls :cpp:func:`lammps_gather_atoms_subset` to gather the
   named atom-based entity for the atoms in the array *ids* from all processors
   and return it in the vector *data*.

   .. versionadded:: 3Nov2022

   This subroutine gathers data for the requested atom IDs and stores them in a
   one-dimensional allocatable array. The data will be ordered by
   atom ID, but there is no requirement that the IDs be consecutive. If you
   wish to return a similar array for *all* the atoms, use
   :f:func:`gather_atoms` or :f:func:`gather_atoms_concat`.

   The *data* array will be in groups of *count* values, sorted by atom ID
   in the same order as the array *ids* (e.g., if *name* is *x*, *count* = 3,
   and *ids* is [100, 57, 210], then *data* might look like
   [*x*\ (1,100), *x*\ (2,100), *x*\ (3,100), *x*\ (1,57), *x*\ (2,57),
   *x*\ (3,57), *x*\ (1,210), :math:`\dots`]; *ids* must be provided by the
   user, and *data* must be of rank 1 (i.e., ``DIMENSION(:)``) and have the
   ``ALLOCATABLE`` attribute.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., *x* or *mask*)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p integer(c_int) ids [dimension(:)]: atom IDs corresponding to the atoms
    to be gathered
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_atoms_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1587: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter_atoms(name, data)

   This function calls :cpp:func:`lammps_scatter_atoms` to scatter the named
   atom-based entities in *data* to all processors.

   .. versionadded:: 3Nov2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to all atoms on all processors. The data must be
   ordered by atom ID, with the requirement that the IDs be consecutive.
   Use :f:func:`scatter_atoms_subset` to scatter data for some (or all)
   atoms, in any order.

   The *data* array needs to be ordered in groups of *count* values, sorted by
   atom ID (e.g., if *name* is *x* and *count* = 3, then
   *data* = [*x*\ (1,1), *x*\ (2,1), *x*\ (3,1), *x*\ (1,2), *x*\ (2,2),
   *x*\ (3,2), *x*\ (1,3), :math:`\dots`]); *data* must be of length *natoms*
   or 3\*\ *natoms*.

   :p character(len=\*) name: quantity to be scattered (e.g., *x* or *charge*)
   :p data: per-atom values packed in a one-dimensional array
    containing the data to be scattered. This array must have length *natoms*
    (e.g., for *type* or *charge*) or length *natoms*\ :math:`{}\times 3`
    (e.g., for *x* or *f*). The array *data* must be rank 1 (i.e.,
    ``DIMENSION(:)``) and be of type ``INTEGER(c_int)`` (e.g., for *mask* or
    *type*) or of type ``REAL(c_double)`` (e.g., for *x* or *charge* or *f*).
   :ptype data: polymorphic,dimension(:)
   :to: :cpp:func:`lammps_scatter_atoms` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1618: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter_atoms_subset(name, ids, data)

   This function calls :cpp:func:`lammps_scatter_atoms_subset` to scatter the
   named atom-based entities in *data* to all processors.

   .. versionadded:: 3Nov2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to a subset of atoms on all processors. The array
   *data* contains data associated with atom IDs, but there is no requirement
   that the IDs be consecutive, as they are provided in a separate array,
   *ids*. Use :f:func:`scatter_atoms` to scatter data for all atoms, in order.

   The *data* array needs to be organized in groups of 1 or 3 values,
   depending on which quantity is being scattered, with the groups in the same
   order as the array *ids*. For example, if you want *data* to be the array
   [*x*\ (1,1), *x*\ (2,1), *x*\ (3,1), *x*\ (1,100), *x*\ (2,100),
   *x*\ (3,100), *x*\ (1,57), *x*\ (2,57), *x*\ (3,57)], then *ids* would be
   [1, 100, 57] and *name* would be *x*.

   :p character(len=\*) name: quantity to be scattered (e.g., *x* or *charge*)
   :p integer(c_int) ids [dimension(:)]: atom IDs corresponding to the atoms
    being scattered
   :p data: per-atom values packed into a
    one-dimensional array containing the data to be scattered. This array must
    have either the same length as *ids* (for *mask*, *type*, etc.) or three
    times its length (for *x*, *f*, etc.); the array must be rank 1
    and be of type ``INTEGER(c_int)`` (e.g., for *mask* or *type*) or of type
    ``REAL(c_double)`` (e.g., for *charge*, *x*, or *f*).
   :ptype data: polymorphic,dimension(:)
   :to: :cpp:func:`lammps_scatter_atoms_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1652: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_bonds(data)

   Gather type and constituent atom information for all bonds.

   .. versionadded:: 3Nov2022

   This function copies the list of all bonds into an allocatable array.
   The array will be filled with (bond type, bond atom 1, bond atom 2) for each
   bond. The array is allocated to the right length (i.e., three times the
   number of bonds). The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM bonds
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: bonds
        INTEGER(c_int), DIMENSION(:,:), POINTER :: bonds_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create bonds, etc.
        CALL lmp%gather_bonds(bonds)
        bonds_array(1:3, 1:SIZE(bonds)/3) => bonds
        DO i = 1, SIZE(bonds)/3
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4)') 'bond', bonds_array(1,i), &
            '; type = ', bonds_array(2,i), bonds_array(3,i)
        END DO
      END PROGRAM bonds

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_bonds` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1697: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_angles(data)

   Gather type and constituent atom information for all angles.

   .. versionadded:: 8Feb2023

   This function copies the list of all angles into an allocatable array.
   The array will be filled with (angle type, angle atom 1, angle atom 2, angle atom 3)
   for each angle. The array is allocated to the right length (i.e., four times the
   number of angles). The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM angles
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: angles
        INTEGER(c_int), DIMENSION(:,:), POINTER :: angles_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create angles, etc.
        CALL lmp%gather_angles(angles)
        angles_array(1:4, 1:SIZE(angles)/4) => angles
        DO i = 1, SIZE(angles)/4
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4,1X,I4)') 'angle', angles_array(1,i), &
            '; type = ', angles_array(2,i), angles_array(3,i), angles_array(4,i)
        END DO
      END PROGRAM angles

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_angles` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1742: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather(self, name, count, data)

   Gather the named per-atom, per-atom fix, per-atom compute, or fix
   property/atom-based entities from all processes, in order by atom ID.

   .. versionadded:: 22Dec2022

   This subroutine gathers data from all processes and stores them in a
   one-dimensional allocatable array. The array *data* will be
   ordered by atom ID, which requires consecutive IDs (1 to *natoms*\ ). If you
   need a similar array but for non-consecutive atom IDs, see
   :cpp:func:`lammps_gather_concat`; for a similar array but for a subset of
   atoms, see :cpp:func:`lammps_gather_subset`.

   The *data* array will be ordered in groups of *count* values, sorted by atom
   ID (e.g., if *name* is *x*, then *data* is [x(1,1), x(2,1), x(3,1), x(1,2),
   x(2,2), x(3,2), x(1,3), :math:`\dots`]); *data* must be ``ALLOCATABLE`` and
   will be allocated to length (*count*\ :math:`{}\times{}`\ *natoms*), as
   queried by :f:func:`get_natoms`.

   This function will return an error if fix or compute data are requested and
   the fix or compute ID given does not have per-atom data. See the note about
   re-interpreting the vector as a matrix at :f:subr:`gather_atoms`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., "x" or "mask" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with
    *count*\ :math:`{}> 1`)
   :p integer(c_int) count: number of per-atom values (e.g., 1 for *type* or
    *charge*, 3 for *x* or *f*); use *count* = 3 with *image* if you want the
    image flags unpacked into (*x*,\ *y*,\ *z*) components.
   :p real(c_double) data [dimension(:),allocatable]: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data.
   :to: :cpp:func:`lammps_gather` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1784: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_dihedrals(data)

   Gather type and constituent atom information for all dihedrals.

   .. versionadded:: 8Feb2023

   This function copies the list of all dihedrals into an allocatable array.
   The array will be filled with (dihedral type, dihedral atom 1, dihedral atom 2,
   dihedral atom 3, dihedral atom 4) for each dihedral. The array is allocated to
   the right length (i.e., five times the number of dihedrals).
   The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM dihedrals
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: dihedrals
        INTEGER(c_int), DIMENSION(:,:), POINTER :: dihedrals_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create dihedrals, etc.
        CALL lmp%gather_dihedrals(dihedrals)
        dihedrals_array(1:5, 1:SIZE(dihedrals)/5) => dihedrals
        DO i = 1, SIZE(dihedrals)/5
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4,1X,I4,1X,I4)') 'dihedral', dihedrals_array(1,i), &
            '; type = ', dihedrals_array(2,i), dihedrals_array(3,i), dihedrals_array(4,i), dihedrals_array(5,i)
        END DO
      END PROGRAM dihedrals

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_dihedrals` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1830: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_impropers(data)

   Gather type and constituent atom information for all impropers.

   .. versionadded:: 8Feb2023

   This function copies the list of all impropers into an allocatable array.
   The array will be filled with (improper type, improper atom 1, improper atom 2,
   improper atom 3, improper atom 4) for each improper. The array is allocated to
   the right length (i.e., five times the number of impropers).
   The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM impropers
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: impropers
        INTEGER(c_int), DIMENSION(:,:), POINTER :: impropers_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create impropers, etc.
        CALL lmp%gather_impropers(impropers)
        impropers_array(1:5, 1:SIZE(impropers)/5) => impropers
        DO i = 1, SIZE(impropers)/5
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4,1X,I4,1X,I4)') 'improper', impropers_array(1,i), &
            '; type = ', impropers_array(2,i), impropers_array(3,i), impropers_array(4,i), impropers_array(5,i)
        END DO
      END PROGRAM impropers

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_impropers` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1876: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_concat(self, name, count, data)

   Gather the named per-atom, per-atom fix, per-atom compute, or fix
   property/atom-based entities from all processes, unordered.

   .. versionadded:: 22Dec2022

   This subroutine gathers data for all atoms and stores them in a
   one-dimensional allocatable array. The data will be a
   concatenation of chunks from each processor's owned atoms, in whatever order
   the atoms are in on each processor. This process has no requirement that the
   atom IDs be consecutive. If you need the ID of each atom, you can do another
   call to either :f:subr:`gather_atoms_concat` or :f:subr:`gather_concat` with
   *name* set to ``id``. If you have consecutive IDs and want the data to be in
   order, use :f:subr:`gather`; for a similar array but for a subset of
   atoms, use :f:subr:`gather_subset`.

   The *data* array will be in groups of *count* values, with *natoms* groups
   total, but not in order by atom ID (e.g., if *name* is *x* and *count* is 3,
   then *data* might be something like [x(1,11), x(2,11), x(3,11), x(1,3),
   x(2,3), x(3,3), x(1,5), :math:`\dots`]); *data* must be ``ALLOCATABLE`` and
   will be allocated to length (*count* :math:`\times` *natoms*), as queried by
   :f:func:`get_natoms`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., "x" or "mask" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with
    *count*\ :math:`{}> 1`)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_concat` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1922: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_subset(name, count, ids, data)

   Gather the named per-atom, per-atom fix, per-atom compute, or fix
   property/atom-based entities from all processes for a subset of atoms.

   .. versionadded:: 22Dec2022

   This subroutine gathers data for the requested atom IDs and stores them in a
   one-dimensional allocatable array. The data will be ordered by atom ID, but
   there is no requirement that the IDs be consecutive. If you wish to return a
   similar array for *all* the atoms, use :f:subr:`gather` or
   :f:subr:`gather_concat`.

   The *data* array will be in groups of *count* values, sorted by atom ID in
   the same order as the array *ids* (e.g., if *name* is *x*, *count* = 3, and
   *ids* is [100, 57, 210], then *data* might look like [*x*\ (1,100),
   *x*\ (2,100), *x*\ (3,100), *x*\ (1,57), *x*\ (2,57), *x*\ (3,57),
   *x*\ (1,210), :math:`\dots`]); *ids* must be provided by the user, and
   *data* must have the ``ALLOCATABLE`` attribute and be of rank 1 (i.e.,
   ``DIMENSION(:)``). If *data* is already allocated, it will be reallocated to
   fit the length of the incoming data.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: quantity to be scattered

   :p integer(c_int) ids [dimension(:)]: atom IDs corresponding to the atoms
    being scattered (e.g., "x" or "f" for atom properties, "f_id" for per-atom
    fix data, "c_id" for per-atom compute data, "d_name" or "i_name" for fix
    property/atom vectors with *count* = 1, "d2_name" or "i2_name" for fix
    property/atom vectors with *count*\ :math:`{} > 1`)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: per-atom values packed into a one-dimensional array containing the
    data to be scattered. This array must have the ``ALLOCATABLE`` attribute
    and will be allocated either to the same length as *ids*
    (for *mask*, *type*, etc.) or to three times its length (for *x*, *f*,
    etc.); the array must be rank 1 and be of type ``INTEGER(c_int)`` (e.g.,
    for *mask* or *type*) or of type ``REAL(c_double)`` (e.g., for *charge*,
    *x*, or *f*).
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1969: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter(name, data)

   This function calls :cpp:func:`lammps_scatter` to scatter the named
   per-atom, per-atom fix, per-atom compute, or fix property/atom-based entity
   in *data* to all processes.

   .. versionadded:: 22Dec2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to all atoms on all processes. The data must be
   ordered by atom ID, with the requirement that the IDs be consecutive. Use
   :f:subr:`scatter_subset` to scatter data for some (or all) atoms, unordered.

   The *data* array needs to be ordered in groups of *count* values, sorted by
   atom ID (e.g., if *name* is *x* and *count* = 3, then *data* = [*x*\ (1,1),
   *x*\ (2,1), *x*\ (3,1), *x*\ (1,2), *x*\ (2,2), *x*\ (3,2), *x*\ (1,3),
   :math:`\dots`]); *data* must be of length (*count* :math:`\times` *natoms*).

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=*) name: desired quantity (e.g., "x" or "f" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with *count*\
    :math:`{} > 1`)
   :p data: per-atom values packed in a one-dimensional array; *data* should be
    of type ``INTEGER(c_int)`` or ``REAL(c_double)``, depending on the type of
    data being scattered, and be of rank 1 (i.e., ``DIMENSION(:)``).
   :ptype data: polymorphic,dimension(:)
   :to: :cpp:func:`lammps_scatter` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2002: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter_subset(name, ids, data)

   This function calls :cpp:func:`lammps_scatter_subset` to scatter the named
   per-atom, per-atom fix, per-atom compute, or fix property/atom-based
   entities in *data* from a subset of atoms to all processes.

   .. versionadded:: 22Dec2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to a subset of atoms on all processes. The array
   *data* contains data associated with atom IDs, but there is no requirement
   that the IDs be consecutive, as they are provided in a separate array.
   Use :f:subr:`scatter` to scatter data for all atoms, in order.

   The *data* array needs to be organized in groups of *count* values, with the
   groups in the same order as the array *ids*. For example, if you want *data*
   to be the array [x(1,1), x(2,1), x(3,1), x(1,100), x(2,100), x(3,100),
   x(1,57), x(2,57), x(3,57)], then *count* = 3 and *ids* = [1, 100, 57].

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., "x" or "mask" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with
    *count*\ :math:`{}> 1`)
   :p integer(c_int) ids: list of atom IDs to scatter data for
   :p polymorphic data [dimension(:)]: per-atom values packed in a
    one-dimensional array of length *size(ids)* \* *count*.
   :to: :cpp:func:`lammps_scatter_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2035: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: create_atoms([id,] type, x, [v,] [image,] [bexpand])

   This method calls :cpp:func:`lammps_create_atoms` to create additional atoms
   from a given list of coordinates and a list of atom types. Additionally,
   the atom IDs, velocities, and image flags may be provided.

   .. versionadded:: 3Nov2022

   :p integer(c_int) type [dimension(N)]: vector of :math:`N` atom types
    (required/see note below)
   :p real(c_double) x [dimension(3N)]: vector of :math:`3N\ x/y/z` positions
    of the new atoms, arranged as :math:`[x_1,y_1,z_1,x_2,y_2,\dotsc]`
    (required/see note below)
   :o integer(kind=\*) id [dimension(N),optional]: vector of :math:`N` atom
    IDs; if absent, LAMMPS will generate them for you. \*The ``KIND`` parameter
    should be ``c_int`` unless LAMMPS was compiled with ``-DLAMMPS_BIGBIG``, in
    which case it should be ``c_int64_t``.
   :o real(c_double) v [dimension(3N),optional]: vector of :math:`3N`
    *x*\ /*y*\ /*z* velocities of the new atoms, arranged as
    :math:`[v_{1,x},v_{1,y},v_{1,z},v_{2,x}, \dotsc]`; if absent, they will be
    set to zero
   :o integer(kind=\*) image [dimension(N),optional]: vector of :math:`N` image
    flags; if absent, they are set to zero. \*The ``KIND`` parameter should be
    ``c_int`` unless LAMMPS was compiled with ``-DLAMMPS_BIGBIG``, in which
    case it should be ``c_int64_t``. See note below.
   :o bexpand: if ``.TRUE.``, atoms outside of shrink-wrap boundaries
    will be created, not dropped, and the box dimensions will be extended.
    Default is ``.FALSE.``
   :otype bexpand: logical,optional
   :to: :cpp:func:`lammps_create_atoms`

   .. note::

      The *type* and *x* arguments are required, but they are declared
      ``OPTIONAL`` in the module because making them mandatory would require
      *id* to be present as well. To have LAMMPS generate the ids for you,
      use a call something like

      .. code-block:: fortran

         lmp%create_atoms(type=new_types, x=new_xs)

   .. note::

      When LAMMPS has been compiled with ``-DLAMMPS_BIGBIG``, it is not
      possible to include the *image* parameter but omit the *id* parameter.
      Either *id* must be present, or both *id* and *image* must be absent.
      This is required because having all arguments be optional in both
      generic functions creates an ambiguous interface. This limitation does
      not exist if LAMMPS was not compiled with ``-DLAMMPS_BIGBIG``. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2088: ERROR: Unknown directive type "f:function".

.. f:function:: find_pair_neighlist(style[, exact][, nsub][, reqid])

   Find index of a neighbor list requested by a pair style.

   .. versionadded:: 3Nov2022

   This function determines which of the available neighbor lists for pair
   styles matches the given conditions.  It first matches the style name.
   If *exact* is ``.TRUE.``, the name must match exactly; if ``.FALSE.``, a
   regular expression or sub-string match is done.  If the pair style is
   *hybrid* or *hybrid/overlay*, the style is matched against the sub-styles
   instead. If the same pair style is used multiple times as a sub-style, the
   *nsub* argument must be :math:`> 0`; this argument represents the *n*\ th
   instance of the sub-style (same as for the :doc:`pair_coeff <pair_coeff>`
   command, for example). In that case, *nsub*\ :math:`{} = 0` will not
   produce a match, and the function will return :math:`-1`.

   The final condition to be checked is the request ID (\ *reqid*\ ). This
   will usually be zero, but some pair styles request multiple neighbor
   lists and set the request ID to a value greater than zero.

   :p character(len=\*) style: String used to search for pair style instance.
   :o exact: Flag to control whether style should match exactly or only a
    regular expression/sub-string match is applied. Default: ``.TRUE.``.
   :otype exact: logical,optional
   :o integer(c_int) nsub [optional]: Match *nsub*\ th hybrid sub-style
    instance of the same style. Default: 0.
   :o integer(c_int) reqid [optional]: Request ID to identify the neighbor list
    in case there are multiple requests from the same pair style instance.
    Default: 0.
   :to: :cpp:func:`lammps_find_pair_neighlist`
   :r integer(c_int) index:    Neighbor list index if found, otherwise
    :math:`-1`. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2124: ERROR: Unknown directive type "f:function".

.. f:function:: find_fix_neighlist(id[, reqid])

   Find index of a neighbor list requested by a fix.

   .. versionadded:: 3Nov2022

   The neighbor list request from a fix is identified by the fix ID and the
   request ID. The request ID is typically zero, but will be :math:`>0` for
   fixes with multiple neighbor list requests.

   :p character(len=\*) id: Identifier of fix instance
   :o integer(c_int) reqid [optional]: request ID to identify the neighbor list
    in cases in which there are multiple requests from the same fix.
    Default: 0.
   :to: :cpp:func:`lammps_find_fix_neighlist`
   :r index: neighbor list index if found, otherwise :math:`-1`
   :rtype index: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2144: ERROR: Unknown directive type "f:function".

.. f:function:: find_compute_neighlist(id[, reqid])

   Find index of a neighbor list requested by a compute.

   .. versionadded:: 3Nov2022

   The neighbor list request from a compute is identified by the compute ID and
   the request ID.  The request ID is typically zero, but will be :math:`> 0`
   in case a compute has multiple neighbor list requests.

   :p character(len=\*) id: Identifier of compute instance.
   :o integer(c_int) reqid [optional]: request ID to identify the neighbor list
    in cases in which there are multiple requests from the same compute.
    Default: 0.
   :to: :cpp:func:`lammps_find_compute_neighlist`
   :r index: neighbor list index if found, otherwise :math:`-1`.
   :rtype index: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2164: ERROR: Unknown directive type "f:function".

.. f:function:: neighlist_num_elements(idx)

   Return the number of entries in the neighbor list with the given index.

   .. versionadded:: 3Nov2022

   :p integer(c_int) idx: neighbor list index
   :to: :cpp:func:`lammps_neighlist_num_elements`
   :r inum: number of entries in neighbor list, or :math:`-1` if *idx* is not
    a valid index.
   :rtype inum: integer(c_int)
   :to: :cpp:func:`lammps_neighlist_num_elements` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2179: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: neighlist_element_neighbors(idx, element, iatom, neighbors)

   Return atom local index, number of neighbors, and array of neighbor local
   atom indices of a neighbor list entry.

   .. versionadded:: 3Nov2022

   :p integer(c_int) idx: index of this neighbor list in the list of all
    neighbor lists
   :p integer(c_int) element: index of this neighbor list entry
   :p integer(c_int) iatom: local atom index (i.e., in the range
    [1,nlocal+nghost]; -1 if invalid or element value
   :p integer(c_int) neighbors [dimension(:),pointer]: pointer to an array of
    neighboring atom local indices
   :to: :cpp:func:`lammps_neighlist_element_neighbors` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2197: ERROR: Unknown directive type "f:function".

.. f:function:: version()

   This method returns the numeric LAMMPS version like
   :cpp:func:`lammps_version` does.

   :to: :cpp:func:`lammps_version`
   :r version: LAMMPS version
   :rtype version: integer [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2208: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: get_os_info(buffer)

   This function can be used to retrieve detailed information about the hosting
   operating system and compiler/runtime environment.

   .. versionadded:: 3Nov2022

   A suitable buffer has to be provided. The assembled text will be truncated
   so as not to overflow this buffer. The string is typically a few hundred
   bytes long.

   :p character(len=\*) buffer: string that will house the information.
   :to: :cpp:func:`lammps_get_os_info` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2225: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_mpi_support()

   This function is used to query whether LAMMPS was compiled with a real MPI
   library or in serial.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_config_has_mpi_support`
   :r has_mpi: ``.FALSE.`` when compiled with STUBS, ``.TRUE.`` if
    complied with MPI.
   :rtype has_mpi: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2239: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_gzip_support()

   Check if the LAMMPS library supports reading or writing compressed
   files via a pipe to gzip or similar compression programs.

   .. versionadded:: 3Nov2022

   Several LAMMPS commands (e.g., :doc:`read_data`, :doc:`write_data`,
   :doc:`dump styles atom, custom, and xyz <dump>`) support reading and writing
   compressed files via creating a pipe to the ``gzip`` program.  This function
   checks whether this feature was :ref:`enabled at compile time <gzip>`.
   It does **not** check whether ``gzip`` or any other supported compression
   programs themselves are installed and usable.

   :to: :cpp:func:`lammps_config_has_gzip_support`
   :r has_gzip:
   :rtype has_gzip: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2259: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_png_support()

   Check if the LAMMPS library supports writing PNG format images.

   .. versionadded:: 3Nov2022

   The LAMMPS :doc:`dump style image <dump_image>` supports writing multiple
   image file formats.  Most of them, however, need support from an external
   library, and using that has to be :ref:`enabled at compile time <graphics>`.
   This function checks whether support for the `PNG image file format
   <https://en.wikipedia.org/wiki/Portable_Network_Graphics>`_ is available
   in the current LAMMPS library.

   :to: :cpp:func:`lammps_config_has_png_support`
   :r has_png:
   :rtype has_png: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2278: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_jpeg_support()

   Check if the LAMMPS library supports writing JPEG format images.

   .. versionadded:: 3Nov2022

   The LAMMPS :doc:`dump style image <dump_image>` supports writing multiple
   image file formats.  Most of them, however, need support from an external
   library, and using that has to be :ref:`enabled at compile time <graphics>`.
   This function checks whether support for the `JPEG image file format
   <https://jpeg.org/jpeg/>`_ is available in the current LAMMPS library.

   :to: :cpp:func:`lammps_config_has_jpeg_support`
   :r has_jpeg:
   :rtype has_jpeg: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2296: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_ffmpeg_support()

   Check if the LAMMPS library supports creating movie files via a pipe to
   ffmpeg.

   .. versionadded:: 3Nov2022

   The LAMMPS :doc:`dump style movie <dump_image>` supports generating movies
   from images on-the-fly via creating a pipe to the
   `ffmpeg <https://ffmpeg.org/>`_ program.
   This function checks whether this feature was
   :ref:`enabled at compile time <graphics>`.
   It does **not** check whether the ``ffmpeg`` itself is installed and usable.

   :to: :cpp:func:`lammps_config_has_ffmpeg_support`
   :r has_ffmpeg:
   :rtype has_ffmpeg: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2316: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_exceptions()

   Check whether LAMMPS errors will throw C++ exceptions.

   .. versionadded:: 3Nov2022

   When using the library interface, the library interface functions
   will "catch" exceptions, and then the error status can be checked by
   calling :f:func:`has_error`.  The most recent error message can be
   retrieved via :f:func:`get_last_error_message`.  This allows to
   restart a calculation or delete and recreate the LAMMPS instance when
   a C++ exception occurs.  One application of using exceptions this way
   is the :ref:`lammps_shell`.

   :to: :cpp:func:`lammps_config_has_exceptions`
   :r has_exceptions:
   :rtype has_exceptions: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2336: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_package(name)

   Check whether a specific package has been included in LAMMPS

   .. versionadded:: 3Nov2022

   This function checks whether the LAMMPS library in use includes the specific
   :doc:`LAMMPS package <Packages>` provided as argument.

   :to: :cpp:func:`lammps_config_has_package`
   :r has_package:
   :rtype has_package: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2351: ERROR: Unknown directive type "f:function".

.. f:function:: config_package_count()

   Count the number of installed packages in the LAMMPS library.

   .. versionadded:: 3Nov2022

   This function counts how many :doc:`LAMMPS packages <Packages>` are
   included in the LAMMPS library in use. It directly calls the C library
   function :cpp:func:`lammps_config_package_count`.

   :to: :cpp:func:`lammps_config_package_count`
   :r integer(c_int) npackages: number of packages installed [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2366: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: config_package_name(idx, buffer)

   Get the name of a package in the list of installed packages in the LAMMPS
   library.

   .. versionadded:: 3Nov2022

   This subroutine copies the name of the package with the index *idx* into the
   provided string *buffer*. If the name of the package exceeds the length of
   the buffer, it will be truncated accordingly.  If the index is out of range,
   *buffer* is set to an empty string.

   :p integer(c_int) idx: index of the package in the list of included packages
    :math:`(0 \le idx < \text{package count})`
   :p character(len=\*) buffer: string to hold the name of the package
   :to: :cpp:func:`lammps_config_package_name` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2385: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: installed_packages(package[, length])

   Obtain a list of the names of enabled packages in the LAMMPS shared library
   and store it in *package*.

   .. versionadded:: 3Nov2022

   This function is analogous to the :py:meth:`installed_packages
   <lammps.lammps.installed_packages>` function in the Python API.
   The optional argument *length* sets the length of each string in the vector
   *package* (default: 31).

   :p character(len=:) package [dimension(:),allocatable]: list of packages;
    *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``) with allocatable length.
   :o length: length of each string in the list. Default: 31.
   :otype length: integer,optional
   :to: :cpp:func:`lammps_config_package_count`
   :to: :cpp:func:`lammps_config_package_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2407: ERROR: Unknown directive type "f:function".

.. f:function:: config_accelerator(package, category, setting)

   This function calls :cpp:func:`lammps_config_accelerator` to check the
   availability of compile time settings of included
   :doc:`accelerator packages <Speed_packages>` in LAMMPS.

   .. versionadded:: 3Nov2022

   Supported packages names are "GPU", "KOKKOS", "INTEL", and "OPENMP".
   Supported categories are "api" with possible settings "cuda", "hip", "phi",
   "pthreads", "opencl", "openmp", and "serial"; and "precision" with
   possible settings "double", "mixed", and "single".

   :p character(len=\*) package:   string with the name of the accelerator
    package
   :p character(len=\*) category:  string with the name of the setting
   :p character(len=\*) setting:   string with the name of the specific
    setting
   :to: :cpp:func:`lammps_config_accelerator`
   :r available: ``.TRUE.`` if the combination of package, category,
    and setting is available, otherwise ``.FALSE.``.
   :rtype available: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2432: ERROR: Unknown directive type "f:function".

.. f:function:: has_gpu_device()

   Checks for the presence of a viable GPU package device.

   .. versionadded:: 3Nov2022

   This function calls :cpp:func:`lammps_has_gpu_device`, which checks at
   runtime whether an accelerator device is present that can be used with the
   :doc:`GPU package <Speed_gpu>`.

   More detailed information about the available device or devices can
   be obtained by calling the
   :f:subr:`get_gpu_device_info` subroutine.

   :to: :cpp:func:`lammps_has_gpu_device`
   :r available: ``.TRUE.`` if a viable device is available, ``.FALSE.`` if not.
   :rtype available: logical [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2452: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: get_gpu_device_info(buffer)

   Get GPU package device information.

   .. versionadded:: 3Nov2022

   Calls :cpp:func:`lammps_get_gpu_device_info` to retrieve detailed
   information about any accelerator devices that are viable for use with the
   :doc:`GPU package <Speed_gpu>`. It will fill *buffer* with a string that is
   equivalent to the output of the ``nvc_get_device`` or ``ocl_get_device`` or
   ``hip_get_device`` tools that are compiled alongside LAMMPS if the GPU
   package is enabled.

   A suitable-length Fortran string has to be provided. The assembled text will
   be truncated so as not to overflow this buffer.  This string can be several
   kilobytes long if multiple devices are present.

   :p character(len=\*) buffer: string into which to copy the information.
   :to: :cpp:func:`lammps_get_gpu_device_info` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2474: ERROR: Unknown directive type "f:function".

.. f:function:: has_style(category, name)

   Check whether a specific style has been included in LAMMPS.

   .. versionadded:: 3Nov2022

   This function calls :cpp:func:`lammps_has_style` to check whether the
   LAMMPS library in use includes the specific style *name* associated with a
   specific *category* provided as arguments.  Please see
   :cpp:func:`lammps_has_style` for a list of valid categories.

   :p character(len=\*) category: category of the style
   :p character(len=\*) name:     name of the style
   :to: :cpp:func:`lammps_has_style`
   :r has_style: ``.TRUE.`` if included, ``.FALSE.`` if not.
   :rtype has_style: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2493: ERROR: Unknown directive type "f:function".

.. f:function:: style_count(category)

   Count the number of styles of *category* in the LAMMPS library.

   .. versionadded:: 3Nov2022

   This function counts how many styles in the provided *category* are
   included in the LAMMPS library currently in use. Please see
   :cpp:func:`lammps_has_style` for a list of valid categories.

   :p character(len=\*) category: category of styles to count
   :to: :cpp:func:`lammps_style_count`
   :r integer(c_int) count: number of styles in *category* [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2509: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: style_name(category, idx, buffer)

   Look up the name of a style by index in the list of styles of a given
   category in the LAMMPS library.

   .. versionadded:: 3Nov2022

   This function calls :cpp:func:`lammps_style_name` and copies the name of
   the *category* style with index *idx* into the provided string *buffer*.
   The length of *buffer* must be long enough to contain the name of the
   style; if it is too short, the name will be truncated accordingly.
   If *idx* is out of range, *buffer* will be the empty string and a warning
   will be issued.

   :p character(len=\*) category: category of styles
   :p integer(c_int) idx:         index of the style in the list of *category*
    styles :math:`(1 \leq idx \leq \text{style count})`
   :p character(len\*) buffer:    string buffer to copy the name of the style
    into
   :to: :cpp:func:`lammps_style_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2532: ERROR: Unknown directive type "f:function".

.. f:function:: has_id(category, name)

   This function checks if the current LAMMPS instance a *category* ID of
   the given *name* exists.  Valid categories are: *compute*\ , *dump*\ ,
   *fix*\ , *group*\ , *molecule*\ , *region*\ , and *variable*\ .

   .. versionadded:: 3Nov2022

   :p character(len=\*) category: category of the ID
   :p character(len=\*) name:     name of the ID
   :to: :cpp:func:`lammps_has_id`
   :r has_id: ``.TRUE.`` if *category* style *name* exists, ``.FALSE.`` if not.
   :rtype has_id: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2548: ERROR: Unknown directive type "f:function".

.. f:function:: id_count(category)

   This function counts how many IDs in the provided *category* are defined in
   the current LAMMPS instance. Please see :f:func:`has_id` for a list of
   valid categories.

   .. versionadded:: 3Nov2022

   :p character(len=\*) category: category of the ID
   :to: :cpp:func:`lammps_id_count`
   :r count: number of IDs in *category*
   :rtype count: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2563: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: id_name(category, idx, buffer)

   Look up the name of an ID by index in the list of IDs of a given category.

   .. versionadded:: 3Nov2022

   This function copies the name of the *category* ID with the index *idx* into
   the provided string *buffer*\ .  The length of the buffer must be long
   enough to hold the string; if the name of the style exceeds the length of
   the buffer, it will be truncated accordingly. If *buffer* is
   ``ALLOCATABLE``, it must be allocated *before* the function is called.
   If *idx* is out of range, *buffer* is set to an empty string and a warning
   is issued.

   :p character(len=\*) category: category of IDs
   :p integer(c_int) idx:         index of the ID in the list of *category*
    styles (:math:`0 \leq idx < count`)
   :p character(len=\*) buffer:   string into which to copy the name of the
    style
   :to: :cpp:func:`lammps_id_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2586: ERROR: Unknown directive type "f:function".

.. f:function:: plugin_count()

   This function counts the number of loaded plugins.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_plugin_count`
   :r n: number of loaded plugins
   :rtype n: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2598: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: plugin_name(idx, stylebuf, namebuf)

   Look up the style and name of a plugin by its index in the list of plugins.

   .. versionadded:: 3Nov2022

   This function copies the name of the *style* plugin with the index *idx*
   into the provided C-style string buffer.  The length of the buffer must be
   provided as *buf_size* argument.  If the name of the style exceeds the
   length of the buffer, it will be truncated accordingly.  If the index is out
   of range, both strings are set to the empty string and a warning is
   printed.

   :p integer(c_int) idx:         index of the plugin in the list all or
    *style* plugins
   :p character(len=\*) stylebuf: string into which to copy the style of the
    plugin
   :p character(len=\*) namebuf:  string into which to copy the style of the
    plugin
   :to: :cpp:func:`lammps_plugin_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2621: ERROR: Unknown directive type "f:function".

.. f:function:: encode_image_flags(ix, iy, iz)

   Encodes three integer image flags into a single imageint.

   .. versionadded:: 3Nov2022

   This function performs the bit-shift, addition, and bit-wise OR operations
   necessary to combine the values of three integers representing the image
   flags in the :math:`x`-, :math:`y`-, and :math:`z`-directions. Unless LAMMPS
   is compiled with ``-DLAMMPS_BIGBIG``, those integers are limited to 10-bit
   signed integers :math:`[-512,512)`. If ``-DLAMMPS_BIGBIG`` was used when
   compiling, then the return value is of kind ``c_int64_t`` instead of
   kind ``c_int``, and the valid range for the individual image flags becomes
   :math:`[-1048576,1048575)` (i.e., the range of a 21-bit signed integer).
   There is no check on whether the arguments conform to these requirements;
   values out of range will simply be wrapped back into the interval.

   :p integer(c_int) ix: image flag in :math:`x`-direction
   :p integer(c_int) iy: image flag in :math:`y`-direction
   :p integer(c_int) iz: image flag in :math:`z`-direction
   :r integer(kind=\*) imageint: encoded image flag. \*The ``KIND`` parameter
    is ``c_int`` unless LAMMPS was built with ``-DLAMMPS_BIGBIG``, in which
    case it is ``c_int64_t``.

   .. note::

     The fact that the programmer does not know the ``KIND`` parameter of the
     return value until compile time means that it is impossible to define an
     interface that works for both sizes of ``imageint``. One side effect of
     this is that you must assign the return value of this function to a
     variable; it cannot be used as the argument to another function or as part
     of an array constructor. For example,

     .. code-block:: fortran

        my_images = [lmp%encode_image_flags(0,0,0), lmp%encode_image_flags(1,0,0)]

     will *not* work; instead, do something like

     .. code-block:: fortran

        my_images(1) = lmp%encode_image_flags(0,0,0)
        my_images(2) = lmp%encode_image_flags(1,0,0) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2667: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: decode_image_flags(image, flags)

   This function does the reverse operation of :f:func:`encode_image_flags`:
   it takes the image flag and performs the bit-shift and bit-masking
   operations to decode it and stores the resulting three integers into the
   array *flags*.

   .. versionadded:: 3Nov2022

   :p integer(kind=\*) image: encoded image flag. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    ``c_int64_t``. Kind compatibility is checked at run-time.
   :p integer(c_int) flags [dimension(3)]: three-element vector where the
    decoded image flags will be stored. [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2684: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_fix_external_callback(id, callback, caller)

   Set the callback function for a :doc:`fix external <fix_external>` instance
   with the given ID.

   .. versionadded:: 22Dec2022

   Fix :doc:`external <fix_external>` allows programs that are running LAMMPS
   through its library interface to modify certain LAMMPS properties on
   specific time steps, similar to the way other fixes do.

   This subroutine sets the callback function for use with the "pf/callback"
   mode. The function should have Fortran language bindings with the following
   interface, which depends on how LAMMPS was compiled:

   .. code-block:: fortran

      ABSTRACT INTERFACE
        SUBROUTINE external_callback(caller, timestep, ids, x, fexternal)
          USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int, c_double, c_int64_t
          CLASS(*), INTENT(INOUT) :: caller
          INTEGER(c_bigint), INTENT(IN) :: timestep
          INTEGER(c_tagint), DIMENSION(:), INTENT(IN) :: ids
          REAL(c_double), DIMENSION(:,:), INTENT(IN) :: x
          REAL(c_double), DIMENSION(:,:), INTENT(OUT) :: fexternal
        END SUBROUTINE external_callback
      END INTERFACE

   where ``c_bigint`` is ``c_int`` if ``-DLAMMPS_SMALLSMALL`` was used and
   ``c_int64_t`` otherwise; and ``c_tagint`` is ``c_int64_t`` if
   ``-DLAMMPS_BIGBIG`` was used and ``c_int`` otherwise.

   The argument *caller* to :f:subr:`set_fix_external_callback` is unlimited
   polymorphic (i.e., it can be any Fortran object you want to pass to the
   calling function) and will be available as the first argument to the
   callback function. It can be your LAMMPS instance, which you might need if
   the callback function needs access to the library interface.
   The argument must be a scalar; to pass non-scalar data, wrap those data in
   a derived type and pass an instance of the derived type to *caller*.

   The array *ids* is an array of length *nlocal* (as accessed from the
   :cpp:class:`Atom` class or through :f:func:`extract_global`). The arrays
   *x* and *fexternal* are :math:`3 \times {}`\ *nlocal* arrays; these are
   transposed from what they would look like in C (see note about array index
   order at :f:func:`extract_atom`).

   The callback mechanism is one of two ways that forces can be applied to a
   simulation with the help of :doc:`fix external <fix_external>`. The
   alternative is *array* mode, where one calls
   :f:func:`fix_external_get_force`.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and couple it with external
   programs.

   :p character(len=*) id: ID of :doc:`fix external <fix_external>` instance
   :p callback: subroutine :doc:`fix external <fix_external>` should call
   :ptype callback: external
   :p class(*) caller [optional]: object you wish to pass to the callback
    procedure (must be a scalar; see note)
   :to: :cpp:func:`lammps_set_fix_external_callback`

   .. note::

      The interface for your callback function must match types precisely
      with the abstract interface block given above. **The compiler probably
      will not be able to check this for you.** In particular, the first
      argument ("caller") must be of type ``CLASS(*)`` or you will probably
      get a segmentation fault or at least a misinterpretation of whatever is
      in memory there. You can resolve the object using the ``SELECT TYPE``
      construct. An example callback function (assuming LAMMPS was compiled
      with ``-DLAMMPS_SMALLBIG``) that applies something akin to Hooke's Law
      (with each atom having a different *k* value) is shown below.

      .. code-block:: fortran

         MODULE stuff
           USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int, c_double, c_int64_t
           USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : error_unit
           IMPLICIT NONE

           TYPE shield
              REAL(c_double), DIMENSION(:,:), ALLOCATABLE :: k
              ! assume k gets allocated to dimension(3,nlocal) at some point
              ! and assigned values
           END TYPE shield

           SUBROUTINE my_callback(caller, timestep, ids, x, fexternal)
             CLASS(*), INTENT(INOUT) :: caller
             INTEGER(c_int), INTENT(IN) :: timestep
             INTEGER(c_int64_t), INTENT(IN) :: ids
             REAL(c_double), INTENT(IN) :: x(:,:)
             REAL(c_double), INTENT(OUT) :: fexternal(:,:)

             SELECT TYPE (caller)
               TYPE IS (shield)
                  fexternal = - caller%k * x
               CLASS DEFAULT
                  WRITE(error_unit,*) 'UH OH...'
             END SELECT
           END SUBROUTINE my_callback
         END MODULE stuff

         ! then, when assigning the callback function, do this:
         PROGRAM example
           USE LIBLAMMPS
           USE stuff
           TYPE(lammps) :: lmp
           TYPE(shield) :: my_shield
           lmp = lammps()
           CALL lmp%command('fix ext all external pf/callback 1 1')
           CALL lmp%set_fix_external_callback('ext', my_callback, my_shield)
         END PROGRAM example [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2800: ERROR: Unknown directive type "f:function".

.. f:function:: fix_external_get_force(id)

   Get pointer to the force array storage in a fix external instance with the
   given ID.

   .. versionadded:: 22Dec2022

   Fix :doc:`external <fix_external>` allows programs that are running LAMMPS
   through its library interfaces to add or modify certain LAMMPS properties on
   specific time steps, similar to the way other fixes do.

   This function provides access to the per-atom force storage in a fix
   external instance with the given fix-ID to be added to the individual
   atoms when using the "pf/array" mode.  The *fexternal* array can be
   accessed like other "native" per-atom arrays accessible via the
   :f:func:`extract_atom` function.  Please note that the array
   stores the forces for *local* atoms for each MPI rank, in the order
   determined by the neighbor list build.  Because the underlying data
   structures can change as well as the order of atom as they migrate between
   MPI processes because of the domain decomposition parallelization, this
   function should be always called immediately before the forces are going to
   be set to get an up-to-date pointer.  You can use, for example,
   :f:func:`extract_setting` to obtain the number of local atoms `nlocal` and
   then assume the dimensions of the returned force array as
   ``REAL(c_double) :: force(3,nlocal)``.

   This function is an alternative to the callback mechanism in fix external
   set up by :f:subr:`set_fix_external_callback`. The main difference is that
   this mechanism can be used when forces are to be pre-computed and the
   control alternates between LAMMPS and the external driver, while the
   callback mechanism can call an external subroutine to compute the force when
   the fix is triggered and needs them.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external program.

   :p character(len=*) id: ID of :doc:`fix external <fix_external>` instance
   :to: :cpp:func:`lammps_fix_external_get_force`
   :r fexternal: pointer to the per-atom force array allocated by the fix
   :rtype fexternal: real(c_double),dimension(3,nlocal) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2844: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_energy_global(id, eng)

   Set the global energy contribution for a :doc:`fix external <fix_external>`
   instance with the given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:func:`set_fix_external_callback`
   and :f:func:`fix_external_get_force` that also sets the contribution to the
   global energy from the external program.  The value of the *eng* argument
   will be stored in the fix and applied on the current and all following
   time steps until changed by another call to this function. The energy is in
   energy units as determined by the current :doc:`units <units>` settings and
   is the **total** energy of the contribution.  Thus, when running in
   parallel, all MPI processes have to call this function with the **same**
   value, and this will be returned as a scalar property of the fix external
   instance when accessed in LAMMPS input commands or from variables.

   Please see the documentation for :doc:`fix external <fix_external>` for more
   information about how to use the fix and how to couple it with an external
   program.

   :p character(len=*) id: fix ID of fix external instance
   :p real(c_double) eng:  total energy to be added to the global energy
   :to: :cpp:func:`lammps_fix_external_set_energy_global` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2872: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_virial_global(id, virial)

   Set the global virial contribution for a fix external instance with the
   given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback`
   and :f:func:`fix_external_get_force` to set the contribution to the global
   virial from an external program.

   The six values of the *virial* array will be stored in the fix and applied
   on the current and all following time steps until changed by another call
   to this function. The components of the virial need to be stored in the
   following order: *xx*, *yy*, *zz*, *xy*, *xz*, *yz*.  In LAMMPS, the virial
   is stored internally as `stress*volume` in units of `pressure*volume` as
   determined by the current :doc:`units <units>` settings and is the
   **total** contribution.  Thus, when running in parallel, all MPI processes
   have to call this function with the **same** value, and this will then be
   added by fix external.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external code.

   :p character(len=*) id: fix ID of fix external instance
   :p real(c_double) virial [dimension(6)]: the six global stress tensor
    components to be added to the global virial
   :to: :cpp:func:`lammps_fix_external_set_virial_global` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2904: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_energy_peratom(id, eng)

   Set the per-atom energy contribution for a fix external instance with the
   given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback` to set
   the per-atom energy contribution due to the fix from the external program as
   part of the callback function.  For this to work, the LAMMPS object must be
   passed as part of the *caller* argument when registering the callback
   function, or the callback function must otherwise have access to the
   LAMMPS object, such as through a module-based pointer.

   .. note::

      This function is fully independent from
      :f:subr:`fix_external_set_energy_global` and will **NOT** add any
      contributions to the global energy tally and will **NOT** check whether
      the sum of the contributions added here are consistent with the global
      added energy.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external code.

   :p character(len=*) id: fix ID of the fix external instance
   :p real(c_double) eng [dimension(:)]: array of length *nlocal* containing
    the energy to add to the per-atom energy
   :to: :cpp:func:`lammps_fix_external_set_energy_peratom` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2937: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_fix_external_set_virial_peratom(id, virial)

   This is a companion function to :f:subr:`set_fix_external_callback` to set
   the per-atom virial contribution due to the fix from the external program as
   part of the callback function.  For this to work, the LAMMPS object must be
   passed as the *caller* argument when registering the callback function.

   .. versionadded:: 22Dec2022

   .. note::

      This function is fully independent from
      :f:subr:`fix_external_set_virial_global` and will **NOT** add any
      contributions to the global virial tally and **NOT** check whether the
      sum of the contributions added here are consistent with the global added
      virial.

   The order and units of the per-atom stress tensor elements are the same
   as for the global virial.  The type and dimensions of the per-atom virial
   array must be ``REAL(c_double), DIMENSION(6,nlocal)``.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external program.

   :p character(len=*) id: fix ID of fix external instance
   :p real(c_double) virial [dimension(:,:)]: an array of :math:`6 \times{}`\
    *nlocal* components to be added to the per-atom virial
   :to: :cpp:func:`lammps_set_virial_peratom` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2969: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_vector_length(id, length)

   Set the vector length for a global vector stored with fix external for
   analysis.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback` and
   :f:func:`fix_external_get_force` to set the length of a global vector of
   properties that will be stored with the fix via
   :f:subr:`fix_external_set_vector`.

   This function needs to be called **before** a call to
   :f:subr:`fix_external_set_vector` and **before** a run or minimize command.
   When running in parallel, it must be called from **all** MPI
   processes with the same length argument.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external program.

   :p character(len=*) id: fix ID of fix external instance
   :p integer(c_int) length: length of the global vector to be stored with the
    fix
   :to: :cpp:func:`lammps_fix_external_set_vector_length` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2997: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_vector(id, idx, val)

   Store a global vector value for a fix external instance with the given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback` and
   :f:func:`fix_external_get_force` to set the values of a global vector of
   properties that will be stored with the fix and can be accessed from
   within LAMMPS input commands (e.g., fix ave/time or variables) when used
   in a vector context.

   This function needs to be called **after** a call to
   :f:subr:`fix_external_set_vector_length` and **before** a run or minimize
   command.  When running in parallel, it must be called from **all** MPI
   processes with the **same** *idx* and *val* parameters.  The variable
   *val* is assumed to be extensive.

   .. note::

      The index in the *idx* parameter is 1-based (i.e., the first element
      is set with *idx*\ :math:`{} = 1`, and the last element of the vector
      with *idx*\ :math:`{} = N`, where :math:`N` is the value of the *length*
      parameter of the call to :f:subr:`fix_external_set_vector_length`).

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external code.

   :p character(len=*) id: ID of fix external instance
   :p integer(c_int) idx: 1-based index in global vector
   :p integer(c_int) val: value to be stored in global vector at index *idx*
   :to: :cpp:func:`lammps_fix_external_set_vector` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3033: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: flush_buffers()

   This function calls :cpp:func:`lammps_flush_buffers`, which flushes buffered
   output to be written to screen and logfile. This can simplify capturing
   output from LAMMPS library calls.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_flush_buffers` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3045: ERROR: Unknown directive type "f:function".

.. f:function:: is_running()

   Check if LAMMPS is currently inside a run or minimization.

   .. versionadded:: 3Nov2022

   This function can be used from signal handlers or multi-threaded
   applications to determine if the LAMMPS instance is currently active.

   :to: :cpp:func:`lammps_is_running`
   :r is_running: ``.FALSE.`` if idle or ``.TRUE.`` if active
   :rtype is_running: logical [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3060: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: force_timeout()

   Force a timeout to stop an ongoing run cleanly.

   .. versionadded:: 3Nov2022

   This function can be used from signal handlers or multi-threaded
   applications to terminate an ongoing run cleanly.

   :to: :cpp:func:`lammps_force_timeout` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3073: ERROR: Unknown directive type "f:function".

.. f:function:: has_error()

   Check if there is a (new) error message available.

   .. versionadded:: 3Nov2022

   This function can be used to query if an error inside of LAMMPS
   has thrown a :ref:`C++ exception <exceptions>`.

   :to: :cpp:func:`lammps_has_error`
   :r has_error: ``.TRUE.`` if there is an error.
   :rtype has_error: logical [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3088: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: get_last_error_message(buffer[,status])

   Copy the last error message into the provided buffer.

   .. versionadded:: 3Nov2022

   This function can be used to retrieve the error message that was set
   in the event of an error inside of LAMMPS that resulted in a
   :ref:`C++ exception <exceptions>`.  A suitable buffer for a string has
   to be provided.  If the internally-stored error message is longer than the
   string, it will be truncated accordingly.  The optional argument *status*
   indicates the kind of error: a "1" indicates an error that occurred on all
   MPI ranks and is often recoverable, while a "2" indicates an abort that
   would happen only in a single MPI rank and thus may not be recoverable, as
   other MPI ranks may be waiting on the failing MPI rank(s) to send messages.

   :p character(len=\*) buffer: string buffer to copy the error message into
   :o integer(c_int) status [optional]: 1 when all ranks had the error,
    2 on a single-rank error.
   :to: :cpp:func:`lammps_get_last_error_message` [docutils]
WARNING: unknown directive or role name: f:func
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Classes_lammps.rst:4: ERROR: Unknown interpreted text role "f:func". [docutils]
WARNING: unknown directive or role name: f:func
<rst_prolog>:4: ERROR: Unknown interpreted text role "f:func". [docutils]
looking for now-outdated files... none found
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checking consistency... /build/reproducible-path/lammps-20240207+dfsg/doc/src/angle_coeff.rst: document is referenced in multiple toctrees: ['angles', 'commands_list'], selecting: commands_list <- angle_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/angle_style.rst: document is referenced in multiple toctrees: ['angles', 'commands_list'], selecting: commands_list <- angle_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/angle_write.rst: document is referenced in multiple toctrees: ['angles', 'commands_list'], selecting: commands_list <- angle_write
/build/reproducible-path/lammps-20240207+dfsg/doc/src/bond_coeff.rst: document is referenced in multiple toctrees: ['bonds', 'commands_list'], selecting: commands_list <- bond_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/bond_style.rst: document is referenced in multiple toctrees: ['bonds', 'commands_list'], selecting: commands_list <- bond_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/bond_write.rst: document is referenced in multiple toctrees: ['bonds', 'commands_list'], selecting: commands_list <- bond_write
/build/reproducible-path/lammps-20240207+dfsg/doc/src/compute_modify.rst: document is referenced in multiple toctrees: ['computes', 'commands_list'], selecting: computes <- compute_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dihedral_coeff.rst: document is referenced in multiple toctrees: ['dihedrals', 'commands_list'], selecting: dihedrals <- dihedral_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dihedral_style.rst: document is referenced in multiple toctrees: ['dihedrals', 'commands_list'], selecting: dihedrals <- dihedral_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dihedral_write.rst: document is referenced in multiple toctrees: ['dihedrals', 'commands_list'], selecting: dihedrals <- dihedral_write
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_adios.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_adios
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/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_h5md.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_h5md
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_image.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_image
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_modify.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_molfile.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_molfile
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_netcdf.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_netcdf
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_vtk.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_vtk
/build/reproducible-path/lammps-20240207+dfsg/doc/src/fix_modify.rst: document is referenced in multiple toctrees: ['fixes', 'commands_list'], selecting: fixes <- fix_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/fix_modify_atc_commands.rst: document is referenced in multiple toctrees: ['fixes', 'Manual'], selecting: fixes <- fix_modify_atc_commands
/build/reproducible-path/lammps-20240207+dfsg/doc/src/improper_coeff.rst: document is referenced in multiple toctrees: ['impropers', 'commands_list'], selecting: impropers <- improper_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/improper_style.rst: document is referenced in multiple toctrees: ['impropers', 'commands_list'], selecting: impropers <- improper_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_coeff.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_modify.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_style.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_write.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_write
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reading sources... [100%] Fortran

WARNING: unknown directive or role name: f:mod
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.. f:module:: LIBLAMMPS [docutils]
WARNING: unknown directive or role name: f:mod
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.. f:currentmodule:: None [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:264: ERROR: Unknown directive type "f:type".

.. f:type:: lammps

   Derived type that is the general class of the Fortran interface.
   It holds a reference to the :cpp:class:`LAMMPS <LAMMPS_NS::LAMMPS>`
   class instance to which any of the included calls are forwarded.

   :f handle: reference to the LAMMPS class
   :ftype handle: c_ptr
   :f style: derived type to access lammps style constants
   :ftype style: type(lammps_style)
   :f type: derived type to access lammps type constants
   :ftype type: type(lammps_type)
   :f dtype: derived type to access lammps data type constants
   :ftype dtype: type(lammps_dtype)
   :f close: :f:subr:`close`
   :ftype close: subroutine
   :f subroutine error: :f:subr:`error`
   :ftype error: subroutine
   :f file: :f:subr:`file`
   :ftype file: subroutine
   :f command: :f:subr:`command`
   :ftype command: subroutine
   :f commands_list: :f:subr:`commands_list`
   :ftype commands_list: subroutine
   :f commands_string: :f:subr:`commands_string`
   :ftype commands_string: subroutine
   :f get_natoms: :f:func:`get_natoms`
   :ftype get_natoms: function
   :f get_thermo: :f:func:`get_thermo`
   :ftype get_thermo: function
   :f last_thermo: :f:func:`last_thermo`
   :ftype last_thermo: function
   :f extract_box: :f:subr:`extract_box`
   :ftype extract_box: subroutine
   :f reset_box: :f:subr:`reset_box`
   :ftype reset_box: subroutine
   :f memory_usage: :f:subr:`memory_usage`
   :ftype memory_usage: subroutine
   :f get_mpi_comm: :f:func:`get_mpi_comm`
   :ftype get_mpi_comm: function
   :f extract_setting: :f:func:`extract_setting`
   :ftype extract_setting: function
   :f extract_global: :f:func:`extract_global`
   :ftype extract_global: function
   :f extract_atom: :f:func:`extract_atom`
   :ftype extract_atom: function
   :f extract_compute: :f:func:`extract_compute`
   :ftype extract_compute: function
   :f extract_fix: :f:func:`extract_fix`
   :ftype extract_fix: function
   :f extract_variable: :f:func:`extract_variable`
   :ftype extract_variable: function
   :f set_variable: :f:subr:`set_variable`
   :ftype set_variable: subroutine
   :f set_string_variable: :f:subr:`set_set_string_variable`
   :ftype set_string_variable: subroutine
   :f set_internal_variable: :f:subr:`set_internal_variable`
   :ftype set_internal_variable: subroutine
   :f gather_atoms: :f:subr:`gather_atoms`
   :ftype gather_atoms: subroutine
   :f gather_atoms_concat: :f:subr:`gather_atoms_concat`
   :ftype gather_atoms_concat: subroutine
   :f gather_atoms_subset: :f:subr:`gather_atoms_subset`
   :ftype gather_atoms_subset: subroutine
   :f scatter_atoms: :f:subr:`scatter_atoms`
   :ftype scatter_atoms: subroutine
   :f scatter_atoms_subset: :f:subr:`scatter_atoms_subset`
   :ftype scatter_atoms_subset: subroutine
   :f gather_bonds: :f:subr:`gather_bonds`
   :ftype gather_bonds: subroutine
   :f gather_angles: :f:subr:`gather_angles`
   :ftype gather_angles: subroutine
   :f gather_dihedrals: :f:subr:`gather_dihedrals`
   :ftype gather_dihedrals: subroutine
   :f gather_impropers: :f:subr:`gather_impropers`
   :ftype gather_impropers: subroutine
   :f gather: :f:subr:`gather`
   :ftype gather: subroutine
   :f gather_concat: :f:subr:`gather_concat`
   :ftype gather_concat: subroutine
   :f gather_subset: :f:subr:`gather_subset`
   :ftype gather_subset: subroutine
   :f scatter: :f:subr:`scatter`
   :ftype scatter: subroutine
   :f scatter_subset: :f:subr:`scatter_subset`
   :ftype scatter_subset: subroutine
   :f create_atoms: :f:subr:`create_atoms`
   :ftype create_atoms: subroutine
   :f find_pair_neighlist: :f:func:`find_pair_neighlist`
   :ftype find_pair_neighlist: function
   :f find_fix_neighlist: :f:func:`find_fix_neighlist`
   :ftype find_fix_neighlist: function
   :f find_compute_neighlist: :f:func:`find_compute_neighlist`
   :ftype find_compute_neighlist: function
   :f neighlist_num_elements: :f:func:`neighlist_num_elements`
   :ftype neighlist_num_elements: function
   :f neighlist_element_neighbors: :f:subr:`neighlist_element_neighbors`
   :ftype neighlist_element_neighbors: subroutine
   :f version: :f:func:`version`
   :ftype version: function
   :f get_os_info: :f:subr:`get_os_info`
   :ftype get_os_info: subroutine
   :f config_has_mpi_support: :f:func:`config_has_mpi_support`
   :ftype config_has_mpi_support: function
   :f config_has_gzip_support: :f:func:`config_has_gzip_support`
   :ftype config_has_gzip_support: function
   :f config_has_png_support: :f:func:`config_has_png_support`
   :ftype config_has_png_support: function
   :f config_has_jpeg_support: :f:func:`config_has_jpeg_support`
   :ftype config_has_jpeg_support: function
   :f config_has_ffmpeg_support: :f:func:`config_has_ffmpeg_support`
   :ftype config_has_ffmpeg_support: function
   :f config_has_exceptions: :f:func:`config_has_exceptions`
   :ftype config_has_exceptions: function
   :f config_has_package: :f:func:`config_has_package`
   :ftype config_has_package: function
   :f config_package_count: :f:func:`config_package_count`
   :ftype config_package_count: function
   :f config_package_name: :f:func:`config_package_name`
   :ftype config_package_name: function
   :f installed_packages: :f:subr:`installed_packages`
   :ftype installed_packages: subroutine
   :f config_accelerator: :f:func:`config_accelerator`
   :ftype config_accelerator: function
   :f has_gpu_device: :f:func:`has_gpu_device`
   :ftype has_gpu_device: function
   :f get_gpu_device_info: :f:subr:`get_gpu_device_info`
   :ftype get_gpu_device_info: subroutine
   :f has_style: :f:func:`has_style`
   :ftype has_style: function
   :f style_count: :f:func:`style_count`
   :ftype style_count: function
   :f style_name: :f:func:`style_name`
   :ftype style_name: function
   :f has_id: :f:func:`has_id`
   :ftype has_id: function
   :f id_count: :f:func:`id_count`
   :ftype id_count: function
   :f id_name: :f:subr:`id_name`
   :ftype id_name: subroutine
   :f plugin_count: :f:func:`plugin_count`
   :ftype plugin_count: function
   :f plugin_name: :f:subr:`plugin_name`
   :ftype plugin_count: subroutine
   :f encode_image_flags: :f:func:`encode_image_flags`
   :ftype encode_image_flags: function
   :f decode_image_flags: :f:subr:`decode_image_flags`
   :ftype decode_image_flags: subroutine
   :f set_fix_external_callback: :f:subr:`set_fix_external_callback`
   :ftype set_fix_external_callback: subroutine
   :f fix_external_get_force: :f:func:`fix_external_get_force`
   :ftype fix_external_get_force: function
   :f fix_external_set_energy_global: :f:subr:`fix_external_set_energy_global`
   :ftype fix_external_set_energy_global: subroutine
   :f fix_external_set_virial_global: :f:subr:`fix_external_set_virial_global`
   :ftype fix_external_set_virial_global: subroutine
   :f fix_external_set_energy_peratom: :f:subr:`fix_external_set_energy_peratom`
   :ftype fix_external_set_energy_peratom: subroutine
   :f fix_external_set_virial_peratom: :f:subr:`fix_external_set_virial_peratom`
   :ftype fix_external_set_virial_peratom: subroutine
   :f fix_external_set_vector_length: :f:subr:`fix_external_set_vector_length`
   :ftype fix_external_set_vector_length: subroutine
   :f fix_external_set_vector: :f:subr:`fix_external_set_vector`
   :ftype fix_external_set_vector: subroutine
   :f flush_buffers: :f:subr:`flush_buffers`
   :ftype flush_buffers: subroutine
   :f is_running: :f:func:`is_running`
   :ftype is_running: function
   :f force_timeout: :f:subr:`force_timeout`
   :ftype force_timeout: subroutine
   :f has_error: :f:func:`has_error`
   :ftype has_error: function
   :f get_last_error_message: :f:subr:`get_last_error_message`
   :ftype get_last_error_message: subroutine [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:441: ERROR: Unknown directive type "f:function".

.. f:function:: lammps([args][,comm])

   This is the constructor for the Fortran class and will forward
   the arguments to a call to either :cpp:func:`lammps_open_fortran`
   or :cpp:func:`lammps_open_no_mpi`. If the LAMMPS library has been
   compiled with MPI support, it will also initialize MPI, if it has
   not already been initialized before.

   The *args* argument with the list of command line parameters is
   optional and so it the *comm* argument with the MPI communicator.
   If *comm* is not provided, ``MPI_COMM_WORLD`` is assumed. For
   more details please see the documentation of :cpp:func:`lammps_open`.

   :o args: arguments as list of strings
   :otype args: character(len=\*),dimension(:),optional
   :o comm: MPI communicator
   :otype comm: integer,optional
   :to: :cpp:func:`lammps_open_fortran`
   :to: :cpp:func:`lammps_open_no_mpi`
   :r lammps: an instance of the :f:type:`lammps` derived type

   .. note::

      The :f:mod:`MPI_F08` module, which defines Fortran 2008 bindings for MPI,
      is not directly supported by this interface due to the complexities of
      supporting both the :f:mod:`MPI_F08` and :f:mod:`MPI` modules at the same
      time. However, you should be able to use the ``MPI_VAL`` member of the
      ``MPI_comm`` derived type to access the integer value of the
      communicator, such as in

      .. code-block:: fortran

         PROGRAM testmpi
           USE LIBLAMMPS
           USE MPI_F08
           TYPE(lammps) :: lmp
           lmp = lammps(comm=MPI_COMM_SELF%MPI_VAL)
         END PROGRAM testmpi [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:480: ERROR: Unknown directive type "f:type".

.. f:type:: lammps_style

   This derived type is there to provide a convenient interface for the style
   constants used with :f:func:`extract_compute`, :f:func:`extract_fix`, and
   :f:func:`extract_variable`. Assuming your LAMMPS instance is called ``lmp``,
   these constants will be ``lmp%style%global``, ``lmp%style%atom``,
   and ``lmp%style%local``. These values are identical to the values described
   in :cpp:enum:`_LMP_STYLE_CONST` for the C library interface.

   :f integer(c_int) global: used to request global data
   :f integer(c_int) atom:   used to request per-atom data
   :f integer(c_int) local:  used to request local data [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:493: ERROR: Unknown directive type "f:type".

.. f:type:: lammps_type

   This derived type is there to provide a convenient interface for the type
   constants used with :f:func:`extract_compute`, :f:func:`extract_fix`, and
   :f:func:`extract_variable`. Assuming your LAMMPS instance is called ``lmp``,
   these constants will be ``lmp%type%scalar``, ``lmp%type%vector``, and
   ``lmp%type%array``. These values are identical to the values described
   in :cpp:enum:`_LMP_TYPE_CONST` for the C library interface.

   :f integer(c_int) scalar: used to request scalars
   :f integer(c_int) vector: used to request vectors
   :f integer(c_int) array:  used to request arrays (matrices) [docutils]
WARNING: unknown directive or role name: f:type
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:506: ERROR: Unknown interpreted text role "f:type". [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:509: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: close([finalize])

   This method will close down the LAMMPS instance through calling
   :cpp:func:`lammps_close`.  If the *finalize* argument is present and
   has a value of ``.TRUE.``, then this subroutine also calls
   :cpp:func:`lammps_kokkos_finalize` and
   :cpp:func:`lammps_mpi_finalize`.

   :o finalize: shut down the MPI environment of the LAMMPS
    library if ``.TRUE.``.
   :otype finalize: logical,optional
   :to: :cpp:func:`lammps_close`
   :to: :cpp:func:`lammps_mpi_finalize`
   :to: :cpp:func:`lammps_kokkos_finalize` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:526: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: error(error_type, error_text)

   This method is a wrapper around the :cpp:func:`lammps_error` function and
   will dispatch an error through the LAMMPS Error class.

   .. versionadded:: 3Nov2022

   :p error_type: constant to select which Error class function to call
   :ptype error_type: integer(c_int)
   :p character(len=\*) error_text: error message
   :to: :cpp:func:`lammps_error` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:540: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: file(filename)

   This method will call :cpp:func:`lammps_file` to have LAMMPS read
   and process commands from a file.

   :p character(len=\*) filename: name of file with LAMMPS commands
   :to: :cpp:func:`lammps_file` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:550: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: command(cmd)

   This method will call :cpp:func:`lammps_command` to have LAMMPS
   execute a single command.

   :p character(len=\*) cmd: single LAMMPS command
   :to: :cpp:func:`lammps_command` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:560: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: commands_list(cmds)

   This method will call :cpp:func:`lammps_commands_list` to have LAMMPS
   execute a list of input lines.

   :p character(len=\*) cmd [dimension(:)]: list of LAMMPS input lines
   :to: :cpp:func:`lammps_commands_list` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:570: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: commands_string(str)

   This method will call :cpp:func:`lammps_commands_string` to have LAMMPS
   execute a block of commands from a string.

   :p character(len=\*) str: LAMMPS input in string
   :to: :cpp:func:`lammps_commands_string` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:580: ERROR: Unknown directive type "f:function".

.. f:function:: get_natoms()

   This function will call :cpp:func:`lammps_get_natoms` and return the number
   of atoms in the system.

   :to: :cpp:func:`lammps_get_natoms`
   :r real(c_double) natoms: number of atoms

   .. note::

      If you would prefer to get the number of atoms in its native format
      (i.e., as a 32- or 64-bit integer, depending on how LAMMPS was compiled),
      this can be extracted with :f:func:`extract_global`. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:596: ERROR: Unknown directive type "f:function".

.. f:function:: get_thermo(name)

   This function will call :cpp:func:`lammps_get_thermo` and return the value
   of the corresponding thermodynamic keyword.

   .. versionadded:: 3Nov2022

   :p character(len=\*) name: string with the name of the thermo keyword
   :to: :cpp:func:`lammps_get_thermo`
   :r value [real(c_double)]: value of the requested thermo property or `0.0_c_double` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:609: ERROR: Unknown directive type "f:function".

.. f:function:: last_thermo(what, index)

   This function will call :cpp:func:`lammps_last_thermo` and returns
   either a string or a pointer to a cached copy of LAMMPS last thermodynamic
   output, depending on the data requested through *what*.  Note that *index*
   uses 1-based indexing to access thermo output columns.

   .. versionadded:: 15Jun2023

   Note that this function actually does not return a value, but rather
   associates the pointer on the left side of the assignment to point to
   internal LAMMPS data (with the exception of string data, which are
   copied and returned as ordinary Fortran strings).  Pointers must be
   of the correct data type to point to said data (typically
   ``INTEGER(c_int)``, ``INTEGER(c_int64_t)``, or ``REAL(c_double)``).
   The pointer being associated with LAMMPS data is type-checked at
   run-time via an overloaded assignment operator.  The pointers
   returned by this function point to temporary, read-only data that may
   be overwritten at any time, so their target values need to be copied
   to local storage if they are supposed to persist.

   For example,

   .. code-block:: fortran

      PROGRAM thermo
        USE LIBLAMMPS
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_double, c_int64_t, c_int
        TYPE(lammps) :: lmp
        INTEGER(KIND=c_int64_t), POINTER :: ntimestep, bval
        REAL(KIND=c_double), POINTER :: dval
        INTEGER(KIND=c_int), POINTER :: nfield, typ, ival
        INTEGER(KIND=c_int) :: i
        CHARACTER(LEN=11) :: key

        lmp = lammps()
        CALL lmp%file('in.sysinit')

        ntimestep = lmp%last_thermo('step', 0)
        nfield = lmp%last_thermo('num', 0)
        PRINT*, 'Last thermo output on step: ', ntimestep, '  Number of fields: ', nfield
        DO i=1, nfield
            key = lmp%last_thermo('keyword',i)
            typ = lmp%last_thermo('type',i)
            IF (typ == lmp%dtype%i32) THEN
                ival = lmp%last_thermo('data',i)
                PRINT*, key, ':', ival
            ELSE IF (typ == lmp%dtype%i64) THEN
                bval = lmp%last_thermo('data',i)
                PRINT*, key, ':', bval
            ELSE IF (typ == lmp%dtype%r64) THEN
                dval = lmp%last_thermo('data',i)
                PRINT*, key, ':', dval
            END IF
        END DO
        CALL lmp%close(.TRUE.)
      END PROGRAM thermo

   would extract the last timestep where thermo output was done and the number
   of columns it printed.  Then it loops over the columns to print out column
   header keywords and the corresponding data.

   .. note::

      If :f:func:`last_thermo` returns a string, the string must have a length
      greater than or equal to the length of the string (not including the
      terminal ``NULL`` character) that LAMMPS returns. If the variable's
      length is too short, the string will be truncated.  As usual in Fortran,
      strings are padded with spaces at the end.  If you use an allocatable
      string, the string **must be allocated** prior to calling this function.

   :p character(len=\*) what: string with the name of the thermo keyword
   :p integer(c_int) index: 1-based column index
   :to: :cpp:func:`lammps_last_thermo`
   :r pointer [polymorphic]: pointer to LAMMPS data. The left-hand side of the
    assignment should be either a string (if expecting string data) or a
    C-compatible pointer (e.g., ``INTEGER(c_int), POINTER :: nlocal``) to the
    extracted property.

   .. warning::

       Modifying the data in the location pointed to by the returned pointer
       may lead to inconsistent internal data and thus may cause failures,
       crashes, or bogus simulations.  In general, it is much better
       to use a LAMMPS input command that sets or changes these parameters.
       Using an input command will take care of all side effects and necessary
       updates of settings derived from such settings. [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:699: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: extract_box([boxlo][, boxhi][, xy][, yz][, xz][, pflags][, boxflag])

   This subroutine will call :cpp:func:`lammps_extract_box`. All
   parameters are optional, though obviously at least one should be
   present. The parameters *pflags* and *boxflag* are stored in LAMMPS
   as integers, but should be declared as ``LOGICAL`` variables when
   calling from Fortran.

   .. versionadded:: 3Nov2022

   :o real(c_double) boxlo [dimension(3),optional]: vector in which to store
    lower-bounds of simulation box
   :o real(c_double) boxhi [dimension(3),optional]: vector in which to store
    upper-bounds of simulation box
   :o real(c_double) xy [optional]: variable in which to store *xy* tilt factor
   :o real(c_double) yz [optional]: variable in which to store *yz* tilt factor
   :o real(c_double) xz [optional]: variable in which to store *xz* tilt factor
   :o pflags: vector in which to store
    periodicity flags (``.TRUE.`` means periodic in that dimension)
   :otype pflags: logical,dimension(3),optional
   :o boxflag: variable in which to store boolean denoting
    whether the box will change during a simulation
    (``.TRUE.`` means box will change)
   :otype boxflag: logical,optional
   :to: :cpp:func:`lammps_extract_box` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:741: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: reset_box(boxlo, boxhi, xy, yz, xz)

   This subroutine will call :cpp:func:`lammps_reset_box`. All parameters
   are required.

   .. versionadded:: 3Nov2022

   :p real(c_double) boxlo [dimension(3)]: vector of three doubles containing
    the lower box boundary
   :p real(c_double) boxhi [dimension(3)]: vector of three doubles containing
    the upper box boundary
   :p real(c_double) xy: *x--y* tilt factor
   :p real(c_double) yz: *y--z* tilt factor
   :p real(c_double) xz: *x--z* tilt factor
   :to: :cpp:func:`lammps_reset_box` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:759: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: memory_usage(meminfo)

   This subroutine will call :cpp:func:`lammps_memory_usage` and store the
   result in the three-element array *meminfo*.

   .. versionadded:: 3Nov2022

   :p real(c_double) meminfo [dimension(3)]: vector of three doubles in which
    to store memory usage data
   :to: :cpp:func:`lammps_memory_usage` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:772: ERROR: Unknown directive type "f:function".

.. f:function:: get_mpi_comm()

   This function returns a Fortran representation of the LAMMPS "world"
   communicator.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_get_mpi_comm`
   :r comm: Fortran integer equivalent to the MPI communicator LAMMPS is
    using
   :rtype comm: integer

   .. note::

       The C library interface currently returns type ``int`` instead of
       type ``MPI_Fint``, which is the C type corresponding to Fortran
       ``INTEGER`` types of the default kind.  On most compilers, these
       are the same anyway, but this interface exchanges values this way
       to avoid warning messages.

   .. note::

      The :f:mod:`MPI_F08` module, which defines Fortran 2008 bindings for MPI,
      is not directly supported by this function.  However, you should be
      able to convert between the two using the `MPI_VAL` member of the
      communicator.  For example,

      .. code-block:: fortran

         USE MPI_F08
         USE LIBLAMMPS
         TYPE(lammps) :: lmp
         TYPE(MPI_Comm) :: comm
         ! ... [commands to set up LAMMPS/etc.]
         comm%MPI_VAL = lmp%get_mpi_comm()

      should assign an :f:mod:`MPI_F08` communicator properly. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:812: ERROR: Unknown directive type "f:function".

.. f:function:: extract_setting(keyword)

   Query LAMMPS about global settings. See the documentation for the
   :cpp:func:`lammps_extract_setting` function from the C library.

   .. versionadded:: 3Nov2022

   :p character(len=\*) keyword: string containing the name of the thermo keyword
   :to: :cpp:func:`lammps_extract_setting`
   :r integer(c_int) setting: value of the queried setting or :math:`-1` if
    unknown [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:826: ERROR: Unknown directive type "f:function".

.. f:function:: extract_global(name)

   This function calls :cpp:func:`lammps_extract_global` and returns
   either a string or a pointer to internal global LAMMPS data,
   depending on the data requested through *name*.

   .. versionadded:: 3Nov2022

   Note that this function actually does not return a value, but rather
   associates the pointer on the left side of the assignment to point to
   internal LAMMPS data (with the exception of string data, which are
   copied and returned as ordinary Fortran strings). Pointers must be of
   the correct data type to point to said data (typically
   ``INTEGER(c_int)``, ``INTEGER(c_int64_t)``, or ``REAL(c_double)``)
   and have compatible kind and rank.  The pointer being associated with
   LAMMPS data is type-, kind-, and rank-checked at run-time via an
   overloaded assignment operator.  The pointers returned by this
   function are generally persistent; therefore it is not necessary to
   call the function again unless a :doc:`clear` command has been
   issued, which wipes out and recreates the contents of the
   :cpp:class:`LAMMPS <LAMMPS_NS::LAMMPS>` class.

   For example,

   .. code-block:: fortran

      PROGRAM demo
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int64_t, c_int, c_double
        USE LIBLAMMPS
        TYPE(lammps) :: lmp
        INTEGER(c_int), POINTER :: nlocal => NULL()
        INTEGER(c_int64_t), POINTER :: ntimestep => NULL()
        REAL(c_double), POINTER :: dt => NULL()
        CHARACTER(LEN=10) :: units
        lmp = lammps()
        ! other commands
        nlocal = lmp%extract_global('nlocal')
        ntimestep = lmp%extract_global('ntimestep')
        dt = lmp%extract_global('dt')
        units = lmp%extract_global('units')
        ! more commands
        lmp.close(.TRUE.)
      END PROGRAM demo

   would extract the number of atoms on this processor, the current time step,
   the size of the current time step, and the units being used into the
   variables *nlocal*, *ntimestep*, *dt*, and *units*, respectively.

   .. note::

      If :f:func:`extract_global` returns a string, the string must have
      a length greater than or equal to the length of the string (not
      including the terminal ``NULL`` character) that LAMMPS returns. If
      the variable's length is too short, the string will be
      truncated. As usual in Fortran, strings are padded with spaces at
      the end. If you use an allocatable string, the string **must be
      allocated** prior to calling this function, but you can
      automatically reallocate it to the correct length after the
      function returns, viz.,

      .. code-block :: fortran

         PROGRAM test
           USE LIBLAMMPS
           TYPE(lammps) :: lmp
           CHARACTER(LEN=:), ALLOCATABLE :: str
           lmp = lammps()
           CALL lmp%command('units metal')
           ALLOCATE(CHARACTER(LEN=80) :: str)
           str = lmp%extract_global('units')
           str = TRIM(str) ! re-allocates to length len_trim(str) here
           PRINT*, LEN(str), LEN_TRIM(str)
         END PROGRAM test

      will print the number 5 (the length of the word "metal") twice.

   :p character(len=\*) name: string with the name of the property to extract
   :to: :cpp:func:`lammps_extract_global`
   :r pointer [polymorphic]: pointer to LAMMPS data. The left-hand side of the
    assignment should be either a string (if expecting string data) or a
    C-compatible pointer (e.g., ``INTEGER(c_int), POINTER :: nlocal``) to the
    extracted property. If expecting vector data, the pointer should have
    dimension ":".

   .. warning::

       Modifying the data in the location pointed to by the returned pointer
       may lead to inconsistent internal data and thus may cause failures,
       crashes, or bogus simulations.  In general, it is much better
       to use a LAMMPS input command that sets or changes these parameters.
       Using an input command will take care of all side effects and necessary
       updates of settings derived from such settings. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:921: ERROR: Unknown directive type "f:function".

.. f:function:: extract_atom(name)

   This function calls :cpp:func:`lammps_extract_atom` and returns a pointer to
   LAMMPS data tied to the :cpp:class:`Atom` class, depending on the data
   requested through *name*.

   .. versionadded:: 3Nov2022

   Note that this function actually does not return a pointer, but rather
   associates the pointer on the left side of the assignment to point
   to internal LAMMPS data. Pointers must be of the correct type, kind, and
   rank (e.g., ``INTEGER(c_int), DIMENSION(:)`` for "type", "mask", or "id";
   ``INTEGER(c_int64_t), DIMENSION(:)`` for "id" if LAMMPS was compiled
   with the ``-DLAMMPS_BIGBIG`` flag; ``REAL(c_double), DIMENSION(:,:)`` for
   "x", "v", or "f"; and so forth). The pointer being associated with LAMMPS
   data is type-, kind-, and rank-checked at run-time.

   :p character(len=\*) name: string with the name of the property to extract
   :to: :cpp:func:`lammps_extract_atom`
   :r pointer: pointer to LAMMPS data. The left-hand side of the
    assignment should be a C-interoperable pointer of appropriate kind and rank
    (e.g., ``INTEGER(c_int), POINTER :: mask(:)``) to the extracted
    property. If expecting vector data, the pointer should have dimension ":";
    if expecting matrix data, the pointer should have dimension ":,:".
   :rtype pointer: polymorphic

   .. warning::

      Pointers returned by this function are generally not persistent, as
      per-atom data may be redistributed, reallocated, and reordered at every
      re-neighboring operation. It is advisable to re-bind pointers using
      :f:func:`extract_atom` between runs.

   .. admonition:: Array index order

      Two-dimensional arrays returned from :f:func:`extract_atom` will be
      **transposed** from equivalent arrays in C, and they will be indexed
      from 1 instead of 0. For example, in C,

      .. code-block:: c

         void *lmp;
         double **x;
         /* more code to setup, etc. */
         x = lammps_extract_atom(lmp, "x");
         printf("%f\n", x[5][1]);

      will print the *y*-coordinate of the sixth atom on this processor.
      Conversely,

      .. code-block:: fortran

         TYPE(lammps) :: lmp
         REAL(c_double), DIMENSION(:,:), POINTER :: x => NULL()
         ! more code to setup, etc.
         x = lmp%extract_atom("x")
         PRINT '(f0.6)', x(2,6)

      will print the *y*-coordinate of the sixth atom on this processor
      (note the transposition of the two indices). This is not a choice, but
      rather a consequence of the different conventions adopted by the Fortran
      and C standards decades ago: in C, the block of data

      .. parsed-literal::

         1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16

      interpreted as a :math:`4\times4` matrix would be

      .. math::

         \begin{bmatrix}
           1 & 2 & 3 & 4 \\
           5 & 6 & 7 & 8 \\
           9 & 10 & 11 & 12 \\
           13 & 14 & 15 & 16
         \end{bmatrix},

      that is, in row-major order. In Fortran, the same block of data is
      interpreted in column-major order, namely,

      .. math::

         \begin{bmatrix}
           1 & 5 & 9  & 13 \\
           2 & 6 & 10 & 14 \\
           3 & 7 & 11 & 15 \\
           4 & 8 & 12 & 16
         \end{bmatrix}.

      This difference in interpretation of the same block of data by the two
      languages means, in effect, that matrices from C or C++ will be
      transposed when interpreted in Fortran.

   .. note::

      If you would like the indices to start at 0 instead of 1 (which follows
      typical notation in C and C++, but not Fortran), you can create another
      pointer and associate it thus:

      .. code-block:: fortran

         REAL(c_double), DIMENSION(:,:), POINTER :: x, x0
         x = lmp%extract_atom("x")
         x0(0:,0:) => x

      The above would cause the dimensions of *x* to be (1:3, 1:nmax)
      and those of *x0* to be (0:2, 0:nmax\ :math:`-`\ 1). [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1032: ERROR: Unknown directive type "f:function".

.. f:function:: extract_compute(id, style, type)

   This function calls :cpp:func:`lammps_extract_compute` and returns a pointer
   to LAMMPS data tied to the :cpp:class:`Compute` class, specifically data
   provided by the compute identified by *id*. Computes may provide global,
   per-atom, or local data, and those data may be a scalar, a vector, or an
   array. Since computes may provide multiple kinds of data, the user is
   required to specify which set of data is to be returned through the
   *style* and *type* variables.

   .. versionadded:: 3Nov2022

   Note that this function actually does not return a value, but rather
   associates the pointer on the left side of the assignment to point to
   internal LAMMPS data. Pointers must be of the correct data type to point to
   said data (i.e., ``REAL(c_double)``) and have compatible rank.  The pointer
   being associated with LAMMPS data is type-, kind-, and rank-checked at
   run-time via an overloaded assignment operator.

   For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double), DIMENSION(:), POINTER :: COM
      ! code to setup, create atoms, etc.
      CALL lmp%command('compute COM all com')
      COM = lmp%extract_compute('COM', lmp%style%global, lmp%style%type)

   will bind the variable *COM* to the center of mass of the atoms created in
   your simulation. The vector in this case has length 3; the length (or, in
   the case of array data, the number of rows and columns) is determined for
   you based on data from the :cpp:class:`Compute` class.

   .. admonition:: Array index order

      Two-dimensional arrays returned from :f:func:`extract_compute` will be
      **transposed** from equivalent arrays in C, and they will be indexed
      from 1 instead of 0. See the note at :f:func:`extract_atom` for
      further details.

   The following combinations are possible (assuming ``lmp`` is the name of
   your LAMMPS instance):

   .. list-table::
      :header-rows: 1
      :widths: auto

      * - Style
        - Type
        - Type to assign to
        - Returned data
      * - ``lmp%style%global``
        - ``lmp%type%scalar``
        - ``REAL(c_double), POINTER``
        - Global scalar
      * - ``lmp%style%global``
        - ``lmp%type%vector``
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Global vector
      * - ``lmp%style%global``
        - ``lmp%type%array``
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Global array
      * - ``lmp%style%atom``
        - ``lmp%type%vector``
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Per-atom vector
      * - ``lmp%style%atom``
        - ``lmp%type%array``
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Per-atom array
      * - ``lmp%style%local``
        - ``lmp%type%vector``
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Local vector
      * - ``lmp%style%local``
        - ``lmp%type%array``
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Local array

   :p character(len=\*) id: compute ID from which to extract data
   :p integer(c_int) style: value indicating the style of data to extract
    (global, per-atom, or local)
   :p integer(c_int) type: value indicating the type of data to extract
    (scalar, vector, or array)
   :to: :cpp:func:`lammps_extract_compute`
   :r pointer: pointer to LAMMPS data. The left-hand side of the assignment
    should be a C-compatible pointer (e.g., ``REAL(c_double), POINTER :: x``)
    to the extracted property. If expecting vector data, the pointer should
    have dimension ":"; if expecting array (matrix) data, the pointer should
    have dimension ":,:".
   :rtype pointer: polymorphic

   .. note::

      If the compute's data are not already computed for the current step, the
      compute will be invoked. LAMMPS cannot easily check at that time if it is
      valid to invoke a compute, so it may fail with an error. The caller has
      to check to avoid such an error.

   .. warning::

      The pointers returned by this function are generally not persistent,
      since the computed data may be re-distributed, re-allocated, and
      re-ordered at every invocation. It is advisable to re-invoke this
      function before the data are accessed or make a copy if the data are to
      be used after other LAMMPS commands have been issued. Do **not** modify
      the data returned by this function. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1144: ERROR: Unknown directive type "f:function".

.. f:function:: extract_fix(id, style, type[, nrow][, ncol])

   This function calls :cpp:func:`lammps_extract_fix` and returns a pointer to
   LAMMPS data tied to the :cpp:class:`Fix` class, specifically data provided
   by the fix identified by *id*. Fixes may provide global, per-atom, or
   local data, and those data may be a scalar, a vector, or an array. Since
   many fixes provide multiple kinds of data, the user is required to specify
   which set of data is to be returned through the *style* and *type*
   variables.

   .. versionadded:: 3Nov2022

   Global data are calculated at the time they are requested and are only
   available element-by-element. As such, the user is expected to provide
   the *nrow* variable to specify which element of a global vector or the
   *nrow* and *ncol* variables to specify which element of a global array the
   user wishes LAMMPS to return. The *ncol* variable is optional for global
   scalar or vector data, and both *nrow* and *ncol* are optional when a
   global scalar is requested, as well as when per-atom or local data are
   requested. The following combinations are possible (assuming ``lmp`` is the
   name of your LAMMPS instance):

   .. list-table::
      :header-rows: 1
      :widths: auto

      * - Style
        - Type
        - nrow
        - ncol
        - Type to assign to
        - Returned data
      * - ``lmp%style%global``
        - ``lmp%type%scalar``
        - Ignored
        - Ignored
        - ``REAL(c_double)``
        - Global scalar
      * - ``lmp%style%global``
        - ``lmp%type%vector``
        - Required
        - Ignored
        - ``REAL(c_double)``
        - Element of global vector
      * - ``lmp%style%global``
        - ``lmp%type%array``
        - Required
        - Required
        - ``REAL(c_double)``
        - Element of global array
      * - ``lmp%style%atom``
        - ``lmp%type%scalar``
        -
        -
        -
        - (not allowed)
      * - ``lmp%style%atom``
        - ``lmp%type%vector``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Per-atom vector
      * - ``lmp%style%atom``
        - ``lmp%type%array``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Per-atom array
      * - ``lmp%style%local``
        - ``lmp%type%scalar``
        -
        -
        -
        - (not allowed)
      * - ``lmp%style%local``
        - ``lmp%type%vector``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:), POINTER``
        - Per-atom vector
      * - ``lmp%style%local``
        - ``lmp%type%array``
        - Ignored
        - Ignored
        - ``REAL(c_double), DIMENSION(:,:), POINTER``
        - Per-atom array

   In the case of global data, this function returns a value of type
   ``REAL(c_double)``. For per-atom or local data, this function does not
   return a value but instead associates the pointer on the left side of the
   assignment to point to internal LAMMPS data. Pointers must be of the correct
   type and kind to point to said data (i.e., ``REAL(c_double)``) and have
   compatible rank.  The pointer being associated with LAMMPS data is type-,
   kind-, and rank-checked at run-time via an overloaded assignment operator.

   For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double) :: dr, dx, dy, dz
      ! more code to set up, etc.
      lmp%command('fix george all recenter 2 2 2')
      ! more code
      dr = lmp%extract_fix("george", lmp%style%global, lmp%style%scalar)
      dx = lmp%extract_fix("george", lmp%style%global, lmp%style%vector, 1)
      dy = lmp%extract_fix("george", lmp%style%global, lmp%style%vector, 2)
      dz = lmp%extract_fix("george", lmp%style%global, lmp%style%vector, 3)

   will extract the global scalar calculated by
   :doc:`fix recenter <fix_recenter>` into the variable *dr* and the
   three elements of the global vector calculated by fix recenter into the
   variables *dx*, *dy*, and *dz*, respectively.

   If asked for per-atom or local data, :f:func:`extract_compute` returns a
   pointer to actual LAMMPS data. The pointer so returned will have the
   appropriate size to match the internal data, and will be
   type/kind/rank-checked at the time of the assignment. For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double), DIMENSION(:), POINTER :: r
      ! more code to set up, etc.
      lmp%command('fix state all store/state 0 x y z')
      ! more code
      r = lmp%extract_fix('state', lmp%style%atom, lmp%type%array)

   will bind the pointer *r* to internal LAMMPS data representing the per-atom
   array computed by :doc:`fix store/state <fix_store_state>` when three
   inputs are specified. Similarly,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double), DIMENSION(:), POINTER :: x
      ! more code to set up, etc.
      lmp%command('fix state all store/state 0 x')
      ! more code
      x = lmp%extract_fix('state', lmp%style%atom, lmp%type%vector)

   will associate the pointer *x* with internal LAMMPS data corresponding to
   the per-atom vector computed by :doc:`fix store/state <fix_store_state>`
   when only one input is specified. Similar examples with ``lmp%style%atom``
   replaced by ``lmp%style%local`` will extract local data from fixes that
   define local vectors and/or arrays.

   .. warning::

      The pointers returned by this function for per-atom or local data are
      generally not persistent, since the computed data may be redistributed,
      reallocated, and reordered at every invocation of the fix.  It is thus
      advisable to re-invoke this function before the data are accessed or to
      make a copy if the data are to be used after other LAMMPS commands have
      been issued.

   .. note::

      LAMMPS cannot easily check if it is valid to access the data, so it
      may fail with an error.  The caller has to avoid such an error.

   :p character(len=\*) id: string with the name of the fix from which
    to extract data
   :p integer(c_int) style: value indicating the style of data to extract
    (global, per-atom, or local)
   :p integer(c_int) type: value indicating the type of data to extract
    (scalar, vector, or array)
   :p integer(c_int) nrow: row index (used only for global vectors and arrays)
   :p integer(c_int) ncol: column index (only used for global arrays)
   :to: :cpp:func:`lammps_extract_fix`
   :r data: LAMMPS data (for global data) or a pointer to LAMMPS data
    (for per-atom or local data). The left-hand side of the assignment should
    be of type ``REAL(c_double)`` and have appropriate rank (i.e.,
    ``DIMENSION(:)`` if expecting per-atom or local vector data and
    ``DIMENSION(:,:)`` if expecting per-atom or local array data). If expecting
    local or per-atom data, it should have the ``POINTER`` attribute, but
    if expecting global data, it should be an ordinary (non-``POINTER``)
    variable.
   :rtype data: polymorphic

   .. admonition:: Array index order

      Two-dimensional global, per-atom, or local array data from
      :f:func:`extract_fix` will be **transposed** from equivalent arrays in
      C (or in the ordinary LAMMPS interface accessed through thermodynamic
      output), and they will be indexed from 1, not 0. This is true even for
      global data, which are returned as scalars---this is done primarily so
      the interface is consistent, as there is no choice but to transpose the
      indices for per-atom or local array data. See the similar note under
      :f:func:`extract_atom` for further details. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1337: ERROR: Unknown directive type "f:function".

.. f:function:: extract_variable(name[,group])

   This function calls :cpp:func:`lammps_extract_variable` and returns a
   scalar, vector, or string containing the value of the variable identified by
   *name*. When the variable is an *equal*-style variable (or one compatible
   with that style such as *internal*), the variable is evaluated and the
   corresponding value returned. When the variable is an *atom*-style variable,
   the variable is evaluated and a vector of values is returned. With all
   other variables, a string is returned. The *group* argument is only used
   for *atom* style variables and is ignored otherwise. If *group* is absent
   for *atom*-style variables, the group is assumed to be "all".

   .. versionadded:: 3Nov2022

   This function returns the values of the variables, not pointers to them.
   Vectors pointing to *atom*-style variables should be of type
   ``REAL(c_double)``, be of rank 1 (i.e., ``DIMENSION(:)``), and have the
   ``ALLOCATABLE`` attribute.

   .. note::

      Unlike the C library interface, the Fortran interface does not require
      you to deallocate memory when you are through; this is done for you,
      behind the scenes.

   For example,

   .. code-block:: fortran

      TYPE(lammps) :: lmp
      REAL(c_double) :: area
      ! more code to set up, etc.
      lmp%command('variable A equal lx*ly')
      ! more code
      area = lmp%extract_variable("A")

   will extract the *x*\ --*y* cross-sectional area of the simulation into the
   variable *area*.

   :p character(len=\*) name: variable name to evaluate
   :o character(len=\*) group [optional]: group for which to extract per-atom
    data (if absent, use "all")
   :to: :cpp:func:`lammps_extract_variable`
   :r data: scalar of type ``REAL(c_double)`` (for *equal*-style
    variables and others that are *equal*-compatible), vector of type
    ``REAL(c_double), DIMENSION(:), ALLOCATABLE`` for *atom*- or *vector*-style
    variables, or ``CHARACTER(LEN=*)`` for *string*-style and compatible
    variables. Strings whose length is too short to hold the result will be
    truncated. Allocatable strings must be allocated before this function is
    called; see note at :f:func:`extract_global` regarding allocatable strings.
    Allocatable arrays (for *atom*- and *vector*-style data) will be
    reallocated on assignment.
   :rtype data: polymorphic [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1401: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_variable(name, str)

   Set the value of a string-style variable.

   .. deprecated:: 7Feb2024

   This function assigns a new value from the string *str* to the string-style
   variable *name*\ . If *name* does not exist or is not a string-style
   variable, an error is generated.

   .. warning::

      This subroutine is deprecated and :f:subr:`set_string_variable`
      should be used instead.

   :p character(len=*) name: name of the variable
   :p character(len=*) str:  new value to assign to the variable
   :to: :cpp:func:`lammps_set_variable` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1422: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_string_variable(name, str)

   Set the value of a string-style variable.

   .. versionadded:: 7Feb2024

   This function assigns a new value from the string *str* to the string-style
   variable *name*\ . If *name* does not exist or is not a string-style
   variable, an error is generated.

   :p character(len=*) name: name of the variable
   :p character(len=*) str:  new value to assign to the variable
   :to: :cpp:func:`lammps_set_string_variable` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1438: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_internal_variable(name, val)

   Set the value of a internal-style variable.

   .. versionadded:: 7Feb2024

   This function assigns a new value from the floating-point number *val* to
   the internal-style variable *name*\ . If *name* does not exist or is not
   an internal-style variable, an error is generated.

   :p character(len=*) name: name of the variable
   :p read(c_double) val:  new value to assign to the variable
   :to: :cpp:func:`lammps_set_internal_variable` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1454: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_atoms(name, count, data)

   This function calls :cpp:func:`lammps_gather_atoms` to gather the named
   atom-based entity for all atoms on all processors and return it in the
   vector *data*. The vector *data* will be ordered by atom
   ID, which requires consecutive atom IDs (1 to *natoms*).

   .. versionadded:: 3Nov2022

   If you need a similar array but have non-consecutive atom IDs, see
   :f:func:`gather_atoms_concat`; for a similar array but for a subset
   of atoms, see :f:func:`gather_atoms_subset`.

   The *data* array will be ordered in groups of *count* values, sorted by atom
   ID (e.g., if *name* is *x* and *count* = 3, then *data* = [*x*\ (1,1),
   *x*\ (2,1), *x*\ (3,1), *x*\ (1,2), *x*\ (2,2), *x*\ (3,2), *x*\ (1,3),
   :math:`\dots`]); *data* must be ``ALLOCATABLE`` and will be allocated to
   length (*count* :math:`\times` *natoms*), as queried by
   :f:func:`get_natoms`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., *x* or *mask*)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_atoms`

   .. note::

      If you want data from this function to be accessible as a two-dimensional
      array, you can declare a rank-2 pointer and reassign it, like so:

      .. code-block:: fortran

         USE, INTRINSIC :: ISO_C_BINDING
         USE LIBLAMMPS
         TYPE(lammps) :: lmp
         REAL(c_double), DIMENSION(:), ALLOCATABLE, TARGET :: xdata
         REAL(c_double), DIMENSION(:,:), POINTER :: x
         ! other code to set up, etc.
         CALL lmp%gather_atoms('x',3,xdata)
         x(1:3,1:size(xdata)/3) => xdata

      You can then access the *y*\ -component of atom 3 with ``x(2,3)``.
      See the note about array index order at :f:func:`extract_atom`. [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1511: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_atoms_concat(name, count, data)

   This function calls :cpp:func:`lammps_gather_atoms_concat` to gather the
   named atom-based entity for all atoms on all processors and return it in the
   vector *data*.

   .. versionadded:: 3Nov2022

   The vector *data* will not be ordered by atom ID, and there is no
   restriction on the IDs being consecutive. If you need the IDs, you can do
   another :f:func:`gather_atoms_concat` with *name* set to ``id``.

   If you need a similar array but have consecutive atom IDs, see
   :f:func:`gather_atoms`; for a similar array but for a subset of atoms, see
   :f:func:`gather_atoms_subset`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., *x* or *mask*)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_atoms_concat` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1545: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_atoms_subset(name, count, ids, data)

   This function calls :cpp:func:`lammps_gather_atoms_subset` to gather the
   named atom-based entity for the atoms in the array *ids* from all processors
   and return it in the vector *data*.

   .. versionadded:: 3Nov2022

   This subroutine gathers data for the requested atom IDs and stores them in a
   one-dimensional allocatable array. The data will be ordered by
   atom ID, but there is no requirement that the IDs be consecutive. If you
   wish to return a similar array for *all* the atoms, use
   :f:func:`gather_atoms` or :f:func:`gather_atoms_concat`.

   The *data* array will be in groups of *count* values, sorted by atom ID
   in the same order as the array *ids* (e.g., if *name* is *x*, *count* = 3,
   and *ids* is [100, 57, 210], then *data* might look like
   [*x*\ (1,100), *x*\ (2,100), *x*\ (3,100), *x*\ (1,57), *x*\ (2,57),
   *x*\ (3,57), *x*\ (1,210), :math:`\dots`]; *ids* must be provided by the
   user, and *data* must be of rank 1 (i.e., ``DIMENSION(:)``) and have the
   ``ALLOCATABLE`` attribute.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., *x* or *mask*)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p integer(c_int) ids [dimension(:)]: atom IDs corresponding to the atoms
    to be gathered
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_atoms_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1587: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter_atoms(name, data)

   This function calls :cpp:func:`lammps_scatter_atoms` to scatter the named
   atom-based entities in *data* to all processors.

   .. versionadded:: 3Nov2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to all atoms on all processors. The data must be
   ordered by atom ID, with the requirement that the IDs be consecutive.
   Use :f:func:`scatter_atoms_subset` to scatter data for some (or all)
   atoms, in any order.

   The *data* array needs to be ordered in groups of *count* values, sorted by
   atom ID (e.g., if *name* is *x* and *count* = 3, then
   *data* = [*x*\ (1,1), *x*\ (2,1), *x*\ (3,1), *x*\ (1,2), *x*\ (2,2),
   *x*\ (3,2), *x*\ (1,3), :math:`\dots`]); *data* must be of length *natoms*
   or 3\*\ *natoms*.

   :p character(len=\*) name: quantity to be scattered (e.g., *x* or *charge*)
   :p data: per-atom values packed in a one-dimensional array
    containing the data to be scattered. This array must have length *natoms*
    (e.g., for *type* or *charge*) or length *natoms*\ :math:`{}\times 3`
    (e.g., for *x* or *f*). The array *data* must be rank 1 (i.e.,
    ``DIMENSION(:)``) and be of type ``INTEGER(c_int)`` (e.g., for *mask* or
    *type*) or of type ``REAL(c_double)`` (e.g., for *x* or *charge* or *f*).
   :ptype data: polymorphic,dimension(:)
   :to: :cpp:func:`lammps_scatter_atoms` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1618: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter_atoms_subset(name, ids, data)

   This function calls :cpp:func:`lammps_scatter_atoms_subset` to scatter the
   named atom-based entities in *data* to all processors.

   .. versionadded:: 3Nov2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to a subset of atoms on all processors. The array
   *data* contains data associated with atom IDs, but there is no requirement
   that the IDs be consecutive, as they are provided in a separate array,
   *ids*. Use :f:func:`scatter_atoms` to scatter data for all atoms, in order.

   The *data* array needs to be organized in groups of 1 or 3 values,
   depending on which quantity is being scattered, with the groups in the same
   order as the array *ids*. For example, if you want *data* to be the array
   [*x*\ (1,1), *x*\ (2,1), *x*\ (3,1), *x*\ (1,100), *x*\ (2,100),
   *x*\ (3,100), *x*\ (1,57), *x*\ (2,57), *x*\ (3,57)], then *ids* would be
   [1, 100, 57] and *name* would be *x*.

   :p character(len=\*) name: quantity to be scattered (e.g., *x* or *charge*)
   :p integer(c_int) ids [dimension(:)]: atom IDs corresponding to the atoms
    being scattered
   :p data: per-atom values packed into a
    one-dimensional array containing the data to be scattered. This array must
    have either the same length as *ids* (for *mask*, *type*, etc.) or three
    times its length (for *x*, *f*, etc.); the array must be rank 1
    and be of type ``INTEGER(c_int)`` (e.g., for *mask* or *type*) or of type
    ``REAL(c_double)`` (e.g., for *charge*, *x*, or *f*).
   :ptype data: polymorphic,dimension(:)
   :to: :cpp:func:`lammps_scatter_atoms_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1652: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_bonds(data)

   Gather type and constituent atom information for all bonds.

   .. versionadded:: 3Nov2022

   This function copies the list of all bonds into an allocatable array.
   The array will be filled with (bond type, bond atom 1, bond atom 2) for each
   bond. The array is allocated to the right length (i.e., three times the
   number of bonds). The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM bonds
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: bonds
        INTEGER(c_int), DIMENSION(:,:), POINTER :: bonds_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create bonds, etc.
        CALL lmp%gather_bonds(bonds)
        bonds_array(1:3, 1:SIZE(bonds)/3) => bonds
        DO i = 1, SIZE(bonds)/3
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4)') 'bond', bonds_array(1,i), &
            '; type = ', bonds_array(2,i), bonds_array(3,i)
        END DO
      END PROGRAM bonds

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_bonds` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1697: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_angles(data)

   Gather type and constituent atom information for all angles.

   .. versionadded:: 8Feb2023

   This function copies the list of all angles into an allocatable array.
   The array will be filled with (angle type, angle atom 1, angle atom 2, angle atom 3)
   for each angle. The array is allocated to the right length (i.e., four times the
   number of angles). The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM angles
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: angles
        INTEGER(c_int), DIMENSION(:,:), POINTER :: angles_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create angles, etc.
        CALL lmp%gather_angles(angles)
        angles_array(1:4, 1:SIZE(angles)/4) => angles
        DO i = 1, SIZE(angles)/4
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4,1X,I4)') 'angle', angles_array(1,i), &
            '; type = ', angles_array(2,i), angles_array(3,i), angles_array(4,i)
        END DO
      END PROGRAM angles

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_angles` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1742: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather(self, name, count, data)

   Gather the named per-atom, per-atom fix, per-atom compute, or fix
   property/atom-based entities from all processes, in order by atom ID.

   .. versionadded:: 22Dec2022

   This subroutine gathers data from all processes and stores them in a
   one-dimensional allocatable array. The array *data* will be
   ordered by atom ID, which requires consecutive IDs (1 to *natoms*\ ). If you
   need a similar array but for non-consecutive atom IDs, see
   :cpp:func:`lammps_gather_concat`; for a similar array but for a subset of
   atoms, see :cpp:func:`lammps_gather_subset`.

   The *data* array will be ordered in groups of *count* values, sorted by atom
   ID (e.g., if *name* is *x*, then *data* is [x(1,1), x(2,1), x(3,1), x(1,2),
   x(2,2), x(3,2), x(1,3), :math:`\dots`]); *data* must be ``ALLOCATABLE`` and
   will be allocated to length (*count*\ :math:`{}\times{}`\ *natoms*), as
   queried by :f:func:`get_natoms`.

   This function will return an error if fix or compute data are requested and
   the fix or compute ID given does not have per-atom data. See the note about
   re-interpreting the vector as a matrix at :f:subr:`gather_atoms`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., "x" or "mask" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with
    *count*\ :math:`{}> 1`)
   :p integer(c_int) count: number of per-atom values (e.g., 1 for *type* or
    *charge*, 3 for *x* or *f*); use *count* = 3 with *image* if you want the
    image flags unpacked into (*x*,\ *y*,\ *z*) components.
   :p real(c_double) data [dimension(:),allocatable]: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data.
   :to: :cpp:func:`lammps_gather` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1784: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_dihedrals(data)

   Gather type and constituent atom information for all dihedrals.

   .. versionadded:: 8Feb2023

   This function copies the list of all dihedrals into an allocatable array.
   The array will be filled with (dihedral type, dihedral atom 1, dihedral atom 2,
   dihedral atom 3, dihedral atom 4) for each dihedral. The array is allocated to
   the right length (i.e., five times the number of dihedrals).
   The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM dihedrals
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: dihedrals
        INTEGER(c_int), DIMENSION(:,:), POINTER :: dihedrals_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create dihedrals, etc.
        CALL lmp%gather_dihedrals(dihedrals)
        dihedrals_array(1:5, 1:SIZE(dihedrals)/5) => dihedrals
        DO i = 1, SIZE(dihedrals)/5
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4,1X,I4,1X,I4)') 'dihedral', dihedrals_array(1,i), &
            '; type = ', dihedrals_array(2,i), dihedrals_array(3,i), dihedrals_array(4,i), dihedrals_array(5,i)
        END DO
      END PROGRAM dihedrals

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_dihedrals` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1830: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_impropers(data)

   Gather type and constituent atom information for all impropers.

   .. versionadded:: 8Feb2023

   This function copies the list of all impropers into an allocatable array.
   The array will be filled with (improper type, improper atom 1, improper atom 2,
   improper atom 3, improper atom 4) for each improper. The array is allocated to
   the right length (i.e., five times the number of impropers).
   The array *data* must be of the same type as the LAMMPS
   ``tagint`` type, which is equivalent to either ``INTEGER(c_int)`` or
   ``INTEGER(c_int64_t)``, depending on whether ``-DLAMMPS_BIGBIG`` was used
   when LAMMPS was built. If the supplied array does not match, an error will
   result at run-time.

   An example of how to use this routine is below:

   .. code-block:: fortran

      PROGRAM impropers
        USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int
        USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : OUTPUT_UNIT
        USE LIBLAMMPS
        IMPLICIT NONE
        INTEGER(c_int), DIMENSION(:), ALLOCATABLE, TARGET :: impropers
        INTEGER(c_int), DIMENSION(:,:), POINTER :: impropers_array
        TYPE(lammps) :: lmp
        INTEGER :: i
        ! other commands to initialize LAMMPS, create impropers, etc.
        CALL lmp%gather_impropers(impropers)
        impropers_array(1:5, 1:SIZE(impropers)/5) => impropers
        DO i = 1, SIZE(impropers)/5
          WRITE(OUTPUT_UNIT,'(A,1X,I4,A,I4,1X,I4,1X,I4,1X,I4)') 'improper', impropers_array(1,i), &
            '; type = ', impropers_array(2,i), impropers_array(3,i), impropers_array(4,i), impropers_array(5,i)
        END DO
      END PROGRAM impropers

   :p data: array into which to copy the result. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    kind ``c_int64_t``.
   :ptype data: integer(kind=\*),allocatable
   :to: :cpp:func:`lammps_gather_impropers` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1876: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_concat(self, name, count, data)

   Gather the named per-atom, per-atom fix, per-atom compute, or fix
   property/atom-based entities from all processes, unordered.

   .. versionadded:: 22Dec2022

   This subroutine gathers data for all atoms and stores them in a
   one-dimensional allocatable array. The data will be a
   concatenation of chunks from each processor's owned atoms, in whatever order
   the atoms are in on each processor. This process has no requirement that the
   atom IDs be consecutive. If you need the ID of each atom, you can do another
   call to either :f:subr:`gather_atoms_concat` or :f:subr:`gather_concat` with
   *name* set to ``id``. If you have consecutive IDs and want the data to be in
   order, use :f:subr:`gather`; for a similar array but for a subset of
   atoms, use :f:subr:`gather_subset`.

   The *data* array will be in groups of *count* values, with *natoms* groups
   total, but not in order by atom ID (e.g., if *name* is *x* and *count* is 3,
   then *data* might be something like [x(1,11), x(2,11), x(3,11), x(1,3),
   x(2,3), x(3,3), x(1,5), :math:`\dots`]); *data* must be ``ALLOCATABLE`` and
   will be allocated to length (*count* :math:`\times` *natoms*), as queried by
   :f:func:`get_natoms`.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., "x" or "mask" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with
    *count*\ :math:`{}> 1`)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: array into which to store
    the data. Array *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``). If this array is already allocated, it will be
    reallocated to fit the length of the incoming data. It should have type
    ``INTEGER(c_int)`` if expecting integer data and ``REAL(c_double)`` if
    expecting floating-point data.
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_concat` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1922: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: gather_subset(name, count, ids, data)

   Gather the named per-atom, per-atom fix, per-atom compute, or fix
   property/atom-based entities from all processes for a subset of atoms.

   .. versionadded:: 22Dec2022

   This subroutine gathers data for the requested atom IDs and stores them in a
   one-dimensional allocatable array. The data will be ordered by atom ID, but
   there is no requirement that the IDs be consecutive. If you wish to return a
   similar array for *all* the atoms, use :f:subr:`gather` or
   :f:subr:`gather_concat`.

   The *data* array will be in groups of *count* values, sorted by atom ID in
   the same order as the array *ids* (e.g., if *name* is *x*, *count* = 3, and
   *ids* is [100, 57, 210], then *data* might look like [*x*\ (1,100),
   *x*\ (2,100), *x*\ (3,100), *x*\ (1,57), *x*\ (2,57), *x*\ (3,57),
   *x*\ (1,210), :math:`\dots`]); *ids* must be provided by the user, and
   *data* must have the ``ALLOCATABLE`` attribute and be of rank 1 (i.e.,
   ``DIMENSION(:)``). If *data* is already allocated, it will be reallocated to
   fit the length of the incoming data.

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: quantity to be scattered

   :p integer(c_int) ids [dimension(:)]: atom IDs corresponding to the atoms
    being scattered (e.g., "x" or "f" for atom properties, "f_id" for per-atom
    fix data, "c_id" for per-atom compute data, "d_name" or "i_name" for fix
    property/atom vectors with *count* = 1, "d2_name" or "i2_name" for fix
    property/atom vectors with *count*\ :math:`{} > 1`)
   :p integer(c_int) count: number of per-atom values you expect per atom
    (e.g., 1 for *type*, *mask*, or *charge*; 3 for *x*, *v*, or *f*). Use
    *count* = 3 with *image* if you want a single image flag unpacked into
    *x*/*y*/*z* components.
   :p data: per-atom values packed into a one-dimensional array containing the
    data to be scattered. This array must have the ``ALLOCATABLE`` attribute
    and will be allocated either to the same length as *ids*
    (for *mask*, *type*, etc.) or to three times its length (for *x*, *f*,
    etc.); the array must be rank 1 and be of type ``INTEGER(c_int)`` (e.g.,
    for *mask* or *type*) or of type ``REAL(c_double)`` (e.g., for *charge*,
    *x*, or *f*).
   :ptype data: polymorphic,dimension(:),allocatable
   :to: :cpp:func:`lammps_gather_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:1969: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter(name, data)

   This function calls :cpp:func:`lammps_scatter` to scatter the named
   per-atom, per-atom fix, per-atom compute, or fix property/atom-based entity
   in *data* to all processes.

   .. versionadded:: 22Dec2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to all atoms on all processes. The data must be
   ordered by atom ID, with the requirement that the IDs be consecutive. Use
   :f:subr:`scatter_subset` to scatter data for some (or all) atoms, unordered.

   The *data* array needs to be ordered in groups of *count* values, sorted by
   atom ID (e.g., if *name* is *x* and *count* = 3, then *data* = [*x*\ (1,1),
   *x*\ (2,1), *x*\ (3,1), *x*\ (1,2), *x*\ (2,2), *x*\ (3,2), *x*\ (1,3),
   :math:`\dots`]); *data* must be of length (*count* :math:`\times` *natoms*).

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=*) name: desired quantity (e.g., "x" or "f" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with *count*\
    :math:`{} > 1`)
   :p data: per-atom values packed in a one-dimensional array; *data* should be
    of type ``INTEGER(c_int)`` or ``REAL(c_double)``, depending on the type of
    data being scattered, and be of rank 1 (i.e., ``DIMENSION(:)``).
   :ptype data: polymorphic,dimension(:)
   :to: :cpp:func:`lammps_scatter` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2002: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: scatter_subset(name, ids, data)

   This function calls :cpp:func:`lammps_scatter_subset` to scatter the named
   per-atom, per-atom fix, per-atom compute, or fix property/atom-based
   entities in *data* from a subset of atoms to all processes.

   .. versionadded:: 22Dec2022

   This subroutine takes data stored in a one-dimensional array supplied by the
   user and scatters them to a subset of atoms on all processes. The array
   *data* contains data associated with atom IDs, but there is no requirement
   that the IDs be consecutive, as they are provided in a separate array.
   Use :f:subr:`scatter` to scatter data for all atoms, in order.

   The *data* array needs to be organized in groups of *count* values, with the
   groups in the same order as the array *ids*. For example, if you want *data*
   to be the array [x(1,1), x(2,1), x(3,1), x(1,100), x(2,100), x(3,100),
   x(1,57), x(2,57), x(3,57)], then *count* = 3 and *ids* = [1, 100, 57].

   This function is not compatible with ``-DLAMMPS_BIGBIG``.

   :p character(len=\*) name: desired quantity (e.g., "x" or "mask" for atom
    properties, "f_id" for per-atom fix data, "c_id" for per-atom compute data,
    "d_name" or "i_name" for fix property/atom vectors with *count* = 1,
    "d2_name" or "i2_name" for fix property/atom vectors with
    *count*\ :math:`{}> 1`)
   :p integer(c_int) ids: list of atom IDs to scatter data for
   :p polymorphic data [dimension(:)]: per-atom values packed in a
    one-dimensional array of length *size(ids)* \* *count*.
   :to: :cpp:func:`lammps_scatter_subset` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2035: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: create_atoms([id,] type, x, [v,] [image,] [bexpand])

   This method calls :cpp:func:`lammps_create_atoms` to create additional atoms
   from a given list of coordinates and a list of atom types. Additionally,
   the atom IDs, velocities, and image flags may be provided.

   .. versionadded:: 3Nov2022

   :p integer(c_int) type [dimension(N)]: vector of :math:`N` atom types
    (required/see note below)
   :p real(c_double) x [dimension(3N)]: vector of :math:`3N\ x/y/z` positions
    of the new atoms, arranged as :math:`[x_1,y_1,z_1,x_2,y_2,\dotsc]`
    (required/see note below)
   :o integer(kind=\*) id [dimension(N),optional]: vector of :math:`N` atom
    IDs; if absent, LAMMPS will generate them for you. \*The ``KIND`` parameter
    should be ``c_int`` unless LAMMPS was compiled with ``-DLAMMPS_BIGBIG``, in
    which case it should be ``c_int64_t``.
   :o real(c_double) v [dimension(3N),optional]: vector of :math:`3N`
    *x*\ /*y*\ /*z* velocities of the new atoms, arranged as
    :math:`[v_{1,x},v_{1,y},v_{1,z},v_{2,x}, \dotsc]`; if absent, they will be
    set to zero
   :o integer(kind=\*) image [dimension(N),optional]: vector of :math:`N` image
    flags; if absent, they are set to zero. \*The ``KIND`` parameter should be
    ``c_int`` unless LAMMPS was compiled with ``-DLAMMPS_BIGBIG``, in which
    case it should be ``c_int64_t``. See note below.
   :o bexpand: if ``.TRUE.``, atoms outside of shrink-wrap boundaries
    will be created, not dropped, and the box dimensions will be extended.
    Default is ``.FALSE.``
   :otype bexpand: logical,optional
   :to: :cpp:func:`lammps_create_atoms`

   .. note::

      The *type* and *x* arguments are required, but they are declared
      ``OPTIONAL`` in the module because making them mandatory would require
      *id* to be present as well. To have LAMMPS generate the ids for you,
      use a call something like

      .. code-block:: fortran

         lmp%create_atoms(type=new_types, x=new_xs)

   .. note::

      When LAMMPS has been compiled with ``-DLAMMPS_BIGBIG``, it is not
      possible to include the *image* parameter but omit the *id* parameter.
      Either *id* must be present, or both *id* and *image* must be absent.
      This is required because having all arguments be optional in both
      generic functions creates an ambiguous interface. This limitation does
      not exist if LAMMPS was not compiled with ``-DLAMMPS_BIGBIG``. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2088: ERROR: Unknown directive type "f:function".

.. f:function:: find_pair_neighlist(style[, exact][, nsub][, reqid])

   Find index of a neighbor list requested by a pair style.

   .. versionadded:: 3Nov2022

   This function determines which of the available neighbor lists for pair
   styles matches the given conditions.  It first matches the style name.
   If *exact* is ``.TRUE.``, the name must match exactly; if ``.FALSE.``, a
   regular expression or sub-string match is done.  If the pair style is
   *hybrid* or *hybrid/overlay*, the style is matched against the sub-styles
   instead. If the same pair style is used multiple times as a sub-style, the
   *nsub* argument must be :math:`> 0`; this argument represents the *n*\ th
   instance of the sub-style (same as for the :doc:`pair_coeff <pair_coeff>`
   command, for example). In that case, *nsub*\ :math:`{} = 0` will not
   produce a match, and the function will return :math:`-1`.

   The final condition to be checked is the request ID (\ *reqid*\ ). This
   will usually be zero, but some pair styles request multiple neighbor
   lists and set the request ID to a value greater than zero.

   :p character(len=\*) style: String used to search for pair style instance.
   :o exact: Flag to control whether style should match exactly or only a
    regular expression/sub-string match is applied. Default: ``.TRUE.``.
   :otype exact: logical,optional
   :o integer(c_int) nsub [optional]: Match *nsub*\ th hybrid sub-style
    instance of the same style. Default: 0.
   :o integer(c_int) reqid [optional]: Request ID to identify the neighbor list
    in case there are multiple requests from the same pair style instance.
    Default: 0.
   :to: :cpp:func:`lammps_find_pair_neighlist`
   :r integer(c_int) index:    Neighbor list index if found, otherwise
    :math:`-1`. [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2124: ERROR: Unknown directive type "f:function".

.. f:function:: find_fix_neighlist(id[, reqid])

   Find index of a neighbor list requested by a fix.

   .. versionadded:: 3Nov2022

   The neighbor list request from a fix is identified by the fix ID and the
   request ID. The request ID is typically zero, but will be :math:`>0` for
   fixes with multiple neighbor list requests.

   :p character(len=\*) id: Identifier of fix instance
   :o integer(c_int) reqid [optional]: request ID to identify the neighbor list
    in cases in which there are multiple requests from the same fix.
    Default: 0.
   :to: :cpp:func:`lammps_find_fix_neighlist`
   :r index: neighbor list index if found, otherwise :math:`-1`
   :rtype index: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2144: ERROR: Unknown directive type "f:function".

.. f:function:: find_compute_neighlist(id[, reqid])

   Find index of a neighbor list requested by a compute.

   .. versionadded:: 3Nov2022

   The neighbor list request from a compute is identified by the compute ID and
   the request ID.  The request ID is typically zero, but will be :math:`> 0`
   in case a compute has multiple neighbor list requests.

   :p character(len=\*) id: Identifier of compute instance.
   :o integer(c_int) reqid [optional]: request ID to identify the neighbor list
    in cases in which there are multiple requests from the same compute.
    Default: 0.
   :to: :cpp:func:`lammps_find_compute_neighlist`
   :r index: neighbor list index if found, otherwise :math:`-1`.
   :rtype index: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2164: ERROR: Unknown directive type "f:function".

.. f:function:: neighlist_num_elements(idx)

   Return the number of entries in the neighbor list with the given index.

   .. versionadded:: 3Nov2022

   :p integer(c_int) idx: neighbor list index
   :to: :cpp:func:`lammps_neighlist_num_elements`
   :r inum: number of entries in neighbor list, or :math:`-1` if *idx* is not
    a valid index.
   :rtype inum: integer(c_int)
   :to: :cpp:func:`lammps_neighlist_num_elements` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2179: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: neighlist_element_neighbors(idx, element, iatom, neighbors)

   Return atom local index, number of neighbors, and array of neighbor local
   atom indices of a neighbor list entry.

   .. versionadded:: 3Nov2022

   :p integer(c_int) idx: index of this neighbor list in the list of all
    neighbor lists
   :p integer(c_int) element: index of this neighbor list entry
   :p integer(c_int) iatom: local atom index (i.e., in the range
    [1,nlocal+nghost]; -1 if invalid or element value
   :p integer(c_int) neighbors [dimension(:),pointer]: pointer to an array of
    neighboring atom local indices
   :to: :cpp:func:`lammps_neighlist_element_neighbors` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2197: ERROR: Unknown directive type "f:function".

.. f:function:: version()

   This method returns the numeric LAMMPS version like
   :cpp:func:`lammps_version` does.

   :to: :cpp:func:`lammps_version`
   :r version: LAMMPS version
   :rtype version: integer [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2208: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: get_os_info(buffer)

   This function can be used to retrieve detailed information about the hosting
   operating system and compiler/runtime environment.

   .. versionadded:: 3Nov2022

   A suitable buffer has to be provided. The assembled text will be truncated
   so as not to overflow this buffer. The string is typically a few hundred
   bytes long.

   :p character(len=\*) buffer: string that will house the information.
   :to: :cpp:func:`lammps_get_os_info` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2225: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_mpi_support()

   This function is used to query whether LAMMPS was compiled with a real MPI
   library or in serial.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_config_has_mpi_support`
   :r has_mpi: ``.FALSE.`` when compiled with STUBS, ``.TRUE.`` if
    complied with MPI.
   :rtype has_mpi: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2239: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_gzip_support()

   Check if the LAMMPS library supports reading or writing compressed
   files via a pipe to gzip or similar compression programs.

   .. versionadded:: 3Nov2022

   Several LAMMPS commands (e.g., :doc:`read_data`, :doc:`write_data`,
   :doc:`dump styles atom, custom, and xyz <dump>`) support reading and writing
   compressed files via creating a pipe to the ``gzip`` program.  This function
   checks whether this feature was :ref:`enabled at compile time <gzip>`.
   It does **not** check whether ``gzip`` or any other supported compression
   programs themselves are installed and usable.

   :to: :cpp:func:`lammps_config_has_gzip_support`
   :r has_gzip:
   :rtype has_gzip: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2259: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_png_support()

   Check if the LAMMPS library supports writing PNG format images.

   .. versionadded:: 3Nov2022

   The LAMMPS :doc:`dump style image <dump_image>` supports writing multiple
   image file formats.  Most of them, however, need support from an external
   library, and using that has to be :ref:`enabled at compile time <graphics>`.
   This function checks whether support for the `PNG image file format
   <https://en.wikipedia.org/wiki/Portable_Network_Graphics>`_ is available
   in the current LAMMPS library.

   :to: :cpp:func:`lammps_config_has_png_support`
   :r has_png:
   :rtype has_png: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2278: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_jpeg_support()

   Check if the LAMMPS library supports writing JPEG format images.

   .. versionadded:: 3Nov2022

   The LAMMPS :doc:`dump style image <dump_image>` supports writing multiple
   image file formats.  Most of them, however, need support from an external
   library, and using that has to be :ref:`enabled at compile time <graphics>`.
   This function checks whether support for the `JPEG image file format
   <https://jpeg.org/jpeg/>`_ is available in the current LAMMPS library.

   :to: :cpp:func:`lammps_config_has_jpeg_support`
   :r has_jpeg:
   :rtype has_jpeg: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2296: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_ffmpeg_support()

   Check if the LAMMPS library supports creating movie files via a pipe to
   ffmpeg.

   .. versionadded:: 3Nov2022

   The LAMMPS :doc:`dump style movie <dump_image>` supports generating movies
   from images on-the-fly via creating a pipe to the
   `ffmpeg <https://ffmpeg.org/>`_ program.
   This function checks whether this feature was
   :ref:`enabled at compile time <graphics>`.
   It does **not** check whether the ``ffmpeg`` itself is installed and usable.

   :to: :cpp:func:`lammps_config_has_ffmpeg_support`
   :r has_ffmpeg:
   :rtype has_ffmpeg: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2316: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_exceptions()

   Check whether LAMMPS errors will throw C++ exceptions.

   .. versionadded:: 3Nov2022

   When using the library interface, the library interface functions
   will "catch" exceptions, and then the error status can be checked by
   calling :f:func:`has_error`.  The most recent error message can be
   retrieved via :f:func:`get_last_error_message`.  This allows to
   restart a calculation or delete and recreate the LAMMPS instance when
   a C++ exception occurs.  One application of using exceptions this way
   is the :ref:`lammps_shell`.

   :to: :cpp:func:`lammps_config_has_exceptions`
   :r has_exceptions:
   :rtype has_exceptions: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2336: ERROR: Unknown directive type "f:function".

.. f:function:: config_has_package(name)

   Check whether a specific package has been included in LAMMPS

   .. versionadded:: 3Nov2022

   This function checks whether the LAMMPS library in use includes the specific
   :doc:`LAMMPS package <Packages>` provided as argument.

   :to: :cpp:func:`lammps_config_has_package`
   :r has_package:
   :rtype has_package: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2351: ERROR: Unknown directive type "f:function".

.. f:function:: config_package_count()

   Count the number of installed packages in the LAMMPS library.

   .. versionadded:: 3Nov2022

   This function counts how many :doc:`LAMMPS packages <Packages>` are
   included in the LAMMPS library in use. It directly calls the C library
   function :cpp:func:`lammps_config_package_count`.

   :to: :cpp:func:`lammps_config_package_count`
   :r integer(c_int) npackages: number of packages installed [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2366: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: config_package_name(idx, buffer)

   Get the name of a package in the list of installed packages in the LAMMPS
   library.

   .. versionadded:: 3Nov2022

   This subroutine copies the name of the package with the index *idx* into the
   provided string *buffer*. If the name of the package exceeds the length of
   the buffer, it will be truncated accordingly.  If the index is out of range,
   *buffer* is set to an empty string.

   :p integer(c_int) idx: index of the package in the list of included packages
    :math:`(0 \le idx < \text{package count})`
   :p character(len=\*) buffer: string to hold the name of the package
   :to: :cpp:func:`lammps_config_package_name` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2385: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: installed_packages(package[, length])

   Obtain a list of the names of enabled packages in the LAMMPS shared library
   and store it in *package*.

   .. versionadded:: 3Nov2022

   This function is analogous to the :py:meth:`installed_packages
   <lammps.lammps.installed_packages>` function in the Python API.
   The optional argument *length* sets the length of each string in the vector
   *package* (default: 31).

   :p character(len=:) package [dimension(:),allocatable]: list of packages;
    *must* have the ``ALLOCATABLE`` attribute and be of rank 1
    (i.e., ``DIMENSION(:)``) with allocatable length.
   :o length: length of each string in the list. Default: 31.
   :otype length: integer,optional
   :to: :cpp:func:`lammps_config_package_count`
   :to: :cpp:func:`lammps_config_package_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2407: ERROR: Unknown directive type "f:function".

.. f:function:: config_accelerator(package, category, setting)

   This function calls :cpp:func:`lammps_config_accelerator` to check the
   availability of compile time settings of included
   :doc:`accelerator packages <Speed_packages>` in LAMMPS.

   .. versionadded:: 3Nov2022

   Supported packages names are "GPU", "KOKKOS", "INTEL", and "OPENMP".
   Supported categories are "api" with possible settings "cuda", "hip", "phi",
   "pthreads", "opencl", "openmp", and "serial"; and "precision" with
   possible settings "double", "mixed", and "single".

   :p character(len=\*) package:   string with the name of the accelerator
    package
   :p character(len=\*) category:  string with the name of the setting
   :p character(len=\*) setting:   string with the name of the specific
    setting
   :to: :cpp:func:`lammps_config_accelerator`
   :r available: ``.TRUE.`` if the combination of package, category,
    and setting is available, otherwise ``.FALSE.``.
   :rtype available: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2432: ERROR: Unknown directive type "f:function".

.. f:function:: has_gpu_device()

   Checks for the presence of a viable GPU package device.

   .. versionadded:: 3Nov2022

   This function calls :cpp:func:`lammps_has_gpu_device`, which checks at
   runtime whether an accelerator device is present that can be used with the
   :doc:`GPU package <Speed_gpu>`.

   More detailed information about the available device or devices can
   be obtained by calling the
   :f:subr:`get_gpu_device_info` subroutine.

   :to: :cpp:func:`lammps_has_gpu_device`
   :r available: ``.TRUE.`` if a viable device is available, ``.FALSE.`` if not.
   :rtype available: logical [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2452: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: get_gpu_device_info(buffer)

   Get GPU package device information.

   .. versionadded:: 3Nov2022

   Calls :cpp:func:`lammps_get_gpu_device_info` to retrieve detailed
   information about any accelerator devices that are viable for use with the
   :doc:`GPU package <Speed_gpu>`. It will fill *buffer* with a string that is
   equivalent to the output of the ``nvc_get_device`` or ``ocl_get_device`` or
   ``hip_get_device`` tools that are compiled alongside LAMMPS if the GPU
   package is enabled.

   A suitable-length Fortran string has to be provided. The assembled text will
   be truncated so as not to overflow this buffer.  This string can be several
   kilobytes long if multiple devices are present.

   :p character(len=\*) buffer: string into which to copy the information.
   :to: :cpp:func:`lammps_get_gpu_device_info` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2474: ERROR: Unknown directive type "f:function".

.. f:function:: has_style(category, name)

   Check whether a specific style has been included in LAMMPS.

   .. versionadded:: 3Nov2022

   This function calls :cpp:func:`lammps_has_style` to check whether the
   LAMMPS library in use includes the specific style *name* associated with a
   specific *category* provided as arguments.  Please see
   :cpp:func:`lammps_has_style` for a list of valid categories.

   :p character(len=\*) category: category of the style
   :p character(len=\*) name:     name of the style
   :to: :cpp:func:`lammps_has_style`
   :r has_style: ``.TRUE.`` if included, ``.FALSE.`` if not.
   :rtype has_style: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2493: ERROR: Unknown directive type "f:function".

.. f:function:: style_count(category)

   Count the number of styles of *category* in the LAMMPS library.

   .. versionadded:: 3Nov2022

   This function counts how many styles in the provided *category* are
   included in the LAMMPS library currently in use. Please see
   :cpp:func:`lammps_has_style` for a list of valid categories.

   :p character(len=\*) category: category of styles to count
   :to: :cpp:func:`lammps_style_count`
   :r integer(c_int) count: number of styles in *category* [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2509: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: style_name(category, idx, buffer)

   Look up the name of a style by index in the list of styles of a given
   category in the LAMMPS library.

   .. versionadded:: 3Nov2022

   This function calls :cpp:func:`lammps_style_name` and copies the name of
   the *category* style with index *idx* into the provided string *buffer*.
   The length of *buffer* must be long enough to contain the name of the
   style; if it is too short, the name will be truncated accordingly.
   If *idx* is out of range, *buffer* will be the empty string and a warning
   will be issued.

   :p character(len=\*) category: category of styles
   :p integer(c_int) idx:         index of the style in the list of *category*
    styles :math:`(1 \leq idx \leq \text{style count})`
   :p character(len\*) buffer:    string buffer to copy the name of the style
    into
   :to: :cpp:func:`lammps_style_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2532: ERROR: Unknown directive type "f:function".

.. f:function:: has_id(category, name)

   This function checks if the current LAMMPS instance a *category* ID of
   the given *name* exists.  Valid categories are: *compute*\ , *dump*\ ,
   *fix*\ , *group*\ , *molecule*\ , *region*\ , and *variable*\ .

   .. versionadded:: 3Nov2022

   :p character(len=\*) category: category of the ID
   :p character(len=\*) name:     name of the ID
   :to: :cpp:func:`lammps_has_id`
   :r has_id: ``.TRUE.`` if *category* style *name* exists, ``.FALSE.`` if not.
   :rtype has_id: logical [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2548: ERROR: Unknown directive type "f:function".

.. f:function:: id_count(category)

   This function counts how many IDs in the provided *category* are defined in
   the current LAMMPS instance. Please see :f:func:`has_id` for a list of
   valid categories.

   .. versionadded:: 3Nov2022

   :p character(len=\*) category: category of the ID
   :to: :cpp:func:`lammps_id_count`
   :r count: number of IDs in *category*
   :rtype count: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2563: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: id_name(category, idx, buffer)

   Look up the name of an ID by index in the list of IDs of a given category.

   .. versionadded:: 3Nov2022

   This function copies the name of the *category* ID with the index *idx* into
   the provided string *buffer*\ .  The length of the buffer must be long
   enough to hold the string; if the name of the style exceeds the length of
   the buffer, it will be truncated accordingly. If *buffer* is
   ``ALLOCATABLE``, it must be allocated *before* the function is called.
   If *idx* is out of range, *buffer* is set to an empty string and a warning
   is issued.

   :p character(len=\*) category: category of IDs
   :p integer(c_int) idx:         index of the ID in the list of *category*
    styles (:math:`0 \leq idx < count`)
   :p character(len=\*) buffer:   string into which to copy the name of the
    style
   :to: :cpp:func:`lammps_id_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2586: ERROR: Unknown directive type "f:function".

.. f:function:: plugin_count()

   This function counts the number of loaded plugins.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_plugin_count`
   :r n: number of loaded plugins
   :rtype n: integer(c_int) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2598: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: plugin_name(idx, stylebuf, namebuf)

   Look up the style and name of a plugin by its index in the list of plugins.

   .. versionadded:: 3Nov2022

   This function copies the name of the *style* plugin with the index *idx*
   into the provided C-style string buffer.  The length of the buffer must be
   provided as *buf_size* argument.  If the name of the style exceeds the
   length of the buffer, it will be truncated accordingly.  If the index is out
   of range, both strings are set to the empty string and a warning is
   printed.

   :p integer(c_int) idx:         index of the plugin in the list all or
    *style* plugins
   :p character(len=\*) stylebuf: string into which to copy the style of the
    plugin
   :p character(len=\*) namebuf:  string into which to copy the style of the
    plugin
   :to: :cpp:func:`lammps_plugin_name` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2621: ERROR: Unknown directive type "f:function".

.. f:function:: encode_image_flags(ix, iy, iz)

   Encodes three integer image flags into a single imageint.

   .. versionadded:: 3Nov2022

   This function performs the bit-shift, addition, and bit-wise OR operations
   necessary to combine the values of three integers representing the image
   flags in the :math:`x`-, :math:`y`-, and :math:`z`-directions. Unless LAMMPS
   is compiled with ``-DLAMMPS_BIGBIG``, those integers are limited to 10-bit
   signed integers :math:`[-512,512)`. If ``-DLAMMPS_BIGBIG`` was used when
   compiling, then the return value is of kind ``c_int64_t`` instead of
   kind ``c_int``, and the valid range for the individual image flags becomes
   :math:`[-1048576,1048575)` (i.e., the range of a 21-bit signed integer).
   There is no check on whether the arguments conform to these requirements;
   values out of range will simply be wrapped back into the interval.

   :p integer(c_int) ix: image flag in :math:`x`-direction
   :p integer(c_int) iy: image flag in :math:`y`-direction
   :p integer(c_int) iz: image flag in :math:`z`-direction
   :r integer(kind=\*) imageint: encoded image flag. \*The ``KIND`` parameter
    is ``c_int`` unless LAMMPS was built with ``-DLAMMPS_BIGBIG``, in which
    case it is ``c_int64_t``.

   .. note::

     The fact that the programmer does not know the ``KIND`` parameter of the
     return value until compile time means that it is impossible to define an
     interface that works for both sizes of ``imageint``. One side effect of
     this is that you must assign the return value of this function to a
     variable; it cannot be used as the argument to another function or as part
     of an array constructor. For example,

     .. code-block:: fortran

        my_images = [lmp%encode_image_flags(0,0,0), lmp%encode_image_flags(1,0,0)]

     will *not* work; instead, do something like

     .. code-block:: fortran

        my_images(1) = lmp%encode_image_flags(0,0,0)
        my_images(2) = lmp%encode_image_flags(1,0,0) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2667: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: decode_image_flags(image, flags)

   This function does the reverse operation of :f:func:`encode_image_flags`:
   it takes the image flag and performs the bit-shift and bit-masking
   operations to decode it and stores the resulting three integers into the
   array *flags*.

   .. versionadded:: 3Nov2022

   :p integer(kind=\*) image: encoded image flag. \*The ``KIND`` parameter is
    either ``c_int`` or, if LAMMPS was compiled with ``-DLAMMPS_BIGBIG``,
    ``c_int64_t``. Kind compatibility is checked at run-time.
   :p integer(c_int) flags [dimension(3)]: three-element vector where the
    decoded image flags will be stored. [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2684: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_fix_external_callback(id, callback, caller)

   Set the callback function for a :doc:`fix external <fix_external>` instance
   with the given ID.

   .. versionadded:: 22Dec2022

   Fix :doc:`external <fix_external>` allows programs that are running LAMMPS
   through its library interface to modify certain LAMMPS properties on
   specific time steps, similar to the way other fixes do.

   This subroutine sets the callback function for use with the "pf/callback"
   mode. The function should have Fortran language bindings with the following
   interface, which depends on how LAMMPS was compiled:

   .. code-block:: fortran

      ABSTRACT INTERFACE
        SUBROUTINE external_callback(caller, timestep, ids, x, fexternal)
          USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int, c_double, c_int64_t
          CLASS(*), INTENT(INOUT) :: caller
          INTEGER(c_bigint), INTENT(IN) :: timestep
          INTEGER(c_tagint), DIMENSION(:), INTENT(IN) :: ids
          REAL(c_double), DIMENSION(:,:), INTENT(IN) :: x
          REAL(c_double), DIMENSION(:,:), INTENT(OUT) :: fexternal
        END SUBROUTINE external_callback
      END INTERFACE

   where ``c_bigint`` is ``c_int`` if ``-DLAMMPS_SMALLSMALL`` was used and
   ``c_int64_t`` otherwise; and ``c_tagint`` is ``c_int64_t`` if
   ``-DLAMMPS_BIGBIG`` was used and ``c_int`` otherwise.

   The argument *caller* to :f:subr:`set_fix_external_callback` is unlimited
   polymorphic (i.e., it can be any Fortran object you want to pass to the
   calling function) and will be available as the first argument to the
   callback function. It can be your LAMMPS instance, which you might need if
   the callback function needs access to the library interface.
   The argument must be a scalar; to pass non-scalar data, wrap those data in
   a derived type and pass an instance of the derived type to *caller*.

   The array *ids* is an array of length *nlocal* (as accessed from the
   :cpp:class:`Atom` class or through :f:func:`extract_global`). The arrays
   *x* and *fexternal* are :math:`3 \times {}`\ *nlocal* arrays; these are
   transposed from what they would look like in C (see note about array index
   order at :f:func:`extract_atom`).

   The callback mechanism is one of two ways that forces can be applied to a
   simulation with the help of :doc:`fix external <fix_external>`. The
   alternative is *array* mode, where one calls
   :f:func:`fix_external_get_force`.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and couple it with external
   programs.

   :p character(len=*) id: ID of :doc:`fix external <fix_external>` instance
   :p callback: subroutine :doc:`fix external <fix_external>` should call
   :ptype callback: external
   :p class(*) caller [optional]: object you wish to pass to the callback
    procedure (must be a scalar; see note)
   :to: :cpp:func:`lammps_set_fix_external_callback`

   .. note::

      The interface for your callback function must match types precisely
      with the abstract interface block given above. **The compiler probably
      will not be able to check this for you.** In particular, the first
      argument ("caller") must be of type ``CLASS(*)`` or you will probably
      get a segmentation fault or at least a misinterpretation of whatever is
      in memory there. You can resolve the object using the ``SELECT TYPE``
      construct. An example callback function (assuming LAMMPS was compiled
      with ``-DLAMMPS_SMALLBIG``) that applies something akin to Hooke's Law
      (with each atom having a different *k* value) is shown below.

      .. code-block:: fortran

         MODULE stuff
           USE, INTRINSIC :: ISO_C_BINDING, ONLY : c_int, c_double, c_int64_t
           USE, INTRINSIC :: ISO_FORTRAN_ENV, ONLY : error_unit
           IMPLICIT NONE

           TYPE shield
              REAL(c_double), DIMENSION(:,:), ALLOCATABLE :: k
              ! assume k gets allocated to dimension(3,nlocal) at some point
              ! and assigned values
           END TYPE shield

           SUBROUTINE my_callback(caller, timestep, ids, x, fexternal)
             CLASS(*), INTENT(INOUT) :: caller
             INTEGER(c_int), INTENT(IN) :: timestep
             INTEGER(c_int64_t), INTENT(IN) :: ids
             REAL(c_double), INTENT(IN) :: x(:,:)
             REAL(c_double), INTENT(OUT) :: fexternal(:,:)

             SELECT TYPE (caller)
               TYPE IS (shield)
                  fexternal = - caller%k * x
               CLASS DEFAULT
                  WRITE(error_unit,*) 'UH OH...'
             END SELECT
           END SUBROUTINE my_callback
         END MODULE stuff

         ! then, when assigning the callback function, do this:
         PROGRAM example
           USE LIBLAMMPS
           USE stuff
           TYPE(lammps) :: lmp
           TYPE(shield) :: my_shield
           lmp = lammps()
           CALL lmp%command('fix ext all external pf/callback 1 1')
           CALL lmp%set_fix_external_callback('ext', my_callback, my_shield)
         END PROGRAM example [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2800: ERROR: Unknown directive type "f:function".

.. f:function:: fix_external_get_force(id)

   Get pointer to the force array storage in a fix external instance with the
   given ID.

   .. versionadded:: 22Dec2022

   Fix :doc:`external <fix_external>` allows programs that are running LAMMPS
   through its library interfaces to add or modify certain LAMMPS properties on
   specific time steps, similar to the way other fixes do.

   This function provides access to the per-atom force storage in a fix
   external instance with the given fix-ID to be added to the individual
   atoms when using the "pf/array" mode.  The *fexternal* array can be
   accessed like other "native" per-atom arrays accessible via the
   :f:func:`extract_atom` function.  Please note that the array
   stores the forces for *local* atoms for each MPI rank, in the order
   determined by the neighbor list build.  Because the underlying data
   structures can change as well as the order of atom as they migrate between
   MPI processes because of the domain decomposition parallelization, this
   function should be always called immediately before the forces are going to
   be set to get an up-to-date pointer.  You can use, for example,
   :f:func:`extract_setting` to obtain the number of local atoms `nlocal` and
   then assume the dimensions of the returned force array as
   ``REAL(c_double) :: force(3,nlocal)``.

   This function is an alternative to the callback mechanism in fix external
   set up by :f:subr:`set_fix_external_callback`. The main difference is that
   this mechanism can be used when forces are to be pre-computed and the
   control alternates between LAMMPS and the external driver, while the
   callback mechanism can call an external subroutine to compute the force when
   the fix is triggered and needs them.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external program.

   :p character(len=*) id: ID of :doc:`fix external <fix_external>` instance
   :to: :cpp:func:`lammps_fix_external_get_force`
   :r fexternal: pointer to the per-atom force array allocated by the fix
   :rtype fexternal: real(c_double),dimension(3,nlocal) [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2844: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_energy_global(id, eng)

   Set the global energy contribution for a :doc:`fix external <fix_external>`
   instance with the given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:func:`set_fix_external_callback`
   and :f:func:`fix_external_get_force` that also sets the contribution to the
   global energy from the external program.  The value of the *eng* argument
   will be stored in the fix and applied on the current and all following
   time steps until changed by another call to this function. The energy is in
   energy units as determined by the current :doc:`units <units>` settings and
   is the **total** energy of the contribution.  Thus, when running in
   parallel, all MPI processes have to call this function with the **same**
   value, and this will be returned as a scalar property of the fix external
   instance when accessed in LAMMPS input commands or from variables.

   Please see the documentation for :doc:`fix external <fix_external>` for more
   information about how to use the fix and how to couple it with an external
   program.

   :p character(len=*) id: fix ID of fix external instance
   :p real(c_double) eng:  total energy to be added to the global energy
   :to: :cpp:func:`lammps_fix_external_set_energy_global` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2872: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_virial_global(id, virial)

   Set the global virial contribution for a fix external instance with the
   given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback`
   and :f:func:`fix_external_get_force` to set the contribution to the global
   virial from an external program.

   The six values of the *virial* array will be stored in the fix and applied
   on the current and all following time steps until changed by another call
   to this function. The components of the virial need to be stored in the
   following order: *xx*, *yy*, *zz*, *xy*, *xz*, *yz*.  In LAMMPS, the virial
   is stored internally as `stress*volume` in units of `pressure*volume` as
   determined by the current :doc:`units <units>` settings and is the
   **total** contribution.  Thus, when running in parallel, all MPI processes
   have to call this function with the **same** value, and this will then be
   added by fix external.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external code.

   :p character(len=*) id: fix ID of fix external instance
   :p real(c_double) virial [dimension(6)]: the six global stress tensor
    components to be added to the global virial
   :to: :cpp:func:`lammps_fix_external_set_virial_global` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2904: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_energy_peratom(id, eng)

   Set the per-atom energy contribution for a fix external instance with the
   given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback` to set
   the per-atom energy contribution due to the fix from the external program as
   part of the callback function.  For this to work, the LAMMPS object must be
   passed as part of the *caller* argument when registering the callback
   function, or the callback function must otherwise have access to the
   LAMMPS object, such as through a module-based pointer.

   .. note::

      This function is fully independent from
      :f:subr:`fix_external_set_energy_global` and will **NOT** add any
      contributions to the global energy tally and will **NOT** check whether
      the sum of the contributions added here are consistent with the global
      added energy.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external code.

   :p character(len=*) id: fix ID of the fix external instance
   :p real(c_double) eng [dimension(:)]: array of length *nlocal* containing
    the energy to add to the per-atom energy
   :to: :cpp:func:`lammps_fix_external_set_energy_peratom` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2937: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: set_fix_external_set_virial_peratom(id, virial)

   This is a companion function to :f:subr:`set_fix_external_callback` to set
   the per-atom virial contribution due to the fix from the external program as
   part of the callback function.  For this to work, the LAMMPS object must be
   passed as the *caller* argument when registering the callback function.

   .. versionadded:: 22Dec2022

   .. note::

      This function is fully independent from
      :f:subr:`fix_external_set_virial_global` and will **NOT** add any
      contributions to the global virial tally and **NOT** check whether the
      sum of the contributions added here are consistent with the global added
      virial.

   The order and units of the per-atom stress tensor elements are the same
   as for the global virial.  The type and dimensions of the per-atom virial
   array must be ``REAL(c_double), DIMENSION(6,nlocal)``.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external program.

   :p character(len=*) id: fix ID of fix external instance
   :p real(c_double) virial [dimension(:,:)]: an array of :math:`6 \times{}`\
    *nlocal* components to be added to the per-atom virial
   :to: :cpp:func:`lammps_set_virial_peratom` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2969: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_vector_length(id, length)

   Set the vector length for a global vector stored with fix external for
   analysis.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback` and
   :f:func:`fix_external_get_force` to set the length of a global vector of
   properties that will be stored with the fix via
   :f:subr:`fix_external_set_vector`.

   This function needs to be called **before** a call to
   :f:subr:`fix_external_set_vector` and **before** a run or minimize command.
   When running in parallel, it must be called from **all** MPI
   processes with the same length argument.

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external program.

   :p character(len=*) id: fix ID of fix external instance
   :p integer(c_int) length: length of the global vector to be stored with the
    fix
   :to: :cpp:func:`lammps_fix_external_set_vector_length` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:2997: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: fix_external_set_vector(id, idx, val)

   Store a global vector value for a fix external instance with the given ID.

   .. versionadded:: 22Dec2022

   This is a companion function to :f:subr:`set_fix_external_callback` and
   :f:func:`fix_external_get_force` to set the values of a global vector of
   properties that will be stored with the fix and can be accessed from
   within LAMMPS input commands (e.g., fix ave/time or variables) when used
   in a vector context.

   This function needs to be called **after** a call to
   :f:subr:`fix_external_set_vector_length` and **before** a run or minimize
   command.  When running in parallel, it must be called from **all** MPI
   processes with the **same** *idx* and *val* parameters.  The variable
   *val* is assumed to be extensive.

   .. note::

      The index in the *idx* parameter is 1-based (i.e., the first element
      is set with *idx*\ :math:`{} = 1`, and the last element of the vector
      with *idx*\ :math:`{} = N`, where :math:`N` is the value of the *length*
      parameter of the call to :f:subr:`fix_external_set_vector_length`).

   Please see the documentation for :doc:`fix external <fix_external>` for
   more information about how to use the fix and how to couple it with an
   external code.

   :p character(len=*) id: ID of fix external instance
   :p integer(c_int) idx: 1-based index in global vector
   :p integer(c_int) val: value to be stored in global vector at index *idx*
   :to: :cpp:func:`lammps_fix_external_set_vector` [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3033: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: flush_buffers()

   This function calls :cpp:func:`lammps_flush_buffers`, which flushes buffered
   output to be written to screen and logfile. This can simplify capturing
   output from LAMMPS library calls.

   .. versionadded:: 3Nov2022

   :to: :cpp:func:`lammps_flush_buffers` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3045: ERROR: Unknown directive type "f:function".

.. f:function:: is_running()

   Check if LAMMPS is currently inside a run or minimization.

   .. versionadded:: 3Nov2022

   This function can be used from signal handlers or multi-threaded
   applications to determine if the LAMMPS instance is currently active.

   :to: :cpp:func:`lammps_is_running`
   :r is_running: ``.FALSE.`` if idle or ``.TRUE.`` if active
   :rtype is_running: logical [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3060: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: force_timeout()

   Force a timeout to stop an ongoing run cleanly.

   .. versionadded:: 3Nov2022

   This function can be used from signal handlers or multi-threaded
   applications to terminate an ongoing run cleanly.

   :to: :cpp:func:`lammps_force_timeout` [docutils]
WARNING: unknown directive or role name: f:function
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3073: ERROR: Unknown directive type "f:function".

.. f:function:: has_error()

   Check if there is a (new) error message available.

   .. versionadded:: 3Nov2022

   This function can be used to query if an error inside of LAMMPS
   has thrown a :ref:`C++ exception <exceptions>`.

   :to: :cpp:func:`lammps_has_error`
   :r has_error: ``.TRUE.`` if there is an error.
   :rtype has_error: logical [docutils]
WARNING: unknown directive or role name: f:subroutine
/build/reproducible-path/lammps-20240207+dfsg/doc/src/Fortran.rst:3088: ERROR: Unknown directive type "f:subroutine".

.. f:subroutine:: get_last_error_message(buffer[,status])

   Copy the last error message into the provided buffer.

   .. versionadded:: 3Nov2022

   This function can be used to retrieve the error message that was set
   in the event of an error inside of LAMMPS that resulted in a
   :ref:`C++ exception <exceptions>`.  A suitable buffer for a string has
   to be provided.  If the internally-stored error message is longer than the
   string, it will be truncated accordingly.  The optional argument *status*
   indicates the kind of error: a "1" indicates an error that occurred on all
   MPI ranks and is often recoverable, while a "2" indicates an abort that
   would happen only in a single MPI rank and thus may not be recoverable, as
   other MPI ranks may be waiting on the failing MPI rank(s) to send messages.

   :p character(len=\*) buffer: string buffer to copy the error message into
   :o integer(c_int) status [optional]: 1 when all ranks had the error,
    2 on a single-rank error.
   :to: :cpp:func:`lammps_get_last_error_message` [docutils]
looking for now-outdated files... none found
pickling environment... done
checking consistency... /build/reproducible-path/lammps-20240207+dfsg/doc/src/angle_coeff.rst: document is referenced in multiple toctrees: ['angles', 'commands_list'], selecting: commands_list <- angle_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/angle_style.rst: document is referenced in multiple toctrees: ['angles', 'commands_list'], selecting: commands_list <- angle_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/angle_write.rst: document is referenced in multiple toctrees: ['angles', 'commands_list'], selecting: commands_list <- angle_write
/build/reproducible-path/lammps-20240207+dfsg/doc/src/bond_coeff.rst: document is referenced in multiple toctrees: ['bonds', 'commands_list'], selecting: commands_list <- bond_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/bond_style.rst: document is referenced in multiple toctrees: ['bonds', 'commands_list'], selecting: commands_list <- bond_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/bond_write.rst: document is referenced in multiple toctrees: ['bonds', 'commands_list'], selecting: commands_list <- bond_write
/build/reproducible-path/lammps-20240207+dfsg/doc/src/compute_modify.rst: document is referenced in multiple toctrees: ['computes', 'commands_list'], selecting: computes <- compute_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dihedral_coeff.rst: document is referenced in multiple toctrees: ['dihedrals', 'commands_list'], selecting: dihedrals <- dihedral_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dihedral_style.rst: document is referenced in multiple toctrees: ['dihedrals', 'commands_list'], selecting: dihedrals <- dihedral_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dihedral_write.rst: document is referenced in multiple toctrees: ['dihedrals', 'commands_list'], selecting: dihedrals <- dihedral_write
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_adios.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_adios
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_cfg_uef.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_cfg_uef
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_h5md.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_h5md
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_image.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_image
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_modify.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_molfile.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_molfile
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_netcdf.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_netcdf
/build/reproducible-path/lammps-20240207+dfsg/doc/src/dump_vtk.rst: document is referenced in multiple toctrees: ['dumps', 'commands_list'], selecting: dumps <- dump_vtk
/build/reproducible-path/lammps-20240207+dfsg/doc/src/fix_modify.rst: document is referenced in multiple toctrees: ['fixes', 'commands_list'], selecting: fixes <- fix_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/fix_modify_atc_commands.rst: document is referenced in multiple toctrees: ['fixes', 'Manual'], selecting: fixes <- fix_modify_atc_commands
/build/reproducible-path/lammps-20240207+dfsg/doc/src/improper_coeff.rst: document is referenced in multiple toctrees: ['impropers', 'commands_list'], selecting: impropers <- improper_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/improper_style.rst: document is referenced in multiple toctrees: ['impropers', 'commands_list'], selecting: impropers <- improper_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_coeff.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_coeff
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_modify.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_modify
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_style.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_style
/build/reproducible-path/lammps-20240207+dfsg/doc/src/pair_write.rst: document is referenced in multiple toctrees: ['pairs', 'commands_list'], selecting: pairs <- pair_write
done
preparing documents... done
copying assets... 
copying static files... 
Writing evaluated template result to /build/reproducible-path/lammps-20240207+dfsg/doc/html/_static/language_data.js
Writing evaluated template result to /build/reproducible-path/lammps-20240207+dfsg/doc/html/_static/documentation_options.js
Writing evaluated template result to /build/reproducible-path/lammps-20240207+dfsg/doc/html/_static/basic.css
copying static files: done
copying extra files... 
copying extra files: done
copying assets: done
writing output... [ 50%] Library
writing output... [100%] Manual

generating indices... genindex py-modindex done
writing additional pages... search done
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 196 warnings.

The HTML pages are in html.
############################################
env: 'rst_anchor_check': No such file or directory
Found 89 packages
Parsed style names w/o suffixes from C++ tree in ../src:
   Angle styles:      26    Atom styles:       28
   Body styles:        3    Bond styles:       25
   Command styles:    51    Compute styles:   169
   Dihedral styles:   17    Dump styles:       34
   Fix styles:       265    Improper styles:   14
   Integrate styles:   4    Kspace styles:     21
   Minimize styles:    9    Pair styles:      287
   Reader styles:      4    Region styles:      9
----------------------------------------------------
Total number of styles (including suffixes): 1784
Total number of style index entries: 1278
############################################
Build finished. The HTML pages are in doc/html.
make[2]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/doc'
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   debian/rules override_dh_auto_test-arch
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
mkdir test; cp examples/crack/* test/
cd test; /build/reproducible-path/lammps-20240207+dfsg/debian/build/lmp < in.crack
LAMMPS (7 Feb 2024 - Update 1)
OMP_NUM_THREADS environment is not set. Defaulting to 1 thread. (src/comm.cpp:98)
  using 1 OpenMP thread(s) per MPI task
Lattice spacing in x,y,z = 1.1142771 1.9299846 1.1142771
Created orthogonal box = (0 0 -0.27856928) to (111.42771 77.199383 0.27856928)
  1 by 1 by 1 MPI processor grid
Created 8141 atoms
  using lattice units in orthogonal box = (-0.011142771 -0.0077199383 -0.27856928) to (111.43885 77.207103 0.27856928)
  create_atoms CPU = 0.002 seconds
302 atoms in group lower
302 atoms in group upper
604 atoms in group boundary
7537 atoms in group mobile
841 atoms in group leftupper
841 atoms in group leftlower
Setting atom values ...
  841 settings made for type
Setting atom values ...
  841 settings made for type
Setting atom values ...
  302 settings made for type
Setting atom values ...
  302 settings made for type
WARNING: Temperature for thermo pressure is not for group all (src/thermo.cpp:529)
Generated 0 of 10 mixed pair_coeff terms from geometric mixing rule
Neighbor list info ...
  update: every = 1 steps, delay = 5 steps, check = yes
  max neighbors/atom: 2000, page size: 100000
  master list distance cutoff = 2.8
  ghost atom cutoff = 2.8
  binsize = 1.4, bins = 80 56 1
  1 neighbor lists, perpetual/occasional/extra = 1 0 0
  (1) pair lj/cut, perpetual
      attributes: half, newton on
      pair build: half/bin/atomonly/newton
      stencil: half/bin/2d
      bin: standard
Setting up Verlet run ...
  Unit style    : lj
  Current step  : 0
  Time step     : 0.003
Per MPI rank memory allocation (min/avg/max) = 3.112 | 3.112 | 3.112 Mbytes
   Step          Temp          E_pair         E_mol          TotEng         Press          Volume    
         0   0.065651733   -3.2595015      0             -3.1987287     -0.036239172    8605.5917    
       200   0.060086376   -3.2531936      0             -3.1975725     -0.23125026     8638.8101    
       400   0.060533553   -3.2509973      0             -3.1949623     -0.4305406      8679.2464    
       600   0.06082965    -3.2466949      0             -3.1903858     -0.6028531      8716.7569    
       800   0.061677224   -3.2413215      0             -3.1842278     -0.7482749      8756.226     
      1000   0.062383731   -3.2349273      0             -3.1771796     -0.87425132     8793.1116    
      1200   0.063709246   -3.2276094      0             -3.1686347     -0.98020161     8828.8863    
      1400   0.065404552   -3.2196608      0             -3.1591168     -1.0695384      8866.4893    
      1600   0.067579602   -3.2110378      0             -3.1484804     -1.1456387      8900.6772    
      1800   0.069324241   -3.2018536      0             -3.1376812     -1.2020999      8933.017     
      2000   0.071014927   -3.1921108      0             -3.1263733     -1.2430105      8963.9853    
      2200   0.072992881   -3.1818701      0             -3.1143017     -1.2701297      9004.4136    
      2400   0.075000723   -3.1712313      0             -3.1018043     -1.2830866      9034.9991    
      2600   0.076843477   -3.1601004      0             -3.0889675     -1.27924        9072.1325    
      2800   0.078671706   -3.1487747      0             -3.0759495     -1.2659604      9103.9526    
      3000   0.080713586   -3.1373277      0             -3.0626123     -1.2440673      9134.552     
      3200   0.08309469    -3.1260242      0             -3.0491047     -1.214547       9169.0003    
      3400   0.085424766   -3.1146623      0             -3.0355859     -1.1839326      9206.909     
      3600   0.087396485   -3.1029493      0             -3.0220477     -1.143412       9233.783     
      3800   0.089007987   -3.090822       0             -3.0084286     -1.1000791      9259.0348    
      4000   0.089813071   -3.0794078      0             -2.9962692     -1.062847       9281.82      
      4200   0.08584753    -3.0668559      0             -2.9873882     -1.037972       9308.8113    
      4400   0.086197517   -3.0559678      0             -2.9761761     -1.028843       9328.9666    
      4600   0.086766447   -3.0437627      0             -2.9634443     -1.0208785      9361.9925    
      4800   0.088195149   -3.0328502      0             -2.9512093     -1.0272063      9395.6122    
      5000   0.089415266   -3.0228825      0             -2.9401122     -1.0215336      9436.1637    
Loop time of 4.99962 on 1 procs for 5000 steps with 8141 atoms

Performance: 259219.922 tau/day, 1000.077 timesteps/s, 8.142 Matom-step/s
100.0% CPU use with 1 MPI tasks x 1 OpenMP threads

MPI task timing breakdown:
Section |  min time  |  avg time  |  max time  |%varavg| %total
---------------------------------------------------------------
Pair    | 4.2237     | 4.2237     | 4.2237     |   0.0 | 84.48
Neigh   | 0.19894    | 0.19894    | 0.19894    |   0.0 |  3.98
Comm    | 0.0040579  | 0.0040579  | 0.0040579  |   0.0 |  0.08
Output  | 0.0012429  | 0.0012429  | 0.0012429  |   0.0 |  0.02
Modify  | 0.43388    | 0.43388    | 0.43388    |   0.0 |  8.68
Other   |            | 0.1378     |            |       |  2.76

Nlocal:           8141 ave        8141 max        8141 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Nghost:              0 ave           0 max           0 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Neighs:          71389 ave       71389 max       71389 min
Histogram: 1 0 0 0 0 0 0 0 0 0

Total # of neighbors = 71389
Ave neighs/atom = 8.7690701
Neighbor list builds = 100
Dangerous builds = 0
Total wall time: 0:00:05
rm -rf test
mkdir test; cp examples/crack/* test/
cd test; mpirun -np 2 --allow-run-as-root /build/reproducible-path/lammps-20240207+dfsg/debian/build/lmp < in.crack
LAMMPS (7 Feb 2024 - Update 1)
WARNING: Using I/O redirection is unreliable with parallel runs. Better to use the -in switch to read input files. (src/lammps.cpp:552)
OMP_NUM_THREADS environment is not set. Defaulting to 1 thread. (src/comm.cpp:98)
  using 1 OpenMP thread(s) per MPI task
Lattice spacing in x,y,z = 1.1142771 1.9299846 1.1142771
Created orthogonal box = (0 0 -0.27856928) to (111.42771 77.199383 0.27856928)
  2 by 1 by 1 MPI processor grid
Created 8141 atoms
  using lattice units in orthogonal box = (-0.011142771 -0.0077199383 -0.27856928) to (111.43885 77.207103 0.27856928)
  create_atoms CPU = 0.002 seconds
302 atoms in group lower
302 atoms in group upper
604 atoms in group boundary
7537 atoms in group mobile
841 atoms in group leftupper
841 atoms in group leftlower
Setting atom values ...
  841 settings made for type
Setting atom values ...
  841 settings made for type
Setting atom values ...
  302 settings made for type
Setting atom values ...
  302 settings made for type
WARNING: Temperature for thermo pressure is not for group all (src/thermo.cpp:529)
Generated 0 of 10 mixed pair_coeff terms from geometric mixing rule
Neighbor list info ...
  update: every = 1 steps, delay = 5 steps, check = yes
  max neighbors/atom: 2000, page size: 100000
  master list distance cutoff = 2.8
  ghost atom cutoff = 2.8
  binsize = 1.4, bins = 80 56 1
  1 neighbor lists, perpetual/occasional/extra = 1 0 0
  (1) pair lj/cut, perpetual
      attributes: half, newton on
      pair build: half/bin/atomonly/newton
      stencil: half/bin/2d
      bin: standard
Setting up Verlet run ...
  Unit style    : lj
  Current step  : 0
  Time step     : 0.003
Per MPI rank memory allocation (min/avg/max) = 3.097 | 3.097 | 3.097 Mbytes
   Step          Temp          E_pair         E_mol          TotEng         Press          Volume    
         0   0.065993465   -3.2595015      0             -3.1984123     -0.035939913    8605.5917    
       200   0.060035253   -3.2531886      0             -3.1976149     -0.22757684     8638.5331    
       400   0.06054278    -3.2510706      0             -3.1950271     -0.42811733     8677.8288    
       600   0.060576995   -3.246816       0             -3.1907408     -0.60017647     8717.6131    
       800   0.060802753   -3.2413477      0             -3.1850635     -0.74499308     8756.4512    
      1000   0.061812114   -3.2349942      0             -3.1777756     -0.87130079     8796.9575    
      1200   0.06317147    -3.2277552      0             -3.1692783     -0.98010628     8823.1488    
      1400   0.065125405   -3.2198031      0             -3.1595175     -1.0690179      8858.8358    
      1600   0.06725411    -3.2111272      0             -3.148871      -1.1440993      8892.6607    
      1800   0.069389572   -3.2019689      0             -3.137736      -1.199078       8933.7591    
      2000   0.071276448   -3.1921621      0             -3.1261826     -1.239553       8969.0463    
      2200   0.073243486   -3.1818809      0             -3.1140805     -1.264839       8997.6559    
      2400   0.075063494   -3.1711703      0             -3.1016851     -1.2772278      9038.4932    
      2600   0.076789207   -3.1600658      0             -3.0889832     -1.2754953      9073.4997    
      2800   0.07875979    -3.1487143      0             -3.0758075     -1.2637926      9106.2245    
      3000   0.080591853   -3.1372361      0             -3.0626334     -1.2388824      9142.7862    
      3200   0.08227693    -3.125423       0             -3.0492605     -1.2055283      9169.4322    
      3400   0.084289444   -3.1136554      0             -3.03563       -1.1672422      9204.8205    
      3600   0.086720297   -3.1021183      0             -3.0218427     -1.126381       9233.2656    
      3800   0.089264018   -3.0909262      0             -3.0082959     -1.0899774      9265.4143    
      4000   0.091377688   -3.0795096      0             -2.9949227     -1.0580229      9297.6799    
      4200   0.092665135   -3.0678736      0             -2.9820949     -1.0390124      9331.6135    
      4400   0.09055434    -3.0560482      0             -2.9722234     -1.0323741      9362.2075    
      4600   0.088763719   -3.0446018      0             -2.9624346     -1.027693       9391.6949    
      4800   0.089467982   -3.0337452      0             -2.950926      -1.0232092      9427.4155    
      5000   0.089910902   -3.0237571      0             -2.9405279     -1.0174796      9452.031     
Loop time of 2.6738 on 2 procs for 5000 steps with 8141 atoms

Performance: 484704.068 tau/day, 1870.000 timesteps/s, 15.224 Matom-step/s
98.0% CPU use with 2 MPI tasks x 1 OpenMP threads

MPI task timing breakdown:
Section |  min time  |  avg time  |  max time  |%varavg| %total
---------------------------------------------------------------
Pair    | 2.1121     | 2.1123     | 2.1126     |   0.0 | 79.00
Neigh   | 0.105      | 0.10931    | 0.11363    |   1.3 |  4.09
Comm    | 0.15332    | 0.15912    | 0.16491    |   1.5 |  5.95
Output  | 0.00094273 | 0.0013116  | 0.0016806  |   1.0 |  0.05
Modify  | 0.21194    | 0.21231    | 0.21268    |   0.1 |  7.94
Other   |            | 0.07941    |            |       |  2.97

Nlocal:         4070.5 ave        4085 max        4056 min
Histogram: 1 0 0 0 0 0 0 0 0 1
Nghost:            207 ave         208 max         206 min
Histogram: 1 0 0 0 0 0 0 0 0 1
Neighs:          35700 ave       35927 max       35473 min
Histogram: 1 0 0 0 0 0 0 0 0 1

Total # of neighbors = 71400
Ave neighs/atom = 8.7704213
Neighbor list builds = 106
Dangerous builds = 0
Total wall time: 0:00:02
rm -rf test
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_auto_test -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build -Nlammps -Nliblammps-dev -Nliblammps0t64 -Npython3-lammps
   create-stamp debian/debhelper-build-stamp
 fakeroot debian/rules binary
dh binary --with python3,sphinxdoc --sourcedirectory=cmake --builddirectory=/build/reproducible-path/lammps-20240207+dfsg/debian/build
   dh_testroot -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_prep -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_auto_install -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build -Nlammps-doc -Nlammps-data -Nlammps-examples
	cd debian/build && make -j12 install DESTDIR=/build/reproducible-path/lammps-20240207\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
/usr/bin/cmake -P /build/reproducible-path/lammps-20240207+dfsg/debian/build/CMakeFiles/VerifyGlobs.cmake
/usr/bin/cmake -S/build/reproducible-path/lammps-20240207+dfsg/cmake -B/build/reproducible-path/lammps-20240207+dfsg/debian/build --check-build-system CMakeFiles/Makefile.cmake 0
make  -f CMakeFiles/Makefile2 preinstall
make[2]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "None"
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/bin/lmp
-- Set non-toolchain portion of runtime path of "/build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/bin/lmp" to ""
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/angle.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/atom.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/bond.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/citeme.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/comm.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/command.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/compute.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/dihedral.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/domain.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/error.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/exceptions.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/fix.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/force.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/group.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/improper.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/input.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/info.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/kspace.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/lammps.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/lattice.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/library.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/lmppython.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/lmptype.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/memory.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/modify.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/neighbor.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/neigh_list.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/output.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/pair.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/platform.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/pointers.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/region.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/timer.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/universe.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/update.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/utils.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/variable.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/fmt/core.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/include/lammps/fmt/format.h
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/liblammps.so.0
-- Set non-toolchain portion of runtime path of "/build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/liblammps.so.0" to ""
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/liblammps.so
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/pkgconfig/liblammps.pc
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/LAMMPS/LAMMPS_Targets.cmake
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/LAMMPS/LAMMPS_Targets-none.cmake
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/LAMMPS/LAMMPSConfig.cmake
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/cmake/LAMMPS/LAMMPSConfigVersion.cmake
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/share/man/man1/lmp.1
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/etc/profile.d/lammps.sh
-- Installing: /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/etc/profile.d/lammps.csh
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg/debian/build'
   debian/rules execute_after_dh_auto_install-arch
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
LD_LIBRARY_PATH=/build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu \
 CMAKE_PREFIX_PATH=/build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/cmake \
  pybuild --dir=/build/reproducible-path/lammps-20240207+dfsg/python --system=pyproject --name=lammps
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
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/lammps-20240207+dfsg/.pybuild/cpython3_3.13_lammps  
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
* Building wheel...
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
running bdist_wheel
running build
running build_py
creating build/lib/lammps
copying lammps/pylammps.py -> build/lib/lammps
copying lammps/numpy_wrapper.py -> build/lib/lammps
copying lammps/formats.py -> build/lib/lammps
copying lammps/data.py -> build/lib/lammps
copying lammps/core.py -> build/lib/lammps
copying lammps/constants.py -> build/lib/lammps
copying lammps/__init__.py -> build/lib/lammps
creating build/lib/lammps/mliap
copying lammps/mliap/pytorch.py -> build/lib/lammps/mliap
copying lammps/mliap/mliap_unified_lj.py -> build/lib/lammps/mliap
copying lammps/mliap/mliap_unified_abc.py -> build/lib/lammps/mliap
copying lammps/mliap/loader.py -> build/lib/lammps/mliap
copying lammps/mliap/__init__.py -> build/lib/lammps/mliap
installing to build/bdist.linux-aarch64/wheel
running install
running install_lib
creating build/bdist.linux-aarch64/wheel
creating build/bdist.linux-aarch64/wheel/lammps
creating build/bdist.linux-aarch64/wheel/lammps/mliap
copying build/lib/lammps/mliap/__init__.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/loader.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/mliap_unified_abc.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/mliap_unified_lj.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/pytorch.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/__init__.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/constants.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/core.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/data.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/formats.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/numpy_wrapper.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/pylammps.py -> build/bdist.linux-aarch64/wheel/./lammps
running install_egg_info
running egg_info
creating lammps.egg-info
writing lammps.egg-info/PKG-INFO
writing dependency_links to lammps.egg-info/dependency_links.txt
writing top-level names to lammps.egg-info/top_level.txt
writing manifest file 'lammps.egg-info/SOURCES.txt'
reading manifest file 'lammps.egg-info/SOURCES.txt'
writing manifest file 'lammps.egg-info/SOURCES.txt'
Copying lammps.egg-info to build/bdist.linux-aarch64/wheel/./lammps-2024.2.7.egg-info
running install_scripts
creating build/bdist.linux-aarch64/wheel/lammps-2024.2.7.dist-info/WHEEL
creating '/build/reproducible-path/lammps-20240207+dfsg/.pybuild/cpython3_3.13_lammps/.tmp-g1sj9wlt/lammps-2024.2.7-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it
adding 'lammps/__init__.py'
adding 'lammps/constants.py'
adding 'lammps/core.py'
adding 'lammps/data.py'
adding 'lammps/formats.py'
adding 'lammps/numpy_wrapper.py'
adding 'lammps/pylammps.py'
adding 'lammps/mliap/__init__.py'
adding 'lammps/mliap/loader.py'
adding 'lammps/mliap/mliap_unified_abc.py'
adding 'lammps/mliap/mliap_unified_lj.py'
adding 'lammps/mliap/pytorch.py'
adding 'lammps-2024.2.7.dist-info/METADATA'
adding 'lammps-2024.2.7.dist-info/WHEEL'
adding 'lammps-2024.2.7.dist-info/top_level.txt'
adding 'lammps-2024.2.7.dist-info/RECORD'
removing build/bdist.linux-aarch64/wheel
Successfully built lammps-2024.2.7-py3-none-any.whl
I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module
I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir
I: pybuild base:311: cd /build/reproducible-path/lammps-20240207+dfsg/.pybuild/cpython3_3.13_lammps/build; python3.13 -m unittest discover -v 
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.

----------------------------------------------------------------------
Ran 0 tests in 0.000s

NO TESTS RAN
I: pybuild plugin_pyproject:129: Building wheel for python3.12 with "build" module
I: pybuild base:311: python3.12 -m build --skip-dependency-check --no-isolation --wheel --outdir /build/reproducible-path/lammps-20240207+dfsg/.pybuild/cpython3_3.12_lammps  
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
* Building wheel...
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
running bdist_wheel
running build
running build_py
creating build/lib/lammps
copying lammps/pylammps.py -> build/lib/lammps
copying lammps/numpy_wrapper.py -> build/lib/lammps
copying lammps/formats.py -> build/lib/lammps
copying lammps/data.py -> build/lib/lammps
copying lammps/core.py -> build/lib/lammps
copying lammps/constants.py -> build/lib/lammps
copying lammps/__init__.py -> build/lib/lammps
creating build/lib/lammps/mliap
copying lammps/mliap/pytorch.py -> build/lib/lammps/mliap
copying lammps/mliap/mliap_unified_lj.py -> build/lib/lammps/mliap
copying lammps/mliap/mliap_unified_abc.py -> build/lib/lammps/mliap
copying lammps/mliap/loader.py -> build/lib/lammps/mliap
copying lammps/mliap/__init__.py -> build/lib/lammps/mliap
installing to build/bdist.linux-aarch64/wheel
running install
running install_lib
creating build/bdist.linux-aarch64/wheel
creating build/bdist.linux-aarch64/wheel/lammps
creating build/bdist.linux-aarch64/wheel/lammps/mliap
copying build/lib/lammps/mliap/__init__.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/loader.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/mliap_unified_abc.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/mliap_unified_lj.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/mliap/pytorch.py -> build/bdist.linux-aarch64/wheel/./lammps/mliap
copying build/lib/lammps/__init__.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/constants.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/core.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/data.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/formats.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/numpy_wrapper.py -> build/bdist.linux-aarch64/wheel/./lammps
copying build/lib/lammps/pylammps.py -> build/bdist.linux-aarch64/wheel/./lammps
running install_egg_info
running egg_info
creating lammps.egg-info
writing lammps.egg-info/PKG-INFO
writing dependency_links to lammps.egg-info/dependency_links.txt
writing top-level names to lammps.egg-info/top_level.txt
writing manifest file 'lammps.egg-info/SOURCES.txt'
reading manifest file 'lammps.egg-info/SOURCES.txt'
writing manifest file 'lammps.egg-info/SOURCES.txt'
Copying lammps.egg-info to build/bdist.linux-aarch64/wheel/./lammps-2024.2.7.egg-info
running install_scripts
creating build/bdist.linux-aarch64/wheel/lammps-2024.2.7.dist-info/WHEEL
creating '/build/reproducible-path/lammps-20240207+dfsg/.pybuild/cpython3_3.12_lammps/.tmp-3hinqq3u/lammps-2024.2.7-py3-none-any.whl' and adding 'build/bdist.linux-aarch64/wheel' to it
adding 'lammps/__init__.py'
adding 'lammps/constants.py'
adding 'lammps/core.py'
adding 'lammps/data.py'
adding 'lammps/formats.py'
adding 'lammps/numpy_wrapper.py'
adding 'lammps/pylammps.py'
adding 'lammps/mliap/__init__.py'
adding 'lammps/mliap/loader.py'
adding 'lammps/mliap/mliap_unified_abc.py'
adding 'lammps/mliap/mliap_unified_lj.py'
adding 'lammps/mliap/pytorch.py'
adding 'lammps-2024.2.7.dist-info/METADATA'
adding 'lammps-2024.2.7.dist-info/WHEEL'
adding 'lammps-2024.2.7.dist-info/top_level.txt'
adding 'lammps-2024.2.7.dist-info/RECORD'
removing build/bdist.linux-aarch64/wheel
Successfully built lammps-2024.2.7-py3-none-any.whl
I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.12 with "installer" module
I: pybuild plugin_pyproject:178: Copying package built for python3.12 to destdir
I: pybuild base:311: cd /build/reproducible-path/lammps-20240207+dfsg/.pybuild/cpython3_3.12_lammps/build; python3.12 -m unittest discover -v 
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.

----------------------------------------------------------------------
Ran 0 tests in 0.000s

NO TESTS RAN
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_install -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_installdocs -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules override_dh_sphinxdoc
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
echo "sphinx and dh_sphinx are broken for lammps docs. See Bug#1059621"
sphinx and dh_sphinx are broken for lammps docs. See Bug#1059621
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_installchangelogs -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules override_dh_installexamples
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
dh_installexamples -X.gitignore
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   debian/rules override_dh_installman-arch
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
sed -i 's|TH LAMMPS|TH LAMMPS \"1\"|g' /build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/share/man/man1/lmp.1
dh_installman -a
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_installman -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build -Nlammps -Nliblammps-dev -Nliblammps0t64 -Npython3-lammps
   debian/rules execute_before_dh_python3-arch
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
set -e; \
cd python/examples; \
LD_LIBRARY_PATH=/build/reproducible-path/lammps-20240207+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu \
  PYTHONPATH=/build/reproducible-path/lammps-20240207+dfsg/debian/python3-lammps/usr/lib/python3.12/dist-packages:${PYTHONPATH} \
  python3 demo.py
ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored.
LAMMPS (7 Feb 2024 - Update 1)

Python output:
Natoms, mass, x[0][0] coord = 4000 1.0 16.651271530416228
Temperature from compute = 0.7683848148006238
Energy from equal-style variable = -5.774392400140566
Velocity component from atom-style variable = -0.1669643026996425
Volume from get_thermo =  4738.213693437576
Natoms from get_natoms = 4000
Global coords from gather_atoms = 16.651271530416228 16.790010773016775 0.19047524160174037
Changed x[0][0] via scatter_atoms = 17.651271530416228
OMP_NUM_THREADS environment is not set. Defaulting to 1 thread. (src/comm.cpp:98)
  using 1 OpenMP thread(s) per MPI task
Lattice spacing in x,y,z = 1.6795962 1.6795962 1.6795962
Created orthogonal box = (0 0 0) to (16.795962 16.795962 16.795962)
  1 by 1 by 1 MPI processor grid
Created 4000 atoms
  using lattice units in orthogonal box = (0 0 0) to (16.795962 16.795962 16.795962)
  create_atoms CPU = 0.001 seconds
Generated 0 of 0 mixed pair_coeff terms from geometric mixing rule
Neighbor list info ...
  update: every = 20 steps, delay = 0 steps, check = no
  max neighbors/atom: 2000, page size: 100000
  master list distance cutoff = 2.8
  ghost atom cutoff = 2.8
  binsize = 1.4, bins = 12 12 12
  1 neighbor lists, perpetual/occasional/extra = 1 0 0
  (1) pair lj/cut, perpetual
      attributes: half, newton on
      pair build: half/bin/atomonly/newton
      stencil: half/bin/3d
      bin: standard
Setting up Verlet run ...
  Unit style    : lj
  Current step  : 0
  Time step     : 0.005
Per MPI rank memory allocation (min/avg/max) = 3.763 | 3.763 | 3.763 Mbytes
   Step          Temp          E_pair         E_mol          TotEng         Press     
         0   1.44          -6.7733681      0             -4.6139081     -5.0199732    
       100   0.76838481    -5.7743924      0             -4.6221033      0.13682061   
Loop time of 0.223726 on 1 procs for 100 steps with 4000 atoms

Performance: 193093.236 tau/day, 446.975 timesteps/s, 1.788 Matom-step/s
99.9% CPU use with 1 MPI tasks x 1 OpenMP threads

MPI task timing breakdown:
Section |  min time  |  avg time  |  max time  |%varavg| %total
---------------------------------------------------------------
Pair    | 0.18766    | 0.18766    | 0.18766    |   0.0 | 83.88
Neigh   | 0.026839   | 0.026839   | 0.026839   |   0.0 | 12.00
Comm    | 0.0045582  | 0.0045582  | 0.0045582  |   0.0 |  2.04
Output  | 3.68e-05   | 3.68e-05   | 3.68e-05   |   0.0 |  0.02
Modify  | 0.0040793  | 0.0040793  | 0.0040793  |   0.0 |  1.82
Other   |            | 0.0005499  |            |       |  0.25

Nlocal:           4000 ave        4000 max        4000 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Nghost:           5758 ave        5758 max        5758 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Neighs:         150488 ave      150488 max      150488 min
Histogram: 1 0 0 0 0 0 0 0 0 0

Total # of neighbors = 150488
Ave neighs/atom = 37.622
Neighbor list builds = 5
Dangerous builds not checked
Total wall time: 0:00:00
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_python3 -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_installsystemduser -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_lintian -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_perl -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_link -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_strip_nondeterminism -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules override_dh_compress
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
dh_compress -X.pdf
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_fixperms -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules execute_after_dh_fixperms-indep
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
find /build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/ -type f -a -not -name *.sh -print -exec chmod 644 {} \;
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/yaml/log.7Apr22.yaml.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/yaml/in.yaml
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/walltab.dat
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/wall.inc
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.9Jan20.wall.specular.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.9Jan20.wall.specular.g++.1
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.9Jan20.wall.diffusive.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.9Jan20.wall.diffusive.g++.1
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.9Jan20.wall.ccl.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.23Feb23.wall.table.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.23Feb23.wall.table.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.23Feb23.wall.lepton.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/log.23Feb23.wall.lepton.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/in.wall.table
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/in.wall.specular
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/in.wall.maxwell
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/in.wall.lepton
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/in.wall.diffusive
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/wall/in.wall.ccl
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/voronoi/log.27Nov18.voronoi.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/voronoi/log.27Nov18.voronoi.g++.1
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/voronoi/in.voronoi.2d
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/voronoi/in.voronoi
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/voronoi/README
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.table.sio2.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.table.sio2.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.table.inp.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.table.inp.g++.1
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.sio2.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.inp.g++.4
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/log.27Nov18.vashishta.inp.g++.1
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/in.vashishta.table.sio2
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/in.vashishta.table.inp
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/in.vashishta.sio2
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/in.vashishta.inp
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/vashishta/data.quartz
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/ttm/log.26Aug21.ttm.g++.4
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/tracker/contact_history.dat
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/threebody/single_layer_MoS2.data
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/threebody/log.29Sep21.threebody.g++.4
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/threebody/in.threebody
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/threebody/in.mos2.sw.mod
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/tersoff/log.13Jan21.hBN_shift.g++.4
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/tersoff/in.hBN_shift
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/tersoff/hBN-monolayer-5nm.data
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/template/template-mix.data
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/template/molecular-mix.data
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/template/log.22Oct20.tmpl-restart-mix.g++.4
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/COUPLE/multiple/in.chain
/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/COUPLE/multiple/data.chain
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/build/reproducible-path/lammps-20240207+dfsg/debian/lammps-examples/usr/share/lammps/examples/COUPLE/library/files.cpp
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make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_missing -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   debian/rules override_dh_dwz
make[1]: Entering directory '/build/reproducible-path/lammps-20240207+dfsg'
dh_dwz -Xliblammps.so.0
make[1]: Leaving directory '/build/reproducible-path/lammps-20240207+dfsg'
   dh_strip -a -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_makeshlibs -a -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_shlibdeps -a -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib/ld-linux-aarch64.so.1
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged
   dh_installdeb -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_gencontrol -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
dpkg-gencontrol: warning: Depends field of package lammps-doc: substitution variable ${sphinxdoc:Depends} used, but is not defined
dpkg-gencontrol: warning: Depends field of package python3-lammps: substitution variable ${shlibs:Depends} used, but is not defined
dpkg-gencontrol: warning: Depends field of package liblammps-dev: substitution variable ${shlibs:Depends} used, but is not defined
dpkg-gencontrol: warning: package lammps-examples: substitution variable ${perl:Depends} unused, but is defined
   dh_md5sums -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
   dh_builddeb -O--sourcedirectory=cmake -O--builddirectory=/build/reproducible-path/lammps-20240207\+dfsg/debian/build
dpkg-deb: building package 'lammps-doc' in '../lammps-doc_20240207+dfsg-2_all.deb'.
dpkg-deb: building package 'lammps-examples' in '../lammps-examples_20240207+dfsg-2_all.deb'.
dpkg-deb: building package 'lammps' in '../lammps_20240207+dfsg-2_arm64.deb'.
dpkg-deb: building package 'liblammps0t64-dbgsym' in '../liblammps0t64-dbgsym_20240207+dfsg-2_arm64.deb'.
dpkg-deb: building package 'lammps-data' in '../lammps-data_20240207+dfsg-2_all.deb'.
dpkg-deb: building package 'lammps-dbgsym' in '../lammps-dbgsym_20240207+dfsg-2_arm64.deb'.
dpkg-deb: building package 'liblammps-dev' in '../liblammps-dev_20240207+dfsg-2_arm64.deb'.
dpkg-deb: building package 'liblammps0t64' in '../liblammps0t64_20240207+dfsg-2_arm64.deb'.
dpkg-deb: building package 'python3-lammps' in '../python3-lammps_20240207+dfsg-2_arm64.deb'.
 dpkg-genbuildinfo --build=binary -O../lammps_20240207+dfsg-2_arm64.buildinfo
 dpkg-genchanges --build=binary -O../lammps_20240207+dfsg-2_arm64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/B01_cleanup starting
I: user script /srv/workspace/pbuilder/2474727/tmp/hooks/B01_cleanup finished
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/2474727 and its subdirectories
I: Current time: Tue Dec 24 21:49:31 +14 2024
I: pbuilder-time-stamp: 1735026571