I: pbuilder: network access will be disabled during build
I: Current time: Mon Apr 13 15:44:15 +14 2026
I: pbuilder-time-stamp: 1776044655
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 [mdtraj_1.10.3-2.dsc]
I: copying [./mdtraj_1.10.3.orig.tar.gz]
I: copying [./mdtraj_1.10.3-2.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./mdtraj_1.10.3-2.dsc: unsupported subcommand
dpkg-source: info: extracting mdtraj in mdtraj-1.10.3
dpkg-source: info: unpacking mdtraj_1.10.3.orig.tar.gz
dpkg-source: info: unpacking mdtraj_1.10.3-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying docs_use_local_mathjax.patch
dpkg-source: info: applying build_dir_pybuild.patch
dpkg-source: info: applying python_hashbang.patch
dpkg-source: info: applying 32bit_skip_image_molecule.patch
dpkg-source: info: applying test_relax_tol.patch
dpkg-source: info: applying rename-mdconvert-mdtraj.patch
dpkg-source: info: applying drop_notebook_in_docs.patch
dpkg-source: info: applying test_increase_timeout.patch
dpkg-source: info: applying revert_flaky_PR1972.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3255266/tmp/hooks/D01_modify_environment starting
debug: Running on ionos15-amd64.
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 Apr 13 01:44 /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/3255266/tmp/hooks/D01_modify_environment finished
I: user script /srv/workspace/pbuilder/3255266/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]="x86_64-pc-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=amd64
  DEBIAN_FRONTEND=noninteractive
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 '
  DIRSTACK=()
  DISTRIBUTION=trixie
  EUID=0
  FUNCNAME=([0]="Echo" [1]="main")
  GROUPS=()
  HOME=/root
  HOSTNAME=i-capture-the-hostname
  HOSTTYPE=x86_64
  HOST_ARCH=amd64
  IFS=' 	
  '
  INVOCATION_ID=2a4901dad0494b32a940cb30e9a93df0
  LANG=C
  LANGUAGE=et_EE:et
  LC_ALL=C
  MACHTYPE=x86_64-pc-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=3255266
  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.zhBQgy9u/pbuilderrc_BPPI --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.zhBQgy9u/b2 --logfile b2/build.log mdtraj_1.10.3-2.dsc'
  SUDO_GID=111
  SUDO_UID=106
  SUDO_USER=jenkins
  TERM=unknown
  TZ=/usr/share/zoneinfo/Etc/GMT-14
  UID=0
  USER=root
  _='I: set'
  http_proxy=http://213.165.73.152:3128
I: uname -a
  Linux i-capture-the-hostname 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Mar  4  2025 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/3255266/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: amd64
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: debhelper-compat (= 13), dh-sequence-python3, cython3, python3-setuptools, python3-all-dev, python3-gsd, python3-numpy, python3-scipy, python3-nbsphinx, python3-nbsphinx-link, python3-netcdf4, python3-networkx, python3-pandas, python3-pyparsing, python3-sphinx, python3-tables, python3-versioneer, libjs-mathjax, pandoc, python3-msmb-theme, python3-ipykernel, python3-jupyter-client, python3-matplotlib, python3-nbconvert, python3-nbformat, python3-numpydoc, python3-sklearn
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19800 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
 pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
  Package debhelper-compat is not installed.
 pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however:
  Package dh-sequence-python3 is not installed.
 pbuilder-satisfydepends-dummy depends on cython3; however:
  Package cython3 is not installed.
 pbuilder-satisfydepends-dummy depends on python3-setuptools; however:
  Package python3-setuptools 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-gsd; however:
  Package python3-gsd is not installed.
 pbuilder-satisfydepends-dummy depends on python3-numpy; however:
  Package python3-numpy is not installed.
 pbuilder-satisfydepends-dummy depends on python3-scipy; however:
  Package python3-scipy is not installed.
 pbuilder-satisfydepends-dummy depends on python3-nbsphinx; however:
  Package python3-nbsphinx is not installed.
 pbuilder-satisfydepends-dummy depends on python3-nbsphinx-link; however:
  Package python3-nbsphinx-link is not installed.
 pbuilder-satisfydepends-dummy depends on python3-netcdf4; however:
  Package python3-netcdf4 is not installed.
 pbuilder-satisfydepends-dummy depends on python3-networkx; however:
  Package python3-networkx is not installed.
 pbuilder-satisfydepends-dummy depends on python3-pandas; however:
  Package python3-pandas is not installed.
 pbuilder-satisfydepends-dummy depends on python3-pyparsing; however:
  Package python3-pyparsing is not installed.
 pbuilder-satisfydepends-dummy depends on python3-sphinx; however:
  Package python3-sphinx is not installed.
 pbuilder-satisfydepends-dummy depends on python3-tables; however:
  Package python3-tables is not installed.
 pbuilder-satisfydepends-dummy depends on python3-versioneer; however:
  Package python3-versioneer is not installed.
 pbuilder-satisfydepends-dummy depends on libjs-mathjax; however:
  Package libjs-mathjax is not installed.
 pbuilder-satisfydepends-dummy depends on pandoc; however:
  Package pandoc is not installed.
 pbuilder-satisfydepends-dummy depends on python3-msmb-theme; however:
  Package python3-msmb-theme is not installed.
 pbuilder-satisfydepends-dummy depends on python3-ipykernel; however:
  Package python3-ipykernel is not installed.
 pbuilder-satisfydepends-dummy depends on python3-jupyter-client; however:
  Package python3-jupyter-client is not installed.
 pbuilder-satisfydepends-dummy depends on python3-matplotlib; however:
  Package python3-matplotlib is not installed.
 pbuilder-satisfydepends-dummy depends on python3-nbconvert; however:
  Package python3-nbconvert is not installed.
 pbuilder-satisfydepends-dummy depends on python3-nbformat; however:
  Package python3-nbformat is not installed.
 pbuilder-satisfydepends-dummy depends on python3-numpydoc; however:
  Package python3-numpydoc is not installed.
 pbuilder-satisfydepends-dummy depends on python3-sklearn; however:
  Package python3-sklearn is not installed.

Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-font-awesome{a} fonts-lato{a} fonts-lyx{a} fonts-mathjax{a} gdb{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libaec0{a} libarchive-zip-perl{a} libbabeltrace1{a} libblas3{a} libblosc1{a} libblosc2-4{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdebhelper-perl{a} libdebuginfod-common{a} libdebuginfod1t64{a} libdeflate0{a} libdw1t64{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcrypt20{a} libgfortran5{a} libglib2.0-0t64{a} libgnutls30t64{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhdf5-310{a} libhdf5-hl-310{a} libicu72{a} libidn2-0{a} libimagequant0{a} libipt2{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-c5{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap2{a} liblerc4{a} liblua5.4-0{a} liblzo2-2{a} libmagic-mgc{a} libmagic1t64{a} libnetcdf22{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnorm1t64{a} libnuma1{a} libopenjp2-7{a} libp11-kit0{a} libpgm-5.3-0t64{a} libpipeline1{a} libpng16-16t64{a} libproc2-0{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsnappy1v5{a} libsodium23{a} libsource-highlight-common{a} libsource-highlight4t64{a} libssh2-1t64{a} libsz2{a} libtasn1-6{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{a} libtiff6{a} libtk8.6{a} libtool{a} libuchardet0{a} libunistring5{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxrender1{a} libxslt1.1{a} libxss1{a} libyaml-0-2{a} libzmq5{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} pandoc{a} pandoc-data{a} po-debconf{a} procps{a} python-babel-localedata{a} python-matplotlib-data{a} python-tables-data{a} python-tinycss2-common{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-asttokens{a} python3-attr{a} python3-autocommand{a} python3-babel{a} python3-bleach{a} python3-brotli{a} python3-bs4{a} python3-certifi{a} python3-cffi-backend{a} python3-cftime{a} python3-chardet{a} python3-charset-normalizer{a} python3-comm{a} python3-contourpy{a} python3-coverage{a} python3-cpuinfo{a} python3-cycler{a} python3-dateutil{a} python3-debugpy{a} python3-decorator{a} python3-defusedxml{a} python3-dev{a} python3-docutils{a} python3-executing{a} python3-fastjsonschema{a} python3-fonttools{a} python3-fs{a} python3-gsd{a} python3-html5lib{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-ipykernel{a} python3-ipython{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jedi{a} python3-jinja2{a} python3-joblib{a} python3-jsonschema{a} python3-jsonschema-specifications{a} python3-jupyter-client{a} python3-jupyter-core{a} python3-jupyterlab-pygments{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-markupsafe{a} python3-matplotlib{a} python3-matplotlib-inline{a} python3-minimal{a} python3-mistune{a} python3-more-itertools{a} python3-mpmath{a} python3-msmb-theme{a} python3-nbclient{a} python3-nbconvert{a} python3-nbformat{a} python3-nbsphinx{a} python3-nbsphinx-link{a} python3-nest-asyncio{a} python3-netcdf4{a} python3-networkx{a} python3-numexpr{a} python3-numpy{a} python3-numpy-dev{a} python3-numpydoc{a} python3-packaging{a} python3-pandas{a} python3-pandas-lib{a} python3-pandocfilters{a} python3-parso{a} python3-pexpect{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-platformdirs{a} python3-prompt-toolkit{a} python3-psutil{a} python3-ptyprocess{a} python3-pure-eval{a} python3-pygments{a} python3-pyparsing{a} python3-pytz{a} python3-referencing{a} python3-requests{a} python3-roman{a} python3-rpds-py{a} python3-scipy{a} python3-setuptools{a} python3-sklearn{a} python3-sklearn-lib{a} python3-snowballstemmer{a} python3-soupsieve{a} python3-sphinx{a} python3-sphinx-rtd-theme{a} python3-sphinxcontrib.jquery{a} python3-stack-data{a} python3-sympy{a} python3-tables{a} python3-tables-lib{a} python3-tabulate{a} python3-threadpoolctl{a} python3-tinycss2{a} python3-tk{a} python3-tornado{a} python3-traitlets{a} python3-typeguard{a} python3-typeshed{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-urllib3{a} python3-versioneer{a} python3-wcwidth{a} python3-webencodings{a} python3-zipp{a} python3-zmq{a} python3.12-tk{a} python3.13{a} python3.13-dev{a} python3.13-minimal{a} python3.13-tk{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} sphinx-rtd-theme-common{a} tk8.6-blt2.5{a} tzdata{a} ucf{a} unicode-data{a} x11-common{a} xml-core{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  curl isympy-common javascript-common krb5-locales libarchive-cpio-perl libglib2.0-data libgpg-error-l10n libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-bottleneck python3-cssselect python3-fqdn python3-gdal python3-isoduration python3-json-pointer python3-odf python3-olefile python3-openpyxl python3-pooch python3-pydot python3-pygraphviz python3-pytest python3-rfc3339-validator python3-rfc3986-validator python3-rfc3987 python3-sphinxcontrib.bibtex python3-uritemplate python3-webcolors python3-yaml shared-mime-info wget xdg-user-dirs 
0 packages upgraded, 298 newly installed, 0 to remove and 0 not upgraded.
Need to get 223 MB of archives. After unpacking 1043 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian trixie/main amd64 fonts-lato all 2.015-1 [2780 kB]
Get: 2 http://deb.debian.org/debian trixie/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B]
Get: 3 http://deb.debian.org/debian trixie/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B]
Get: 4 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB]
Get: 5 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-7 [878 kB]
Get: 6 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB]
Get: 7 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0050 [42.7 kB]
Get: 8 http://deb.debian.org/debian trixie/main amd64 libdebuginfod-common all 0.192-4 [23.7 kB]
Get: 9 http://deb.debian.org/debian trixie/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB]
Get: 10 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB]
Get: 11 http://deb.debian.org/debian trixie/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB]
Get: 12 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.13.2-1 [27.1 kB]
Get: 13 http://deb.debian.org/debian trixie/main amd64 media-types all 13.0.0 [29.3 kB]
Get: 14 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB]
Get: 15 http://deb.debian.org/debian trixie/main amd64 tzdata all 2025a-2 [259 kB]
Get: 16 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB]
Get: 17 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-6 [69.4 kB]
Get: 18 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-6 [169 kB]
Get: 19 http://deb.debian.org/debian trixie/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB]
Get: 20 http://deb.debian.org/debian trixie/main amd64 python3.13 amd64 3.13.2-1 [745 kB]
Get: 21 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.13.2-1 [10.0 kB]
Get: 22 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.13.2-1 [28.1 kB]
Get: 23 http://deb.debian.org/debian trixie/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-2+b1 [138 kB]
Get: 24 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.1-2 [160 kB]
Get: 25 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-17 [836 kB]
Get: 26 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB]
Get: 27 http://deb.debian.org/debian trixie/main amd64 python3-numpy amd64 1:2.2.3+ds-2+b1 [5081 kB]
Get: 28 http://deb.debian.org/debian trixie/main amd64 sgml-base all 1.31 [15.4 kB]
Get: 29 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.4.1-1 [1427 kB]
Get: 30 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20241223 [164 kB]
Get: 31 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB]
Get: 32 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB]
Get: 33 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB]
Get: 34 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB]
Get: 35 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB]
Get: 36 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB]
Get: 37 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB]
Get: 38 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB]
Get: 39 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB]
Get: 40 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-7 [294 kB]
Get: 41 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB]
Get: 42 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get: 43 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB]
Get: 44 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB]
Get: 45 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1042 kB]
Get: 46 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB]
Get: 47 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.47-1 [282 kB]
Get: 48 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB]
Get: 49 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 50 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 51 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-2 [317 kB]
Get: 52 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-2 [391 kB]
Get: 53 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB]
Get: 54 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB]
Get: 55 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB]
Get: 56 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 57 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB]
Get: 58 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b4 [27.8 kB]
Get: 59 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b4 [54.5 kB]
Get: 60 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB]
Get: 61 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+24 [217 kB]
Get: 62 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b3 [17.0 kB]
Get: 63 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.16-1 [793 kB]
Get: 64 http://deb.debian.org/debian trixie/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-8 [591 kB]
Get: 65 http://deb.debian.org/debian trixie/main amd64 blt amd64 2.5.3+dfsg-8 [5984 B]
Get: 66 http://deb.debian.org/debian trixie/main amd64 cython3 amd64 3.0.11+dfsg-2+b1 [2504 kB]
Get: 67 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 68 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-4 [539 kB]
Get: 69 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB]
Get: 70 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 71 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 72 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 73 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB]
Get: 74 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB]
Get: 75 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB]
Get: 76 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB]
Get: 77 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB]
Get: 78 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB]
Get: 79 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 80 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 81 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB]
Get: 82 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 83 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 84 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 85 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 86 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 87 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B]
Get: 88 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 89 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 90 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 91 http://deb.debian.org/debian trixie/main amd64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 92 http://deb.debian.org/debian trixie/main amd64 python3-setuptools all 75.8.0-1 [724 kB]
Get: 93 http://deb.debian.org/debian trixie/main amd64 dh-python all 6.20250108 [113 kB]
Get: 94 http://deb.debian.org/debian trixie/main amd64 xml-core all 0.19 [20.1 kB]
Get: 95 http://deb.debian.org/debian trixie/main amd64 docutils-common all 0.21.2+dfsg-2 [128 kB]
Get: 96 http://deb.debian.org/debian trixie/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB]
Get: 97 http://deb.debian.org/debian trixie/main amd64 fonts-lyx all 2.4.3-1 [190 kB]
Get: 98 http://deb.debian.org/debian trixie/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB]
Get: 99 http://deb.debian.org/debian trixie/main amd64 libdw1t64 amd64 0.192-4 [255 kB]
Get: 100 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.83.4-1 [1512 kB]
Get: 101 http://deb.debian.org/debian trixie/main amd64 libbabeltrace1 amd64 1.5.11-4+b2 [176 kB]
Get: 102 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB]
Get: 103 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB]
Get: 104 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB]
Get: 105 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB]
Get: 106 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB]
Get: 107 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB]
Get: 108 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB]
Get: 109 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B]
Get: 110 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB]
Get: 111 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB]
Get: 112 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB]
Get: 113 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB]
Get: 114 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB]
Get: 115 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB]
Get: 116 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB]
Get: 117 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB]
Get: 118 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB]
Get: 119 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB]
Get: 120 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB]
Get: 121 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB]
Get: 122 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.12.1-3 [365 kB]
Get: 123 http://deb.debian.org/debian trixie/main amd64 libjson-c5 amd64 0.18+ds-1 [46.0 kB]
Get: 124 http://deb.debian.org/debian trixie/main amd64 libdebuginfod1t64 amd64 0.192-4 [32.4 kB]
Get: 125 http://deb.debian.org/debian trixie/main amd64 libipt2 amd64 2.1.2-1 [47.8 kB]
Get: 126 http://deb.debian.org/debian trixie/main amd64 libpython3.13 amd64 3.13.2-1 [2151 kB]
Get: 127 http://deb.debian.org/debian trixie/main amd64 libsource-highlight-common all 3.1.9-4.3 [77.5 kB]
Get: 128 http://deb.debian.org/debian trixie/main amd64 libsource-highlight4t64 amd64 3.1.9-4.3+b1 [335 kB]
Get: 129 http://deb.debian.org/debian trixie/main amd64 gdb amd64 16.2-2 [3992 kB]
Get: 130 http://deb.debian.org/debian trixie/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB]
Get: 131 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1+b1 [29.6 kB]
Get: 132 http://deb.debian.org/debian trixie/main amd64 libblosc1 amd64 1.21.5+ds-1+b2 [49.5 kB]
Get: 133 http://deb.debian.org/debian trixie/main amd64 libblosc2-4 amd64 2.17.0+ds-1 [193 kB]
Get: 134 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.12.1-3 [369 kB]
Get: 135 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.23-1+b1 [47.5 kB]
Get: 136 http://deb.debian.org/debian trixie/main amd64 libexpat1-dev amd64 2.6.4-1 [158 kB]
Get: 137 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB]
Get: 138 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.51-3 [82.2 kB]
Get: 139 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-7 [843 kB]
Get: 140 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB]
Get: 141 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.2.0-1 [479 kB]
Get: 142 http://deb.debian.org/debian trixie/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B]
Get: 143 http://deb.debian.org/debian trixie/main amd64 libhdf5-310 amd64 1.14.5+repack-3 [1344 kB]
Get: 144 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [69.3 kB]
Get: 145 http://deb.debian.org/debian trixie/main amd64 libimagequant0 amd64 2.18.0-1+b2 [35.2 kB]
Get: 146 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB]
Get: 147 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB]
Get: 148 http://deb.debian.org/debian trixie/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 149 http://deb.debian.org/debian trixie/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB]
Get: 150 http://deb.debian.org/debian trixie/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB]
Get: 151 http://deb.debian.org/debian trixie/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 152 http://deb.debian.org/debian trixie/main amd64 libjs-sphinxdoc all 8.1.3-5 [30.5 kB]
Get: 153 http://deb.debian.org/debian trixie/main amd64 libjson-perl all 4.10000-1 [87.5 kB]
Get: 154 http://deb.debian.org/debian trixie/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b2 [29.4 kB]
Get: 155 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB]
Get: 156 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB]
Get: 157 http://deb.debian.org/debian trixie/main amd64 liblua5.4-0 amd64 5.4.7-1+b2 [147 kB]
Get: 158 http://deb.debian.org/debian trixie/main amd64 liblzo2-2 amd64 2.10-3+b1 [55.1 kB]
Get: 159 http://deb.debian.org/debian trixie/main amd64 libnetcdf22 amd64 1:4.9.3-1 [517 kB]
Get: 160 http://deb.debian.org/debian trixie/main amd64 libnorm1t64 amd64 1.5.9+dfsg-3.1+b2 [221 kB]
Get: 161 http://deb.debian.org/debian trixie/main amd64 libnuma1 amd64 2.0.18-1+b1 [22.3 kB]
Get: 162 http://deb.debian.org/debian trixie/main amd64 libopenjp2-7 amd64 2.5.3-1 [204 kB]
Get: 163 http://deb.debian.org/debian trixie/main amd64 libpgm-5.3-0t64 amd64 5.3.128~dfsg-2.1+b1 [162 kB]
Get: 164 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB]
Get: 165 http://deb.debian.org/debian trixie/main amd64 libpython3.13-dev amd64 3.13.2-1 [5005 kB]
Get: 166 http://deb.debian.org/debian trixie/main amd64 libpython3-dev amd64 3.13.2-1 [10.3 kB]
Get: 167 http://deb.debian.org/debian trixie/main amd64 libpython3-all-dev amd64 3.13.2-1 [1068 B]
Get: 168 http://deb.debian.org/debian trixie/main amd64 libqhull-r8.0 amd64 2020.2-6+b2 [248 kB]
Get: 169 http://deb.debian.org/debian trixie/main amd64 libraqm0 amd64 0.10.2-1 [13.9 kB]
Get: 170 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB]
Get: 171 http://deb.debian.org/debian trixie/main amd64 libsodium23 amd64 1.0.18-1+b2 [165 kB]
Get: 172 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB]
Get: 173 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB]
Get: 174 http://deb.debian.org/debian trixie/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [113 kB]
Get: 175 http://deb.debian.org/debian trixie/main amd64 libwebpmux3 amd64 1.5.0-0.1 [126 kB]
Get: 176 http://deb.debian.org/debian trixie/main amd64 libxslt1.1 amd64 1.1.35-1.1+b1 [233 kB]
Get: 177 http://deb.debian.org/debian trixie/main amd64 libyaml-0-2 amd64 0.2.5-2 [52.5 kB]
Get: 178 http://deb.debian.org/debian trixie/main amd64 libzmq5 amd64 4.3.5-1+b3 [283 kB]
Get: 179 http://deb.debian.org/debian trixie/main amd64 pandoc-data all 3.1.11.1-3 [459 kB]
Get: 180 http://deb.debian.org/debian trixie/main amd64 pandoc amd64 3.1.11.1+ds-2 [26.4 MB]
Get: 181 http://deb.debian.org/debian trixie/main amd64 python-babel-localedata all 2.17.0-1 [6050 kB]
Get: 182 http://deb.debian.org/debian trixie/main amd64 python-matplotlib-data all 3.8.3-7 [2735 kB]
Get: 183 http://deb.debian.org/debian trixie/main amd64 python-tables-data all 3.10.2-2 [47.3 kB]
Get: 184 http://deb.debian.org/debian trixie/main amd64 python-tinycss2-common all 1.4.0-1 [44.8 kB]
Get: 185 http://deb.debian.org/debian trixie/main amd64 python3-alabaster all 0.7.16-0.1 [27.9 kB]
Get: 186 http://deb.debian.org/debian trixie/main amd64 python3-all amd64 3.13.2-1 [1048 B]
Get: 187 http://deb.debian.org/debian trixie/main amd64 python3.13-dev amd64 3.13.2-1 [507 kB]
Get: 188 http://deb.debian.org/debian trixie/main amd64 python3-dev amd64 3.13.2-1 [26.1 kB]
Get: 189 http://deb.debian.org/debian trixie/main amd64 python3-all-dev amd64 3.13.2-1 [1068 B]
Get: 190 http://deb.debian.org/debian trixie/main amd64 python3-asttokens all 3.0.0-1 [20.1 kB]
Get: 191 http://deb.debian.org/debian trixie/main amd64 python3-attr all 25.1.0-1 [68.7 kB]
Get: 192 http://deb.debian.org/debian trixie/main amd64 python3-babel all 2.17.0-1 [117 kB]
Get: 193 http://deb.debian.org/debian trixie/main amd64 python3-webencodings all 0.5.1-5 [11.1 kB]
Get: 194 http://deb.debian.org/debian trixie/main amd64 python3-html5lib all 1.2-1 [92.2 kB]
Get: 195 http://deb.debian.org/debian trixie/main amd64 python3-bleach all 6.2.0-1 [51.2 kB]
Get: 196 http://deb.debian.org/debian trixie/main amd64 python3-brotli amd64 1.1.0-2+b7 [320 kB]
Get: 197 http://deb.debian.org/debian trixie/main amd64 python3-soupsieve all 2.6-1 [38.3 kB]
Get: 198 http://deb.debian.org/debian trixie/main amd64 python3-bs4 all 4.13.3-1 [166 kB]
Get: 199 http://deb.debian.org/debian trixie/main amd64 python3-certifi all 2025.1.31+ds-1 [9652 B]
Get: 200 http://deb.debian.org/debian trixie/main amd64 python3-cffi-backend amd64 1.17.1-2+b2 [93.6 kB]
Get: 201 http://deb.debian.org/debian trixie/main amd64 python3-cftime amd64 1.6.4-2 [216 kB]
Get: 202 http://deb.debian.org/debian trixie/main amd64 python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 203 http://deb.debian.org/debian trixie/main amd64 python3-charset-normalizer amd64 3.4.1-1+b1 [125 kB]
Get: 204 http://deb.debian.org/debian trixie/main amd64 python3-traitlets all 5.14.3+really5.14.3-1 [70.9 kB]
Get: 205 http://deb.debian.org/debian trixie/main amd64 python3-comm all 0.2.1-1 [8104 B]
Get: 206 http://deb.debian.org/debian trixie/main amd64 python3-contourpy amd64 1.3.1-1+b1 [216 kB]
Get: 207 http://deb.debian.org/debian trixie/main amd64 python3-coverage amd64 7.6.0+dfsg1-2+b2 [175 kB]
Get: 208 http://deb.debian.org/debian trixie/main amd64 python3-cpuinfo all 9.0.0+git20221119-3 [23.5 kB]
Get: 209 http://deb.debian.org/debian trixie/main amd64 python3-cycler all 0.12.1-1 [9496 B]
Get: 210 http://deb.debian.org/debian trixie/main amd64 python3-dateutil all 2.9.0-3 [79.3 kB]
Get: 211 http://deb.debian.org/debian trixie/main amd64 python3-debugpy amd64 1.8.8+ds-2 [1105 kB]
Get: 212 http://deb.debian.org/debian trixie/main amd64 python3-decorator all 5.1.1-5 [15.1 kB]
Get: 213 http://deb.debian.org/debian trixie/main amd64 python3-defusedxml all 0.7.1-3 [43.4 kB]
Get: 214 http://deb.debian.org/debian trixie/main amd64 python3-roman all 5.0-1 [10.6 kB]
Get: 215 http://deb.debian.org/debian trixie/main amd64 python3-docutils all 0.21.2+dfsg-2 [403 kB]
Get: 216 http://deb.debian.org/debian trixie/main amd64 python3-executing all 2.2.0-0.1 [24.5 kB]
Get: 217 http://deb.debian.org/debian trixie/main amd64 python3-fastjsonschema all 2.21.1-1 [22.4 kB]
Get: 218 http://deb.debian.org/debian trixie/main amd64 python3-pytz all 2025.1-3 [150 kB]
Get: 219 http://deb.debian.org/debian trixie/main amd64 python3-tz all 2025.1-3 [4004 B]
Get: 220 http://deb.debian.org/debian trixie/main amd64 python3-platformdirs all 4.3.6-1 [16.6 kB]
Get: 221 http://deb.debian.org/debian trixie/main amd64 python3-fs all 2.4.16-6 [95.1 kB]
Get: 222 http://deb.debian.org/debian trixie/main amd64 python3-lxml amd64 5.3.1-1+b1 [1288 kB]
Get: 223 http://deb.debian.org/debian trixie/main amd64 python3-lz4 amd64 4.4.0+dfsg-1+b1 [25.5 kB]
Get: 224 http://deb.debian.org/debian trixie/main amd64 python3-scipy amd64 1.14.1-4+b1 [17.1 MB]
Get: 225 http://deb.debian.org/debian trixie/main amd64 python3-mpmath all 1.3.0-1 [419 kB]
Get: 226 http://deb.debian.org/debian trixie/main amd64 python3-sympy all 1.13.3-5 [4148 kB]
Get: 227 http://deb.debian.org/debian trixie/main amd64 python3-ufolib2 all 0.17.0+dfsg1-1 [33.0 kB]
Get: 228 http://deb.debian.org/debian trixie/main amd64 unicode-data all 15.1.0-1 [8547 kB]
Get: 229 http://deb.debian.org/debian trixie/main amd64 python3-fonttools amd64 4.55.3-2+b1 [1448 kB]
Get: 230 http://deb.debian.org/debian trixie/main amd64 python3-gsd amd64 3.4.2-2+b1 [209 kB]
Get: 231 http://deb.debian.org/debian trixie/main amd64 python3-idna all 3.10-1 [42.0 kB]
Get: 232 http://deb.debian.org/debian trixie/main amd64 python3-imagesize all 1.4.1-1 [6688 B]
Get: 233 http://deb.debian.org/debian trixie/main amd64 python3-parso all 0.8.4-1 [67.8 kB]
Get: 234 http://deb.debian.org/debian trixie/main amd64 python3-typeshed all 0.0~git20241223.ea91db2-1 [1530 kB]
Get: 235 http://deb.debian.org/debian trixie/main amd64 python3-jedi all 0.19.1+ds1-1 [691 kB]
Get: 236 http://deb.debian.org/debian trixie/main amd64 python3-matplotlib-inline all 0.1.6-2 [8652 B]
Get: 237 http://deb.debian.org/debian trixie/main amd64 python3-wcwidth all 0.2.13+dfsg1-1 [24.9 kB]
Get: 238 http://deb.debian.org/debian trixie/main amd64 python3-prompt-toolkit all 3.0.50-1 [278 kB]
Get: 239 http://deb.debian.org/debian trixie/main amd64 python3-pygments all 2.18.0+dfsg-2 [836 kB]
Get: 240 http://deb.debian.org/debian trixie/main amd64 python3-pure-eval all 0.2.3-1 [11.2 kB]
Get: 241 http://deb.debian.org/debian trixie/main amd64 python3-stack-data all 0.6.3-1 [21.6 kB]
Get: 242 http://deb.debian.org/debian trixie/main amd64 python3-ptyprocess all 0.7.0-6 [14.5 kB]
Get: 243 http://deb.debian.org/debian trixie/main amd64 python3-pexpect all 4.9-3 [55.6 kB]
Get: 244 http://deb.debian.org/debian trixie/main amd64 python3-ipython all 8.30.0-2 [568 kB]
Get: 245 http://deb.debian.org/debian trixie/main amd64 python3-jupyter-core all 5.7.2-5 [35.3 kB]
Get: 246 http://deb.debian.org/debian trixie/main amd64 python3-psutil amd64 5.9.8-2 [225 kB]
Get: 247 http://deb.debian.org/debian trixie/main amd64 python3-tornado amd64 6.4.2-1 [349 kB]
Get: 248 http://deb.debian.org/debian trixie/main amd64 python3-zmq amd64 26.2.1-1+b1 [182 kB]
Get: 249 http://deb.debian.org/debian trixie/main amd64 python3-jupyter-client all 8.6.3-2 [92.4 kB]
Get: 250 http://deb.debian.org/debian trixie/main amd64 python3-nest-asyncio all 1.5.4-1 [6248 B]
Get: 251 http://deb.debian.org/debian trixie/main amd64 python3-packaging all 24.2-1 [55.3 kB]
Get: 252 http://deb.debian.org/debian trixie/main amd64 python3-ipykernel all 6.29.5-2 [102 kB]
Get: 253 http://deb.debian.org/debian trixie/main amd64 python3-markupsafe amd64 2.1.5-1+b3 [14.0 kB]
Get: 254 http://deb.debian.org/debian trixie/main amd64 python3-jinja2 all 3.1.5-2 [107 kB]
Get: 255 http://deb.debian.org/debian trixie/main amd64 python3-joblib all 1.4.2-3 [216 kB]
Get: 256 http://deb.debian.org/debian trixie/main amd64 python3-rpds-py amd64 0.21.0-2+b1 [257 kB]
Get: 257 http://deb.debian.org/debian trixie/main amd64 python3-referencing all 0.35.1-2 [23.5 kB]
Get: 258 http://deb.debian.org/debian trixie/main amd64 python3-jsonschema-specifications all 2023.12.1-2 [9020 B]
Get: 259 http://deb.debian.org/debian trixie/main amd64 python3-jsonschema all 4.19.2-6 [71.4 kB]
Get: 260 http://deb.debian.org/debian trixie/main amd64 python3-jupyterlab-pygments all 0.2.2-3 [6096 B]
Get: 261 http://deb.debian.org/debian trixie/main amd64 python3-kiwisolver amd64 1.4.7-3+b1 [62.0 kB]
Get: 262 http://deb.debian.org/debian trixie/main amd64 python3-pil amd64 11.1.0-5+b1 [513 kB]
Get: 263 http://deb.debian.org/debian trixie/main amd64 python3.12-tk amd64 3.12.9-1 [113 kB]
Get: 264 http://deb.debian.org/debian trixie/main amd64 python3.13-tk amd64 3.13.2-1 [103 kB]
Get: 265 http://deb.debian.org/debian trixie/main amd64 python3-tk amd64 3.13.1-1+b1 [9760 B]
Get: 266 http://deb.debian.org/debian trixie/main amd64 python3-pil.imagetk amd64 11.1.0-5+b1 [81.6 kB]
Get: 267 http://deb.debian.org/debian trixie/main amd64 python3-pyparsing all 3.1.2-1 [146 kB]
Get: 268 http://deb.debian.org/debian trixie/main amd64 python3-matplotlib amd64 3.8.3-7+b1 [23.0 MB]
Get: 269 http://deb.debian.org/debian trixie/main amd64 python3-mistune all 3.0.2-2 [33.2 kB]
Get: 270 http://deb.debian.org/debian trixie/main amd64 sphinx-common all 8.1.3-5 [617 kB]
Get: 271 http://deb.debian.org/debian trixie/main amd64 python3-urllib3 all 2.3.0-1 [114 kB]
Get: 272 http://deb.debian.org/debian trixie/main amd64 python3-requests all 2.32.3+dfsg-4 [72.1 kB]
Get: 273 http://deb.debian.org/debian trixie/main amd64 python3-snowballstemmer all 2.2.0-4 [58.0 kB]
Get: 274 http://deb.debian.org/debian trixie/main amd64 python3-sphinx all 8.1.3-5 [468 kB]
Get: 275 http://deb.debian.org/debian trixie/main amd64 sphinx-rtd-theme-common all 3.0.2+dfsg-2 [1023 kB]
Get: 276 http://deb.debian.org/debian trixie/main amd64 python3-sphinxcontrib.jquery all 4.1-5 [7348 B]
Get: 277 http://deb.debian.org/debian trixie/main amd64 python3-sphinx-rtd-theme all 3.0.2+dfsg-2 [29.7 kB]
Get: 278 http://deb.debian.org/debian trixie/main amd64 python3-msmb-theme all 1.2.0-4 [33.8 kB]
Get: 279 http://deb.debian.org/debian trixie/main amd64 python3-nbformat all 5.9.1-1 [45.1 kB]
Get: 280 http://deb.debian.org/debian trixie/main amd64 python3-nbclient all 0.8.0-2 [62.2 kB]
Get: 281 http://deb.debian.org/debian trixie/main amd64 python3-tinycss2 all 1.4.0-1 [24.9 kB]
Get: 282 http://deb.debian.org/debian trixie/main amd64 python3-pandocfilters all 1.5.1-1 [23.7 kB]
Get: 283 http://deb.debian.org/debian trixie/main amd64 python3-nbconvert all 7.16.6-1 [160 kB]
Get: 284 http://deb.debian.org/debian trixie/main amd64 python3-nbsphinx all 0.9.5+ds-1 [39.9 kB]
Get: 285 http://deb.debian.org/debian trixie/main amd64 python3-nbsphinx-link all 1.3.0-4 [6264 B]
Get: 286 http://deb.debian.org/debian trixie/main amd64 python3-netcdf4 amd64 1.7.2-1+b4 [622 kB]
Get: 287 http://deb.debian.org/debian trixie/main amd64 python3-networkx all 3.2.1-5 [13.0 MB]
Get: 288 http://deb.debian.org/debian trixie/main amd64 python3-numexpr amd64 2.10.2-1+b2 [129 kB]
Get: 289 http://deb.debian.org/debian trixie/main amd64 python3-tabulate all 0.9.0-1 [45.9 kB]
Get: 290 http://deb.debian.org/debian trixie/main amd64 python3-numpydoc all 1.8.0-1 [51.4 kB]
Get: 291 http://deb.debian.org/debian trixie/main amd64 python3-pandas-lib amd64 2.2.3+dfsg-8+b1 [4517 kB]
Get: 292 http://deb.debian.org/debian trixie/main amd64 python3-pandas all 2.2.3+dfsg-8 [3097 kB]
Get: 293 http://deb.debian.org/debian trixie/main amd64 python3-threadpoolctl all 3.1.0-1 [21.2 kB]
Get: 294 http://deb.debian.org/debian trixie/main amd64 python3-sklearn-lib amd64 1.4.2+dfsg-7+b3 [3879 kB]
Get: 295 http://deb.debian.org/debian trixie/main amd64 python3-sklearn all 1.4.2+dfsg-7 [2248 kB]
Get: 296 http://deb.debian.org/debian trixie/main amd64 python3-tables-lib amd64 3.10.2-2+b1 [503 kB]
Get: 297 http://deb.debian.org/debian trixie/main amd64 python3-tables all 3.10.2-2 [353 kB]
Get: 298 http://deb.debian.org/debian trixie/main amd64 python3-versioneer all 0.29-1 [43.0 kB]
Fetched 223 MB in 6s (39.4 MB/s)
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Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64'
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Unpacking python3-versioneer (0.29-1) ...
Setting up media-types (13.0.0) ...
Setting up libpipeline1:amd64 (1.5.8-1) ...
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Setting up libkeyutils1:amd64 (1.6.3-4) ...
Setting up libxcb1:amd64 (1.17.0-2+b1) ...
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Setting up fonts-mathjax (2.7.9+dfsg-1) ...
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Setting up liblerc4:amd64 (4.0.0+ds-5) ...
Setting up bsdextrautils (2.40.4-5) ...
Setting up libjs-mathjax (2.7.9+dfsg-1) ...
Setting up libgpg-error0:amd64 (1.51-3) ...
Setting up libmagic-mgc (1:5.45-3+b1) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libyaml-0-2:amd64 (0.2.5-2) ...
Setting up fonts-lyx (2.4.3-1) ...
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Setting up libmagic1t64:amd64 (1:5.45-3+b1) ...
Setting up x11-common (1:7.7+24) ...
invoke-rc.d: could not determine current runlevel
Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix.
Setting up libnghttp2-14:amd64 (1.64.0-1) ...
Setting up libdeflate0:amd64 (1.23-1+b1) ...
Setting up gettext-base (0.23.1-1) ...
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Setting up liblzo2-2:amd64 (2.10-3+b1) ...
Setting up libcom-err2:amd64 (1.47.2-1) ...
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Setting up libsource-highlight-common (3.1.9-4.3) ...
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Setting up python-babel-localedata (2.17.0-1) ...
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Setting up libkrb5support0:amd64 (1.21.3-4) ...
Setting up libdw1t64:amd64 (0.192-4) ...
Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ...
Setting up tzdata (2025a-2) ...

Current default time zone: 'Etc/UTC'
Local time is now:      Mon Apr 13 01:45:51 UTC 2026.
Universal Time is now:  Mon Apr 13 01:45:51 UTC 2026.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

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Setting up libblosc2-4:amd64 (2.17.0+ds-1) ...
Setting up autotools-dev (20220109.1) ...
Setting up libblas3:amd64 (3.12.1-2) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
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Setting up libjpeg62-turbo:amd64 (1:2.1.5-3.1) ...
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Setting up libimagequant0:amd64 (2.18.0-1+b2) ...
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Setting up python3-numpy-dev:amd64 (1:2.2.3+ds-2+b1) ...
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Setting up liblua5.4-0:amd64 (5.4.7-1+b2) ...
Setting up libopenjp2-7:amd64 (2.5.3-1) ...
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Setting up sgml-base (1.31) ...
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Setting up libssh2-1t64:amd64 (1.11.1-1) ...
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Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ...
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Setting up sphinx-rtd-theme-common (3.0.2+dfsg-2) ...
Setting up libldap2:amd64 (2.6.9+dfsg-1) ...
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Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ...
Setting up automake (1:1.17-3) ...
update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode
Setting up libfile-stripnondeterminism-perl (1.14.1-2) ...
Setting up liblapack3:amd64 (3.12.1-2) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
Setting up gettext (0.23.1-1) ...
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Setting up libidn2-0:amd64 (2.3.7-2+b1) ...
Setting up libsource-highlight4t64:amd64 (3.1.9-4.3+b1) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up dh-autoreconf (20) ...
Setting up ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
152 added, 0 removed; done.
Setting up libglib2.0-0t64:amd64 (2.83.4-1) ...
No schema files found: doing nothing.
Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
Setting up pandoc (3.1.11.1+ds-2) ...
Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ...
Setting up libp11-kit0:amd64 (0.25.5-3) ...
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Setting up ucf (3.0050) ...
Setting up libbabeltrace1:amd64 (1.5.11-4+b2) ...
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Not building database; man-db/auto-update is not 'true'.
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Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ...
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Setting up libraqm0:amd64 (0.10.2-1) ...
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Setting up sphinx-common (8.1.3-5) ...
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Setting up python3-kiwisolver (1.4.7-3+b1) ...
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Setting up cython3 (3.0.11+dfsg-2+b1) ...
Setting up python3-typing-extensions (4.12.2-2) ...
Setting up python3-cpuinfo (9.0.0+git20221119-3) ...
Setting up python3-html5lib (1.2-1) ...
Setting up python3-numpy (1:2.2.3+ds-2+b1) ...
Setting up python3-urllib3 (2.3.0-1) ...
Setting up python3-rpds-py (0.21.0-2+b1) ...
Setting up python3-fastjsonschema (2.21.1-1) ...
Setting up python3-lxml:amd64 (5.3.1-1+b1) ...
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update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode
Setting up python3-lz4 (4.4.0+dfsg-1+b1) ...
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Setting up python3-charset-normalizer (3.4.1-1+b1) ...
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Setting up python3-typeguard (4.4.2-1) ...
Setting up python3-threadpoolctl (3.1.0-1) ...
Setting up libcurl3t64-gnutls:amd64 (8.12.1-3) ...
Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-7+b3) ...
Setting up python3-tabulate (0.9.0-1) ...
Setting up python3-all (3.13.2-1) ...
Setting up python3-coverage (7.6.0+dfsg1-2+b2) ...
Setting up python3-tk:amd64 (3.13.1-1+b1) ...
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Setting up python3-inflect (7.3.1-2) ...
Setting up python3-pandas (2.2.3+dfsg-8) ...
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Setting up libpython3-all-dev:amd64 (3.13.2-1) ...
Setting up python3-jaraco.text (4.0.0-1) ...
Setting up python3-pexpect (4.9-3) ...
Setting up python3-zmq (26.2.1-1+b1) ...
Setting up python3-dev (3.13.2-1) ...
Setting up python3-requests (2.32.3+dfsg-4) ...
Setting up python3-sklearn (1.4.2+dfsg-7) ...
Setting up python3-cftime (1.6.4-2) ...
Setting up python3-numexpr (2.10.2-1+b2) ...
Setting up libhdf5-310:amd64 (1.14.5+repack-3) ...
Setting up python3-jupyter-client (8.6.3-2) ...
Setting up python3-stack-data (0.6.3-1) ...
Setting up python3-referencing (0.35.1-2) ...
Setting up python3-pkg-resources (75.8.0-1) ...
Setting up python3-all-dev (3.13.2-1) ...
Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ...
Setting up libdebuginfod1t64:amd64 (0.192-4) ...
Setting up python3-setuptools (75.8.0-1) ...
Setting up python3-jedi (0.19.1+ds1-1) ...
Setting up python3-tables-lib (3.10.2-2+b1) ...
Setting up libnetcdf22:amd64 (1:4.9.3-1) ...
Setting up python3-tables (3.10.2-2) ...
Setting up python3-networkx (3.2.1-5) ...
Setting up gdb (16.2-2) ...
Setting up python3-ipython (8.30.0-2) ...
Setting up python3-jsonschema-specifications (2023.12.1-2) ...
Setting up python3-netcdf4 (1.7.2-1+b4) ...
Setting up dh-python (6.20250108) ...
Setting up python3-debugpy (1.8.8+ds-2) ...
Setting up python3-jsonschema (4.19.2-6) ...
Setting up python3-ipykernel (6.29.5-2) ...
Setting up python3-nbformat (5.9.1-1) ...
Setting up python3-nbclient (0.8.0-2) ...
Setting up python3-nbconvert (7.16.6-1) ...
Setting up python3-fonttools (4.55.3-2+b1) ...
Setting up python3-ufolib2 (0.17.0+dfsg1-1) ...
Setting up python3-matplotlib (3.8.3-7+b1) ...
Processing triggers for libc-bin (2.40-7) ...
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 (8.1.3-5) ...
Setting up python3-nbsphinx (0.9.5+ds-1) ...
Setting up python3-sphinxcontrib.jquery (4.1-5) ...
Setting up python3-numpydoc (1.8.0-1) ...
Setting up python3-nbsphinx-link (1.3.0-4) ...
Setting up python3-sphinx-rtd-theme (3.0.2+dfsg-2) ...
Setting up python3-msmb-theme (1.2.0-4) ...
Processing triggers for ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
Reading package lists...
Building dependency tree...
Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
Building tag database...
 -> Finished parsing the build-deps
I: Building the package
I: user script /srv/workspace/pbuilder/3255266/tmp/hooks/A99_set_merged_usr starting
Not re-configuring usrmerge for trixie
I: user script /srv/workspace/pbuilder/3255266/tmp/hooks/A99_set_merged_usr finished
hostname: Name or service not known
I: Running cd /build/reproducible-path/mdtraj-1.10.3/ && 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  > ../mdtraj_1.10.3-2_source.changes
dpkg-buildpackage: info: source package mdtraj
dpkg-buildpackage: info: source version 1.10.3-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Drew Parsons <dparsons@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
dpkg-source: info: using options from mdtraj-1.10.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/
 debian/rules clean
dh clean --with sphinxdoc --buildsystem=pybuild
   dh_auto_clean -O--buildsystem=pybuild
	pybuild --clean -i python{version} -p 3.13
I: pybuild base:311: python3.13 setup.py clean 
Using built-in specs.
COLLECT_GCC=/usr/bin/x86_64-linux-gnu-gcc
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-linux-gnu/14/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-17' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-gcn/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=3
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 14.2.0 (Debian 14.2.0-17) 
/build/reproducible-path/mdtraj-1.10.3/basesetup.py:483: UserWarning: Unrecognized setuptools command ('clean'), proceeding with generating Cython sources and expanding templates
  warnings.warn(
warning: mdtraj/formats/dcd/dcdlib.pxd:12:12: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:16: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
performance hint: mdtraj/geometry/src/image_molecules.pxi:15:5: Exception check on 'make_whole' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'make_whole' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'make_whole' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:36:5: Exception check on 'anchor_dists' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'anchor_dists' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'anchor_dists' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:68:5: Exception check on 'wrap_mols' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'wrap_mols' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'wrap_mols' to allow an error code to be returned.
C compiler:
Attempting to autodetect OpenMP support... Compiler supports OpenMP
Attempting to autodetect SSE2   support... Compiler supports SSE2
Attempting to autodetect SSE3   support... Compiler supports SSE3
Attempting to autodetect SSE4.1 support... Compiler supports SSE4.1
Attempting to autodetect NEON   support... Did not detect NEON support

[ 1/10] Cythonizing mdtraj/formats/dcd/dcd.pyx
[ 2/10] Cythonizing mdtraj/formats/dtr/dtr.pyx
[ 3/10] Cythonizing mdtraj/formats/xtc/trr.pyx
[ 4/10] Cythonizing mdtraj/formats/xtc/xtc.pyx
[ 5/10] Cythonizing mdtraj/geometry/drid.pyx
[ 6/10] Cythonizing mdtraj/geometry/neighborlist.pyx
[ 7/10] Cythonizing mdtraj/geometry/neighbors.pyx
[ 8/10] Cythonizing mdtraj/geometry/src/_geometry.pyx
[ 9/10] Cythonizing mdtraj/rmsd/_lprmsd.pyx
[10/10] Cythonizing mdtraj/rmsd/_rmsd.pyx
running clean
removing '/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build' (and everything under it)
'build/bdist.linux-x86_64' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
	rm -rf .pybuild/
	find . -name \*.pyc -exec rm {} \;
   debian/rules execute_after_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/mdtraj-1.10.3'
for f in mdtraj/formats/binpos/binpos.c \
  mdtraj/formats/dcd/dcd.c		\
  mdtraj/formats/dtr/dtr.cpp		\
  mdtraj/formats/tng/tng.c		\
  mdtraj/formats/xtc/trr.c		\
  mdtraj/formats/xtc/xtc.c		\
  mdtraj/geometry/drid.cpp		\
  mdtraj/geometry/neighborlist.cpp	\
  mdtraj/geometry/neighbors.cpp		\
  mdtraj/geometry/src/_geometry.cpp	\
  mdtraj/rmsd/_lprmsd.cpp		\
  mdtraj/rmsd/_rmsd.cpp			\
  mdtraj/version.py;                    \
do rm -f $f; done
rm -rf mdtraj/core/lib
rm -rf docs/api/generated
rm -rf __pycache__ .pybuild
find . -name "lib*.a" -delete
make[1]: Leaving directory '/build/reproducible-path/mdtraj-1.10.3'
   dh_autoreconf_clean -O--buildsystem=pybuild
   dh_clean -O--buildsystem=pybuild
	rm -f debian/debhelper-build-stamp
	rm -rf debian/.debhelper/
	rm -f -- debian/python3-mdtraj.substvars debian/python-mdtraj-doc.substvars debian/files
	rm -fr -- debian/python3-mdtraj/ debian/tmp/ debian/python-mdtraj-doc/
	find .  \( \( \
		\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
	        \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
		 -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
		 -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
		 -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
		\) -exec rm -f {} + \) -o \
		\( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \)
 debian/rules binary
dh binary --with sphinxdoc --buildsystem=pybuild
   dh_update_autotools_config -O--buildsystem=pybuild
   dh_autoreconf -O--buildsystem=pybuild
   dh_auto_configure -O--buildsystem=pybuild
	pybuild --configure -i python{version} -p 3.13
I: pybuild base:311: python3.13 setup.py config 
Using built-in specs.
COLLECT_GCC=/usr/bin/x86_64-linux-gnu-gcc
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-linux-gnu/14/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-17' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-gcn/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=3
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 14.2.0 (Debian 14.2.0-17) 
/build/reproducible-path/mdtraj-1.10.3/basesetup.py:483: UserWarning: Unrecognized setuptools command ('config'), proceeding with generating Cython sources and expanding templates
  warnings.warn(
warning: mdtraj/formats/dcd/dcdlib.pxd:12:12: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:16: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
performance hint: mdtraj/geometry/src/image_molecules.pxi:15:5: Exception check on 'make_whole' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'make_whole' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'make_whole' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:36:5: Exception check on 'anchor_dists' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'anchor_dists' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'anchor_dists' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:68:5: Exception check on 'wrap_mols' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'wrap_mols' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'wrap_mols' to allow an error code to be returned.
C compiler:
Attempting to autodetect OpenMP support... Compiler supports OpenMP
Attempting to autodetect SSE2   support... Compiler supports SSE2
Attempting to autodetect SSE3   support... Compiler supports SSE3
Attempting to autodetect SSE4.1 support... Compiler supports SSE4.1
Attempting to autodetect NEON   support... Did not detect NEON support

[ 1/10] Cythonizing mdtraj/formats/dcd/dcd.pyx
[ 2/10] Cythonizing mdtraj/formats/dtr/dtr.pyx
[ 3/10] Cythonizing mdtraj/formats/xtc/trr.pyx
[ 4/10] Cythonizing mdtraj/formats/xtc/xtc.pyx
[ 5/10] Cythonizing mdtraj/geometry/drid.pyx
[ 6/10] Cythonizing mdtraj/geometry/neighborlist.pyx
[ 7/10] Cythonizing mdtraj/geometry/neighbors.pyx
[ 8/10] Cythonizing mdtraj/geometry/src/_geometry.pyx
[ 9/10] Cythonizing mdtraj/rmsd/_lprmsd.pyx
[10/10] Cythonizing mdtraj/rmsd/_rmsd.pyx
running config
   dh_auto_build -O--buildsystem=pybuild
	pybuild --build -i python{version} -p 3.13
I: pybuild base:311: /usr/bin/python3 setup.py build 
Using built-in specs.
COLLECT_GCC=/usr/bin/x86_64-linux-gnu-gcc
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-linux-gnu/14/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-17' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-gcn/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=3
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 14.2.0 (Debian 14.2.0-17) 
warning: mdtraj/formats/dcd/dcdlib.pxd:12:12: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:16: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
performance hint: mdtraj/geometry/src/image_molecules.pxi:15:5: Exception check on 'make_whole' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'make_whole' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'make_whole' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:36:5: Exception check on 'anchor_dists' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'anchor_dists' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'anchor_dists' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:68:5: Exception check on 'wrap_mols' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'wrap_mols' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'wrap_mols' to allow an error code to be returned.
C compiler:
Attempting to autodetect OpenMP support... Compiler supports OpenMP
Attempting to autodetect SSE2   support... Compiler supports SSE2
Attempting to autodetect SSE3   support... Compiler supports SSE3
Attempting to autodetect SSE4.1 support... Compiler supports SSE4.1
Attempting to autodetect NEON   support... Did not detect NEON support

[ 1/10] Cythonizing mdtraj/formats/dcd/dcd.pyx
[ 2/10] Cythonizing mdtraj/formats/dtr/dtr.pyx
[ 3/10] Cythonizing mdtraj/formats/xtc/trr.pyx
[ 4/10] Cythonizing mdtraj/formats/xtc/xtc.pyx
[ 5/10] Cythonizing mdtraj/geometry/drid.pyx
[ 6/10] Cythonizing mdtraj/geometry/neighborlist.pyx
[ 7/10] Cythonizing mdtraj/geometry/neighbors.pyx
[ 8/10] Cythonizing mdtraj/geometry/src/_geometry.pyx
[ 9/10] Cythonizing mdtraj/rmsd/_lprmsd.pyx
[10/10] Cythonizing mdtraj/rmsd/_rmsd.pyx
running build
running build_py
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj
copying mdtraj/io.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj
copying mdtraj/_version.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj
copying mdtraj/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/lammpstrj.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/hoomdxml.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/pdbx.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/openmmxml.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/mol2.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/psf.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/gsd.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/arc.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/registry.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/xyzfile.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/amberrst.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/prmtop.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/netcdf.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/gro.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/lh5.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/mdcrd.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
copying mdtraj/formats/hdf5.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/unitcell.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/rotation.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/delay_import.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/singleton.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/zipped.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/validation.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
copying mdtraj/utils/contextmanagers.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr
copying mdtraj/nmr/scalar_couplings.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr
copying mdtraj/nmr/shift_wrappers.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr
copying mdtraj/nmr/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/contact.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/rdf.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/thermodynamic_properties.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/shape.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/hbond.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/dihedral.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/dssp.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/sasa.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/internal.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/rg.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/angle.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/alignment.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/distance.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
copying mdtraj/geometry/order.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
copying mdtraj/core/element.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
copying mdtraj/core/trajectory.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
copying mdtraj/core/topology.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
copying mdtraj/core/residue_names.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
copying mdtraj/core/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
copying mdtraj/core/selection.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts
copying mdtraj/scripts/mdinspect.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts
copying mdtraj/scripts/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts
copying mdtraj/scripts/mdconvert.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
copying mdtraj/reporters/netcdfreporter.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
copying mdtraj/reporters/dcdreporter.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
copying mdtraj/reporters/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
copying mdtraj/reporters/basereporter.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
copying mdtraj/reporters/xtcreporter.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
copying mdtraj/reporters/hdf5reporter.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing
copying mdtraj/testing/docstrings.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing
copying mdtraj/testing/docscrape.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing
copying mdtraj/testing/testing.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing
copying mdtraj/testing/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb
copying mdtraj/formats/pdb/pdbstructure.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb
copying mdtraj/formats/pdb/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb
copying mdtraj/formats/pdb/pdbfile.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/basedimension.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/unit_math.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/mymatrix.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/unit_definitions.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/prefix.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/baseunit.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/unit.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/constants.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/unit_operators.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/quantity.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/doctests.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
copying mdtraj/utils/unit/standard_dimensions.py -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit
creating /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/data
copying mdtraj/formats/pdb/data/residues.xml -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/data
copying mdtraj/formats/pdb/data/pdbNames.xml -> /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/data
UPDATING /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_version.py
set /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_version.py to '1.10.3'
running build_ext
building 'mdtraj.formats.xtc' extension
creating build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile_xtc.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/xtc.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/xtc/xtc.c:1263:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_xtc.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/xtc.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.formats.trr' extension
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile_trr.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/trr.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/xtc/trr.c:1265:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_trr.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/trr.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.formats.dcd' extension
creating build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd
creating build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/src
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dcd/dcd.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/dcd.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/dcd/dcd.c:1260:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dcd/src/dcdplugin.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/src/dcdplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/dcd.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/src/dcdplugin.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.formats.dtr' extension
creating build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr
creating build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/src
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dtr/dtr.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/dtr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/dtr/dtr.cpp:1279:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dtr/src/dtrplugin.cxx -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/src/dtrplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
mdtraj/formats/dtr/src/dtrplugin.cxx: In member function 'bool desres::molfile::Timekeys::init(const std::string&)':
mdtraj/formats/dtr/src/dtrplugin.cxx:487:27: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=]
  487 |             printf("size %d framesize %d\n\n",
      |                          ~^
      |                           |
      |                           int
      |                          %ld
  488 |                     keys[i].size(), m_framesize);
      |                     ~~~~~~~~~~~~~~
      |                                 |
      |                                 uint64_t {aka long unsigned int}
mdtraj/formats/dtr/src/dtrplugin.cxx:487:40: warning: format '%d' expects argument of type 'int', but argument 3 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=]
  487 |             printf("size %d framesize %d\n\n",
      |                                       ~^
      |                                        |
      |                                        int
      |                                       %ld
  488 |                     keys[i].size(), m_framesize);
      |                                     ~~~~~~~~~~~
      |                                     |
      |                                     uint64_t {aka long unsigned int}
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'void DDmkdir(const std::string&, mode_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:706:23: warning: '%03x' directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  706 |         sprintf(sub, "%03x/", i);
      |                       ^~~~
mdtraj/formats/dtr/src/dtrplugin.cxx:706:22: note: directive argument in the range [0, 2147483646]
  706 |         sprintf(sub, "%03x/", i);
      |                      ^~~~~~~
In file included from /usr/include/stdio.h:970,
                 from mdtraj/formats/dtr/include/molfile_plugin.h:35,
                 from mdtraj/formats/dtr/include/dtrplugin.hxx:46,
                 from mdtraj/formats/dtr/src/dtrplugin.cxx:42:
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'void DDmkdir(const std::string&, mode_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:706:9:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 5 and 10 bytes into a destination of size 6
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'void DDmkdir(const std::string&, mode_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:714:30: warning: '%03x' directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  714 |             sprintf(subsub, "%03x", j);
      |                              ^~~~
mdtraj/formats/dtr/src/dtrplugin.cxx:714:29: note: directive argument in the range [0, 2147483646]
  714 |             sprintf(subsub, "%03x", j);
      |                             ^~~~~~
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'void DDmkdir(const std::string&, mode_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:714:13:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 4 and 9 bytes into a destination of size 6
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'std::string framefile(const std::string&, size_t, size_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:667:35: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=]
  667 |             sprintf(answer, "%03x/", d1);
      |                                   ^
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'std::string DDreldir(const std::string&, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:667:13,
    inlined from 'std::string framefile(const std::string&, size_t, size_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 5 and 10 bytes into a destination of size 9
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'std::string framefile(const std::string&, size_t, size_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:665:35: warning: '%03x' directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=]
  665 |             sprintf(answer, "%03x/%03x/", d1, d2);
      |                                   ^~~~
In function 'std::string DDreldir(const std::string&, int, int)',
    inlined from 'std::string framefile(const std::string&, size_t, size_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23:
mdtraj/formats/dtr/src/dtrplugin.cxx:665:29: note: directive argument in the range [0, 2147483646]
  665 |             sprintf(answer, "%03x/%03x/", d1, d2);
      |                             ^~~~~~~~~~~~
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'std::string DDreldir(const std::string&, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:665:13,
    inlined from 'std::string framefile(const std::string&, size_t, size_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 9 and 19 bytes into a destination of size 9
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/dtr.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/src/dtrplugin.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so
building 'mdtraj._rmsd' extension
creating build/temp.linux-x86_64-cpython-313/mdtraj/rmsd
creating build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_rmsd.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so
building 'mdtraj._lprmsd' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/_lprmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_lprmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/rmsd/_lprmsd.cpp:1307:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/Munkres.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/Munkres.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/euclidean_permutation.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/euclidean_permutation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/fancy_index.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/fancy_index.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_lprmsd.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/Munkres.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/euclidean_permutation.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/fancy_index.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.core.lib.libtheobald' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -msse2 -mssse3 -O3 -funroll-loops --std=c++11
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o -msse2 -mssse3 -O3 -funroll-loops --std=c++11
x86_64-linux-gnu-gcc-ar rcs /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/lib/libtheobald.a build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o
building 'mdtraj.geometry._geometry' extension
creating build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/_geometry.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/_geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/geometry/src/_geometry.cpp:1289:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/dssp.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dssp.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/geometry.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/sasa.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/sasa.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/_geometry.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dssp.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/geometry.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/sasa.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry.drid' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/drid.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/drid.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/dridkernels.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dridkernels.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/moments.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/moments.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/drid.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dridkernels.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/moments.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry.neighbors' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/neighbors.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/neighbors.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighbors.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighbors.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry.neighborlist' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/neighborlist.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/neighborlist.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighborlist.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighborlist.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so
   dh_auto_test -O--buildsystem=pybuild
	pybuild --test -i python{version} -p 3.13
I: pybuild base:311: cd /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build; python3.13 -m unittest discover -v 

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

NO TESTS RAN
	rm -fr -- /tmp/dh-xdg-rundir-P9duzUcf
   create-stamp debian/debhelper-build-stamp
   dh_testroot -O--buildsystem=pybuild
   dh_prep -O--buildsystem=pybuild
	rm -f -- debian/python3-mdtraj.substvars debian/python-mdtraj-doc.substvars
	rm -fr -- debian/.debhelper/generated/python3-mdtraj/ debian/python3-mdtraj/ debian/tmp/ debian/.debhelper/generated/python-mdtraj-doc/ debian/python-mdtraj-doc/
   dh_installdirs -O--buildsystem=pybuild
	install -m0755 -d debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples/data
   dh_auto_install -O--buildsystem=pybuild
	install -m0755 -d /build/reproducible-path/mdtraj-1.10.3/debian/tmp
	pybuild --install -i python{version} -p 3.13 --dest-dir=/build/reproducible-path/mdtraj-1.10.3/debian/tmp
I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj 
Using built-in specs.
COLLECT_GCC=/usr/bin/x86_64-linux-gnu-gcc
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-linux-gnu/14/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-17' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-gcn/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=3
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 14.2.0 (Debian 14.2.0-17) 
warning: mdtraj/formats/dcd/dcdlib.pxd:12:12: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:16: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
warning: mdtraj/formats/dcd/dcdlib.pxd:12:20: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line.
performance hint: mdtraj/geometry/src/image_molecules.pxi:15:5: Exception check on 'make_whole' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'make_whole' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'make_whole' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:36:5: Exception check on 'anchor_dists' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'anchor_dists' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'anchor_dists' to allow an error code to be returned.
performance hint: mdtraj/geometry/src/image_molecules.pxi:68:5: Exception check on 'wrap_mols' will always require the GIL to be acquired.
Possible solutions:
	1. Declare 'wrap_mols' as 'noexcept' if you control the definition and you're sure you don't want the function to raise exceptions.
	2. Use an 'int' return type on 'wrap_mols' to allow an error code to be returned.
C compiler:
Attempting to autodetect OpenMP support... Compiler supports OpenMP
Attempting to autodetect SSE2   support... Compiler supports SSE2
Attempting to autodetect SSE3   support... Compiler supports SSE3
Attempting to autodetect SSE4.1 support... Compiler supports SSE4.1
Attempting to autodetect NEON   support... Did not detect NEON support

[ 1/10] Cythonizing mdtraj/formats/dcd/dcd.pyx
[ 2/10] Cythonizing mdtraj/formats/dtr/dtr.pyx
[ 3/10] Cythonizing mdtraj/formats/xtc/trr.pyx
[ 4/10] Cythonizing mdtraj/formats/xtc/xtc.pyx
[ 5/10] Cythonizing mdtraj/geometry/drid.pyx
[ 6/10] Cythonizing mdtraj/geometry/neighborlist.pyx
[ 7/10] Cythonizing mdtraj/geometry/neighbors.pyx
[ 8/10] Cythonizing mdtraj/geometry/src/_geometry.pyx
[ 9/10] Cythonizing mdtraj/rmsd/_lprmsd.pyx
[10/10] Cythonizing mdtraj/rmsd/_rmsd.pyx
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
running build
running build_py
UPDATING /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_version.py
set /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_version.py to '1.10.3'
running build_ext
building 'mdtraj.formats.xtc' extension
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile_xtc.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/xtc.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/xtc.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/xtc/xtc.c:1263:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_xtc.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/xtc.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.formats.trr' extension
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdr_seek.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/src/xdrfile_trr.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/xtc -Imdtraj/formats/xtc/include/ -Imdtraj/formats/xtc/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/xtc/trr.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/trr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/xtc/trr.c:1265:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdr_seek.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/src/xdrfile_trr.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/xtc/trr.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.formats.dcd' extension
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dcd/dcd.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/dcd.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/dcd/dcd.c:1260:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/formats/dcd -Imdtraj/formats/dcd/include/ -Imdtraj/formats/dcd/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dcd/src/dcdplugin.c -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/src/dcdplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/dcd.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dcd/src/dcdplugin.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.formats.dtr' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dtr/dtr.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/dtr.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/formats/dtr/dtr.cpp:1279:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DDESRES_READ_TIMESTEP2=1 -Imdtraj/formats/dtr -Imdtraj/formats/dtr/include/ -Imdtraj/formats/dtr/ -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/formats/dtr/src/dtrplugin.cxx -o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/src/dtrplugin.o -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
mdtraj/formats/dtr/src/dtrplugin.cxx: In member function 'bool desres::molfile::Timekeys::init(const std::string&)':
mdtraj/formats/dtr/src/dtrplugin.cxx:487:27: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=]
  487 |             printf("size %d framesize %d\n\n",
      |                          ~^
      |                           |
      |                           int
      |                          %ld
  488 |                     keys[i].size(), m_framesize);
      |                     ~~~~~~~~~~~~~~
      |                                 |
      |                                 uint64_t {aka long unsigned int}
mdtraj/formats/dtr/src/dtrplugin.cxx:487:40: warning: format '%d' expects argument of type 'int', but argument 3 has type 'uint64_t' {aka 'long unsigned int'} [-Wformat=]
  487 |             printf("size %d framesize %d\n\n",
      |                                       ~^
      |                                        |
      |                                        int
      |                                       %ld
  488 |                     keys[i].size(), m_framesize);
      |                                     ~~~~~~~~~~~
      |                                     |
      |                                     uint64_t {aka long unsigned int}
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'void DDmkdir(const std::string&, mode_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:706:23: warning: '%03x' directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  706 |         sprintf(sub, "%03x/", i);
      |                       ^~~~
mdtraj/formats/dtr/src/dtrplugin.cxx:706:22: note: directive argument in the range [0, 2147483646]
  706 |         sprintf(sub, "%03x/", i);
      |                      ^~~~~~~
In file included from /usr/include/stdio.h:970,
                 from mdtraj/formats/dtr/include/molfile_plugin.h:35,
                 from mdtraj/formats/dtr/include/dtrplugin.hxx:46,
                 from mdtraj/formats/dtr/src/dtrplugin.cxx:42:
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'void DDmkdir(const std::string&, mode_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:706:9:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 5 and 10 bytes into a destination of size 6
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'void DDmkdir(const std::string&, mode_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:714:30: warning: '%03x' directive writing between 3 and 8 bytes into a region of size 6 [-Wformat-overflow=]
  714 |             sprintf(subsub, "%03x", j);
      |                              ^~~~
mdtraj/formats/dtr/src/dtrplugin.cxx:714:29: note: directive argument in the range [0, 2147483646]
  714 |             sprintf(subsub, "%03x", j);
      |                             ^~~~~~
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'void DDmkdir(const std::string&, mode_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:714:13:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 4 and 9 bytes into a destination of size 6
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'std::string framefile(const std::string&, size_t, size_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:667:35: warning: '__builtin___sprintf_chk' may write a terminating nul past the end of the destination [-Wformat-overflow=]
  667 |             sprintf(answer, "%03x/", d1);
      |                                   ^
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'std::string DDreldir(const std::string&, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:667:13,
    inlined from 'std::string framefile(const std::string&, size_t, size_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 5 and 10 bytes into a destination of size 9
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
mdtraj/formats/dtr/src/dtrplugin.cxx: In function 'std::string framefile(const std::string&, size_t, size_t, int, int)':
mdtraj/formats/dtr/src/dtrplugin.cxx:665:35: warning: '%03x' directive writing between 3 and 8 bytes into a region of size between 0 and 5 [-Wformat-overflow=]
  665 |             sprintf(answer, "%03x/%03x/", d1, d2);
      |                                   ^~~~
In function 'std::string DDreldir(const std::string&, int, int)',
    inlined from 'std::string framefile(const std::string&, size_t, size_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23:
mdtraj/formats/dtr/src/dtrplugin.cxx:665:29: note: directive argument in the range [0, 2147483646]
  665 |             sprintf(answer, "%03x/%03x/", d1, d2);
      |                             ^~~~~~~~~~~~
In function 'int sprintf(char*, const char*, ...)',
    inlined from 'std::string DDreldir(const std::string&, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:665:13,
    inlined from 'std::string framefile(const std::string&, size_t, size_t, int, int)' at mdtraj/formats/dtr/src/dtrplugin.cxx:771:23:
/usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 9 and 19 bytes into a destination of size 9
   30 |   return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1,
      |          ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   31 |                                   __glibc_objsize (__s), __fmt,
      |                                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   32 |                                   __va_arg_pack ());
      |                                   ~~~~~~~~~~~~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/dtr.o build/temp.linux-x86_64-cpython-313/mdtraj/formats/dtr/src/dtrplugin.o -L/usr/lib/x86_64-linux-gnu -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so
building 'mdtraj._rmsd' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_rmsd.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so
building 'mdtraj._lprmsd' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/_lprmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_lprmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/rmsd/_lprmsd.cpp:1307:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/Munkres.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/Munkres.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/center.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/euclidean_permutation.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/euclidean_permutation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/fancy_index.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/fancy_index.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/rotation.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/rmsd -Imdtraj/rmsd/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/rmsd/src/theobald_rmsd.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/_lprmsd.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/Munkres.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/center.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/euclidean_permutation.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/fancy_index.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/rotation.o build/temp.linux-x86_64-cpython-313/mdtraj/rmsd/src/theobald_rmsd.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry._geometry' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/_geometry.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/_geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
In file included from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12,
                 from /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5,
                 from mdtraj/geometry/src/_geometry.cpp:1289:
/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/dssp.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dssp.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/geometry.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/geometry.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -Imdtraj/geometry/src/kernels -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/sasa.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/sasa.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/_geometry.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dssp.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/geometry.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/sasa.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry.drid' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/drid.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/drid.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/dridkernels.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dridkernels.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/moments.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/moments.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/drid.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/dridkernels.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/moments.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry.neighbors' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/neighbors.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/neighbors.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighbors.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighbors.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighbors.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so
building 'mdtraj.geometry.neighborlist' extension
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/neighborlist.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Imdtraj/geometry/include -I/usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c mdtraj/geometry/src/neighborlist.cpp -o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighborlist.o -fopenmp -msse2 -mssse3 -O3 -funroll-loops --std=c++11 -Wno-unused-function -Wno-unreachable-code -Wno-sign-compare
x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/mdtraj-1.10.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/mdtraj/geometry/neighborlist.o build/temp.linux-x86_64-cpython-313/mdtraj/geometry/src/neighborlist.o -L/usr/lib/x86_64-linux-gnu -lgomp -o /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so
running install_lib
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/io.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/lammpstrj.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/mdcrd.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/xyzfile.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/psf.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/registry.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/lammpstrj.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/netcdf.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/openmmxml.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/arc.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/hdf5.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/prmtop.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/mol2.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/hoomdxml.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/gsd.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/amberrst.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/gro.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/pdbx.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__pycache__/lh5.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/hoomdxml.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdbx.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/openmmxml.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/mol2.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/psf.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/gsd.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/arc.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/registry.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/xyzfile.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/amberrst.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/prmtop.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/netcdf.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/gro.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/lh5.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/__pycache__/pdbstructure.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/__pycache__/pdbfile.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/__pycache__
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/data
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/data/residues.xml -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/data
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/data/pdbNames.xml -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/data
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/pdbstructure.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/pdb/pdbfile.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/mdcrd.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/formats/hdf5.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unitcell.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/rotation.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/zipped.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/rotation.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/validation.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/unitcell.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/contextmanagers.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/singleton.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__pycache__/delay_import.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__pycache__
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/basedimension.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/unit_math.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/quantity.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/mymatrix.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/unit_operators.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/standard_dimensions.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/unit.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/baseunit.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/prefix.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/basedimension.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__pycache__/unit_definitions.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/mymatrix.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/unit_definitions.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/prefix.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/baseunit.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/unit.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/constants.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/unit_operators.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/quantity.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/doctests.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/unit/standard_dimensions.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/delay_import.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/singleton.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/zipped.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/validation.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/contextmanagers.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/__pycache__/_version.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/__pycache__
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr/scalar_couplings.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr/shift_wrappers.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr/__pycache__/scalar_couplings.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr/__pycache__/shift_wrappers.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/nmr/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/contact.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/rdf.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/thermodynamic_properties.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/rg.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/thermodynamic_properties.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/dihedral.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/dssp.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/shape.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/contact.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/hbond.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/rdf.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/angle.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/sasa.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/order.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__pycache__/distance.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/hbond.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/dihedral.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/dssp.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/sasa.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/internal.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/rg.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/angle.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/alignment.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/distance.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/order.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/element.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__pycache__/topology.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__pycache__/residue_names.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__pycache__/selection.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__pycache__/element.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__pycache__/trajectory.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/trajectory.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/topology.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/residue_names.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/lib
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/lib/libtheobald.a -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/lib
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/lib/theobald_rmsd.h -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/lib
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/lib/center.h -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/lib
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/selection.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts/mdinspect.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/scripts/mdconvert.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__pycache__/basereporter.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__pycache__/netcdfreporter.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__pycache__/dcdreporter.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__pycache__/hdf5reporter.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__pycache__/xtcreporter.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/netcdfreporter.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/dcdreporter.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/basereporter.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/xtcreporter.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/reporters/hdf5reporter.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_version.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/docstrings.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing
creating /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/__pycache__/__init__.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/__pycache__/docstrings.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/__pycache__/testing.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/__pycache__/docscrape.cpython-313.pyc -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/__pycache__
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/docscrape.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/testing.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/testing/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj
copying /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/__init__.py -> /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/io.py to io.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/lammpstrj.py to lammpstrj.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/hoomdxml.py to hoomdxml.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdbx.py to pdbx.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/openmmxml.py to openmmxml.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/mol2.py to mol2.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/psf.py to psf.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/gsd.py to gsd.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/arc.py to arc.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/registry.py to registry.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/xyzfile.py to xyzfile.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/amberrst.py to amberrst.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/prmtop.py to prmtop.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/netcdf.py to netcdf.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/gro.py to gro.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/lh5.py to lh5.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/pdbstructure.py to pdbstructure.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/pdb/pdbfile.py to pdbfile.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/mdcrd.py to mdcrd.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/formats/hdf5.py to hdf5.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unitcell.py to unitcell.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/rotation.py to rotation.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/basedimension.py to basedimension.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/unit_math.py to unit_math.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/mymatrix.py to mymatrix.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/unit_definitions.py to unit_definitions.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/prefix.py to prefix.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/baseunit.py to baseunit.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/unit.py to unit.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/constants.py to constants.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/unit_operators.py to unit_operators.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/quantity.py to quantity.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/doctests.py to doctests.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/unit/standard_dimensions.py to standard_dimensions.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/delay_import.py to delay_import.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/singleton.py to singleton.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/zipped.py to zipped.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/validation.py to validation.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/utils/contextmanagers.py to contextmanagers.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/scalar_couplings.py to scalar_couplings.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/shift_wrappers.py to shift_wrappers.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/nmr/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/contact.py to contact.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/rdf.py to rdf.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/thermodynamic_properties.py to thermodynamic_properties.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/shape.py to shape.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/hbond.py to hbond.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/dihedral.py to dihedral.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/dssp.py to dssp.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/sasa.py to sasa.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/internal.py to internal.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/rg.py to rg.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/angle.py to angle.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/alignment.py to alignment.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/distance.py to distance.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/geometry/order.py to order.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/element.py to element.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/trajectory.py to trajectory.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/topology.py to topology.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/residue_names.py to residue_names.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/core/selection.py to selection.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts/mdinspect.py to mdinspect.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/scripts/mdconvert.py to mdconvert.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/netcdfreporter.py to netcdfreporter.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/dcdreporter.py to dcdreporter.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/basereporter.py to basereporter.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/xtcreporter.py to xtcreporter.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/reporters/hdf5reporter.py to hdf5reporter.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/_version.py to _version.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/docstrings.py to docstrings.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/docscrape.py to docscrape.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/testing.py to testing.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/testing/__init__.py to __init__.cpython-313.pyc
byte-compiling /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj/__init__.py to __init__.cpython-313.pyc
running install_egg_info
running egg_info
creating mdtraj.egg-info
writing mdtraj.egg-info/PKG-INFO
writing dependency_links to mdtraj.egg-info/dependency_links.txt
writing entry points to mdtraj.egg-info/entry_points.txt
writing requirements to mdtraj.egg-info/requires.txt
writing top-level names to mdtraj.egg-info/top_level.txt
writing manifest file 'mdtraj.egg-info/SOURCES.txt'
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative
dependency /usr/lib/x86_64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative
reading manifest file 'mdtraj.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
no previously-included directories found matching '__pycache__'
no previously-included directories found matching '*.pyc'
adding license file 'LICENSE'
writing manifest file 'mdtraj.egg-info/SOURCES.txt'
Copying mdtraj.egg-info to /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/lib/python3.13/dist-packages/mdtraj-1.10.3.egg-info
Skipping SOURCES.txt
running install_scripts
Installing mdconvert-mdtraj script to /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/bin
Installing mdinspect script to /build/reproducible-path/mdtraj-1.10.3/debian/python3-mdtraj/usr/bin
   debian/rules execute_after_dh_auto_install-indep
make[1]: Entering directory '/build/reproducible-path/mdtraj-1.10.3'
cp -a /build/reproducible-path/mdtraj-1.10.3/examples /build/reproducible-path/mdtraj-1.10.3/examples.orig
mkdir -p /build/reproducible-path/mdtraj-1.10.3/build/html/examples/iterload
ln -s /build/reproducible-path/mdtraj-1.10.3/examples/data /build/reproducible-path/mdtraj-1.10.3/build/html/examples/iterload/data
sed "s|http://www.rcsb.org/pdb/files|/build/reproducible-path/mdtraj-1.10.3/debian/external|g" -i /build/reproducible-path/mdtraj-1.10.3/examples/*.ipynb
PYTHONPATH=/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build \
    MPLCONFIGDIR=/build/reproducible-path/mdtraj-1.10.3/build/matplotlib \
	make -C docs BUILDDIR=/build/reproducible-path/mdtraj-1.10.3/build  html
make[2]: Entering directory '/build/reproducible-path/mdtraj-1.10.3/docs'
sphinx-build -b html -d /build/reproducible-path/mdtraj-1.10.3/build/doctrees   . /build/reproducible-path/mdtraj-1.10.3/build/html
Running Sphinx v8.1.3
WARNING: Calling get_html_theme_path is deprecated. If you are calling it to define html_theme_path, you are safe to remove that code.
loading translations [en]... done
Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`.
[autosummary] generating autosummary for: analysis.rst, api/reporters.rst, api/trajectory_files.rst, api/utils.rst, atom_selection.rst, building_docs.rst, examples/atom-selection.rst, examples/centroids.rst, examples/clustering.rst, examples/hbonds.rst, ..., notebook-examples/iterload.nblink, notebook-examples/native-contact.nblink, notebook-examples/openmm.nblink, notebook-examples/pca.nblink, notebook-examples/ramachandran-plot.nblink, notebook-examples/rmsd-benchmark.nblink, notebook-examples/rmsd-drift.nblink, notebook-examples/solvent-accessible-surface-area.nblink, notebook-examples/two-pass-clustering.nblink, whatsnew.rst
[autosummary] generating autosummary for: /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.Topology.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.Trajectory.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.Trajectory.superpose.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.acylindricity.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.asphericity.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.baker_hubbard.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.chemical_shifts_ppm.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.chemical_shifts_shiftx2.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.chemical_shifts_spartaplus.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.compute_J3_HN_C.rst, ..., /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.check_random_state.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.ensure_type.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.ilen.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.import_.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.in_units_of.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.lengths_and_angles_to_box_vectors.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.rotation_matrix_from_quaternion.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.timing.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.utils.uniform_quaternion.rst, /build/reproducible-path/mdtraj-1.10.3/docs/api/generated/mdtraj.wernet_nilsson.rst
Writing evaluated template result to /build/reproducible-path/mdtraj-1.10.3/build/html/_static/nbsphinx-code-cells.css
building [mo]: targets for 0 po files that are out of date
writing output... 
building [html]: targets for 44 source files that are out of date
updating environment: [new config] 140 added, 0 changed, 0 removed
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/usr/lib/python3/dist-packages/numpydoc/docscrape.py:203: UserWarning: potentially wrong underline length... 
Returns 
---------- in 
Get the indices of biologically-relevant groups by name.
... in the docstring of select_atom_indices in /build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/core/topology.py.
  while not self._is_at_section() and not self._doc.eof():
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/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py:docstring of mdtraj.geometry.shape.asphericity:9: WARNING: Explicit markup ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/contact.py:docstring of mdtraj.geometry.contact.compute_contacts:33: ERROR: Unexpected indentation. [docutils]
docstring of mdtraj.formats.dtr.load_dtr:7: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py:docstring of mdtraj.geometry.shape.relative_shape_anisotropy:9: WARNING: Explicit markup ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py:docstring of mdtraj.geometry.shape.relative_shape_anisotropy:11: ERROR: Unexpected indentation. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py:docstring of mdtraj.geometry.shape.relative_shape_anisotropy:12: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py:docstring of mdtraj.geometry.shape.relative_shape_anisotropy:14: WARNING: Definition list ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/geometry/shape.py:docstring of mdtraj.geometry.shape.relative_shape_anisotropy:15: WARNING: Block quote ends without a blank line; unexpected unindent. [docutils]
/build/reproducible-path/mdtraj-1.10.3/.pybuild/cpython3_3.13_mdtraj/build/mdtraj/utils/rotation.py:docstring of mdtraj.utils.rotation.uniform_quaternion:39: ERROR: Error in "rubric" directive:
no content permitted.

.. rubric:: References

 .. [R17e8d31e726c-1] K. Shoemake. Uniform random rotations. In D. Kirk, editor, Graphics
    Gems III, pages 124-132. Academic, New York, 1992.
 .. [R17e8d31e726c-2] http://planning.cs.uiuc.edu/node198.html [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/atom-selection.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/atom-selection.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/centroids.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/centroids.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/clustering.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/clustering.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/hbonds.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/hbonds.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/iterload.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/iterload.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/native-contact.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/native-contact.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/nmr.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/nmr.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/openmm.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/simulation-with-openmm.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/pca.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/principal-components.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/ramachandran-plot.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/ramachandran-plot.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/rmsd-benchmark.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/rmsd-benchmark.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/solvent-accessible-surface-area.rst:4: ERROR: Unknown directive type "notebook".

.. notebook:: examples/solvent-accessible-surface-area.ipynb
   :skip_exceptions: [docutils]
/build/reproducible-path/mdtraj-1.10.3/docs/examples/two-pass-clustering.rst:4: ERROR: Unknown directive type "notebook".

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	ln -sf ../../../../../sphinx_rtd_theme/static/js/theme.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/js/theme.js
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-Regular.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Regular.ttf
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.eot debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.eot
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-Italic.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Italic.ttf
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-Bold.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Bold.woff2
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/RobotoSlab-Bold.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/RobotoSlab-Bold.woff2
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/RobotoSlab-Regular.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/RobotoSlab-Regular.woff2
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.svg debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.svg
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-Bold.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Bold.ttf
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-BoldItalic.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-BoldItalic.woff2
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.ttf
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-Regular.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Regular.woff2
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-Italic.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Italic.woff2
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/Lato-BoldItalic.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-BoldItalic.ttf
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.woff debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.woff
	ln -sf ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.woff2
	ln -sf ../../../../javascript/sphinxdoc/1.0/doctools.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/doctools.js
	ln -sf ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/searchtools.js
	ln -sf ../../../../javascript/sphinxdoc/1.0/language_data.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/language_data.js
	ln -sf ../../../../javascript/sphinxdoc/1.0/sphinx_highlight.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/sphinx_highlight.js
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/.buildinfo
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
sed "s|src=\"https://img.shields.io/badge/DOI-10.1016%2Fj.bpj.2015.08.015-blue.svg\"|src=\"_static/doi-10.1016_j.bpj.2015.08.015-blue.svg\"|g" -i debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/index.html
make[1]: Leaving directory '/build/reproducible-path/mdtraj-1.10.3'
   dh_sphinxdoc -O--buildsystem=pybuild -Npython-mdtraj-doc
dh_sphinxdoc: warning: Sphinx documentation not found
   dh_installchangelogs -O--buildsystem=pybuild
	install -m0755 -d debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc
	install -p -m0644 debian/.debhelper/generated/python-mdtraj-doc/dh_installchangelogs.dch.trimmed debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/changelog.Debian
	install -m0755 -d debian/python3-mdtraj/usr/share/doc/python3-mdtraj
	install -p -m0644 debian/.debhelper/generated/python3-mdtraj/dh_installchangelogs.dch.trimmed debian/python3-mdtraj/usr/share/doc/python3-mdtraj/changelog.Debian
   dh_installexamples -O--buildsystem=pybuild
dh_installexamples: warning: Cannot auto-detect main package for python-mdtraj-doc.  If the default is wrong, please use --doc-main-package
	install -m0755 -d debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/1vii_3frames.pdb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/ala2.h5 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/atom-selection.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/centroids.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/clustering.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/data debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/hbonds.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/iterload.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/native-contact.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/nmr.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/principal-components.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/ramachandran-plot.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/rmsd-benchmark.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/rmsd-drift.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/simulation-with-openmm.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/solvent-accessible-surface-area.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/test_examples.py debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
	cp --reflink=auto -a ./examples/two-pass-clustering.ipynb debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/examples
   dh_installman -O--buildsystem=pybuild
	install -m0755 -d debian/python3-mdtraj/usr/share/man/man1/
	install -p -m0644 ./debian/mdconvert-mdtraj.1 debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1
	install -m0755 -d debian/python3-mdtraj/usr/share/man/man1/
	install -p -m0644 ./debian/mdinspect.1 debian/python3-mdtraj/usr/share/man/man1/mdinspect.1
	man-recode --to-code UTF-8 --suffix .dh-new debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1
	man-recode --to-code UTF-8 --suffix .dh-new debian/python3-mdtraj/usr/share/man/man1/mdinspect.1
	mv debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1.dh-new debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1
	chmod 0644 -- debian/python3-mdtraj/usr/share/man/man1/mdconvert-mdtraj.1
	mv debian/python3-mdtraj/usr/share/man/man1/mdinspect.1.dh-new debian/python3-mdtraj/usr/share/man/man1/mdinspect.1
	chmod 0644 -- debian/python3-mdtraj/usr/share/man/man1/mdinspect.1
   dh_python3 -O--buildsystem=pybuild
D: dh_python3 dh_python3:180: version: 6.20250108
D: dh_python3 dh_python3:181: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild']
D: dh_python3 dh_python3:182: options: Namespace(guess_deps=True, skip_private=False, verbose=True, arch=None, package=None, no_package=None, remaining_packages=False, compile_all=False, vrange=None, regexpr=None, accept_upstream_versions=False, depends=None, depends_section=None, recommends=None, recommends_section=None, suggests=None, suggests_section=None, requires=None, shebang=None, ignore_shebangs=False, clean_dbg_pkg=True, no_ext_rename=False, no_shebang_rewrite=False, private_dir=None, O=['--buildsystem=pybuild'])
D: dh_python3 dh_python3:183: supported Python versions: 3.13 (default=3.13)
D: dh_python3 debhelper:166: skipping package python-mdtraj-doc (missing ${python3:Depends} in Depends/Recommends)
D: dh_python3 debhelper:174: source=mdtraj, binary packages=['python3-mdtraj']
D: dh_python3 dh_python3:205: processing package python3-mdtraj...
D: dh_python3 fs:50: moving files from debian/python3-mdtraj/usr/lib/python3.13/dist-packages to debian/python3-mdtraj/usr/lib/python3/dist-packages/
D: dh_python3 fs:338: package python3-mdtraj details = {'requires.txt': {'debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj-1.10.3.egg-info/requires.txt'}, 'egg-info': {'debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj-1.10.3.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3, /usr/bin/python3}, 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.13')}, 'ext_no_version': set()}
D: dh_python3 depends:103: generating dependencies for package python3-mdtraj
D: dh_python3 pydist:175: trying to find dependency for netCDF4 (python=None)
D: dh_python3 pydist:209: dependency: module seems to be installed
D: dh_python3 pydist:284: dependency: included in build-deps
D: dh_python3 pydist:175: trying to find dependency for numpy<3,>=1.25.0 (python=None)
D: dh_python3 pydist:209: dependency: module seems to be installed
D: dh_python3 pydist:284: dependency: included in build-deps
D: dh_python3 pydist:175: trying to find dependency for packaging (python=None)
D: dh_python3 pydist:209: dependency: module seems to be installed
D: dh_python3 pydist:284: dependency: included in build-deps
D: dh_python3 pydist:175: trying to find dependency for pyparsing (python=None)
D: dh_python3 pydist:209: dependency: module seems to be installed
D: dh_python3 pydist:284: dependency: included in build-deps
D: dh_python3 pydist:175: trying to find dependency for scipy (python=None)
D: dh_python3 pydist:209: dependency: module seems to be installed
D: dh_python3 pydist:284: dependency: included in build-deps
D: dh_python3 depends:253: D={'python3-scipy', 'python3-pyparsing', 'python3-numpy', 'python3 (<< 3.14)', 'python3:any', 'python3-packaging', 'python3-netcdf4', 'python3 (>= 3.13~)'}; R=[]; S=[]; E=[], B=[]; RT=[]
	rm -f debian/python-mdtraj-doc.debhelper.log
   debian/rules execute_after_dh_python3
make[1]: Entering directory '/build/reproducible-path/mdtraj-1.10.3'
dh_numpy3
	mv debian/python3-mdtraj.substvars.new debian/python3-mdtraj.substvars
	mv debian/python-mdtraj-doc.substvars.new debian/python-mdtraj-doc.substvars
# setup.py builds the static lib libtheobald.a for each python version
# but dh_python3 can't tell the difference between the different builds,
# since py3.11 compiles libtheobald.o with -fwrapv, where py3.12 uses -fno-strict-overflow
# So clean up manually (assume the binary difference is not an issue)
rm -f debian/python3-mdtraj/usr/lib/python3.*/dist-packages/mdtraj/core/lib/libtheobald.a
for d in debian/python3-mdtraj/usr/lib/python3.*/dist-packages/mdtraj/core/lib; do if [-d $d]; then rmdir -p --ignore-fail-on-non-empty $d; fi; done
/bin/sh: line 1: [-d: command not found
make[1]: Leaving directory '/build/reproducible-path/mdtraj-1.10.3'
   dh_installsystemduser -O--buildsystem=pybuild
   dh_perl -O--buildsystem=pybuild
   dh_link -O--buildsystem=pybuild
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.woff
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.woff debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.woff
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-BoldItalic.ttf
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-BoldItalic.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-BoldItalic.ttf
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Italic.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-Italic.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Italic.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Regular.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-Regular.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Regular.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.ttf
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.ttf
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-BoldItalic.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-BoldItalic.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-BoldItalic.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Bold.ttf
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-Bold.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Bold.ttf
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.svg
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.svg debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.svg
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/RobotoSlab-Regular.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/RobotoSlab-Regular.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/RobotoSlab-Regular.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/RobotoSlab-Bold.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/RobotoSlab-Bold.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/RobotoSlab-Bold.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Bold.woff2
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-Bold.woff2 debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Bold.woff2
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Italic.ttf
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-Italic.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Italic.ttf
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.eot
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/fontawesome-webfont.eot debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/fontawesome-webfont.eot
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Regular.ttf
	ln -s ../../../../../sphinx_rtd_theme/static/fonts/Lato-Regular.ttf debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/fonts/Lato-Regular.ttf
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/js/theme.js
	ln -s ../../../../../sphinx_rtd_theme/static/js/theme.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/js/theme.js
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/css/theme.css
	ln -s ../../../../../sphinx_rtd_theme/static/css/theme.css debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/css/theme.css
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/css/badge_only.css
	ln -s ../../../../../sphinx_rtd_theme/static/css/badge_only.css debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/css/badge_only.css
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/doctools.js
	ln -s ../../../../javascript/sphinxdoc/1.0/doctools.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/doctools.js
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/sphinx_highlight.js
	ln -s ../../../../javascript/sphinxdoc/1.0/sphinx_highlight.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/sphinx_highlight.js
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/searchtools.js
	ln -s ../../../../javascript/sphinxdoc/1.0/searchtools.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/searchtools.js
	rm -f debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/language_data.js
	ln -s ../../../../javascript/sphinxdoc/1.0/language_data.js debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/language_data.js
   dh_strip_nondeterminism -O--buildsystem=pybuild
	Using 1739273589 as canonical time
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_rmsd-drift_7_1.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_pca_9_0.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_clustering_11_0.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_ramachandran-plot_7_1.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_native-contact_6_0.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_solvent-accessible-surface-area_10_0.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_solvent-accessible-surface-area_8_0.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_pca_12_0.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_images/notebook-examples_hbonds_9_1.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/plus.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/file.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/mdtraj_logo-small.png using File::StripNondeterminism::handlers::png
	Normalizing debian/python-mdtraj-doc/usr/share/doc/python-mdtraj-doc/html/_static/minus.png using File::StripNondeterminism::handlers::png
   dh_compress -O--buildsystem=pybuild
	cd debian/python3-mdtraj
	cd debian/python-mdtraj-doc
	chmod a-x usr/share/doc/python3-mdtraj/changelog.Debian usr/share/man/man1/mdconvert-mdtraj.1 usr/share/man/man1/mdinspect.1
	gzip -9nf usr/share/doc/python3-mdtraj/changelog.Debian usr/share/man/man1/mdconvert-mdtraj.1 usr/share/man/man1/mdinspect.1
	chmod a-x usr/share/doc/python-mdtraj-doc/changelog.Debian usr/share/doc/python-mdtraj-doc/html/_static/example-trajectoryview-data.json usr/share/doc/python-mdtraj-doc/html/_static/mdtraj_logo.xcf usr/share/doc/python-mdtraj-doc/html/notebook-examples/atom-selection.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/clustering.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/hbonds.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/iterload.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/native-contact.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/openmm.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/pca.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/ramachandran-plot.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/rmsd-benchmark.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/rmsd-drift.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/solvent-accessible-surface-area.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/two-pass-clustering.ipynb
	cd '/build/reproducible-path/mdtraj-1.10.3'
	gzip -9nf usr/share/doc/python-mdtraj-doc/changelog.Debian usr/share/doc/python-mdtraj-doc/html/_static/example-trajectoryview-data.json usr/share/doc/python-mdtraj-doc/html/_static/mdtraj_logo.xcf usr/share/doc/python-mdtraj-doc/html/notebook-examples/atom-selection.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/clustering.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/hbonds.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/iterload.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/native-contact.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/openmm.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/pca.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/ramachandran-plot.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/rmsd-benchmark.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/rmsd-drift.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/solvent-accessible-surface-area.ipynb usr/share/doc/python-mdtraj-doc/html/notebook-examples/two-pass-clustering.ipynb
	cd '/build/reproducible-path/mdtraj-1.10.3'
   dh_fixperms -O--buildsystem=pybuild
	find debian/python3-mdtraj ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/python-mdtraj-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/python3-mdtraj/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-mdtraj/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/python-mdtraj-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/python-mdtraj-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/python3-mdtraj/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/python3-mdtraj/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/python-mdtraj-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/python3-mdtraj -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/python-mdtraj-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/python3-mdtraj/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x
	find debian/python3-mdtraj/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w
   dh_missing -O--buildsystem=pybuild
   dh_dwz -a -O--buildsystem=pybuild
	install -m0755 -d debian/python3-mdtraj/usr/lib/debug/.dwz/x86_64-linux-gnu
	dwz -mdebian/python3-mdtraj/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-mdtraj.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-mdtraj.debug -- debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so
	objcopy --compress-debug-sections debian/python3-mdtraj/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-mdtraj.debug
	chmod 0644 -- debian/python3-mdtraj/usr/lib/debug/.dwz/x86_64-linux-gnu/python3-mdtraj.debug
   dh_strip -a -O--buildsystem=pybuild
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55/9183d024f5e69eb7d68b522d6ae1fd408caeb5.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55/9183d024f5e69eb7d68b522d6ae1fd408caeb5.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/55/9183d024f5e69eb7d68b522d6ae1fd408caeb5.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/56
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/56/997cec225467439ee2fc8238b216571198ca8c.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/56/997cec225467439ee2fc8238b216571198ca8c.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/56/997cec225467439ee2fc8238b216571198ca8c.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ea
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ea/1f06b7c3b4aeddc376395e45b8849fc903f0e1.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ea/1f06b7c3b4aeddc376395e45b8849fc903f0e1.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ea/1f06b7c3b4aeddc376395e45b8849fc903f0e1.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1a
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1a/424394e08f3616ea3d863c266fb0516fd8c8df.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1a/424394e08f3616ea3d863c266fb0516fd8c8df.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/1a/424394e08f3616ea3d863c266fb0516fd8c8df.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bf
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bf/9151765e62e29129c96ef944ec5b8ce486406a.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bf/9151765e62e29129c96ef944ec5b8ce486406a.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/bf/9151765e62e29129c96ef944ec5b8ce486406a.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/5a
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/5a/7e2e020123ee3378707dff6d84a1c6d4270e90.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/5a/7e2e020123ee3378707dff6d84a1c6d4270e90.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/5a/7e2e020123ee3378707dff6d84a1c6d4270e90.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/12
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/12/4d9e919c6af334ebc101631535c7d81b9ef751.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/12/4d9e919c6af334ebc101631535c7d81b9ef751.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/12/4d9e919c6af334ebc101631535c7d81b9ef751.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ee
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ee/ca8c3a7a8f1e64d5857e0311dbea8726a1afaf.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ee/ca8c3a7a8f1e64d5857e0311dbea8726a1afaf.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/ee/ca8c3a7a8f1e64d5857e0311dbea8726a1afaf.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/3b
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/3b/15988737d59ada4e4faa7e874805a67367330e.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/3b/15988737d59ada4e4faa7e874805a67367330e.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/3b/15988737d59ada4e4faa7e874805a67367330e.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/b9
	objcopy --only-keep-debug --compress-debug-sections debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/b9/118b5f839ca209562ff50212fd4a110e4cf9a5.debug
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/b9/118b5f839ca209562ff50212fd4a110e4cf9a5.debug
	strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so
	objcopy --add-gnu-debuglink debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.build-id/b9/118b5f839ca209562ff50212fd4a110e4cf9a5.debug debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so
	strip --strip-debug --remove-section=.comment --remove-section=.note --enable-deterministic-archives -R .gnu.lto_\* -R .gnu.debuglto_\* -N __gnu_lto_slim -N __gnu_lto_v1 debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/core/lib/libtheobald.a
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.dwz
	cp --reflink=auto -a debian/python3-mdtraj/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/python3-mdtraj/dbgsym-root/usr/lib/debug/.dwz
	rm -fr debian/python3-mdtraj/usr/lib/debug/.dwz
	rmdir -p --ignore-fail-on-non-empty debian/python3-mdtraj/usr/lib/debug
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/usr/share/doc
	ln -s python3-mdtraj debian/.debhelper/python3-mdtraj/dbgsym-root/usr/share/doc/python3-mdtraj-dbgsym
	install -m0755 -d debian/.debhelper/python3-mdtraj
   dh_makeshlibs -a -O--buildsystem=pybuild
	rm -f debian/python3-mdtraj/DEBIAN/shlibs
   dh_shlibdeps -a -O--buildsystem=pybuild
	install -m0755 -d debian/python3-mdtraj/DEBIAN
	dpkg-shlibdeps -Tdebian/python3-mdtraj.substvars debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_lprmsd.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/_rmsd.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/trr.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dcd.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/xtc.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/formats/dtr.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighbors.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/drid.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/neighborlist.cpython-313-x86_64-linux-gnu.so debian/python3-mdtraj/usr/lib/python3/dist-packages/mdtraj/geometry/_geometry.cpython-313-x86_64-linux-gnu.so
   dh_installdeb -O--buildsystem=pybuild
	install -m0755 -d debian/python3-mdtraj/DEBIAN
	printf '#!/bin/sh\nset -e\n' > debian/python3-mdtraj/DEBIAN/postinst
	cat debian/python3-mdtraj.postinst.debhelper >> debian/python3-mdtraj/DEBIAN/postinst
	chmod 0755 -- debian/python3-mdtraj/DEBIAN/postinst
	printf '#!/bin/sh\nset -e\n' > debian/python3-mdtraj/DEBIAN/prerm
	cat debian/python3-mdtraj.prerm.debhelper >> debian/python3-mdtraj/DEBIAN/prerm
	chmod 0755 -- debian/python3-mdtraj/DEBIAN/prerm
	install -m0755 -d debian/python-mdtraj-doc/DEBIAN
   dh_gencontrol -O--buildsystem=pybuild
	install -m0755 -d debian/python-mdtraj-doc/DEBIAN
	echo misc:Depends= >> debian/python-mdtraj-doc.substvars
	echo misc:Pre-Depends= >> debian/python-mdtraj-doc.substvars
	dpkg-gencontrol -ppython-mdtraj-doc -ldebian/changelog -Tdebian/python-mdtraj-doc.substvars -cdebian/control -Pdebian/python-mdtraj-doc
	install -m0755 -d debian/python3-mdtraj/DEBIAN
	echo misc:Depends= >> debian/python3-mdtraj.substvars
	echo misc:Pre-Depends= >> debian/python3-mdtraj.substvars
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN
	dpkg-gencontrol -ppython3-mdtraj -ldebian/changelog -Tdebian/python3-mdtraj.substvars -cdebian/control -Pdebian/.debhelper/python3-mdtraj/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=python3-mdtraj-dbgsym "-DDepends=python3-mdtraj (= \${binary:Version})" "-DDescription=debug symbols for python3-mdtraj" "-DBuild-Ids=124d9e919c6af334ebc101631535c7d81b9ef751 1a424394e08f3616ea3d863c266fb0516fd8c8df 3b15988737d59ada4e4faa7e874805a67367330e 559183d024f5e69eb7d68b522d6ae1fd408caeb5 56997cec225467439ee2fc8238b216571198ca8c 5a7e2e020123ee3378707dff6d84a1c6d4270e90 b9118b5f839ca209562ff50212fd4a110e4cf9a5 bf9151765e62e29129c96ef944ec5b8ce486406a ea1f06b7c3b4aeddc376395e45b8849fc903f0e1 eeca8c3a7a8f1e64d5857e0311dbea8726a1afaf" -DSection=debug -UMulti-Arch -UReplaces -UBreaks
dpkg-gencontrol: warning: package python-mdtraj-doc: substitution variable ${python3:Depends} unused, but is defined
dpkg-gencontrol: warning: package python-mdtraj-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined
	chmod 0644 -- debian/python-mdtraj-doc/DEBIAN/control
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN/control
	dpkg-gencontrol -ppython3-mdtraj -ldebian/changelog -Tdebian/python3-mdtraj.substvars -cdebian/control -Pdebian/python3-mdtraj
	chmod 0644 -- debian/python3-mdtraj/DEBIAN/control
   dh_md5sums -O--buildsystem=pybuild
	install -m0755 -d debian/python-mdtraj-doc/DEBIAN
	install -m0755 -d debian/python3-mdtraj/DEBIAN
	cd debian/python3-mdtraj >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	cd debian/python-mdtraj-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/python3-mdtraj/DEBIAN/md5sums
	install -m0755 -d debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN
	cd debian/.debhelper/python3-mdtraj/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/python-mdtraj-doc/DEBIAN/md5sums
	chmod 0644 -- debian/.debhelper/python3-mdtraj/dbgsym-root/DEBIAN/md5sums
   dh_builddeb -O--buildsystem=pybuild
	dpkg-deb --root-owner-group --build debian/python3-mdtraj ..
	dpkg-deb --root-owner-group --build debian/.debhelper/python3-mdtraj/dbgsym-root ..
	dpkg-deb --root-owner-group --build debian/python-mdtraj-doc ..
dpkg-deb: building package 'python3-mdtraj' in '../python3-mdtraj_1.10.3-2_amd64.deb'.
dpkg-deb: building package 'python3-mdtraj-dbgsym' in '../python3-mdtraj-dbgsym_1.10.3-2_amd64.deb'.
dpkg-deb: building package 'python-mdtraj-doc' in '../python-mdtraj-doc_1.10.3-2_all.deb'.
 dpkg-genbuildinfo --build=binary -O../mdtraj_1.10.3-2_amd64.buildinfo
 dpkg-genchanges --build=binary -O../mdtraj_1.10.3-2_amd64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
 dpkg-source --after-build .
dpkg-source: info: using options from mdtraj-1.10.3/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: user script /srv/workspace/pbuilder/3255266/tmp/hooks/B01_cleanup starting
I: user script /srv/workspace/pbuilder/3255266/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/3255266 and its subdirectories
I: Current time: Mon Apr 13 15:54:20 +14 2026
I: pbuilder-time-stamp: 1776045260