I: pbuilder: network access will be disabled during build
I: Current time: Tue Dec 30 18:32:35 -12 2025
I: pbuilder-time-stamp: 1767162755
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/experimental-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 [shasta_0.12.0-2.dsc]
I: copying [./shasta_0.12.0.orig.tar.gz]
I: copying [./shasta_0.12.0-2.debian.tar.xz]
I: Extracting source
gpgv: Signature made Wed Nov 27 16:21:00 2024 
gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./shasta_0.12.0-2.dsc: no acceptable signature found
dpkg-source: info: extracting shasta in shasta-0.12.0
dpkg-source: info: unpacking shasta_0.12.0.orig.tar.gz
dpkg-source: info: unpacking shasta_0.12.0-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 0001-Upgrade-to-SeqAn-2.5.0.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/2089941/tmp/hooks/D02_print_environment starting
I: set
  BUILDDIR='/build/reproducible-path'
  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
  BUILDUSERNAME='pbuilder1'
  BUILD_ARCH='amd64'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 '
  DISTRIBUTION='experimental'
  HOME='/root'
  HOST_ARCH='amd64'
  IFS=' 	
  '
  INVOCATION_ID='873906c38fe549b2a85d9583aeb90b63'
  LANG='C'
  LANGUAGE='en_US:en'
  LC_ALL='C'
  MAIL='/var/mail/root'
  OPTIND='1'
  PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
  PBCURRENTCOMMANDLINEOPERATION='build'
  PBUILDER_OPERATION='build'
  PBUILDER_PKGDATADIR='/usr/share/pbuilder'
  PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
  PBUILDER_SYSCONFDIR='/etc'
  PPID='2089941'
  PS1='# '
  PS2='> '
  PS4='+ '
  PWD='/'
  SHELL='/bin/bash'
  SHLVL='2'
  SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.pI5GSyfX/pbuilderrc_xSWw --distribution experimental --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/experimental-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.pI5GSyfX/b1 --logfile b1/build.log shasta_0.12.0-2.dsc'
  SUDO_GID='110'
  SUDO_UID='105'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://213.165.73.152:3128'
I: uname -a
  Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22  2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/2089941/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-python, dh-exec, cmake, patchelf, chrpath, libboost-all-dev, libpng-dev, ncbi-blast+, python3-dev:native, python3-sphinx, libpython3-dev, libseqan2-dev (= 2.5.0~rc3+dfsg-1), libspoa-dev, python3-pybind11, libcpu-features-dev, libcereal-dev, libblas-dev, liblapack-dev, gfortran
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19970 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-python; however:
  Package dh-python is not installed.
 pbuilder-satisfydepends-dummy depends on dh-exec; however:
  Package dh-exec is not installed.
 pbuilder-satisfydepends-dummy depends on cmake; however:
  Package cmake is not installed.
 pbuilder-satisfydepends-dummy depends on patchelf; however:
  Package patchelf is not installed.
 pbuilder-satisfydepends-dummy depends on chrpath; however:
  Package chrpath is not installed.
 pbuilder-satisfydepends-dummy depends on libboost-all-dev; however:
  Package libboost-all-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libpng-dev; however:
  Package libpng-dev is not installed.
 pbuilder-satisfydepends-dummy depends on ncbi-blast+; however:
  Package ncbi-blast+ is not installed.
 pbuilder-satisfydepends-dummy depends on python3-dev:native.
 pbuilder-satisfydepends-dummy depends on python3-sphinx; however:
  Package python3-sphinx is not installed.
 pbuilder-satisfydepends-dummy depends on libpython3-dev; however:
  Package libpython3-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libseqan2-dev (= 2.5.0~rc3+dfsg-1); however:
  Package libseqan2-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libspoa-dev; however:
  Package libspoa-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-pybind11; however:
  Package python3-pybind11 is not installed.
 pbuilder-satisfydepends-dummy depends on libcpu-features-dev; however:
  Package libcpu-features-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libcereal-dev; however:
  Package libcereal-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libblas-dev; however:
  Package libblas-dev is not installed.
 pbuilder-satisfydepends-dummy depends on liblapack-dev; however:
  Package liblapack-dev is not installed.
 pbuilder-satisfydepends-dummy depends on gfortran; however:
  Package gfortran 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} bsdextrautils{a} ca-certificates{a} chrpath{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-x86-64-linux-gnu{a} gfortran-x86-64-linux-gnu{a} groff-base{a} ibverbs-providers{a} icu-devtools{a} intltool-debian{a} libamd-comgr2{a} libamdhip64-5{a} libarchive-zip-perl{a} libarchive13t64{a} libblas-dev{a} libblas3{a} libboost-all-dev{a} libboost-atomic-dev{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-chrono-dev{a} libboost-chrono1.83-dev{a} libboost-chrono1.83.0t64{a} libboost-container-dev{a} libboost-container1.83-dev{a} libboost-container1.83.0{a} libboost-context-dev{a} libboost-context1.83-dev{a} libboost-context1.83.0{a} libboost-coroutine-dev{a} libboost-coroutine1.83-dev{a} libboost-coroutine1.83.0{a} libboost-date-time-dev{a} libboost-date-time1.83-dev{a} libboost-date-time1.83.0{a} libboost-dev{a} libboost-exception-dev{a} libboost-exception1.83-dev{a} libboost-fiber-dev{a} libboost-fiber1.83-dev{a} libboost-fiber1.83.0{a} libboost-filesystem-dev{a} libboost-filesystem1.83-dev{a} libboost-filesystem1.83.0{a} libboost-graph-dev{a} libboost-graph-parallel-dev{a} libboost-graph-parallel1.83-dev{a} libboost-graph-parallel1.83.0{a} libboost-graph1.83-dev{a} libboost-graph1.83.0{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-json-dev{a} libboost-json1.83-dev{a} libboost-json1.83.0{a} libboost-locale-dev{a} libboost-locale1.83-dev{a} libboost-locale1.83.0{a} libboost-log-dev{a} libboost-log1.83-dev{a} libboost-log1.83.0{a} libboost-math-dev{a} libboost-math1.83-dev{a} libboost-math1.83.0{a} libboost-mpi-dev{a} libboost-mpi-python-dev{a} libboost-mpi-python1.83-dev{a} libboost-mpi-python1.83.0{a} libboost-mpi1.83-dev{a} libboost-mpi1.83.0{a} libboost-nowide-dev{a} libboost-nowide1.83-dev{a} libboost-nowide1.83.0{a} libboost-numpy-dev{a} libboost-numpy1.83-dev{a} libboost-numpy1.83.0{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost-random-dev{a} libboost-random1.83-dev{a} libboost-random1.83.0{a} libboost-regex-dev{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-serialization-dev{a} libboost-serialization1.83-dev{a} libboost-serialization1.83.0{a} libboost-stacktrace-dev{a} libboost-stacktrace1.83-dev{a} libboost-stacktrace1.83.0{a} libboost-system-dev{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost-test-dev{a} libboost-test1.83-dev{a} libboost-test1.83.0{a} libboost-thread-dev{a} libboost-thread1.83-dev{a} libboost-thread1.83.0{a} libboost-timer-dev{a} libboost-timer1.83-dev{a} libboost-timer1.83.0{a} libboost-tools-dev{a} libboost-type-erasure-dev{a} libboost-type-erasure1.83-dev{a} libboost-type-erasure1.83.0{a} libboost-url-dev{a} libboost-url1.83-dev{a} libboost-url1.83.0{a} libboost-wave-dev{a} libboost-wave1.83-dev{a} libboost-wave1.83.0{a} libboost1.83-dev{a} libboost1.83-tools-dev{a} libbrotli1{a} libcbor0.10{a} libcereal-dev{a} libcom-err2{a} libcpu-features-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm2{a} libedit2{a} libelf1t64{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libgfortran-14-dev{a} libgfortran5{a} libgssapi-krb5-2{a} libhsa-runtime64-1{a} libhsakmt1{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libicu-dev{a} libicu72{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} libllvm17t64{a} liblmdb0{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmunge2{a} libnghttp2-14{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnsl2{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3t64{a} libpciaccess0{a} libpipeline1{a} libpmix-dev{a} libpmix2t64{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl5t64{a} libpsm-infinipath1{a} libpsm2-2{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libspoa-dev{a} libspoa7.0.0{a} libssh2-1t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libucx0{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} m4{a} man-db{a} media-types{a} mpi-default-bin{a} mpi-default-dev{a} ncbi-blast+{a} ncbi-data{a} netbase{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} patchelf{a} po-debconf{a} procps{a} pybind11-dev{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-dev{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pybind11{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} rapidjson-dev{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  curl javascript-common krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libeigen3-dev libjson-xs-perl libldap-common libmail-sendmail-perl libpaper-utils libpng-tools libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-numpy python3-pil wget xauth 
0 packages upgraded, 307 newly installed, 0 to remove and 0 not upgraded.
Need to get 223 MB of archives. After unpacking 1163 MB will be used.
The following packages have unmet dependencies:
 pbuilder-satisfydepends-dummy : Depends: libseqan2-dev (= 2.5.0~rc3+dfsg-1) but it is not going to be installed
The following actions will resolve these dependencies:

     Install the following packages:                  
1)     libseqan2-dev [2.5.0~rc3+dfsg-1 (experimental)]



The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} chrpath{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} gettext{a} gettext-base{a} gfortran{a} gfortran-14{a} gfortran-14-x86-64-linux-gnu{a} gfortran-x86-64-linux-gnu{a} groff-base{a} ibverbs-providers{a} icu-devtools{a} intltool-debian{a} libamd-comgr2{a} libamdhip64-5{a} libarchive-zip-perl{a} libarchive13t64{a} libblas-dev{a} libblas3{a} libboost-all-dev{a} libboost-atomic-dev{a} libboost-atomic1.83-dev{a} libboost-atomic1.83.0{a} libboost-chrono-dev{a} libboost-chrono1.83-dev{a} libboost-chrono1.83.0t64{a} libboost-container-dev{a} libboost-container1.83-dev{a} libboost-container1.83.0{a} libboost-context-dev{a} libboost-context1.83-dev{a} libboost-context1.83.0{a} libboost-coroutine-dev{a} libboost-coroutine1.83-dev{a} libboost-coroutine1.83.0{a} libboost-date-time-dev{a} libboost-date-time1.83-dev{a} libboost-date-time1.83.0{a} libboost-dev{a} libboost-exception-dev{a} libboost-exception1.83-dev{a} libboost-fiber-dev{a} libboost-fiber1.83-dev{a} libboost-fiber1.83.0{a} libboost-filesystem-dev{a} libboost-filesystem1.83-dev{a} libboost-filesystem1.83.0{a} libboost-graph-dev{a} libboost-graph-parallel-dev{a} libboost-graph-parallel1.83-dev{a} libboost-graph-parallel1.83.0{a} libboost-graph1.83-dev{a} libboost-graph1.83.0{a} libboost-iostreams-dev{a} libboost-iostreams1.83-dev{a} libboost-json-dev{a} libboost-json1.83-dev{a} libboost-json1.83.0{a} libboost-locale-dev{a} libboost-locale1.83-dev{a} libboost-locale1.83.0{a} libboost-log-dev{a} libboost-log1.83-dev{a} libboost-log1.83.0{a} libboost-math-dev{a} libboost-math1.83-dev{a} libboost-math1.83.0{a} libboost-mpi-dev{a} libboost-mpi-python-dev{a} libboost-mpi-python1.83-dev{a} libboost-mpi-python1.83.0{a} libboost-mpi1.83-dev{a} libboost-mpi1.83.0{a} libboost-nowide-dev{a} libboost-nowide1.83-dev{a} libboost-nowide1.83.0{a} libboost-numpy-dev{a} libboost-numpy1.83-dev{a} libboost-numpy1.83.0{a} libboost-program-options-dev{a} libboost-program-options1.83-dev{a} libboost-program-options1.83.0{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost-random-dev{a} libboost-random1.83-dev{a} libboost-random1.83.0{a} libboost-regex-dev{a} libboost-regex1.83-dev{a} libboost-regex1.83.0{a} libboost-serialization-dev{a} libboost-serialization1.83-dev{a} libboost-serialization1.83.0{a} libboost-stacktrace-dev{a} libboost-stacktrace1.83-dev{a} libboost-stacktrace1.83.0{a} libboost-system-dev{a} libboost-system1.83-dev{a} libboost-system1.83.0{a} libboost-test-dev{a} libboost-test1.83-dev{a} libboost-test1.83.0{a} libboost-thread-dev{a} libboost-thread1.83-dev{a} libboost-thread1.83.0{a} libboost-timer-dev{a} libboost-timer1.83-dev{a} libboost-timer1.83.0{a} libboost-tools-dev{a} libboost-type-erasure-dev{a} libboost-type-erasure1.83-dev{a} libboost-type-erasure1.83.0{a} libboost-url-dev{a} libboost-url1.83-dev{a} libboost-url1.83.0{a} libboost-wave-dev{a} libboost-wave1.83-dev{a} libboost-wave1.83.0{a} libboost1.83-dev{a} libboost1.83-tools-dev{a} libbrotli1{a} libcbor0.10{a} libcereal-dev{a} libcom-err2{a} libcpu-features-dev{a} libcurl4t64{a} libdebhelper-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm2{a} libedit2{a} libelf1t64{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libexpat1-dev{a} libfabric1{a} libfido2-1{a} libfile-stripnondeterminism-perl{a} libgfortran-14-dev{a} libgfortran5{a} libgssapi-krb5-2{a} libhsa-runtime64-1{a} libhsakmt1{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libicu-dev{a} libicu72{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} libllvm17t64{a} liblmdb0{a} libltdl-dev{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmunge2{a} libnghttp2-14{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnsl2{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi3t64{a} libpciaccess0{a} libpipeline1{a} libpmix-dev{a} libpmix2t64{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl5t64{a} libpsm-infinipath1{a} libpsm2-2{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libseqan2-dev{a} libspoa-dev{a} libspoa7.0.0{a} libssh2-1t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libucx0{a} libuv1t64{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxnvctrl0{a} libz3-4{a} m4{a} man-db{a} media-types{a} mpi-default-bin{a} mpi-default-dev{a} ncbi-blast+{a} ncbi-data{a} netbase{a} ocl-icd-libopencl1{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} patchelf{a} po-debconf{a} procps{a} pybind11-dev{a} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-dev{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pybind11{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} rapidjson-dev{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  curl javascript-common krb5-locales libarchive-cpio-perl libcoarrays-openmpi-dev libeigen3-dev libjson-xs-perl libldap-common libmail-sendmail-perl libpaper-utils libpng-tools libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-numpy python3-pil wget xauth 
0 packages upgraded, 308 newly installed, 0 to remove and 0 not upgraded.
Need to get 225 MB of archives. After unpacking 1176 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB]
Get: 2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB]
Get: 3 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB]
Get: 4 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB]
Get: 5 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB]
Get: 8 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB]
Get: 9 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB]
Get: 10 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB]
Get: 11 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B]
Get: 12 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB]
Get: 13 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB]
Get: 14 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get: 15 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB]
Get: 16 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB]
Get: 17 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB]
Get: 18 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB]
Get: 19 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB]
Get: 20 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-3 [671 kB]
Get: 21 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B]
Get: 22 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB]
Get: 23 http://deb.debian.org/debian unstable/main amd64 sgml-base all 1.31 [15.4 kB]
Get: 24 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB]
Get: 25 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-6 [879 kB]
Get: 26 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB]
Get: 27 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.3.2-2 [1382 kB]
Get: 28 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB]
Get: 29 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB]
Get: 30 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB]
Get: 31 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB]
Get: 32 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB]
Get: 33 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB]
Get: 34 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB]
Get: 35 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB]
Get: 36 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB]
Get: 37 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB]
Get: 38 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB]
Get: 39 http://deb.debian.org/debian unstable/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB]
Get: 40 http://deb.debian.org/debian unstable/main amd64 libfido2-1 amd64 1.15.0-1+b1 [78.7 kB]
Get: 41 http://deb.debian.org/debian unstable/main amd64 openssh-client amd64 1:9.9p1-3 [991 kB]
Get: 42 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB]
Get: 43 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB]
Get: 44 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get: 45 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB]
Get: 46 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB]
Get: 47 http://deb.debian.org/debian unstable/main amd64 chrpath amd64 0.18-1 [13.5 kB]
Get: 48 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.1-1 [2267 kB]
Get: 49 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB]
Get: 50 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB]
Get: 51 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB]
Get: 52 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB]
Get: 53 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB]
Get: 54 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB]
Get: 55 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB]
Get: 56 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB]
Get: 57 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB]
Get: 58 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB]
Get: 59 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB]
Get: 60 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB]
Get: 61 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB]
Get: 62 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.5-1 [132 kB]
Get: 63 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-7 [148 kB]
Get: 64 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.1-1 [11.9 MB]
Get: 65 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB]
Get: 66 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB]
Get: 67 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB]
Get: 68 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 69 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 70 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 71 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB]
Get: 72 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB]
Get: 73 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB]
Get: 74 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 75 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 76 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB]
Get: 77 http://deb.debian.org/debian unstable/main amd64 dh-exec amd64 0.30 [25.6 kB]
Get: 78 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 79 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB]
Get: 80 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 81 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 82 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 83 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 84 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 85 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB]
Get: 86 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 87 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 88 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB]
Get: 89 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB]
Get: 90 http://deb.debian.org/debian unstable/main amd64 xml-core all 0.19 [20.1 kB]
Get: 91 http://deb.debian.org/debian unstable/main amd64 docutils-common all 0.21.2+dfsg-2 [128 kB]
Get: 92 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB]
Get: 93 http://deb.debian.org/debian unstable/main amd64 libgfortran-14-dev amd64 14.2.0-8 [878 kB]
Get: 94 http://deb.debian.org/debian unstable/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-8 [11.7 MB]
Get: 95 http://deb.debian.org/debian unstable/main amd64 gfortran-14 amd64 14.2.0-8 [12.2 kB]
Get: 96 http://deb.debian.org/debian unstable/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1 [1284 B]
Get: 97 http://deb.debian.org/debian unstable/main amd64 gfortran amd64 4:14.2.0-1 [1436 B]
Get: 98 http://deb.debian.org/debian unstable/main amd64 libnl-3-200 amd64 3.7.0-0.3+b1 [59.4 kB]
Get: 99 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-200 amd64 3.7.0-0.3+b1 [182 kB]
Get: 100 http://deb.debian.org/debian unstable/main amd64 libibverbs1 amd64 52.0-2+b1 [62.2 kB]
Get: 101 http://deb.debian.org/debian unstable/main amd64 ibverbs-providers amd64 52.0-2+b1 [343 kB]
Get: 102 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 72.1-5+b1 [210 kB]
Get: 103 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB]
Get: 104 http://deb.debian.org/debian unstable/main amd64 libllvm17t64 amd64 1:17.0.6-18 [23.6 MB]
Get: 105 http://deb.debian.org/debian unstable/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB]
Get: 106 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.123-1 [8084 B]
Get: 107 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB]
Get: 108 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB]
Get: 109 http://deb.debian.org/debian unstable/main amd64 libnuma1 amd64 2.0.18-1+b1 [22.3 kB]
Get: 110 http://deb.debian.org/debian unstable/main amd64 libhsakmt1 amd64 6.1.2+ds-1 [59.8 kB]
Get: 111 http://deb.debian.org/debian unstable/main amd64 libhsa-runtime64-1 amd64 6.1.2-2 [535 kB]
Get: 112 http://deb.debian.org/debian unstable/main amd64 libamdhip64-5 amd64 5.7.1-5 [8877 kB]
Get: 113 http://deb.debian.org/debian unstable/main amd64 libblas3 amd64 3.12.0-4 [152 kB]
Get: 114 http://deb.debian.org/debian unstable/main amd64 libblas-dev amd64 3.12.0-4 [161 kB]
Get: 115 http://deb.debian.org/debian unstable/main amd64 libboost1.83-dev amd64 1.83.0-3.2+b1 [10.6 MB]
Get: 116 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.83.0 amd64 1.83.0-3.2+b1 [234 kB]
Get: 117 http://deb.debian.org/debian unstable/main amd64 libboost-atomic1.83-dev amd64 1.83.0-3.2+b1 [235 kB]
Get: 118 http://deb.debian.org/debian unstable/main amd64 libboost-atomic-dev amd64 1.83.0.2+b2 [3904 B]
Get: 119 http://deb.debian.org/debian unstable/main amd64 libboost-chrono1.83.0t64 amd64 1.83.0-3.2+b1 [240 kB]
Get: 120 http://deb.debian.org/debian unstable/main amd64 libboost-chrono1.83-dev amd64 1.83.0-3.2+b1 [246 kB]
Get: 121 http://deb.debian.org/debian unstable/main amd64 libboost-chrono-dev amd64 1.83.0.2+b2 [4224 B]
Get: 122 http://deb.debian.org/debian unstable/main amd64 libboost-container1.83.0 amd64 1.83.0-3.2+b1 [259 kB]
Get: 123 http://deb.debian.org/debian unstable/main amd64 libboost-container1.83-dev amd64 1.83.0-3.2+b1 [264 kB]
Get: 124 http://deb.debian.org/debian unstable/main amd64 libboost-container-dev amd64 1.83.0.2+b2 [4072 B]
Get: 125 http://deb.debian.org/debian unstable/main amd64 libboost-date-time1.83.0 amd64 1.83.0-3.2+b1 [230 kB]
Get: 126 http://deb.debian.org/debian unstable/main amd64 libboost-serialization1.83.0 amd64 1.83.0-3.2+b1 [334 kB]
Get: 127 http://deb.debian.org/debian unstable/main amd64 libboost-serialization1.83-dev amd64 1.83.0-3.2+b1 [373 kB]
Get: 128 http://deb.debian.org/debian unstable/main amd64 libboost-date-time1.83-dev amd64 1.83.0-3.2+b1 [239 kB]
Get: 129 http://deb.debian.org/debian unstable/main amd64 libboost-system1.83.0 amd64 1.83.0-3.2+b1 [230 kB]
Get: 130 http://deb.debian.org/debian unstable/main amd64 libboost-system1.83-dev amd64 1.83.0-3.2+b1 [232 kB]
Get: 131 http://deb.debian.org/debian unstable/main amd64 libboost-thread1.83.0 amd64 1.83.0-3.2+b1 [269 kB]
Get: 132 http://deb.debian.org/debian unstable/main amd64 libboost-thread1.83-dev amd64 1.83.0-3.2+b1 [277 kB]
Get: 133 http://deb.debian.org/debian unstable/main amd64 libboost-context1.83.0 amd64 1.83.0-3.2+b1 [231 kB]
Get: 134 http://deb.debian.org/debian unstable/main amd64 libboost-context1.83-dev amd64 1.83.0-3.2+b1 [233 kB]
Get: 135 http://deb.debian.org/debian unstable/main amd64 libboost-context-dev amd64 1.83.0.2+b2 [3804 B]
Get: 136 http://deb.debian.org/debian unstable/main amd64 libboost-coroutine1.83.0 amd64 1.83.0-3.2+b1 [234 kB]
Get: 137 http://deb.debian.org/debian unstable/main amd64 libboost-coroutine1.83-dev amd64 1.83.0-3.2+b1 [236 kB]
Get: 138 http://deb.debian.org/debian unstable/main amd64 libboost-coroutine-dev amd64 1.83.0.2+b2 [3868 B]
Get: 139 http://deb.debian.org/debian unstable/main amd64 libboost-date-time-dev amd64 1.83.0.2+b2 [3596 B]
Get: 140 http://deb.debian.org/debian unstable/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B]
Get: 141 http://deb.debian.org/debian unstable/main amd64 libboost-exception1.83-dev amd64 1.83.0-3.2+b1 [230 kB]
Get: 142 http://deb.debian.org/debian unstable/main amd64 libboost-exception-dev amd64 1.83.0.2+b2 [3584 B]
Get: 143 http://deb.debian.org/debian unstable/main amd64 libboost-filesystem1.83.0 amd64 1.83.0-3.2+b1 [282 kB]
Get: 144 http://deb.debian.org/debian unstable/main amd64 libboost-filesystem1.83-dev amd64 1.83.0-3.2+b1 [298 kB]
Get: 145 http://deb.debian.org/debian unstable/main amd64 libboost-fiber1.83.0 amd64 1.83.0-3.2+b1 [254 kB]
Get: 146 http://deb.debian.org/debian unstable/main amd64 libboost-fiber1.83-dev amd64 1.83.0-3.2+b1 [265 kB]
Get: 147 http://deb.debian.org/debian unstable/main amd64 libboost-fiber-dev amd64 1.83.0.2+b2 [4028 B]
Get: 148 http://deb.debian.org/debian unstable/main amd64 libboost-filesystem-dev amd64 1.83.0.2+b2 [3628 B]
Get: 149 http://deb.debian.org/debian unstable/main amd64 libboost-graph1.83.0 amd64 1.83.0-3.2+b1 [359 kB]
Get: 150 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83.0 amd64 1.83.0-3.2+b1 [330 kB]
Get: 151 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 72.1-5+b1 [10.4 MB]
Get: 152 http://deb.debian.org/debian unstable/main amd64 libboost-regex1.83-dev amd64 1.83.0-3.2+b1 [346 kB]
Get: 153 http://deb.debian.org/debian unstable/main amd64 libboost-test1.83.0 amd64 1.83.0-3.2+b1 [471 kB]
Get: 154 http://deb.debian.org/debian unstable/main amd64 libboost-test1.83-dev amd64 1.83.0-3.2+b1 [541 kB]
Get: 155 http://deb.debian.org/debian unstable/main amd64 libboost-graph1.83-dev amd64 1.83.0-3.2+b1 [383 kB]
Get: 156 http://deb.debian.org/debian unstable/main amd64 libboost-graph-dev amd64 1.83.0.2+b2 [3700 B]
Get: 157 http://deb.debian.org/debian unstable/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB]
Get: 158 http://deb.debian.org/debian unstable/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB]
Get: 159 http://deb.debian.org/debian unstable/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6.3 [170 kB]
Get: 160 http://deb.debian.org/debian unstable/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB]
Get: 161 http://deb.debian.org/debian unstable/main amd64 librdmacm1t64 amd64 52.0-2+b1 [70.4 kB]
Get: 162 http://deb.debian.org/debian unstable/main amd64 libfabric1 amd64 1.17.0-3.1 [631 kB]
Get: 163 http://deb.debian.org/debian unstable/main amd64 libhwloc15 amd64 2.11.2-1 [164 kB]
Get: 164 http://deb.debian.org/debian unstable/main amd64 libmunge2 amd64 0.5.15-4+b1 [20.0 kB]
Get: 165 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b2 [51.9 kB]
Get: 166 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB]
Get: 167 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB]
Get: 168 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB]
Get: 169 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 170 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB]
Get: 171 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB]
Get: 172 http://deb.debian.org/debian unstable/main amd64 libxnvctrl0 amd64 535.171.04-1+b1 [14.2 kB]
Get: 173 http://deb.debian.org/debian unstable/main amd64 ocl-icd-libopencl1 amd64 2.3.2-1+b2 [40.2 kB]
Get: 174 http://deb.debian.org/debian unstable/main amd64 libhwloc-plugins amd64 2.11.2-1 [18.1 kB]
Get: 175 http://deb.debian.org/debian unstable/main amd64 libpmix2t64 amd64 5.0.4-1 [661 kB]
Get: 176 http://deb.debian.org/debian unstable/main amd64 libibumad3 amd64 52.0-2+b1 [28.2 kB]
Get: 177 http://deb.debian.org/debian unstable/main amd64 libibmad5 amd64 52.0-2+b1 [43.4 kB]
Get: 178 http://deb.debian.org/debian unstable/main amd64 libucx0 amd64 1.17.0+ds-3 [1130 kB]
Get: 179 http://deb.debian.org/debian unstable/main amd64 libopenmpi3t64 amd64 5.0.5-6 [2006 kB]
Get: 180 http://deb.debian.org/debian unstable/main amd64 libboost-mpi1.83.0 amd64 1.83.0-3.2+b1 [271 kB]
Get: 181 http://deb.debian.org/debian unstable/main amd64 libboost-graph-parallel1.83.0 amd64 1.83.0-3.2+b1 [280 kB]
Get: 182 http://deb.debian.org/debian unstable/main amd64 libboost-graph-parallel1.83-dev amd64 1.83.0-3.2+b1 [284 kB]
Get: 183 http://deb.debian.org/debian unstable/main amd64 libboost-graph-parallel-dev amd64 1.83.0.2+b2 [3728 B]
Get: 184 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams1.83-dev amd64 1.83.0-3.2+b1 [261 kB]
Get: 185 http://deb.debian.org/debian unstable/main amd64 libboost-iostreams-dev amd64 1.83.0.2+b2 [3580 B]
Get: 186 http://deb.debian.org/debian unstable/main amd64 libboost-json1.83.0 amd64 1.83.0-3.2+b1 [357 kB]
Get: 187 http://deb.debian.org/debian unstable/main amd64 libboost-json1.83-dev amd64 1.83.0-3.2+b1 [374 kB]
Get: 188 http://deb.debian.org/debian unstable/main amd64 libboost-json-dev amd64 1.83.0.2+b2 [3704 B]
Get: 189 http://deb.debian.org/debian unstable/main amd64 libboost-locale1.83.0 amd64 1.83.0-3.2+b1 [473 kB]
Get: 190 http://deb.debian.org/debian unstable/main amd64 libboost-locale1.83-dev amd64 1.83.0-3.2+b1 [555 kB]
Get: 191 http://deb.debian.org/debian unstable/main amd64 libboost-locale-dev amd64 1.83.0.2+b2 [3924 B]
Get: 192 http://deb.debian.org/debian unstable/main amd64 libboost-log1.83.0 amd64 1.83.0-3.2+b1 [709 kB]
Get: 193 http://deb.debian.org/debian unstable/main amd64 libboost-log1.83-dev amd64 1.83.0-3.2+b1 [879 kB]
Get: 194 http://deb.debian.org/debian unstable/main amd64 libboost-log-dev amd64 1.83.0.2+b2 [3796 B]
Get: 195 http://deb.debian.org/debian unstable/main amd64 libboost-math1.83.0 amd64 1.83.0-3.2+b1 [524 kB]
Get: 196 http://deb.debian.org/debian unstable/main amd64 libboost-math1.83-dev amd64 1.83.0-3.2+b1 [571 kB]
Get: 197 http://deb.debian.org/debian unstable/main amd64 libboost-math-dev amd64 1.83.0.2+b2 [3796 B]
Get: 198 http://deb.debian.org/debian unstable/main amd64 openmpi-common all 5.0.5-6 [95.0 kB]
Get: 199 http://deb.debian.org/debian unstable/main amd64 libnl-3-dev amd64 3.7.0-0.3+b1 [100 kB]
Get: 200 http://deb.debian.org/debian unstable/main amd64 libnl-route-3-dev amd64 3.7.0-0.3+b1 [200 kB]
Get: 201 http://deb.debian.org/debian unstable/main amd64 libibverbs-dev amd64 52.0-2+b1 [636 kB]
Get: 202 http://deb.debian.org/debian unstable/main amd64 libnuma-dev amd64 2.0.18-1+b1 [36.6 kB]
Get: 203 http://deb.debian.org/debian unstable/main amd64 libltdl7 amd64 2.4.7-8 [393 kB]
Get: 204 http://deb.debian.org/debian unstable/main amd64 libltdl-dev amd64 2.4.7-8 [165 kB]
Get: 205 http://deb.debian.org/debian unstable/main amd64 libhwloc-dev amd64 2.11.2-1 [254 kB]
Get: 206 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB]
Get: 207 http://deb.debian.org/debian unstable/main amd64 libevent-extra-2.1-7t64 amd64 2.1.12-stable-10+b1 [108 kB]
Get: 208 http://deb.debian.org/debian unstable/main amd64 libevent-openssl-2.1-7t64 amd64 2.1.12-stable-10+b1 [61.1 kB]
Get: 209 http://deb.debian.org/debian unstable/main amd64 libevent-dev amd64 2.1.12-stable-10+b1 [305 kB]
Get: 210 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB]
Get: 211 http://deb.debian.org/debian unstable/main amd64 python3-defusedxml all 0.7.1-2 [43.3 kB]
Get: 212 http://deb.debian.org/debian unstable/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 213 http://deb.debian.org/debian unstable/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 214 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 7.4.7-4 [158 kB]
Get: 215 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB]
Get: 216 http://deb.debian.org/debian unstable/main amd64 sphinx-common all 7.4.7-4 [731 kB]
Get: 217 http://deb.debian.org/debian unstable/main amd64 python3-alabaster all 0.7.16-0.1 [27.9 kB]
Get: 218 http://deb.debian.org/debian unstable/main amd64 python-babel-localedata all 2.16.0-1 [5696 kB]
Get: 219 http://deb.debian.org/debian unstable/main amd64 python3-babel all 2.16.0-1 [114 kB]
Get: 220 http://deb.debian.org/debian unstable/main amd64 python3-roman all 4.2-1 [10.4 kB]
Get: 221 http://deb.debian.org/debian unstable/main amd64 python3-docutils all 0.21.2+dfsg-2 [403 kB]
Get: 222 http://deb.debian.org/debian unstable/main amd64 python3-imagesize all 1.4.1-1 [6688 B]
Get: 223 http://deb.debian.org/debian unstable/main amd64 python3-markupsafe amd64 2.1.5-1+b2 [13.9 kB]
Get: 224 http://deb.debian.org/debian unstable/main amd64 python3-jinja2 all 3.1.3-1 [119 kB]
Get: 225 http://deb.debian.org/debian unstable/main amd64 python3-packaging all 24.2-1 [55.3 kB]
Get: 226 http://deb.debian.org/debian unstable/main amd64 python3-pygments all 2.18.0+dfsg-1 [836 kB]
Get: 227 http://deb.debian.org/debian unstable/main amd64 python3-certifi all 2024.8.30+dfsg-1 [9576 B]
Get: 228 http://deb.debian.org/debian unstable/main amd64 python3-charset-normalizer amd64 3.4.0-1+b1 [140 kB]
Get: 229 http://deb.debian.org/debian unstable/main amd64 python3-idna all 3.8-2 [41.6 kB]
Get: 230 http://deb.debian.org/debian unstable/main amd64 python3-urllib3 all 2.0.7-2 [111 kB]
Get: 231 http://deb.debian.org/debian unstable/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB]
Get: 232 http://deb.debian.org/debian unstable/main amd64 python3-requests all 2.32.3+dfsg-1 [71.9 kB]
Get: 233 http://deb.debian.org/debian unstable/main amd64 python3-snowballstemmer all 2.2.0-4 [58.0 kB]
Get: 234 http://deb.debian.org/debian unstable/main amd64 python3-sphinx all 7.4.7-4 [588 kB]
Get: 235 http://deb.debian.org/debian unstable/main amd64 libpmix-dev amd64 5.0.4-1 [3972 kB]
Get: 236 http://deb.debian.org/debian unstable/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB]
Get: 237 http://deb.debian.org/debian unstable/main amd64 openmpi-bin amd64 5.0.5-6 [188 kB]
Get: 238 http://deb.debian.org/debian unstable/main amd64 libopenmpi-dev amd64 5.0.5-6 [1087 kB]
Get: 239 http://deb.debian.org/debian unstable/main amd64 mpi-default-dev amd64 1.17 [3148 B]
Get: 240 http://deb.debian.org/debian unstable/main amd64 libboost-mpi1.83-dev amd64 1.83.0-3.2+b1 [290 kB]
Get: 241 http://deb.debian.org/debian unstable/main amd64 libboost-mpi-dev amd64 1.83.0.2+b2 [3680 B]
Get: 242 http://deb.debian.org/debian unstable/main amd64 libboost-python1.83.0 amd64 1.83.0-3.2+b1 [320 kB]
Get: 243 http://deb.debian.org/debian unstable/main amd64 mpi-default-bin amd64 1.17 [2372 B]
Get: 244 http://deb.debian.org/debian unstable/main amd64 libboost-mpi-python1.83.0 amd64 1.83.0-3.2+b1 [358 kB]
Get: 245 http://deb.debian.org/debian unstable/main amd64 libboost-mpi-python1.83-dev amd64 1.83.0-3.2+b1 [237 kB]
Get: 246 http://deb.debian.org/debian unstable/main amd64 libboost-mpi-python-dev amd64 1.83.0.2+b2 [3712 B]
Get: 247 http://deb.debian.org/debian unstable/main amd64 libboost-nowide1.83.0 amd64 1.83.0-3.2+b1 [234 kB]
Get: 248 http://deb.debian.org/debian unstable/main amd64 libboost-nowide1.83-dev amd64 1.83.0-3.2+b1 [236 kB]
Get: 249 http://deb.debian.org/debian unstable/main amd64 libboost-nowide-dev amd64 1.83.0.2+b2 [3668 B]
Get: 250 http://deb.debian.org/debian unstable/main amd64 libboost-numpy1.83.0 amd64 1.83.0-3.2+b1 [242 kB]
Get: 251 http://deb.debian.org/debian unstable/main amd64 libboost-numpy1.83-dev amd64 1.83.0-3.2+b1 [246 kB]
Get: 252 http://deb.debian.org/debian unstable/main amd64 libboost-numpy-dev amd64 1.83.0.2+b2 [3644 B]
Get: 253 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.83.0 amd64 1.83.0-3.2+b1 [347 kB]
Get: 254 http://deb.debian.org/debian unstable/main amd64 libboost-program-options1.83-dev amd64 1.83.0-3.2+b1 [376 kB]
Get: 255 http://deb.debian.org/debian unstable/main amd64 libboost-program-options-dev amd64 1.83.0.2+b2 [3612 B]
Get: 256 http://deb.debian.org/debian unstable/main amd64 libpython3.12t64 amd64 3.12.7-3 [2153 kB]
Get: 257 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.6.4-1 [158 kB]
Get: 258 http://deb.debian.org/debian unstable/main amd64 libpython3.12-dev amd64 3.12.7-3 [5124 kB]
Get: 259 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.12.7-1 [9976 B]
Get: 260 http://deb.debian.org/debian unstable/main amd64 python3.12-dev amd64 3.12.7-3 [505 kB]
Get: 261 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.12.7-1 [26.1 kB]
Get: 262 http://deb.debian.org/debian unstable/main amd64 libboost-python1.83-dev amd64 1.83.0-3.2+b1 [328 kB]
Get: 263 http://deb.debian.org/debian unstable/main amd64 libboost-python-dev amd64 1.83.0.2+b2 [3892 B]
Get: 264 http://deb.debian.org/debian unstable/main amd64 libboost-random1.83.0 amd64 1.83.0-3.2+b1 [238 kB]
Get: 265 http://deb.debian.org/debian unstable/main amd64 libboost-random1.83-dev amd64 1.83.0-3.2+b1 [241 kB]
Get: 266 http://deb.debian.org/debian unstable/main amd64 libboost-random-dev amd64 1.83.0.2+b2 [3592 B]
Get: 267 http://deb.debian.org/debian unstable/main amd64 libboost-regex-dev amd64 1.83.0.2+b2 [3864 B]
Get: 268 http://deb.debian.org/debian unstable/main amd64 libboost-serialization-dev amd64 1.83.0.2+b2 [3832 B]
Get: 269 http://deb.debian.org/debian unstable/main amd64 libboost-stacktrace1.83.0 amd64 1.83.0-3.2+b1 [283 kB]
Get: 270 http://deb.debian.org/debian unstable/main amd64 libboost-stacktrace1.83-dev amd64 1.83.0-3.2+b1 [245 kB]
Get: 271 http://deb.debian.org/debian unstable/main amd64 libboost-stacktrace-dev amd64 1.83.0.2+b2 [3592 B]
Get: 272 http://deb.debian.org/debian unstable/main amd64 libboost-system-dev amd64 1.83.0.2+b2 [3736 B]
Get: 273 http://deb.debian.org/debian unstable/main amd64 libboost-test-dev amd64 1.83.0.2+b2 [3628 B]
Get: 274 http://deb.debian.org/debian unstable/main amd64 libboost-thread-dev amd64 1.83.0.2+b2 [3624 B]
Get: 275 http://deb.debian.org/debian unstable/main amd64 libboost-timer1.83.0 amd64 1.83.0-3.2+b1 [235 kB]
Get: 276 http://deb.debian.org/debian unstable/main amd64 libboost-timer1.83-dev amd64 1.83.0-3.2+b1 [237 kB]
Get: 277 http://deb.debian.org/debian unstable/main amd64 libboost-timer-dev amd64 1.83.0.2+b2 [3716 B]
Get: 278 http://deb.debian.org/debian unstable/main amd64 libboost1.83-tools-dev amd64 1.83.0-3.2+b1 [1529 kB]
Get: 279 http://deb.debian.org/debian unstable/main amd64 libboost-tools-dev amd64 1.83.0.2+b2 [3768 B]
Get: 280 http://deb.debian.org/debian unstable/main amd64 libboost-type-erasure1.83.0 amd64 1.83.0-3.2+b1 [245 kB]
Get: 281 http://deb.debian.org/debian unstable/main amd64 libboost-type-erasure1.83-dev amd64 1.83.0-3.2+b1 [249 kB]
Get: 282 http://deb.debian.org/debian unstable/main amd64 libboost-type-erasure-dev amd64 1.83.0.2+b2 [3688 B]
Get: 283 http://deb.debian.org/debian unstable/main amd64 libboost-url1.83.0 amd64 1.83.0-3.2+b1 [336 kB]
Get: 284 http://deb.debian.org/debian unstable/main amd64 libboost-url1.83-dev amd64 1.83.0-3.2+b1 [421 kB]
Get: 285 http://deb.debian.org/debian unstable/main amd64 libboost-url-dev amd64 1.83.0.2+b2 [3732 B]
Get: 286 http://deb.debian.org/debian unstable/main amd64 libboost-wave1.83.0 amd64 1.83.0-3.2+b1 [437 kB]
Get: 287 http://deb.debian.org/debian unstable/main amd64 libboost-wave1.83-dev amd64 1.83.0-3.2+b1 [486 kB]
Get: 288 http://deb.debian.org/debian unstable/main amd64 libboost-wave-dev amd64 1.83.0.2+b2 [3624 B]
Get: 289 http://deb.debian.org/debian unstable/main amd64 libboost-all-dev amd64 1.83.0.2+b2 [3936 B]
Get: 290 http://deb.debian.org/debian unstable/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB]
Get: 291 http://deb.debian.org/debian unstable/main amd64 libcereal-dev amd64 1.3.2+dfsg-5 [221 kB]
Get: 292 http://deb.debian.org/debian unstable/main amd64 libcpu-features-dev amd64 0.9.0-1+b1 [22.0 kB]
Get: 293 http://deb.debian.org/debian unstable/main amd64 liblapack3 amd64 3.12.0-4 [2450 kB]
Get: 294 http://deb.debian.org/debian unstable/main amd64 liblapack-dev amd64 3.12.0-4 [4991 kB]
Get: 295 http://deb.debian.org/debian unstable/main amd64 liblmdb0 amd64 0.9.31-1+b2 [45.2 kB]
Get: 296 http://deb.debian.org/debian unstable/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB]
Get: 297 http://deb.debian.org/debian unstable/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB]
Get: 298 http://deb.debian.org/debian unstable/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB]
Get: 299 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB]
Get: 300 http://deb.debian.org/debian unstable/main amd64 libpng-dev amd64 1.6.44-2 [366 kB]
Get: 301 http://deb.debian.org/debian experimental/main amd64 libseqan2-dev all 2.5.0~rc3+dfsg-1 [1222 kB]
Get: 302 http://deb.debian.org/debian unstable/main amd64 libspoa7.0.0 amd64 4.1.4-2+b1 [74.1 kB]
Get: 303 http://deb.debian.org/debian unstable/main amd64 libspoa-dev amd64 4.1.4-2+b1 [9808 B]
Get: 304 http://deb.debian.org/debian unstable/main amd64 ncbi-data all 6.1.20170106+dfsg2-5 [3537 kB]
Get: 305 http://deb.debian.org/debian unstable/main amd64 ncbi-blast+ amd64 2.16.0+ds-6+b1 [15.2 MB]
Get: 306 http://deb.debian.org/debian unstable/main amd64 patchelf amd64 0.18.0-1.1 [97.1 kB]
Get: 307 http://deb.debian.org/debian unstable/main amd64 pybind11-dev all 2.13.6-1 [204 kB]
Get: 308 http://deb.debian.org/debian unstable/main amd64 python3-pybind11 all 2.13.6-1 [215 kB]
Fetched 225 MB in 12s (18.6 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
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Setting up libpython3.12-minimal:amd64 (3.12.7-3) ...
Setting up libexpat1:amd64 (2.6.4-1) ...
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Setting up python-babel-localedata (2.16.0-1) ...
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Setting up tzdata (2024b-3) ...

Current default time zone: 'Etc/UTC'
Local time is now:      Wed Dec 31 06:34:05 UTC 2025.
Universal Time is now:  Wed Dec 31 06:34:05 UTC 2025.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

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Setting up libmunge2:amd64 (0.5.15-4+b1) ...
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Setting up libjsoncpp26:amd64 (1.9.6-3) ...
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Setting up libboost-fiber1.83.0:amd64 (1.83.0-3.2+b1) ...
Setting up libboost-atomic1.83-dev:amd64 (1.83.0-3.2+b1) ...
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Not building database; man-db/auto-update is not 'true'.
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update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist
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0 added, 0 removed; done.
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done.
Reading package lists...
Building dependency tree...
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 -> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/shasta-0.12.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S  > ../shasta_0.12.0-2_source.changes
dpkg-buildpackage: info: source package shasta
dpkg-buildpackage: info: source version 0.12.0-2
dpkg-buildpackage: info: source distribution experimental
dpkg-buildpackage: info: source changed by Enrico Seiler <enrico.seiler.debian@outlook.com>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
 debian/rules clean
dh clean --with python3,sphinxdoc
   dh_clean
 debian/rules binary
dh binary --with python3,sphinxdoc
   dh_update_autotools_config
   dh_autoreconf
   debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/shasta-0.12.0'
dh_auto_configure -- -DBUILD_ID=0.12.0 \
			-DBUILD_STATIC_EXECUTABLE=OFF \
			-DBUILD_DYNAMIC_EXECUTABLE=ON
	cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_ID=0.12.0 -DBUILD_STATIC_EXECUTABLE=OFF -DBUILD_DYNAMIC_EXECUTABLE=ON ..
-- The C compiler identification is GNU 14.2.0
-- The CXX compiler identification is GNU 14.2.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Processor architecture is x86_64
-- CMAKE_SYSTEM_NAME is Linux
-- BUILD_STATIC_LIBRARY is ON
-- BUILD_STATIC_EXECUTABLE is OFF
-- BUILD_DYNAMIC_LIBRARY is ON
-- BUILD_DYNAMIC_EXECUTABLE is ON
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-- BUILD_ID is: 0.12.0
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CMake Warning:
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cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlignments.cpp
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cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlignmentCandidates.cpp
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cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlignmentGraph.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Alignment.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Assembler.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Assembler.cpp
[ 14%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o
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[ 16%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o
[ 16%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Align4.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Align4.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssembledSegment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssembledSegment.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignments.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignments.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAlignments.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlignments.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssembledSegment.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Assembler.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAnalyzePaths.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlign.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp
[ 16%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o
[ 17%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o
[ 17%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph2.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlign3.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAlign4.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph2.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerCompressedAssemblyGraph.cpp
[ 18%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o
[ 18%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerDetangle.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerCompressedAssemblyGraph.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-Alignments.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-AssemblyGraph.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp
[ 18%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-MarkerGraph0.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-MarkerGraph1.cpp
[ 19%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-ReadGraph.cpp
[ 20%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerDetangle.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerDetangle.cpp
In file included from /usr/include/c++/14/bits/char_traits.h:57,
                 from /usr/include/c++/14/string:42,
                 from /build/reproducible-path/shasta-0.12.0/src/string.hpp:4,
                 from /build/reproducible-path/shasta-0.12.0/src/PngImage.hpp:6,
                 from /build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:2:
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {pair<shasta::AlignmentGraphVertex, long unsigned int>}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/vector.tcc:117:30,
    inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/stl_vector.h:1301:21,
    inlined from ‘shasta::CompactUndirectedGraph<Vertex, Edge>::vertex_descriptor shasta::CompactUndirectedGraph<Vertex, Edge>::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.12.0/src/CompactUndirectedGraph.hpp:500:26,
    inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:239:34:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘vertex.shasta::AlignmentGraphVertex::distance’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’:
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::distance’ was declared here
  231 |                         AlignmentGraphVertex vertex;
      |                                              ^~~~~~
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {pair<shasta::AlignmentGraphVertex, long unsigned int>}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/vector.tcc:117:30,
    inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/stl_vector.h:1301:21,
    inlined from ‘shasta::CompactUndirectedGraph<Vertex, Edge>::vertex_descriptor shasta::CompactUndirectedGraph<Vertex, Edge>::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.12.0/src/CompactUndirectedGraph.hpp:500:26,
    inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:239:34:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘vertex.shasta::AlignmentGraphVertex::color’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’:
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::color’ was declared here
  231 |                         AlignmentGraphVertex vertex;
      |                                              ^~~~~~
In file included from /usr/include/c++/14/bits/char_traits.h:57,
                 from /usr/include/c++/14/string:42,
                 from /build/reproducible-path/shasta-0.12.0/src/string.hpp:4,
                 from /build/reproducible-path/shasta-0.12.0/src/PngImage.hpp:6,
                 from /build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:2:
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {pair<shasta::AlignmentGraphVertex, long unsigned int>}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/vector.tcc:117:30,
    inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/stl_vector.h:1301:21,
    inlined from ‘shasta::CompactUndirectedGraph<Vertex, Edge>::vertex_descriptor shasta::CompactUndirectedGraph<Vertex, Edge>::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.12.0/src/CompactUndirectedGraph.hpp:500:26,
    inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:239:34:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘vertex.shasta::AlignmentGraphVertex::distance’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’:
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::distance’ was declared here
  231 |                         AlignmentGraphVertex vertex;
      |                                              ^~~~~~
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {pair<shasta::AlignmentGraphVertex, long unsigned int>}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘constexpr std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair<shasta::AlignmentGraphVertex, long unsigned int>}; _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/vector.tcc:117:30,
    inlined from ‘constexpr void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair<shasta::AlignmentGraphVertex, long unsigned int>; _Alloc = std::allocator<std::pair<shasta::AlignmentGraphVertex, long unsigned int> >]’ at /usr/include/c++/14/bits/stl_vector.h:1301:21,
    inlined from ‘shasta::CompactUndirectedGraph<Vertex, Edge>::vertex_descriptor shasta::CompactUndirectedGraph<Vertex, Edge>::addVertex(const Vertex&) [with Vertex = shasta::AlignmentGraphVertex; Edge = shasta::AlignmentGraphEdge]’ at /build/reproducible-path/shasta-0.12.0/src/CompactUndirectedGraph.hpp:500:26,
    inlined from ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’ at /build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:239:34:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘vertex.shasta::AlignmentGraphVertex::color’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp: In member function ‘void shasta::AlignmentGraph::createVertices(const std::array<std::vector<shasta::MarkerWithOrdinal>, 2>&, uint32_t)’:
/build/reproducible-path/shasta-0.12.0/src/AlignmentGraph.cpp:231:46: note: ‘vertex.shasta::AlignmentGraphVertex::color’ was declared here
  231 |                         AlignmentGraphVertex vertex;
      |                                              ^~~~~~
[ 20%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-Alignments.cpp
[ 20%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-Reads.cpp
[ 21%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-AssemblyGraph.cpp
/build/reproducible-path/shasta-0.12.0/src/AssemblerAlign.cpp: In member function ‘bool shasta::Assembler::suppressAlignment(shasta::ReadId, shasta::ReadId, uint64_t)’:
/build/reproducible-path/shasta-0.12.0/src/AssemblerAlign.cpp:1121:19: warning: conversion from ‘long int’ to ‘int’ may change value [-Wconversion]
 1121 |     return abs(r0 - r1) < int64_t(delta);
      |                ~~~^~~~
[ 22%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer.cpp
/build/reproducible-path/shasta-0.12.0/src/AssemblerAlign.cpp: In member function ‘bool shasta::Assembler::suppressAlignment(shasta::ReadId, shasta::ReadId, uint64_t)’:
/build/reproducible-path/shasta-0.12.0/src/AssemblerAlign.cpp:1121:19: warning: conversion from ‘long int’ to ‘int’ may change value [-Wconversion]
 1121 |     return abs(r0 - r1) < int64_t(delta);
      |                ~~~^~~~
[ 22%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp
[ 22%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerInducedAlignments.cpp
[ 23%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerLowHash.cpp
[ 24%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-MarkerGraph1.cpp
[ 24%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-MarkerGraph0.cpp
[ 24%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerConnectivityGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerConnectivityGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerConnectivityGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerConnectivityGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerConnectivityGraph.cpp
[ 24%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-ReadGraph.cpp
[ 25%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer-Reads.cpp
[ 25%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerHttpServer.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerHttpServer.cpp
[ 26%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerInducedAlignments.cpp
[ 26%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerLowHash.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerLowHash.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerLowHash.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerLowHash.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerLowHash.cpp
[ 27%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerConnectivityGraph.cpp.o
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[ 28%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerGraph.cpp
[ 28%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp
[ 28%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerGraph.cpp
[ 28%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerGraphEdges.cpp
[ 28%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp
[ 29%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkers.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkers.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkers.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkers.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkers.cpp
[ 30%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkerGraphEdges.cpp
[ 30%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMode3.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMode3.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMode3.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMode3.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMode3.cpp
[ 31%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerOptions.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerOptions.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerOptions.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerOptions.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerOptions.cpp
[ 31%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerReadGraph.cpp
[ 32%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerReadGraph2.cpp
[ 32%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkers.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkers.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkers.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMarkers.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMarkers.cpp
[ 33%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMode3.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMode3.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMode3.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerMode3.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerMode3.cpp
[ 33%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReads.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReads.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReads.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReads.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerReads.cpp
[ 33%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerOptions.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerOptions.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerOptions.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerOptions.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerOptions.cpp
[ 34%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerReadGraph.cpp
[ 34%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReadGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerReadGraph2.cpp
[ 34%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblerReads.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblerReads.cpp
[ 35%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyGraph.cpp
[ 35%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyGraph2.cpp
[ 35%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyGraph.cpp
[ 36%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyGraph2.cpp
[ 37%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyPathGraph.cpp
[ 37%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyPathGraph.cpp
[ 38%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyPathGraph2.cpp
[ 38%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/AssemblyPathGraph2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/AssemblyPathGraph2.cpp
[ 38%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Base.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Base.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Base.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Base.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Base.cpp
[ 39%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Base.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Base.cpp
[ 40%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/CompactUndirectedGraph.cpp
[ 40%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/CompactUndirectedGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/CompactUndirectedGraph.cpp
[ 40%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp
[ 41%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ConfigurationTable.cpp
In file included from /usr/include/c++/14/bits/char_traits.h:57,
                 from /usr/include/c++/14/ios:42,
                 from /usr/include/c++/14/ostream:40,
                 from /usr/include/c++/14/iostream:41,
                 from /build/reproducible-path/shasta-0.12.0/src/iostream.hpp:4,
                 from /build/reproducible-path/shasta-0.12.0/src/ReadId.hpp:11,
                 from /build/reproducible-path/shasta-0.12.0/src/OrientedReadPair.hpp:5,
                 from /build/reproducible-path/shasta-0.12.0/src/Alignment.hpp:4,
                 from /build/reproducible-path/shasta-0.12.0/src/Assembler.hpp:5,
                 from /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:2:
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = std::_List_node<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:713:33,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:2004:32,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:1306:24,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:574:20,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:606:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:1694:53:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/graph/adjacency_list.hpp:255,
                 from /build/reproducible-path/shasta-0.12.0/src/LocalAssemblyGraph.hpp:18,
                 from /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:6:
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = std::_List_node<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:713:33,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:2004:32,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:1306:24,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:574:20,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:606:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:1739:57:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
[ 42%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp
In file included from /usr/include/c++/14/bits/char_traits.h:57,
                 from /usr/include/c++/14/ios:42,
                 from /usr/include/c++/14/ostream:40,
                 from /usr/include/c++/14/iostream:41,
                 from /build/reproducible-path/shasta-0.12.0/src/iostream.hpp:4,
                 from /build/reproducible-path/shasta-0.12.0/src/ReadId.hpp:11,
                 from /build/reproducible-path/shasta-0.12.0/src/OrientedReadPair.hpp:5,
                 from /build/reproducible-path/shasta-0.12.0/src/Alignment.hpp:4,
                 from /build/reproducible-path/shasta-0.12.0/src/Assembler.hpp:5,
                 from /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:2:
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = std::_List_node<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:713:33,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:2004:32,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:1306:24,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:574:20,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:606:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:1694:53:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/graph/adjacency_list.hpp:255,
                 from /build/reproducible-path/shasta-0.12.0/src/LocalAssemblyGraph.hpp:18,
                 from /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:6:
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
In function ‘constexpr decltype (::new(void*(0)) _Tp) std::construct_at(_Tp*, _Args&& ...) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}]’,
    inlined from ‘static constexpr void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = std::_List_node<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/alloc_traits.h:571:21,
    inlined from ‘std::__cxx11::list<_Tp, _Alloc>::_Node* std::__cxx11::list<_Tp, _Alloc>::_M_create_node(_Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:713:33,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_insert(iterator, _Args&& ...) [with _Args = {const boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&}; _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:2004:32,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>; _Alloc = std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> >]’ at /usr/include/c++/14/bits/stl_list.h:1306:24,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push_dispatch(Container&, T&&, back_insertion_sequence_tag) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:574:20,
    inlined from ‘std::pair<typename C::iterator, bool> boost::graph_detail::push(Container&, T&&) [with Container = std::__cxx11::list<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>, std::allocator<boost::list_edge<void*, shasta::LocalAssemblyGraphEdge> > >; T = boost::list_edge<void*, shasta::LocalAssemblyGraphEdge>&]’ at /usr/include/boost/pending/container_traits.hpp:606:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1498:29,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::LocalAssemblyGraphVertex, shasta::LocalAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’ at /build/reproducible-path/shasta-0.12.0/src/AssemblerAssemblyGraph.cpp:1739:57:
/usr/include/c++/14/bits/stl_construct.h:97:14: warning: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ may be used uninitialized [-Wmaybe-uninitialized]
   97 |     { return ::new((void*)__location) _Tp(std::forward<_Args>(__args)...); }
      |              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘bool shasta::Assembler::extractLocalAssemblyGraph(shasta::mode0::AssemblyGraph::EdgeId, int, double, shasta::LocalAssemblyGraph&) const’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p.shasta::LocalAssemblyGraphEdge::edgeId’ was declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
[ 42%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ConfigurationTable.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ConfigurationTable.cpp
[ 42%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ConsensusCaller.cpp
[ 43%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Coverage.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Coverage.cpp
[ 43%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HashedKmerChecker.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HashedKmerChecker.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/HashedKmerChecker.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/HashedKmerChecker.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/HashedKmerChecker.cpp
[ 43%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ConsensusCaller.cpp
[ 43%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Coverage.cpp
[ 44%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Histogram.cpp
[ 45%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/HashedKmerChecker.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/HashedKmerChecker.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/HashedKmerChecker.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/HashedKmerChecker.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/HashedKmerChecker.cpp
[ 45%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/HttpServer.cpp
[ 46%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/InducedAlignment.cpp
[ 46%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerCheckerFactory.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerCheckerFactory.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerCheckerFactory.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerCheckerFactory.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/KmerCheckerFactory.cpp
[ 46%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Histogram.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Histogram.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Histogram.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Histogram.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Histogram.cpp
[ 47%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/HttpServer.cpp
[ 48%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerTable.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerTable.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerTable.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerTable.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/KmerTable.cpp
[ 48%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalAlignmentCandidateGraph.cpp
[ 48%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/InducedAlignment.cpp
[ 49%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/KmerCheckerFactory.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/KmerCheckerFactory.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/KmerCheckerFactory.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/KmerCheckerFactory.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/KmerCheckerFactory.cpp
[ 49%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/KmerTable.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/KmerTable.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/KmerTable.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/KmerTable.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/KmerTable.cpp
[ 49%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalAlignmentGraph.cpp
[ 50%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalAssemblyGraph.cpp
[ 50%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalMarkerGraph0-Write.cpp
[ 51%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalAlignmentCandidateGraph.cpp
[ 51%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalAlignmentGraph.cpp
[ 52%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalMarkerGraph0.cpp
[ 52%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph1.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph1.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph1.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph1.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalMarkerGraph1.cpp
[ 53%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalReadGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalReadGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalReadGraph.cpp
[ 53%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LongBaseSequence.cpp
[ 53%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalAssemblyGraph.cpp
[ 53%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LowHash0.cpp
[ 54%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalMarkerGraph0-Write.cpp
[ 54%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalMarkerGraph0.cpp
[ 55%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MarkerFinder.cpp
[ 55%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MarkerGraph.cpp
[ 56%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph1.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph1.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph1.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph1.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalMarkerGraph1.cpp
[ 56%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LocalReadGraph.cpp
[ 57%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MedianConsensusCaller.cpp
[ 57%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedAllocator.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedAllocator.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedAllocator.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedAllocator.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MemoryMappedAllocator.cpp
[ 58%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LongBaseSequence.cpp
[ 59%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MemoryMappedVector.cpp
[ 59%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/LowHash0.cpp
[ 59%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MarkerFinder.cpp
[ 59%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Mode3Assembler.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Mode3Assembler.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Mode3Assembler.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Mode3Assembler.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Mode3Assembler.cpp
[ 60%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MarkerGraph.cpp
[ 61%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MultithreadedObject.cpp
[ 61%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MurmurHash2.cpp
[ 61%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PeakFinder.cpp
In file included from /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp:2:
In copy constructor ‘constexpr shasta::CompressedAssemblyGraphEdge::CompressedAssemblyGraphEdge(const shasta::CompressedAssemblyGraphEdge&)’,
    inlined from ‘boost::list_edge<Vertex, EdgeProperty>::list_edge(Vertex, Vertex, const EdgeProperty&) [with Vertex = void*; EdgeProperty = shasta::CompressedAssemblyGraphEdge]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:891:19,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1496:48,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’ at /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp:200:43:
/build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.hpp:47:15: warning: ‘p’ may be used uninitialized [-Wmaybe-uninitialized]
   47 | class shasta::CompressedAssemblyGraphEdge {
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/graph/adjacency_list.hpp:255,
                 from /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.hpp:14:
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p’ declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
In copy constructor ‘constexpr shasta::CompressedAssemblyGraphEdge::CompressedAssemblyGraphEdge(const shasta::CompressedAssemblyGraphEdge&)’,
    inlined from ‘boost::list_edge<Vertex, EdgeProperty>::list_edge(Vertex, Vertex, const EdgeProperty&) [with Vertex = void*; EdgeProperty = shasta::CompressedAssemblyGraphEdge]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:891:19,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1496:48,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’ at /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp:200:43:
/build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.hpp:47:15: warning: ‘p.shasta::CompressedAssemblyGraphEdge::maxMarkerCount’ may be used uninitialized [-Wmaybe-uninitialized]
   47 | class shasta::CompressedAssemblyGraphEdge {
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p’ declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
[ 61%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o
[ 62%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MedianConsensusCaller.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PhasingGraph.cpp
[ 63%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MemoryMappedAllocator.cpp
[ 63%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MemoryMappedVector.cpp
[ 64%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Mode3Assembler.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Mode3Assembler.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Mode3Assembler.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Mode3Assembler.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Mode3Assembler.cpp
[ 64%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MultithreadedObject.cpp
[ 64%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PngImage.cpp
[ 65%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PythonModule.cpp
[ 65%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ReadGraph.cpp
[ 66%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/MurmurHash2.cpp
[ 67%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ReadLoader.cpp
[ 67%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PeakFinder.cpp
[ 67%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Reads.cpp
In file included from /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp:2:
In copy constructor ‘constexpr shasta::CompressedAssemblyGraphEdge::CompressedAssemblyGraphEdge(const shasta::CompressedAssemblyGraphEdge&)’,
    inlined from ‘boost::list_edge<Vertex, EdgeProperty>::list_edge(Vertex, Vertex, const EdgeProperty&) [with Vertex = void*; EdgeProperty = shasta::CompressedAssemblyGraphEdge]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:891:19,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1496:48,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’ at /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp:200:43:
/build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.hpp:47:15: warning: ‘p’ may be used uninitialized [-Wmaybe-uninitialized]
   47 | class shasta::CompressedAssemblyGraphEdge {
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/boost/graph/adjacency_list.hpp:255,
                 from /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.hpp:14:
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p’ declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
In copy constructor ‘constexpr shasta::CompressedAssemblyGraphEdge::CompressedAssemblyGraphEdge(const shasta::CompressedAssemblyGraphEdge&)’,
    inlined from ‘boost::list_edge<Vertex, EdgeProperty>::list_edge(Vertex, Vertex, const EdgeProperty&) [with Vertex = void*; EdgeProperty = shasta::CompressedAssemblyGraphEdge]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:891:19,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, const typename Config::edge_property_type&, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1496:48,
    inlined from ‘std::pair<typename Config::edge_descriptor, bool> boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, bidirectional_graph_helper_with_property<Config>&) [with Config = detail::adj_list_gen<adjacency_list<listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge>, listS, listS, bidirectionalS, shasta::CompressedAssemblyGraphVertex, shasta::CompressedAssemblyGraphEdge, no_property, listS>::config]’ at /usr/include/boost/graph/detail/adjacency_list.hpp:1522:20,
    inlined from ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’ at /build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.cpp:200:43:
/build/reproducible-path/shasta-0.12.0/src/CompressedAssemblyGraph.hpp:47:15: warning: ‘p.shasta::CompressedAssemblyGraphEdge::maxMarkerCount’ may be used uninitialized [-Wmaybe-uninitialized]
   47 | class shasta::CompressedAssemblyGraphEdge {
      |               ^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/graph/detail/adjacency_list.hpp: In member function ‘void shasta::CompressedAssemblyGraph::mergeLinearChains()’:
/usr/include/boost/graph/detail/adjacency_list.hpp:1521:41: note: ‘p’ declared here
 1521 |     typename Config::edge_property_type p;
      |                                         ^
[ 67%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PhasingGraph.cpp
[ 67%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ReferenceOverlapMap.cpp
[ 68%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/SHASTA_ASSERT.cpp
[ 69%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PngImage.cpp
[ 69%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ShortBaseSequence.cpp
[ 70%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/SimpleBayesianConsensusCaller-Builtin.cpp
[ 70%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/PythonModule.cpp
[ 71%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ReadGraph.cpp
[ 71%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/SimpleBayesianConsensusCaller.cpp
[ 71%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ReadLoader.cpp
[ 72%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/SimpleConsensusCaller.cpp
[ 73%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/Reads.cpp
[ 73%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/assembleMarkerGraphPath.cpp
[ 73%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/ReferenceOverlapMap.cpp
[ 73%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o
[ 74%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/compressAlignment.cpp
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/buildId.cpp
[ 74%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SHASTA_ASSERT.cpp.o
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[ 74%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o
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[ 75%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/diploidBayesianPhase.cpp.o
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[ 76%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o
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[ 76%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/dset64Test.cpp
[ 77%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/enumeratePaths.cpp.o
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[ 77%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/extractKmer.cpp.o
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[ 77%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o
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[ 78%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o
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[ 78%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleConsensusCaller.cpp.o
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[ 79%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/assembleMarkerGraphPath.cpp
[ 79%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/buildId.cpp.o
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[ 80%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/filesystem.cpp.o
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[ 80%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/globalMsa.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/globalMsa.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/globalMsa.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/globalMsa.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/globalMsa.cpp
[ 80%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/html.cpp
[ 81%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/longestPath.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/longestPath.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/longestPath.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/longestPath.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/longestPath.cpp
[ 82%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/compressAlignment.cpp
[ 82%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mappedCopy.cpp.o
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[ 83%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/markerAccessFunctions.cpp.o
[ 83%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o
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cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-AssemblyGraph.cpp
[ 83%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o
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[ 84%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-LocalAssembly.cpp.o
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[ 84%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/diploidBayesianPhase.cpp.o
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[ 84%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasedComponent.cpp.o
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[ 85%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/dset64Test.cpp
[ 86%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasingTable.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasingTable.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasingTable.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasingTable.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-PhasingTable.cpp
[ 86%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/enumeratePaths.cpp.o
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[ 87%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/extractKmer.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/extractKmer.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/extractKmer.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/extractKmer.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/extractKmer.cpp
[ 87%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/filesystem.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/filesystem.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/filesystem.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/filesystem.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/filesystem.cpp
[ 88%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/globalMsa.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/globalMsa.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/globalMsa.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/globalMsa.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/globalMsa.cpp
[ 88%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/html.cpp
[ 88%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-PrimaryGraph.cpp
[ 88%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/performanceLog.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/performanceLog.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/performanceLog.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/performanceLog.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/performanceLog.cpp
[ 89%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/platformDependent.cpp
[ 89%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/longestPath.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/longestPath.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/longestPath.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/longestPath.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/longestPath.cpp
[ 89%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/runCommandWithTimeout.cpp
[ 90%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mappedCopy.cpp
[ 90%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/markerAccessFunctions.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/markerAccessFunctions.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/markerAccessFunctions.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/markerAccessFunctions.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/markerAccessFunctions.cpp
[ 91%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/shastaLapack.cpp
[ 92%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o
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[ 92%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o
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[ 93%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/testSubsetGraph.cpp
[ 93%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-LocalAssembly.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-LocalAssembly.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-LocalAssembly.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-LocalAssembly.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-LocalAssembly.cpp
[ 93%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/timestamp.cpp
[ 94%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasedComponent.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasedComponent.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasedComponent.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasedComponent.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-PhasedComponent.cpp
[ 95%] Building CXX object dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/pybind11/include  -MD -MT dynamicLibrary/CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o -MF CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o.d -o CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/touchMemory.cpp
[ 95%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasingTable.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasingTable.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasingTable.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasingTable.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-PhasingTable.cpp
[ 96%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/mode3-PrimaryGraph.cpp
[ 96%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/performanceLog.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/performanceLog.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/performanceLog.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/performanceLog.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/performanceLog.cpp
[ 96%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/platformDependent.cpp
[ 97%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/runCommandWithTimeout.cpp
[ 97%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/shastaLapack.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/shastaLapack.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/shastaLapack.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/shastaLapack.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/shastaLapack.cpp
[ 98%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/testSpoa.cpp
[ 98%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/testSubsetGraph.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/testSubsetGraph.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/testSubsetGraph.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/testSubsetGraph.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/testSubsetGraph.cpp
[ 99%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/timestamp.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/timestamp.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/timestamp.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/timestamp.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/timestamp.cpp
[ 99%] Building CXX object staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/touchMemory.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -I/build/reproducible-path/shasta-0.12.0/staticLibrary/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT staticLibrary/CMakeFiles/shastaStaticLibrary.dir/__/src/touchMemory.cpp.o -MF CMakeFiles/shastaStaticLibrary.dir/__/src/touchMemory.cpp.o.d -o CMakeFiles/shastaStaticLibrary.dir/__/src/touchMemory.cpp.o -c /build/reproducible-path/shasta-0.12.0/src/touchMemory.cpp
[ 99%] Linking CXX shared library shasta.so
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaDynamicLibrary.dir/link.txt --verbose=1
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CMakeFiles/shastaDynamicLibrary.dir/__/src/Histogram.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/HttpServer.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/InducedAlignment.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerCheckerFactory.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/KmerTable.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAlignmentGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalAssemblyGraph.cpp.o "CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o" CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph0.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalMarkerGraph1.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LocalReadGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LongBaseSequence.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/LowHash0.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerFinder.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MarkerGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MedianConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedAllocator.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MemoryMappedVector.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/Mode3Assembler.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MultithreadedObject.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/MurmurHash2.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PeakFinder.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PhasingGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PngImage.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/PythonModule.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReadLoader.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/Reads.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ReferenceOverlapMap.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SHASTA_ASSERT.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/ShortBaseSequence.cpp.o "CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o" CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/SimpleConsensusCaller.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/buildId.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/compressAlignment.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/diploidBayesianPhase.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/dset64Test.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/enumeratePaths.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/extractKmer.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/filesystem.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/globalMsa.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/html.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/longestPath.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/mappedCopy.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/markerAccessFunctions.cpp.o "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-LocalAssembly.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasedComponent.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PhasingTable.cpp.o" "CMakeFiles/shastaDynamicLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o" CMakeFiles/shastaDynamicLibrary.dir/__/src/performanceLog.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/platformDependent.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/runCommandWithTimeout.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/shastaLapack.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSpoa.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/testSubsetGraph.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/timestamp.cpp.o CMakeFiles/shastaDynamicLibrary.dir/__/src/touchMemory.cpp.o  -latomic -lpng -lboost_program_options -lboost_serialization -lpthread -lz -lspoa -llapack -lblas -lpython3.12 -ldl  -lm
make[4]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
[ 99%] Built target shastaDynamicLibrary
make  -f dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build.make dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/depend
make[4]: Entering directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/shasta-0.12.0 /build/reproducible-path/shasta-0.12.0/dynamicExecutable /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicExecutable /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/DependInfo.cmake "--color="
make[4]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
make  -f dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build.make dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/build
make[4]: Entering directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
[ 99%] Building CXX object dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicExecutable && /usr/bin/c++ -DBOOST_ALLOW_DEPRECATED_HEADERS -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBUILD_ID=0.12.0 -DNDEBUG -DSHASTA_PYTHON_API -I/build/reproducible-path/shasta-0.12.0/dynamicExecutable/../src -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2   -std=c++20 -Wall -Wconversion -Wno-unused-result -Wno-trigraphs -Wno-psabi -g0 -O3 -mcx16 -MD -MT dynamicExecutable/CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -MF CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o.d -o CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -c /build/reproducible-path/shasta-0.12.0/srcMain/main.cpp
[100%] Linking CXX static library shasta.a
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/cmake -P CMakeFiles/shastaStaticLibrary.dir/cmake_clean_target.cmake
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/staticLibrary && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaStaticLibrary.dir/link.txt --verbose=1
/usr/bin/ar qc shasta.a CMakeFiles/shastaStaticLibrary.dir/__/src/Align4.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Alignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AlignmentGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssembledSegment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Assembler.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign1.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign3.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign4.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlign5.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentCandidates.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignmentGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAlignments.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAnalyzePaths.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerAssemblyGraph2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCompressedAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerCreateReadGraphUsingPseudoPaths.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerDetangle.cpp.o "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Alignments.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-AssemblyGraph.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-CompressedAssemblyGraph.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph0.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-MarkerGraph1.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-ReadGraph.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer-Reads.cpp.o" CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerHttpServer.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerInducedAlignments.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerLowHash.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerConnectivityGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphCleanupDuplicateMarkers.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkerGraphEdges.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMarkers.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerMode3.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerOptions.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReadGraph2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblerReads.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyGraph2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/AssemblyPathGraph2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Base.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/CompactUndirectedGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/CompressedAssemblyGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ConfigurationTable.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Coverage.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/HashedKmerChecker.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Histogram.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/HttpServer.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/InducedAlignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/KmerCheckerFactory.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/KmerTable.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentCandidateGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAlignmentGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalAssemblyGraph.cpp.o "CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0-Write.cpp.o" CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph0.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalMarkerGraph1.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LocalReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LongBaseSequence.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/LowHash0.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerFinder.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MarkerGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MedianConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedAllocator.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MemoryMappedVector.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Mode3Assembler.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MultithreadedObject.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/MurmurHash2.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PeakFinder.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PhasingGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PngImage.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/PythonModule.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ReadLoader.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/Reads.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ReferenceOverlapMap.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/SHASTA_ASSERT.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/ShortBaseSequence.cpp.o "CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller-Builtin.cpp.o" CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleBayesianConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/SimpleConsensusCaller.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/assembleMarkerGraphPath.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/buildId.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/compressAlignment.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/computeRunLengthRepresentation.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/diploidBayesianPhase.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/dset64Test.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/enumeratePaths.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/extractKmer.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/filesystem.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/globalMsa.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/html.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/longestPath.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/mappedCopy.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/markerAccessFunctions.cpp.o "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-AssemblyGraph.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-LocalAssembly.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasedComponent.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PhasingTable.cpp.o" "CMakeFiles/shastaStaticLibrary.dir/__/src/mode3-PrimaryGraph.cpp.o" CMakeFiles/shastaStaticLibrary.dir/__/src/performanceLog.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/platformDependent.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/runCommandWithTimeout.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/shastaLapack.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/testSpoa.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/testSubsetGraph.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/timestamp.cpp.o CMakeFiles/shastaStaticLibrary.dir/__/src/touchMemory.cpp.o
/usr/bin/ranlib shasta.a
make[4]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
[100%] Built target shastaStaticLibrary
[100%] Linking CXX executable shastaDynamic
cd /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicExecutable && /usr/bin/cmake -E cmake_link_script CMakeFiles/shastaDynamicExecutable.dir/link.txt --verbose=1
/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/shasta-0.12.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/shastaDynamicExecutable.dir/link.d CMakeFiles/shastaDynamicExecutable.dir/__/srcMain/main.cpp.o -o shastaDynamic  -Wl,-rpath,/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary: ../dynamicLibrary/shasta.so -latomic -lboost_system -lboost_program_options -lboost_chrono -lboost_serialization -lspoa -lpng -lz -llapack -lblas -lgfortran -lquadmath -lpthread -lpython3.12 -ldl  -lm
make[4]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
[100%] Built target shastaDynamicExecutable
make[3]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
/usr/bin/cmake -E cmake_progress_start /build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/CMakeFiles 0
make[2]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
# Move shared library into sphinx documentation folder for doc generation
find . -name "shasta.so" -exec cp {} docs/PythonApi/ \;
cp: './docs/PythonApi/shasta.so' and 'docs/PythonApi/shasta.so' are the same file
PYTHONPATH=docs/PythonApi/ python3 -m sphinx -N -bhtml docs/PythonApi/ build/html # HTML generator
Running Sphinx v7.4.7
WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English).
loading translations [en]... done
making output directory... done
WARNING: html_static_path entry '_static' does not exist
Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`.
building [mo]: targets for 0 po files that are out of date
writing output... 
building [html]: targets for 1 source files that are out of date
updating environment: [new config] 1 added, 0 changed, 0 removed
reading sources... [100%] index

looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
copying assets... 
copying static files... done
copying extra files... done
copying assets: done
writing output... [100%] index

generating indices... genindex py-modindex done
writing additional pages... search done
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 2 warnings.

The HTML pages are in build/html.
make[1]: Leaving directory '/build/reproducible-path/shasta-0.12.0'
   dh_auto_test
   create-stamp debian/debhelper-build-stamp
   dh_prep
   dh_auto_install
	cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/shasta-0.12.0/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
make[1]: Entering directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
/usr/bin/cmake -S/build/reproducible-path/shasta-0.12.0 -B/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0
make  -f CMakeFiles/Makefile2 preinstall
make[2]: Entering directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
make[2]: Nothing to be done for 'preinstall'.
make[2]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
Install the project...
/usr/bin/cmake -P cmake_install.cmake
-- Install configuration: "None"
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/shasta.a
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/shasta.so
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/shastaDynamic
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignOrientedReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignOrientedReads1.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AlignOrientedReads4.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AnalyzeAlignmentMatrix.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AnalyzeAssemblyGraphBubbles.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AnalyzeReadGraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Assemble.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AssembleMarkerGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AssembleMarkerGraphVertices.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/AssembleSegment.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CheckConfigurations.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CheckMarkerGraphIsStrandSymmetric.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CleanupDuplicateMarkers.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CleanupRunDirectory.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ClusterMarkerGraphEdgeOrientedReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ColorGfaBySimilarityToSegment.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ColorGfaKeySegments.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ColorGfaWithTwoReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeAlignments.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeAssemblyStatistics.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeMarkerGraphCoverageHistogram.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeMarkerGraphVerticesCoverageData.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeReadGraphConnectedComponents.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ComputeSortedMarkers.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Copy.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CopyDirectory.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateAndCleanupMarkerGraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateAssembly.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateAssemblyGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateAssemblyGraphVertices.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateCompressedAssemblyGraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateConfigurationTable.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateLocalSubgraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateMarkerGraphAndTransitiveReduction.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateMarkerGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateMarkerGraphEdgesStrict.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateMarkerGraphSecondaryEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateMarkerGraphVertices.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateModules.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateReadGraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateReadGraph2.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateReadGraphMode1.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/CreateReadGraphUsingPseudoPaths.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Detangle.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Detangle2.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FastqGzToFasta.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FastqToFasta.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FastqToFastaAll.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FindAlignmentCandidatesLowHash0.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FindAssemblyGraphBubbles.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FindMarkerGraphReverseComplementEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FindMarkerGraphReverseComplementVertices.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FindMarkers.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FlagChimericReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FlagCrossStrandReadGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FlagInconsistentAlignments.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FlagPalindromicReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/FlagPrimaryMarkerGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/GenerateConfig.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/GenerateFeedback.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/GenerateRandomHaplotypes.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/GetConfig.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/GetReadId.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/HistogramReadLength.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/InstallPrerequisites-Ubuntu.sh
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Mode2Assembly-A.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Mode2Assembly-B-Prepare.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Mode2Assembly-B.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Mode3AssembleComponent.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Mode3Assembly.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/PruneMarkerGraphStrongSubgraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/ReadGraphClustering.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/RemoveReadGraphBridges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/RestoreRun.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/RunAssemblies.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SaveRun.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SetMarkerGraphEdgeFlags.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SetupRunDirectory.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SetupSmallRunDirectory.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SimpleBayesianConsensusCallerCreateBuiltin.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SimplifyMarkerGraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SplitMarkerGraphSecondaryEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/StepSequence1.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/SummarizeAssemblies.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/Test.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/TestSimpleBayesianConsensusCaller.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/TransitiveReduction.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/TravisCheckBuildMacOS.sh
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/TravisCheckBuildUbuntu.sh
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteAlignmentCandidates.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteAssemblyGraph.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteBadMarkerGraphVertices.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteFasta.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteGfa.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteGfaBothStrands.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteLocalAlignmentCandidateReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteLocalReadGraphReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteMarkers.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteOrientedRead.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteOrientedReadPath.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteOrientedReadsBySegment.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteParallelMarkerGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WritePseudoPath.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteRead.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteReadGraphEdges.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/WriteReads.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/comparePhaseAssignments.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/dset64Test.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/generateBandageLabelsFromAlignment.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/bin/testGlobalMsa.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/PacBio-CLR-Dec2019.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Phased-Oct2021.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/HiFi-Oct2021.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-11.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-9.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Phased-May2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Jun2020.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-May2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Dec2019.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Plants-Apr2021.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Phased-Nov2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Phased-May2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-R10-Fast-Nov2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Dec2019.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/RemoveConflicts.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-iterative-Sep2020.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Phased-Aug2021.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/PacBio-CCS-Dec2019.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Jan2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Sep2020.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-OldGuppy-Sep2020.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-ncm23-May2024.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Human-SingleFlowcell-May2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-8.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Sep2020.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-May2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-10.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Phased-R10-Slow-Nov2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Human-SingleFlowcell-Phased-May2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Phased-Jan2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/README.md
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-5.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Jun2020.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Phased-Jan2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-3.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-UL-Oct2021.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-R10-Slow-Nov2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Phased-R10-Fast-Nov2022.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-6.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/Nanopore-Oct2021.conf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-2.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/conf/SimpleBayesianConsensusCaller-7.csv
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerAlignment.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/QuickStart.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Mode3Chain.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Shasta-0.12.0.pdf
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/CZI-new-logo.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Detangle-After.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/BubbleChainPath.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-8.dot.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/gpu-acceleration-results.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MakeRelease.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/ReadGraph1.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Mode3-0.12.0.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Running.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Markers.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Superbubble.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/ReadGraph2.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Compatibility.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-5.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-2.dot.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/RawAlignment.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-1.dot.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/BubbleChain.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/doxygen
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/doxygen/Doxyfile
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/doxygen/README
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-2.dot
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Configurations.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/1.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/2.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/3.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/5.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/6.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/4.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults-Images/7.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-4.dot.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/ComputationalMethods.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-7.dot
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/BuildingFromSource.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-4.dot
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Detangle-Before.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-3.dot.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-1.dot
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-7.dot.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/CommandLineOptions.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-8.dot
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/ChooseMemoryOptions.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/InspectingResults.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/style.css
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-3.dot
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/RawAlignmentUnmarked.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/SupportedPlatforms.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/index.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/ReportingBugs.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PythonApi
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PythonApi/shasta.so
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PythonApi/Makefile
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PythonApi/conf.py
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PythonApi/index.rst
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PythonApi/README
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/PhasedRegionsNaming.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Commands.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Performance.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Bubble.png
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Prerequisites.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Python.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Acknowledgments.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/Introduction.html
-- Installing: /build/reproducible-path/shasta-0.12.0/debian/tmp/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/./shasta-install/docs/MarkerGraph-6.png
make[1]: Leaving directory '/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu'
   debian/rules override_dh_install-arch
make[1]: Entering directory '/build/reproducible-path/shasta-0.12.0'
dh_install -a
# Rename shastaDynamic to shasta for ease
mv debian/shasta/usr/bin/shastaDynamic debian/shasta/usr/bin/shasta
make[1]: Leaving directory '/build/reproducible-path/shasta-0.12.0'
   dh_install -Nshasta -Npython3-shasta
   dh_installdocs
   dh_sphinxdoc
   dh_installchangelogs
   dh_installexamples
   dh_installman
   dh_python3
I: dh_python3 fs:421: renaming shasta.so to shasta.cpython-312-x86_64-linux-gnu.so
   debian/rules execute_after_dh_python3-arch
make[1]: Entering directory '/build/reproducible-path/shasta-0.12.0'
patchelf \
	--set-soname shasta.cpython-312-x86_64-linux-gnu.so \
	/build/reproducible-path/shasta-0.12.0/debian/python3-shasta/usr/lib/python3/dist-packages/shasta.cpython-312-x86_64-linux-gnu.so
make[1]: Leaving directory '/build/reproducible-path/shasta-0.12.0'
   dh_lintian
   dh_perl
   dh_link
   dh_strip_nondeterminism
   dh_compress
   dh_fixperms
   debian/rules override_dh_missing
make[1]: Entering directory '/build/reproducible-path/shasta-0.12.0'
# No need to install docker files
find debian/tmp -type d -name docker | xargs rm -rf
# static library should not be installed
find debian/tmp -name shasta.a -delete
# dynamic library was installed manually before - so remove it from debian/tmp
find debian/tmp -name shasta.so -delete
# 11MB of generated docs should go into a separate package if this is considered sensible
# FIXME: for the moment do not install these
find debian/tmp -name docs | xargs rm -rf
# Remove rest of files which have already been installed
rm -rf debian/tmp//build/reproducible-path/shasta-0.12.0
dh_missing --list-missing
make[1]: Leaving directory '/build/reproducible-path/shasta-0.12.0'
   dh_dwz -a
dwz: debian/python3-shasta/usr/lib/python3/dist-packages/shasta.cpython-312-x86_64-linux-gnu.so: .debug_info section not present
dwz: debian/shasta/usr/bin/shasta: .debug_info section not present
   dh_strip -a
   dh_makeshlibs -a
   dh_shlibdeps -a
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib64/ld-linux-x86-64.so.2
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged
dpkg-shlibdeps: warning: can't extract name and version from library name 'shasta.so'
dpkg-shlibdeps: warning: can't extract name and version from library name 'shasta.so'
   debian/rules execute_after_dh_shlibdeps
make[1]: Entering directory '/build/reproducible-path/shasta-0.12.0'
# The library is in a more unusual place (nested within /usr/lib), so
# modify the ELF
chrpath -r /usr/lib/python3/dist-packages \
	debian/shasta/usr/bin/shasta
debian/shasta/usr/bin/shasta: RUNPATH=/build/reproducible-path/shasta-0.12.0/obj-x86_64-linux-gnu/dynamicLibrary:
debian/shasta/usr/bin/shasta: new RUNPATH: /usr/lib/python3/dist-packages
patchelf \
	--replace-needed shasta.so shasta.cpython-312-x86_64-linux-gnu.so \
	debian/shasta/usr/bin/shasta
make[1]: Leaving directory '/build/reproducible-path/shasta-0.12.0'
   dh_installdeb
   dh_gencontrol
   dh_md5sums
   dh_builddeb
dpkg-deb: building package 'python3-shasta-dbgsym' in '../python3-shasta-dbgsym_0.12.0-2_amd64.deb'.
dpkg-deb: building package 'shasta' in '../shasta_0.12.0-2_amd64.deb'.
dpkg-deb: building package 'python3-shasta-doc' in '../python3-shasta-doc_0.12.0-2_all.deb'.
dpkg-deb: building package 'shasta-dbgsym' in '../shasta-dbgsym_0.12.0-2_amd64.deb'.
dpkg-deb: building package 'python3-shasta' in '../python3-shasta_0.12.0-2_amd64.deb'.
 dpkg-genbuildinfo --build=binary -O../shasta_0.12.0-2_amd64.buildinfo
 dpkg-genchanges --build=binary -O../shasta_0.12.0-2_amd64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: 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/2089941 and its subdirectories
I: Current time: Tue Dec 30 18:39:42 -12 2025
I: pbuilder-time-stamp: 1767163182