I: pbuilder: network access will be disabled during build
I: Current time: Fri Dec 20 01:03:40 -12 2024
I: pbuilder-time-stamp: 1734699820
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [librcsb-core-wrapper_1.005-13.dsc]
I: copying [./librcsb-core-wrapper_1.005.orig.tar.gz]
I: copying [./librcsb-core-wrapper_1.005-13.debian.tar.xz]
I: Extracting source
gpgv: Signature made Thu Dec 19 15:59:30 2024 
gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv:                issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./librcsb-core-wrapper_1.005-13.dsc: no acceptable signature found
dpkg-source: info: extracting librcsb-core-wrapper in librcsb-core-wrapper-1.005
dpkg-source: info: unpacking librcsb-core-wrapper_1.005.orig.tar.gz
dpkg-source: info: unpacking librcsb-core-wrapper_1.005-13.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying wrapper-module
dpkg-source: info: applying rm-duplicate-module
dpkg-source: info: applying bash
dpkg-source: info: applying unistd
dpkg-source: info: applying devnull-log
dpkg-source: info: applying docs
dpkg-source: info: applying objectfiles
dpkg-source: info: applying parallel-build
dpkg-source: info: applying setup.py.in
dpkg-source: info: applying hardening
dpkg-source: info: applying spelling
dpkg-source: info: applying exit-in-shlib
dpkg-source: info: applying make_test_target
dpkg-source: info: applying regcomp_cert_fix.patch
dpkg-source: info: applying platformcheck.patch
dpkg-source: info: applying xerces32.patch
dpkg-source: info: applying gcc-8.patch
dpkg-source: info: applying python3.patch
dpkg-source: info: applying generated-includes
dpkg-source: info: applying INSTALL-is-cifinstall.patch
dpkg-source: info: applying make-4.4.1.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/15720/tmp/hooks/D02_print_environment starting
I: set
  BUILDDIR='/build/reproducible-path'
  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
  BUILDUSERNAME='pbuilder1'
  BUILD_ARCH='armhf'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 '
  DISTRIBUTION='unstable'
  HOME='/root'
  HOST_ARCH='armhf'
  IFS=' 	
  '
  INVOCATION_ID='ab6cfb5dcc5045039551c7b949b2d302'
  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='15720'
  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.5H5ekuvc/pbuilderrc_WHEc --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.5H5ekuvc/b1 --logfile b1/build.log librcsb-core-wrapper_1.005-13.dsc'
  SUDO_GID='113'
  SUDO_UID='107'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://10.0.0.15:3142/'
I: uname -a
  Linux virt64b 6.1.0-28-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/15720/tmp/hooks/D02_print_environment finished
 -> Attempting to satisfy build-dependencies
 -> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: armhf
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
 This package was created automatically by pbuilder to satisfy the
 build-dependencies of the package being currently built.
Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), doxygen, graphviz, dh-sequence-python3, libboost-python-dev, libxerces-c-dev, python3-dev, python3-setuptools, libtool-bin, bison, flex
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19681 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 doxygen; however:
  Package doxygen is not installed.
 pbuilder-satisfydepends-dummy depends on graphviz; however:
  Package graphviz is not installed.
 pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however:
  Package dh-sequence-python3 is not installed.
 pbuilder-satisfydepends-dummy depends on libboost-python-dev; however:
  Package libboost-python-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libxerces-c-dev; however:
  Package libxerces-c-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-dev; however:
  Package python3-dev is not installed.
 pbuilder-satisfydepends-dummy depends on python3-setuptools; however:
  Package python3-setuptools is not installed.
 pbuilder-satisfydepends-dummy depends on libtool-bin; however:
  Package libtool-bin is not installed.
 pbuilder-satisfydepends-dummy depends on bison; however:
  Package bison is not installed.
 pbuilder-satisfydepends-dummy depends on flex; however:
  Package flex 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} bison{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} doxygen{a} dwz{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} graphviz{a} groff-base{a} icu-devtools{a} intltool-debian{a} libabsl20230802{a} libaom3{a} libarchive-zip-perl{a} libavif16{a} libboost-python-dev{a} libboost-python1.83-dev{a} libboost-python1.83.0{a} libboost1.83-dev{a} libbrotli1{a} libcairo2{a} libcdt5{a} libcgraph6{a} libclang-cpp19{a} libclang1-19{a} libcom-err2{a} libcurl3t64-gnutls{a} libdatrie1{a} libdav1d7{a} libde265-0{a} libdebhelper-perl{a} libdeflate0{a} libedit2{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libfmt10{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgav1-1{a} libgd3{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgts-0.7-5t64{a} libgvc6{a} libgvpr2{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libice6{a} libicu-dev{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-sphinxdoc{a} libjs-underscore{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblab-gamut1{a} libldap-2.5-0{a} liblerc4{a} libllvm19{a} libltdl7{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnsl2{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpathplan4{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpsl5t64{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.12-dev{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libraqm0{a} librav1e0.7{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libsvtav1enc2{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libtool-bin{a} libuchardet0{a} libwebp7{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxerces-c-dev{a} libxerces-c3.2t64{a} libxext6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6t64{a} libyuv0{a} libz3-4{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-autocommand{a} python3-dev{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-dev{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} x11-common{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  ca-certificates curl fonts-liberation javascript-common krb5-locales libarchive-cpio-perl libfl-dev libglib2.0-data libgts-bin libheif-plugin-aomenc libheif-plugin-x265 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix shared-mime-info wget xdg-user-dirs 
0 packages upgraded, 169 newly installed, 0 to remove and 0 not upgraded.
Need to get 132 MB of archives. After unpacking 647 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main armhf m4 armhf 1.4.19-4 [264 kB]
Get: 2 http://deb.debian.org/debian unstable/main armhf flex armhf 2.6.4-8.2+b3 [405 kB]
Get: 3 http://deb.debian.org/debian unstable/main armhf libpython3.12-minimal armhf 3.12.8-3 [802 kB]
Get: 4 http://deb.debian.org/debian unstable/main armhf libexpat1 armhf 2.6.4-1 [83.5 kB]
Get: 5 http://deb.debian.org/debian unstable/main armhf python3.12-minimal armhf 3.12.8-3 [1794 kB]
Get: 6 http://deb.debian.org/debian unstable/main armhf python3-minimal armhf 3.12.7-1 [26.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main armhf media-types all 10.1.0 [26.9 kB]
Get: 8 http://deb.debian.org/debian unstable/main armhf netbase all 6.4 [12.8 kB]
Get: 9 http://deb.debian.org/debian unstable/main armhf tzdata all 2024b-4 [256 kB]
Get: 10 http://deb.debian.org/debian unstable/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB]
Get: 11 http://deb.debian.org/debian unstable/main armhf libcom-err2 armhf 1.47.2~rc1-2 [22.9 kB]
Get: 12 http://deb.debian.org/debian unstable/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB]
Get: 13 http://deb.debian.org/debian unstable/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B]
Get: 14 http://deb.debian.org/debian unstable/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB]
Get: 15 http://deb.debian.org/debian unstable/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB]
Get: 16 http://deb.debian.org/debian unstable/main armhf libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get: 17 http://deb.debian.org/debian unstable/main armhf libtirpc3t64 armhf 1.3.4+ds-1.3+b1 [71.3 kB]
Get: 18 http://deb.debian.org/debian unstable/main armhf libnsl2 armhf 1.3.0-3+b3 [35.0 kB]
Get: 19 http://deb.debian.org/debian unstable/main armhf readline-common all 8.2-6 [69.4 kB]
Get: 20 http://deb.debian.org/debian unstable/main armhf libreadline8t64 armhf 8.2-6 [146 kB]
Get: 21 http://deb.debian.org/debian unstable/main armhf libpython3.12-stdlib armhf 3.12.8-3 [1824 kB]
Get: 22 http://deb.debian.org/debian unstable/main armhf python3.12 armhf 3.12.8-3 [677 kB]
Get: 23 http://deb.debian.org/debian unstable/main armhf libpython3-stdlib armhf 3.12.7-1 [9712 B]
Get: 24 http://deb.debian.org/debian unstable/main armhf python3 armhf 3.12.7-1 [27.8 kB]
Get: 25 http://deb.debian.org/debian unstable/main armhf sensible-utils all 0.0.24 [24.8 kB]
Get: 26 http://deb.debian.org/debian unstable/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB]
Get: 27 http://deb.debian.org/debian unstable/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB]
Get: 28 http://deb.debian.org/debian unstable/main armhf file armhf 1:5.45-3+b1 [42.3 kB]
Get: 29 http://deb.debian.org/debian unstable/main armhf gettext-base armhf 0.22.5-3 [195 kB]
Get: 30 http://deb.debian.org/debian unstable/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB]
Get: 31 http://deb.debian.org/debian unstable/main armhf groff-base armhf 1.23.0-6 [1091 kB]
Get: 32 http://deb.debian.org/debian unstable/main armhf bsdextrautils armhf 2.40.2-12 [83.9 kB]
Get: 33 http://deb.debian.org/debian unstable/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB]
Get: 34 http://deb.debian.org/debian unstable/main armhf man-db armhf 2.13.0-1 [1382 kB]
Get: 35 http://deb.debian.org/debian unstable/main armhf autoconf all 2.72-3 [493 kB]
Get: 36 http://deb.debian.org/debian unstable/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get: 37 http://deb.debian.org/debian unstable/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get: 38 http://deb.debian.org/debian unstable/main armhf autopoint all 0.22.5-3 [723 kB]
Get: 39 http://deb.debian.org/debian unstable/main armhf bison armhf 2:3.8.2+dfsg-1+b2 [1138 kB]
Get: 40 http://deb.debian.org/debian unstable/main armhf libdebhelper-perl all 13.22 [90.5 kB]
Get: 41 http://deb.debian.org/debian unstable/main armhf libtool all 2.4.7-8 [517 kB]
Get: 42 http://deb.debian.org/debian unstable/main armhf dh-autoreconf all 20 [17.1 kB]
Get: 43 http://deb.debian.org/debian unstable/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get: 44 http://deb.debian.org/debian unstable/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get: 45 http://deb.debian.org/debian unstable/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get: 46 http://deb.debian.org/debian unstable/main armhf libelf1t64 armhf 0.192-4 [184 kB]
Get: 47 http://deb.debian.org/debian unstable/main armhf dwz armhf 0.15-1+b2 [106 kB]
Get: 48 http://deb.debian.org/debian unstable/main armhf libicu72 armhf 72.1-5+b1 [9088 kB]
Get: 49 http://deb.debian.org/debian unstable/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB]
Get: 50 http://deb.debian.org/debian unstable/main armhf gettext armhf 0.22.5-3 [1488 kB]
Get: 51 http://deb.debian.org/debian unstable/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 52 http://deb.debian.org/debian unstable/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get: 53 http://deb.debian.org/debian unstable/main armhf debhelper all 13.22 [919 kB]
Get: 54 http://deb.debian.org/debian unstable/main armhf python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 55 http://deb.debian.org/debian unstable/main armhf python3-more-itertools all 10.5.0-1 [63.8 kB]
Get: 56 http://deb.debian.org/debian unstable/main armhf python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 57 http://deb.debian.org/debian unstable/main armhf python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 58 http://deb.debian.org/debian unstable/main armhf python3-inflect all 7.3.1-2 [32.4 kB]
Get: 59 http://deb.debian.org/debian unstable/main armhf python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 60 http://deb.debian.org/debian unstable/main armhf python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 61 http://deb.debian.org/debian unstable/main armhf python3-pkg-resources all 75.6.0-1 [222 kB]
Get: 62 http://deb.debian.org/debian unstable/main armhf python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 63 http://deb.debian.org/debian unstable/main armhf python3-zipp all 3.21.0-1 [10.6 kB]
Get: 64 http://deb.debian.org/debian unstable/main armhf python3-setuptools all 75.6.0-1 [720 kB]
Get: 65 http://deb.debian.org/debian unstable/main armhf dh-python all 6.20241217 [113 kB]
Get: 66 http://deb.debian.org/debian unstable/main armhf libedit2 armhf 3.1-20240808-1 [77.9 kB]
Get: 67 http://deb.debian.org/debian unstable/main armhf libz3-4 armhf 4.13.3-1 [7252 kB]
Get: 68 http://deb.debian.org/debian unstable/main armhf libllvm19 armhf 1:19.1.6-1 [23.8 MB]
Get: 69 http://deb.debian.org/debian unstable/main armhf libclang-cpp19 armhf 1:19.1.6-1 [11.6 MB]
Get: 70 http://deb.debian.org/debian unstable/main armhf libclang1-19 armhf 1:19.1.6-1 [6611 kB]
Get: 71 http://deb.debian.org/debian unstable/main armhf libfmt10 armhf 10.1.1+ds1-4 [118 kB]
Get: 72 http://deb.debian.org/debian unstable/main armhf doxygen armhf 1.9.8+ds-2+b3 [4499 kB]
Get: 73 http://deb.debian.org/debian unstable/main armhf libbrotli1 armhf 1.1.0-2+b6 [282 kB]
Get: 74 http://deb.debian.org/debian unstable/main armhf libpng16-16t64 armhf 1.6.44-3 [263 kB]
Get: 75 http://deb.debian.org/debian unstable/main armhf libfreetype6 armhf 2.13.3+dfsg-1 [385 kB]
Get: 76 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 77 http://deb.debian.org/debian unstable/main armhf fonts-dejavu-core all 2.37-8 [840 kB]
Get: 78 http://deb.debian.org/debian unstable/main armhf fontconfig-config armhf 2.15.0-1.1+b1 [318 kB]
Get: 79 http://deb.debian.org/debian unstable/main armhf libfontconfig1 armhf 2.15.0-1.1+b1 [371 kB]
Get: 80 http://deb.debian.org/debian unstable/main armhf fontconfig armhf 2.15.0-1.1+b1 [461 kB]
Get: 81 http://deb.debian.org/debian unstable/main armhf libcdt5 armhf 2.42.4-2+b1 [37.9 kB]
Get: 82 http://deb.debian.org/debian unstable/main armhf libcgraph6 armhf 2.42.4-2+b1 [56.8 kB]
Get: 83 http://deb.debian.org/debian unstable/main armhf libaom3 armhf 3.11.0-1 [1599 kB]
Get: 84 http://deb.debian.org/debian unstable/main armhf libdav1d7 armhf 1.5.0-1+b1 [250 kB]
Get: 85 http://deb.debian.org/debian unstable/main armhf libabsl20230802 armhf 20230802.1-4 [432 kB]
Get: 86 http://deb.debian.org/debian unstable/main armhf libgav1-1 armhf 0.19.0-2+b2 [298 kB]
Get: 87 http://deb.debian.org/debian unstable/main armhf librav1e0.7 armhf 0.7.1-7+b3 [585 kB]
Get: 88 http://deb.debian.org/debian unstable/main armhf libsvtav1enc2 armhf 2.3.0+dfsg-1 [970 kB]
Get: 89 http://deb.debian.org/debian unstable/main armhf libjpeg62-turbo armhf 1:2.1.5-3+b1 [145 kB]
Get: 90 http://deb.debian.org/debian unstable/main armhf libyuv0 armhf 0.0.1898.20241219-1 [86.6 kB]
Get: 91 http://deb.debian.org/debian unstable/main armhf libavif16 armhf 1.1.1-1 [103 kB]
Get: 92 http://deb.debian.org/debian unstable/main armhf libsharpyuv0 armhf 1.4.0-0.1+b1 [111 kB]
Get: 93 http://deb.debian.org/debian unstable/main armhf libheif-plugin-dav1d armhf 1.19.3-1 [10.8 kB]
Get: 94 http://deb.debian.org/debian unstable/main armhf libde265-0 armhf 1.0.15-1+b2 [145 kB]
Get: 95 http://deb.debian.org/debian unstable/main armhf libheif-plugin-libde265 armhf 1.19.3-1 [13.9 kB]
Get: 96 http://deb.debian.org/debian unstable/main armhf libheif1 armhf 1.19.3-1 [410 kB]
Get: 97 http://deb.debian.org/debian unstable/main armhf libimagequant0 armhf 2.18.0-1+b2 [30.5 kB]
Get: 98 http://deb.debian.org/debian unstable/main armhf libfribidi0 armhf 1.0.16-1 [24.6 kB]
Get: 99 http://deb.debian.org/debian unstable/main armhf libglib2.0-0t64 armhf 2.82.4-1 [1327 kB]
Get: 100 http://deb.debian.org/debian unstable/main armhf libgraphite2-3 armhf 1.3.14-2+b1 [63.1 kB]
Get: 101 http://deb.debian.org/debian unstable/main armhf libharfbuzz0b armhf 10.1.0-1 [418 kB]
Get: 102 http://deb.debian.org/debian unstable/main armhf libraqm0 armhf 0.10.2-1 [11.6 kB]
Get: 103 http://deb.debian.org/debian unstable/main armhf libdeflate0 armhf 1.22-1 [36.3 kB]
Get: 104 http://deb.debian.org/debian unstable/main armhf libjbig0 armhf 2.1-6.1+b2 [27.3 kB]
Get: 105 http://deb.debian.org/debian unstable/main armhf liblerc4 armhf 4.0.0+ds-5 [146 kB]
Get: 106 http://deb.debian.org/debian unstable/main armhf libwebp7 armhf 1.4.0-0.1+b1 [266 kB]
Get: 107 http://deb.debian.org/debian unstable/main armhf libtiff6 armhf 4.5.1+git230720-5 [302 kB]
Get: 108 http://deb.debian.org/debian unstable/main armhf libxau6 armhf 1:1.0.11-1 [19.7 kB]
Get: 109 http://deb.debian.org/debian unstable/main armhf libxdmcp6 armhf 1:1.1.5-1 [26.4 kB]
Get: 110 http://deb.debian.org/debian unstable/main armhf libxcb1 armhf 1.17.0-2+b1 [140 kB]
Get: 111 http://deb.debian.org/debian unstable/main armhf libx11-data all 2:1.8.10-2 [337 kB]
Get: 112 http://deb.debian.org/debian unstable/main armhf libx11-6 armhf 2:1.8.10-2 [750 kB]
Get: 113 http://deb.debian.org/debian unstable/main armhf libxpm4 armhf 1:3.5.17-1+b2 [50.4 kB]
Get: 114 http://deb.debian.org/debian unstable/main armhf libgd3 armhf 2.3.3-12+b1 [105 kB]
Get: 115 http://deb.debian.org/debian unstable/main armhf libgts-0.7-5t64 armhf 0.7.6+darcs121130-5.2+b1 [133 kB]
Get: 116 http://deb.debian.org/debian unstable/main armhf libpixman-1-0 armhf 0.44.0-3 [164 kB]
Get: 117 http://deb.debian.org/debian unstable/main armhf libxcb-render0 armhf 1.17.0-2+b1 [114 kB]
Get: 118 http://deb.debian.org/debian unstable/main armhf libxcb-shm0 armhf 1.17.0-2+b1 [105 kB]
Get: 119 http://deb.debian.org/debian unstable/main armhf libxext6 armhf 2:1.3.4-1+b2 [45.2 kB]
Get: 120 http://deb.debian.org/debian unstable/main armhf libxrender1 armhf 1:0.9.10-1.1+b3 [25.0 kB]
Get: 121 http://deb.debian.org/debian unstable/main armhf libcairo2 armhf 1.18.2-2 [443 kB]
Get: 122 http://deb.debian.org/debian unstable/main armhf libltdl7 armhf 2.4.7-8 [390 kB]
Get: 123 http://deb.debian.org/debian unstable/main armhf libthai-data all 0.1.29-2 [168 kB]
Get: 124 http://deb.debian.org/debian unstable/main armhf libdatrie1 armhf 0.2.13-3+b1 [34.7 kB]
Get: 125 http://deb.debian.org/debian unstable/main armhf libthai0 armhf 0.1.29-2+b1 [46.0 kB]
Get: 126 http://deb.debian.org/debian unstable/main armhf libpango-1.0-0 armhf 1.55.0+ds-3 [200 kB]
Get: 127 http://deb.debian.org/debian unstable/main armhf libpangoft2-1.0-0 armhf 1.55.0+ds-3 [47.7 kB]
Get: 128 http://deb.debian.org/debian unstable/main armhf libpangocairo-1.0-0 armhf 1.55.0+ds-3 [31.3 kB]
Get: 129 http://deb.debian.org/debian unstable/main armhf libpathplan4 armhf 2.42.4-2+b1 [39.9 kB]
Get: 130 http://deb.debian.org/debian unstable/main armhf libgvc6 armhf 2.42.4-2+b1 [581 kB]
Get: 131 http://deb.debian.org/debian unstable/main armhf libgvpr2 armhf 2.42.4-2+b1 [168 kB]
Get: 132 http://deb.debian.org/debian unstable/main armhf liblab-gamut1 armhf 2.42.4-2+b1 [198 kB]
Get: 133 http://deb.debian.org/debian unstable/main armhf x11-common all 1:7.7+23.1 [216 kB]
Get: 134 http://deb.debian.org/debian unstable/main armhf libice6 armhf 2:1.1.1-1 [58.5 kB]
Get: 135 http://deb.debian.org/debian unstable/main armhf libsm6 armhf 2:1.2.4-1 [33.5 kB]
Get: 136 http://deb.debian.org/debian unstable/main armhf libxt6t64 armhf 1:1.2.1-1.2+b1 [160 kB]
Get: 137 http://deb.debian.org/debian unstable/main armhf libxmu6 armhf 2:1.1.3-3+b3 [51.2 kB]
Get: 138 http://deb.debian.org/debian unstable/main armhf libxaw7 armhf 2:1.0.16-1 [177 kB]
Get: 139 http://deb.debian.org/debian unstable/main armhf graphviz armhf 2.42.4-2+b1 [500 kB]
Get: 140 http://deb.debian.org/debian unstable/main armhf icu-devtools armhf 72.1-5+b1 [187 kB]
Get: 141 http://deb.debian.org/debian unstable/main armhf libboost1.83-dev armhf 1.83.0-4 [10.6 MB]
Get: 142 http://deb.debian.org/debian unstable/main armhf libboost-python1.83.0 armhf 1.83.0-4 [305 kB]
Get: 143 http://deb.debian.org/debian unstable/main armhf libpython3.12t64 armhf 3.12.8-3 [1849 kB]
Get: 144 http://deb.debian.org/debian unstable/main armhf libexpat1-dev armhf 2.6.4-1 [140 kB]
Get: 145 http://deb.debian.org/debian unstable/main armhf zlib1g-dev armhf 1:1.3.dfsg+really1.3.1-1+b1 [905 kB]
Get: 146 http://deb.debian.org/debian unstable/main armhf libpython3.12-dev armhf 3.12.8-3 [3812 kB]
Get: 147 http://deb.debian.org/debian unstable/main armhf libpython3-dev armhf 3.12.7-1 [9976 B]
Get: 148 http://deb.debian.org/debian unstable/main armhf python3.12-dev armhf 3.12.8-3 [506 kB]
Get: 149 http://deb.debian.org/debian unstable/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get: 150 http://deb.debian.org/debian unstable/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get: 151 http://deb.debian.org/debian unstable/main armhf libjs-sphinxdoc all 8.1.3-2 [30.3 kB]
Get: 152 http://deb.debian.org/debian unstable/main armhf python3-dev armhf 3.12.7-1 [26.1 kB]
Get: 153 http://deb.debian.org/debian unstable/main armhf libboost-python1.83-dev armhf 1.83.0-4 [322 kB]
Get: 154 http://deb.debian.org/debian unstable/main armhf libboost-python-dev armhf 1.83.0.2+b2 [3884 B]
Get: 155 http://deb.debian.org/debian unstable/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-8 [18.2 kB]
Get: 156 http://deb.debian.org/debian unstable/main armhf libsasl2-2 armhf 2.1.28+dfsg1-8 [50.2 kB]
Get: 157 http://deb.debian.org/debian unstable/main armhf libldap-2.5-0 armhf 2.5.18+dfsg-3+b1 [163 kB]
Get: 158 http://deb.debian.org/debian unstable/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB]
Get: 159 http://deb.debian.org/debian unstable/main armhf libnghttp3-9 armhf 1.6.0-2 [56.8 kB]
Get: 160 http://deb.debian.org/debian unstable/main armhf libngtcp2-16 armhf 1.9.1-1 [115 kB]
Get: 161 http://deb.debian.org/debian unstable/main armhf libngtcp2-crypto-gnutls8 armhf 1.9.1-1 [15.8 kB]
Get: 162 http://deb.debian.org/debian unstable/main armhf libpsl5t64 armhf 0.21.2-1.1+b1 [55.8 kB]
Get: 163 http://deb.debian.org/debian unstable/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b5 [53.2 kB]
Get: 164 http://deb.debian.org/debian unstable/main armhf libssh2-1t64 armhf 1.11.1-1 [227 kB]
Get: 165 http://deb.debian.org/debian unstable/main armhf libcurl3t64-gnutls armhf 8.11.1-1 [311 kB]
Get: 166 http://deb.debian.org/debian unstable/main armhf libicu-dev armhf 72.1-5+b1 [10.1 MB]
Get: 167 http://deb.debian.org/debian unstable/main armhf libtool-bin armhf 2.4.7-8 [436 kB]
Get: 168 http://deb.debian.org/debian unstable/main armhf libxerces-c3.2t64 armhf 3.2.4+debian-1.3+b1 [749 kB]
Get: 169 http://deb.debian.org/debian unstable/main armhf libxerces-c-dev armhf 3.2.4+debian-1.3+b1 [1555 kB]
Fetched 132 MB in 4s (34.9 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
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Unpacking python3-minimal (3.12.7-1) ...
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Unpacking libk5crypto3:armhf (1.21.3-3) ...
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Unpacking libkeyutils1:armhf (1.6.3-4) ...
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Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64'
Unpacking libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ...
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Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64'
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Setting up python3-minimal (3.12.7-1) ...
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Current default time zone: 'Etc/UTC'
Local time is now:      Fri Dec 20 13:04:58 UTC 2024.
Universal Time is now:  Fri Dec 20 13:04:58 UTC 2024.
Run 'dpkg-reconfigure tzdata' if you wish to change it.

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 -> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/librcsb-core-wrapper-1.005/ && 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  > ../librcsb-core-wrapper_1.005-13_source.changes
dpkg-buildpackage: info: source package librcsb-core-wrapper
dpkg-buildpackage: info: source version 1.005-13
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
 debian/rules clean
dh clean
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
dh_auto_clean
	make -j3 clean
make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
rm -rf docs
rm -rf rcsb

------------------------------------------------------------
**** Cleaning etc ****
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------------------------------------------------------------
**** Cleaning common ****
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**** Cleaning test results in dict-obj-file ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common'
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'

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**** Cleaning test results in pdbml-parser ****
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make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common'

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**** Cleaning tables ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables'

------------------------------------------------------------
**** Cleaning regex ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex'

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**** Cleaning cif-file ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file'

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**** Cleaning cif-parser ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser'

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**** Cleaning cif-file-util ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util'

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**** Cleaning dict-obj-file ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'

------------------------------------------------------------
**** Cleaning pdbml-parser ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'

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**** Cleaning cctbx ****
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make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx'
make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
rm -rf wrapper/python/build
find . -name obj -type d | xargs rm -rf
rm -rf .pybuild
make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
   dh_clean
 debian/rules binary
dh binary
   dh_update_autotools_config
   dh_autoreconf
   dh_auto_configure
   debian/rules override_dh_auto_build
make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
dh_auto_build --no-parallel
	make -j1 "INSTALL=install --strip-program=true"
make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
sh -c '\
 export PIC=-fPIC; \
 export WWPDB_XERCESC_INC=/usr/include; \
 export WWPDB_XERCESC_LIB_DIR=/usr/lib; \
 export WWPDB_XERCESC_LIB=xerces-c; \
( cd ./util; ./compile.sh ); \
libtool --mode=link g++ -version-info 0:1:0 -rpath /usr/lib -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -l${WWPDB_XERCESC_LIB} -o lib/librcsb-core-wrapper.la lib/*.lo'

------------------------------------------------------------
**** Making etc ****
------------------------------------------------------------
Using platform specific configuration for system: gnu4
Platform configuration done.

------------------------------------------------------------
**** Making common ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/RcsbPlatform.C -o ./obj/RcsbPlatform.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbPlatform.C  -fPIC -DPIC -o ./obj/.libs/RcsbPlatform.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbPlatform.C -o ./obj/RcsbPlatform.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/RcsbFile.C -o ./obj/RcsbFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbFile.C  -fPIC -DPIC -o ./obj/.libs/RcsbFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/RcsbFile.C -o ./obj/RcsbFile.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/BlockIO.C -o ./obj/BlockIO.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/BlockIO.C  -fPIC -DPIC -o ./obj/.libs/BlockIO.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/BlockIO.C -o ./obj/BlockIO.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/Serializer.C -o ./obj/Serializer.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Serializer.C  -fPIC -DPIC -o ./obj/.libs/Serializer.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Serializer.C -o ./obj/Serializer.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/GenString.C -o ./obj/GenString.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenString.C  -fPIC -DPIC -o ./obj/.libs/GenString.o
src/GenString.C: In static member function 'static bool String::IsNumber(const std::string&)':
src/GenString.C:539:12: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
  539 |     catch (exception)
      |            ^~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenString.C -o ./obj/GenString.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifString.C -o ./obj/CifString.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifString.C  -fPIC -DPIC -o ./obj/.libs/CifString.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifString.C -o ./obj/CifString.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/GenCont.C -o ./obj/GenCont.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenCont.C  -fPIC -DPIC -o ./obj/.libs/GenCont.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/GenCont.C -o ./obj/GenCont.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/Exceptions.C -o ./obj/Exceptions.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Exceptions.C  -fPIC -DPIC -o ./obj/.libs/Exceptions.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/Exceptions.C -o ./obj/Exceptions.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/DataInfo.C -o ./obj/DataInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DataInfo.C  -fPIC -DPIC -o ./obj/.libs/DataInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DataInfo.C -o ./obj/DataInfo.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/mapped_vector.C -o ./obj/mapped_vector.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_vector.C  -fPIC -DPIC -o ./obj/.libs/mapped_vector.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_vector.C -o ./obj/mapped_vector.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/mapped_ptr_vector.C -o ./obj/mapped_ptr_vector.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_ptr_vector.C  -fPIC -DPIC -o ./obj/.libs/mapped_ptr_vector.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/mapped_ptr_vector.C -o ./obj/mapped_ptr_vector.o >/dev/null 2>&1
a - RcsbPlatform.o
a - RcsbFile.o
a - BlockIO.o
a - Serializer.o
a - GenString.o
a - CifString.o
a - GenCont.o
a - Exceptions.o
a - DataInfo.o
a - mapped_vector.o
a - mapped_ptr_vector.o
cp -f -t ../lib ./obj/RcsbPlatform.o ./obj/RcsbFile.o ./obj/BlockIO.o ./obj/Serializer.o ./obj/GenString.o ./obj/CifString.o ./obj/GenCont.o ./obj/Exceptions.o ./obj/DataInfo.o ./obj/mapped_vector.o ./obj/mapped_ptr_vector.o ./obj/RcsbPlatform.lo ./obj/RcsbFile.lo ./obj/BlockIO.lo ./obj/Serializer.lo ./obj/GenString.lo ./obj/CifString.lo ./obj/GenCont.lo ./obj/Exceptions.lo ./obj/DataInfo.lo ./obj/mapped_vector.lo ./obj/mapped_ptr_vector.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/RcsbPlatform.o ./obj/.libs/RcsbFile.o ./obj/.libs/BlockIO.o ./obj/.libs/Serializer.o ./obj/.libs/GenString.o ./obj/.libs/CifString.o ./obj/.libs/GenCont.o ./obj/.libs/Exceptions.o ./obj/.libs/DataInfo.o ./obj/.libs/mapped_vector.o ./obj/.libs/mapped_ptr_vector.o
true lib/common.a
lib/common.a  is up to date.
../etc/cifinstall -m 0444  ./lib/common.a ../lib
x - RcsbPlatform.o
x - RcsbFile.o
x - BlockIO.o
x - Serializer.o
x - GenString.o
x - CifString.o
x - GenCont.o
x - Exceptions.o
x - DataInfo.o
x - mapped_vector.o
x - mapped_ptr_vector.o
x - RcsbPlatform.o
x - RcsbFile.o
x - BlockIO.o
x - Serializer.o
x - GenString.o
x - CifString.o
x - GenCont.o
x - Exceptions.o
x - DataInfo.o
x - mapped_vector.o
x - mapped_ptr_vector.o
a - BlockIO.o
a - CifString.o
a - DataInfo.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - mapped_ptr_vector.o
a - mapped_vector.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/common'

------------------------------------------------------------
**** Making tables ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/TTable.C -o ./obj/TTable.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TTable.C  -fPIC -DPIC -o ./obj/.libs/TTable.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TTable.C -o ./obj/TTable.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/ITTable.C -o ./obj/ITTable.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ITTable.C  -fPIC -DPIC -o ./obj/.libs/ITTable.o
src/ITTable.C: In member function 'void ITTable::AppendToColumn(unsigned int, const std::string&)':
src/ITTable.C:169:16: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
  169 |         catch (AlreadyExistsException)
      |                ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'void ITTable::ClearColumn(unsigned int)':
src/ITTable.C:244:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
  244 |     catch (AlreadyExistsException)
      |            ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'unsigned int ITTable::InsertRow(unsigned int, const std::vector<std::__cxx11::basic_string<char> >&)':
src/ITTable.C:326:16: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
  326 |         catch (AlreadyExistsException)
      |                ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'void ITTable::FillRow(unsigned int, const std::vector<std::__cxx11::basic_string<char> >&)':
src/ITTable.C:362:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
  362 |     catch (AlreadyExistsException)
      |            ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'void ITTable::ClearRow(unsigned int)':
src/ITTable.C:439:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
  439 |     catch (AlreadyExistsException)
      |            ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'void ITTable::FillColumn(unsigned int, std::vector<std::__cxx11::basic_string<char> >::const_iterator, std::vector<std::__cxx11::basic_string<char> >::const_iterator)':
src/ITTable.C:1645:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
 1645 |     catch (AlreadyExistsException)
      |            ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'void ITTable::AppendToColumn(unsigned int, const std::vector<std::__cxx11::basic_string<char> >&)':
src/ITTable.C:1714:16: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
 1714 |         catch (AlreadyExistsException)
      |                ^~~~~~~~~~~~~~~~~~~~~~
src/ITTable.C: In member function 'int ITTable::UpdateCell(const std::string&, unsigned int, unsigned int)':
src/ITTable.C:1759:12: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
 1759 |     catch (AlreadyExistsException)
      |            ^~~~~~~~~~~~~~~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ITTable.C -o ./obj/ITTable.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/ISTable.C -o ./obj/ISTable.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ISTable.C  -fPIC -DPIC -o ./obj/.libs/ISTable.o
src/ISTable.C: In member function 'bool ISTable::IsColumnPresent(const std::string&)':
src/ISTable.C:228:12: warning: catching polymorphic type 'class NotFoundException' by value [-Wcatch-value=]
  228 |     catch (NotFoundException)
      |            ^~~~~~~~~~~~~~~~~
src/ISTable.C: In member function 'unsigned int ISTable::InsertRow(unsigned int, const std::vector<std::__cxx11::basic_string<char> >&)':
src/ISTable.C:649:20: warning: catching polymorphic type 'class AlreadyExistsException' by value [-Wcatch-value=]
  649 |             catch (AlreadyExistsException)
      |                    ^~~~~~~~~~~~~~~~~~~~~~
src/ISTable.C: In function 'std::ostream& operator<<(std::ostream&, const ISTable&)':
src/ISTable.C:1826:20: warning: catching polymorphic type 'class std::out_of_range' by value [-Wcatch-value=]
 1826 |             catch (out_of_range)
      |                    ^~~~~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ISTable.C -o ./obj/ISTable.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/TableFile.C -o ./obj/TableFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TableFile.C  -fPIC -DPIC -o ./obj/.libs/TableFile.o
src/TableFile.C: In member function 'std::string TableFile::GetFirstBlockName()':
src/TableFile.C:474:12: warning: catching polymorphic type 'class std::out_of_range' by value [-Wcatch-value=]
  474 |     catch (out_of_range)
      |            ^~~~~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/TableFile.C -o ./obj/TableFile.o >/dev/null 2>&1
a - TTable.o
a - ITTable.o
a - ISTable.o
a - TableFile.o
cp -f -t ../lib ./obj/TTable.o ./obj/ITTable.o ./obj/ISTable.o ./obj/TableFile.o ./obj/TTable.lo ./obj/ITTable.lo ./obj/ISTable.lo ./obj/TableFile.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/TTable.o ./obj/.libs/ITTable.o ./obj/.libs/ISTable.o ./obj/.libs/TableFile.o
true lib/tables.a
lib/tables.a  is up to date.
../etc/cifinstall -m 0444  ./lib/tables.a  ../lib
x - BlockIO.o
x - CifString.o
x - DataInfo.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - TTable.o
x - ITTable.o
x - ISTable.o
x - TableFile.o
a - BlockIO.o
a - CifString.o
a - DataInfo.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/tables'

------------------------------------------------------------
**** Making regex ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex'
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -DPOSIX_MISTAKE -c src/regcomp.c -o ./obj/regcomp.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regcomp.c  -fPIC -DPIC -o ./obj/.libs/regcomp.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regcomp.c -o ./obj/regcomp.o >/dev/null 2>&1
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -DPOSIX_MISTAKE -c src/regexec.c -o ./obj/regexec.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regexec.c  -fPIC -DPIC -o ./obj/.libs/regexec.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regexec.c -o ./obj/regexec.o >/dev/null 2>&1
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -DPOSIX_MISTAKE -c src/regerror.c -o ./obj/regerror.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regerror.c  -fPIC -DPIC -o ./obj/.libs/regerror.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regerror.c -o ./obj/regerror.o >/dev/null 2>&1
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -DPOSIX_MISTAKE -c src/regfree.c -o ./obj/regfree.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regfree.c  -fPIC -DPIC -o ./obj/.libs/regfree.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -DPOSIX_MISTAKE -c src/regfree.c -o ./obj/regfree.o >/dev/null 2>&1
a - regcomp.o
a - regexec.o
a - regerror.o
a - regfree.o
cp -f -t ../lib ./obj/regcomp.o ./obj/regexec.o ./obj/regerror.o ./obj/regfree.o ./obj/regcomp.lo ./obj/regexec.lo ./obj/regerror.lo ./obj/regfree.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/regcomp.o ./obj/.libs/regexec.o ./obj/.libs/regerror.o ./obj/.libs/regfree.o
true lib/regex.a
lib/regex.a  is up to date.
../etc/cifinstall -m 0444  ./lib/regex.a ../lib
x - BlockIO.o
x - CifString.o
x - DataInfo.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - ISTable.o
x - ITTable.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - TTable.o
x - TableFile.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - regcomp.o
x - regexec.o
x - regerror.o
x - regfree.o
a - BlockIO.o
a - CifString.o
a - DataInfo.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
a - regcomp.o
a - regerror.o
a - regexec.o
a - regfree.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/regex'

------------------------------------------------------------
**** Making cif-file ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifFile.C -o ./obj/CifFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFile.C  -fPIC -DPIC -o ./obj/.libs/CifFile.o
src/CifFile.C: In member function 'int CifFile::CheckCellRange(const std::string&, const std::string&, const std::vector<std::__cxx11::basic_string<char> >&, const std::vector<std::__cxx11::basic_string<char> >&)':
src/CifFile.C:2503:12: warning: catching polymorphic type 'class std::exception' by value [-Wcatch-value=]
 2503 |     catch (exception)
      |            ^~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFile.C -o ./obj/CifFile.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/DicFile.C -o ./obj/DicFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DicFile.C  -fPIC -DPIC -o ./obj/.libs/DicFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DicFile.C -o ./obj/DicFile.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/ParentChild.C -o ./obj/ParentChild.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ParentChild.C  -fPIC -DPIC -o ./obj/.libs/ParentChild.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/ParentChild.C -o ./obj/ParentChild.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifParentChild.C -o ./obj/CifParentChild.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParentChild.C  -fPIC -DPIC -o ./obj/.libs/CifParentChild.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParentChild.C -o ./obj/CifParentChild.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifDataInfo.C -o ./obj/CifDataInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifDataInfo.C  -fPIC -DPIC -o ./obj/.libs/CifDataInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifDataInfo.C -o ./obj/CifDataInfo.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifExcept.C -o ./obj/CifExcept.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifExcept.C  -fPIC -DPIC -o ./obj/.libs/CifExcept.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifExcept.C -o ./obj/CifExcept.o >/dev/null 2>&1
a - CifFile.o
a - DicFile.o
a - ParentChild.o
a - CifParentChild.o
a - CifDataInfo.o
a - CifExcept.o
cp -f -t ../lib ./obj/CifFile.o ./obj/DicFile.o ./obj/ParentChild.o ./obj/CifParentChild.o ./obj/CifDataInfo.o ./obj/CifExcept.o ./obj/CifFile.lo ./obj/DicFile.lo ./obj/ParentChild.lo ./obj/CifParentChild.lo ./obj/CifDataInfo.lo ./obj/CifExcept.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/CifFile.o ./obj/.libs/DicFile.o ./obj/.libs/ParentChild.o ./obj/.libs/CifParentChild.o ./obj/.libs/CifDataInfo.o ./obj/.libs/CifExcept.o
true lib/cif-file.a
lib/cif-file.a  is up to date.
../etc/cifinstall -m 0444  ./lib/cif-file.a  ../lib
x - BlockIO.o
x - CifString.o
x - DataInfo.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - ISTable.o
x - ITTable.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - TTable.o
x - TableFile.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - regcomp.o
x - regerror.o
x - regexec.o
x - regfree.o
x - CifFile.o
x - DicFile.o
x - ParentChild.o
x - CifParentChild.o
x - CifDataInfo.o
x - CifExcept.o
a - BlockIO.o
a - CifDataInfo.o
a - CifExcept.o
a - CifFile.o
a - CifParentChild.o
a - CifString.o
a - DataInfo.o
a - DicFile.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - ParentChild.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
a - regcomp.o
a - regerror.o
a - regexec.o
a - regfree.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file'

------------------------------------------------------------
**** Making cif-parser ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/CifFileReadDef.C -o ./obj/CifFileReadDef.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileReadDef.C  -fPIC -DPIC -o ./obj/.libs/CifFileReadDef.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileReadDef.C -o ./obj/CifFileReadDef.o >/dev/null 2>&1
sh -c 'cd ./src; bison -d -v -l -p cifparser_ ../src/CifParser.y'
mv src/CifParser.tab.c src/CifParser.c
mv src/CifParser.tab.h src/CifParser.h
sed -i -e's/\.tab\.h/\.h/' src/CifParser.c
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/CifParser.c -o obj/CifParser.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParser.c  -fPIC -DPIC -o obj/.libs/CifParser.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParser.c -o obj/CifParser.o >/dev/null 2>&1
flex -Cfr -L -Pcifparser_  -t ./src/CifScanner.l > ./src/CifScanner.c
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c ./src/CifScanner.c -o ./obj/CifScanner.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/CifScanner.c  -fPIC -DPIC -o ./obj/.libs/CifScanner.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/CifScanner.c -o ./obj/CifScanner.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/CifScannerBase.C -o ./obj/CifScannerBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifScannerBase.C  -fPIC -DPIC -o ./obj/.libs/CifScannerBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifScannerBase.C -o ./obj/CifScannerBase.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/CifParserBase.C -o ./obj/CifParserBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParserBase.C  -fPIC -DPIC -o ./obj/.libs/CifParserBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifParserBase.C -o ./obj/CifParserBase.o >/dev/null 2>&1
sh -c 'cd ./src; bison -d -v -l -p dicparser_ ../src/DICParser.y'
mv src/DICParser.tab.c src/DICParser.c
mv src/DICParser.tab.h src/DICParser.h
sed -i -e's/\.tab\.h/\.h/' src/DICParser.c
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DICParser.c -o obj/DICParser.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParser.c  -fPIC -DPIC -o obj/.libs/DICParser.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParser.c -o obj/DICParser.o >/dev/null 2>&1
flex -Cfr -L -Pdicparser_  -t ./src/DICScanner.l > ./src/DICScanner.c
libtool --mode=compile gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC    -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c ./src/DICScanner.c -o ./obj/DICScanner.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/DICScanner.c  -fPIC -DPIC -o ./obj/.libs/DICScanner.o
libtool: compile:  gcc -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c ./src/DICScanner.c -o ./obj/DICScanner.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DICScannerBase.C -o ./obj/DICScannerBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICScannerBase.C  -fPIC -DPIC -o ./obj/.libs/DICScannerBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICScannerBase.C -o ./obj/DICScannerBase.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DICParserBase.C -o ./obj/DICParserBase.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParserBase.C  -fPIC -DPIC -o ./obj/.libs/DICParserBase.o
src/DICParserBase.C: In member function 'void DICParser::ProcessDataBlockName()':
src/DICParserBase.C:1283:7: warning: comparing the result of pointer addition '(Glob_dataBlockNameDIC + 5)' and NULL [-Waddress]
 1283 |   if (&(Glob_dataBlockNameDIC)[5] && (strlen(&(Glob_dataBlockNameDIC)[5])>0)) {
      |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DICParserBase.C -o ./obj/DICParserBase.o >/dev/null 2>&1
a - CifFileReadDef.o
a - CifScanner.o
a - CifScannerBase.o
a - CifParser.o
a - CifParserBase.o
a - DICScanner.o
a - DICScannerBase.o
a - DICParser.o
a - DICParserBase.o
cp -f -t ../lib ./obj/CifFileReadDef.o ./obj/CifScanner.o ./obj/CifScannerBase.o ./obj/CifParser.o ./obj/CifParserBase.o ./obj/DICScanner.o ./obj/DICScannerBase.o ./obj/DICParser.o ./obj/DICParserBase.o ./obj/CifFileReadDef.lo ./obj/CifScanner.lo ./obj/CifScannerBase.lo ./obj/CifParser.lo ./obj/CifParserBase.lo ./obj/DICScanner.lo ./obj/DICScannerBase.lo ./obj/DICParser.lo ./obj/DICParserBase.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/CifFileReadDef.o ./obj/.libs/CifScanner.o ./obj/.libs/CifScannerBase.o ./obj/.libs/CifParser.o ./obj/.libs/CifParserBase.o ./obj/.libs/DICScanner.o ./obj/.libs/DICScannerBase.o ./obj/.libs/DICParser.o ./obj/.libs/DICParserBase.o
true lib/cifparse-obj.a
lib/cifparse-obj.a  is up to date.
../etc/cifinstall -m 0444  ./lib/cifparse-obj.a ../lib
x - BlockIO.o
x - CifDataInfo.o
x - CifExcept.o
x - CifFile.o
x - CifParentChild.o
x - CifString.o
x - DataInfo.o
x - DicFile.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - ISTable.o
x - ITTable.o
x - ParentChild.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - TTable.o
x - TableFile.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - regcomp.o
x - regerror.o
x - regexec.o
x - regfree.o
x - CifFileReadDef.o
x - CifScanner.o
x - CifScannerBase.o
x - CifParser.o
x - CifParserBase.o
x - DICScanner.o
x - DICScannerBase.o
x - DICParser.o
x - DICParserBase.o
a - BlockIO.o
a - CifDataInfo.o
a - CifExcept.o
a - CifFile.o
a - CifFileReadDef.o
a - CifParentChild.o
a - CifParser.o
a - CifParserBase.o
a - CifScanner.o
a - CifScannerBase.o
a - CifString.o
a - DICParser.o
a - DICParserBase.o
a - DICScanner.o
a - DICScannerBase.o
a - DataInfo.o
a - DicFile.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - ParentChild.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
a - regcomp.o
a - regerror.o
a - regexec.o
a - regfree.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
rm src/DICParser.h src/CifParser.h
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-parser'

------------------------------------------------------------
**** Making cif-file-util ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifFileUtil.C -o ./obj/CifFileUtil.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileUtil.C  -fPIC -DPIC -o ./obj/.libs/CifFileUtil.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifFileUtil.C -o ./obj/CifFileUtil.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include   -c src/CifCorrector.C -o ./obj/CifCorrector.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifCorrector.C  -fPIC -DPIC -o ./obj/.libs/CifCorrector.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/CifCorrector.C -o ./obj/CifCorrector.o >/dev/null 2>&1
a - CifFileUtil.o
a - CifCorrector.o
cp -f -t ../lib ./obj/CifFileUtil.o ./obj/CifCorrector.o ./obj/CifFileUtil.lo ./obj/CifCorrector.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/CifFileUtil.o ./obj/.libs/CifCorrector.o
true lib/cif-file-util.a
lib/cif-file-util.a  is up to date.
../etc/cifinstall -m 0444  ./lib/cif-file-util.a ../lib
x - BlockIO.o
x - CifDataInfo.o
x - CifExcept.o
x - CifFile.o
x - CifFileReadDef.o
x - CifParentChild.o
x - CifParser.o
x - CifParserBase.o
x - CifScanner.o
x - CifScannerBase.o
x - CifString.o
x - DICParser.o
x - DICParserBase.o
x - DICScanner.o
x - DICScannerBase.o
x - DataInfo.o
x - DicFile.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - ISTable.o
x - ITTable.o
x - ParentChild.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - TTable.o
x - TableFile.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - regcomp.o
x - regerror.o
x - regexec.o
x - regfree.o
x - CifFileUtil.o
x - CifCorrector.o
a - BlockIO.o
a - CifCorrector.o
a - CifDataInfo.o
a - CifExcept.o
a - CifFile.o
a - CifFileReadDef.o
a - CifFileUtil.o
a - CifParentChild.o
a - CifParser.o
a - CifParserBase.o
a - CifScanner.o
a - CifScannerBase.o
a - CifString.o
a - DICParser.o
a - DICParserBase.o
a - DICScanner.o
a - DICScannerBase.o
a - DataInfo.o
a - DicFile.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - ParentChild.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
a - regcomp.o
a - regerror.o
a - regexec.o
a - regfree.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cif-file-util'

------------------------------------------------------------
**** Making dict-obj-file ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictObjContInfo.C -o ./obj/DictObjContInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjContInfo.C  -fPIC -DPIC -o ./obj/.libs/DictObjContInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjContInfo.C -o ./obj/DictObjContInfo.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictObjCont.C -o ./obj/DictObjCont.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjCont.C  -fPIC -DPIC -o ./obj/.libs/DictObjCont.o
src/DictObjCont.C: In member function 'void DictObjCont::PrintContainers(const std::string&, const std::string&, const ObjContInfo&)':
src/DictObjCont.C:640:16: warning: catching polymorphic type 'class NotFoundException' by value [-Wcatch-value=]
  640 |         catch (NotFoundException)
      |                ^~~~~~~~~~~~~~~~~
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjCont.C -o ./obj/DictObjCont.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictObjFile.C -o ./obj/DictObjFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFile.C  -fPIC -DPIC -o ./obj/.libs/DictObjFile.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictObjFile.C -o ./obj/DictObjFile.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictDataInfo.C -o ./obj/DictDataInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictDataInfo.C  -fPIC -DPIC -o ./obj/.libs/DictDataInfo.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictDataInfo.C -o ./obj/DictDataInfo.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictParentChild.C -o ./obj/DictParentChild.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictParentChild.C  -fPIC -DPIC -o ./obj/.libs/DictParentChild.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -c src/DictParentChild.C -o ./obj/DictParentChild.o >/dev/null 2>&1
a - DictObjContInfo.o
a - DictObjCont.o
a - DictObjFile.o
a - DictDataInfo.o
a - DictParentChild.o
cp -f -t ../lib ./obj/DictObjContInfo.o ./obj/DictObjCont.o ./obj/DictObjFile.o ./obj/DictDataInfo.o ./obj/DictParentChild.o ./obj/DictObjContInfo.lo ./obj/DictObjCont.lo ./obj/DictObjFile.lo ./obj/DictDataInfo.lo ./obj/DictParentChild.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/DictObjContInfo.o ./obj/.libs/DictObjCont.o ./obj/.libs/DictObjFile.o ./obj/.libs/DictDataInfo.o ./obj/.libs/DictParentChild.o
true lib/dict-obj-file.a
lib/dict-obj-file.a  is up to date.
../etc/cifinstall -m 0444  ./lib/dict-obj-file.a ../lib
x - BlockIO.o
x - CifCorrector.o
x - CifDataInfo.o
x - CifExcept.o
x - CifFile.o
x - CifFileReadDef.o
x - CifFileUtil.o
x - CifParentChild.o
x - CifParser.o
x - CifParserBase.o
x - CifScanner.o
x - CifScannerBase.o
x - CifString.o
x - DICParser.o
x - DICParserBase.o
x - DICScanner.o
x - DICScannerBase.o
x - DataInfo.o
x - DicFile.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - ISTable.o
x - ITTable.o
x - ParentChild.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - TTable.o
x - TableFile.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - regcomp.o
x - regerror.o
x - regexec.o
x - regfree.o
x - DictObjContInfo.o
x - DictObjCont.o
x - DictObjFile.o
x - DictDataInfo.o
x - DictParentChild.o
a - BlockIO.o
a - CifCorrector.o
a - CifDataInfo.o
a - CifExcept.o
a - CifFile.o
a - CifFileReadDef.o
a - CifFileUtil.o
a - CifParentChild.o
a - CifParser.o
a - CifParserBase.o
a - CifScanner.o
a - CifScannerBase.o
a - CifString.o
a - DICParser.o
a - DICParserBase.o
a - DICScanner.o
a - DICScannerBase.o
a - DataInfo.o
a - DicFile.o
a - DictDataInfo.o
a - DictObjCont.o
a - DictObjContInfo.o
a - DictObjFile.o
a - DictParentChild.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - ParentChild.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
a - regcomp.o
a - regerror.o
a - regexec.o
a - regfree.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictObjFileCreator.C -o obj/DictObjFileCreator.o
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now  -w -static obj/DictObjFileCreator.o ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a  -lm -o ./bin/DictObjFileCreator
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictObjFileReader.C -o obj/DictObjFileReader.o
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now  -w -static obj/DictObjFileReader.o ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a  -lm -o ./bin/DictObjFileReader
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include    -c src/DictObjFileSelectiveReader.C -o obj/DictObjFileSelectiveReader.o
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now  -w -static obj/DictObjFileSelectiveReader.o ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a  -lm -o ./bin/DictObjFileSelectiveReader
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'

------------------------------------------------------------
**** Making pdbml-parser ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include -I/usr/include   -c src/PdbMlFileUtil.C -o ./obj/PdbMlFileUtil.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlFileUtil.C  -fPIC -DPIC -o ./obj/.libs/PdbMlFileUtil.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlFileUtil.C -o ./obj/PdbMlFileUtil.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include -I/usr/include   -c src/PdbMlParserHandler.C -o ./obj/PdbMlParserHandler.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlParserHandler.C  -fPIC -DPIC -o ./obj/.libs/PdbMlParserHandler.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/PdbMlParserHandler.C -o ./obj/PdbMlParserHandler.o >/dev/null 2>&1
libtool --mode=compile g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include -I/usr/include   -c src/misc_util.C -o ./obj/misc_util.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/misc_util.C  -fPIC -DPIC -o ./obj/.libs/misc_util.o
libtool: compile:  g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O -fPIC -std=c++11 -Wall -Wno-deprecated -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -I./include -I../include -I/usr/include -c src/misc_util.C -o ./obj/misc_util.o >/dev/null 2>&1
a - PdbMlFileUtil.o
a - PdbMlParserHandler.o
a - misc_util.o
cp -f -t ../lib ./obj/PdbMlFileUtil.o ./obj/PdbMlParserHandler.o ./obj/misc_util.o ./obj/PdbMlFileUtil.lo ./obj/PdbMlParserHandler.lo ./obj/misc_util.lo
mkdir -p ../lib/.libs && cp -f -t ../lib/.libs ./obj/.libs/PdbMlFileUtil.o ./obj/.libs/PdbMlParserHandler.o ./obj/.libs/misc_util.o
true lib/pdbml-parser.a
lib/pdbml-parser.a  is up to date.
../etc/cifinstall -m 0444  ./lib/pdbml-parser.a ../lib
x - BlockIO.o
x - CifCorrector.o
x - CifDataInfo.o
x - CifExcept.o
x - CifFile.o
x - CifFileReadDef.o
x - CifFileUtil.o
x - CifParentChild.o
x - CifParser.o
x - CifParserBase.o
x - CifScanner.o
x - CifScannerBase.o
x - CifString.o
x - DICParser.o
x - DICParserBase.o
x - DICScanner.o
x - DICScannerBase.o
x - DataInfo.o
x - DicFile.o
x - DictDataInfo.o
x - DictObjCont.o
x - DictObjContInfo.o
x - DictObjFile.o
x - DictParentChild.o
x - Exceptions.o
x - GenCont.o
x - GenString.o
x - ISTable.o
x - ITTable.o
x - ParentChild.o
x - RcsbFile.o
x - RcsbPlatform.o
x - Serializer.o
x - TTable.o
x - TableFile.o
x - mapped_ptr_vector.o
x - mapped_vector.o
x - regcomp.o
x - regerror.o
x - regexec.o
x - regfree.o
x - PdbMlFileUtil.o
x - PdbMlParserHandler.o
x - misc_util.o
a - BlockIO.o
a - CifCorrector.o
a - CifDataInfo.o
a - CifExcept.o
a - CifFile.o
a - CifFileReadDef.o
a - CifFileUtil.o
a - CifParentChild.o
a - CifParser.o
a - CifParserBase.o
a - CifScanner.o
a - CifScannerBase.o
a - CifString.o
a - DICParser.o
a - DICParserBase.o
a - DICScanner.o
a - DICScannerBase.o
a - DataInfo.o
a - DicFile.o
a - DictDataInfo.o
a - DictObjCont.o
a - DictObjContInfo.o
a - DictObjFile.o
a - DictParentChild.o
a - Exceptions.o
a - GenCont.o
a - GenString.o
a - ISTable.o
a - ITTable.o
a - ParentChild.o
a - PdbMlFileUtil.o
a - PdbMlParserHandler.o
a - RcsbFile.o
a - RcsbPlatform.o
a - Serializer.o
a - TTable.o
a - TableFile.o
a - mapped_ptr_vector.o
a - mapped_vector.o
a - misc_util.o
a - regcomp.o
a - regerror.o
a - regexec.o
a - regfree.o
../etc/cifinstall -m 0444  ./lib/all.a ../lib
g++ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O  -fPIC -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include -I/usr/include   -c src/xml2mmcif.C -o obj/xml2mmcif.o
g++ -Wl,-z,relro -Wl,-z,now  -w -L/usr/lib obj/xml2mmcif.o ../lib/pdbml-parser.a ../lib/dict-obj-file.a ../lib/cif-file-util.a ../lib/cif-file.a ../lib/cifparse-obj.a ../lib/tables.a ../lib/common.a ../lib/regex.a -lxerces-c  -lm -o ./bin/xml2mmcif
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'

------------------------------------------------------------
**** Making cctbx ****
------------------------------------------------------------
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx'
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/cctbx'
libtool: link: g++  -fPIC -DPIC -shared   lib/.libs/BlockIO.o lib/.libs/CifCorrector.o lib/.libs/CifDataInfo.o lib/.libs/CifExcept.o lib/.libs/CifFile.o lib/.libs/CifFileReadDef.o lib/.libs/CifFileUtil.o lib/.libs/CifParentChild.o lib/.libs/CifParser.o lib/.libs/CifParserBase.o lib/.libs/CifScanner.o lib/.libs/CifScannerBase.o lib/.libs/CifString.o lib/.libs/DICParser.o lib/.libs/DICParserBase.o lib/.libs/DICScanner.o lib/.libs/DICScannerBase.o lib/.libs/DataInfo.o lib/.libs/DicFile.o lib/.libs/DictDataInfo.o lib/.libs/DictObjCont.o lib/.libs/DictObjContInfo.o lib/.libs/DictObjFile.o lib/.libs/DictParentChild.o lib/.libs/Exceptions.o lib/.libs/GenCont.o lib/.libs/GenString.o lib/.libs/ISTable.o lib/.libs/ITTable.o lib/.libs/ParentChild.o lib/.libs/PdbMlFileUtil.o lib/.libs/PdbMlParserHandler.o lib/.libs/RcsbFile.o lib/.libs/RcsbPlatform.o lib/.libs/Serializer.o lib/.libs/TTable.o lib/.libs/TableFile.o lib/.libs/mapped_ptr_vector.o lib/.libs/mapped_vector.o lib/.libs/misc_util.o lib/.libs/regcomp.o lib/.libs/regerror.o lib/.libs/regexec.o lib/.libs/regfree.o   -lxerces-c -lstdc++ -lm -lc -lgcc_s   -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now   -Wl,-soname -Wl,librcsb-core-wrapper.so.0 -o lib/.libs/librcsb-core-wrapper.so.0.0.1
libtool: link: (cd "lib/.libs" && rm -f "librcsb-core-wrapper.so.0" && ln -s "librcsb-core-wrapper.so.0.0.1" "librcsb-core-wrapper.so.0")
libtool: link: (cd "lib/.libs" && rm -f "librcsb-core-wrapper.so" && ln -s "librcsb-core-wrapper.so.0.0.1" "librcsb-core-wrapper.so")
libtool: link: ar cr lib/.libs/librcsb-core-wrapper.a  lib/BlockIO.o lib/CifCorrector.o lib/CifDataInfo.o lib/CifExcept.o lib/CifFile.o lib/CifFileReadDef.o lib/CifFileUtil.o lib/CifParentChild.o lib/CifParser.o lib/CifParserBase.o lib/CifScanner.o lib/CifScannerBase.o lib/CifString.o lib/DICParser.o lib/DICParserBase.o lib/DICScanner.o lib/DICScannerBase.o lib/DataInfo.o lib/DicFile.o lib/DictDataInfo.o lib/DictObjCont.o lib/DictObjContInfo.o lib/DictObjFile.o lib/DictParentChild.o lib/Exceptions.o lib/GenCont.o lib/GenString.o lib/ISTable.o lib/ITTable.o lib/ParentChild.o lib/PdbMlFileUtil.o lib/PdbMlParserHandler.o lib/RcsbFile.o lib/RcsbPlatform.o lib/Serializer.o lib/TTable.o lib/TableFile.o lib/mapped_ptr_vector.o lib/mapped_vector.o lib/misc_util.o lib/regcomp.o lib/regerror.o lib/regexec.o lib/regfree.o
libtool: link: ranlib lib/.libs/librcsb-core-wrapper.a
libtool: link: ( cd "lib/.libs" && rm -f "librcsb-core-wrapper.la" && ln -s "../librcsb-core-wrapper.la" "librcsb-core-wrapper.la" )
cd wrapper && make OPT=-O
make[3]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/wrapper'
sed -e 's!@C++FLAGS@!-g -O2 -ffile-prefix-map=/build/reproducible-path/librcsb-core-wrapper-1.005=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O   -std=c++11  -Wall -Wno-deprecated   -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW  -I./include -I../include -I -I  !g; s!@DEFINES@!  -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW !g; s!@EXT_COMP_OPT@!-ftemplate-depth-128 -fno-inline -Wall!; s!@EXT_LIBS_DIRS@!-L -L -L!g; s!@EXT_LIBS@!-l -l -l!g;' < "python/setup.py.in" > "python/setup.py"
ln -sf ../src python/src
make[3]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/wrapper'
make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
/usr/bin/make doc
make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
rm -rf rcsb && cp -r include rcsb
grep -lr '^#include "' rcsb | xargs sed -i -e '/^#include "/{ s/#include "\([^"]\+\)"/#include <rcsb\/\1>/; }'
mkdir -p docs/doxyfiles
echo PROJECT_NAME = librcsb-core-wrapper > docs/doxyfiles/Doxyfile
echo PROJECT_NUMBER = 1.005 >> docs/doxyfiles/Doxyfile
echo OUTPUT_DIRECTORY = docs >> docs/doxyfiles/Doxyfile
echo INPUT = rcsb >> docs/doxyfiles/Doxyfile
cat etc/Doxyfile-template >> docs/doxyfiles/Doxyfile
doxygen docs/doxyfiles/Doxyfile
warning: Tag 'USE_WINDOWS_ENCODING' at line 75 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'DETAILS_AT_TOP' at line 177 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'SHOW_DIRECTORIES' at line 411 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'COLS_IN_ALPHA_INDEX' at line 677 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'HTML_ALIGN_MEMBERS' at line 732 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'XML_SCHEMA' at line 964 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'XML_DTD' at line 970 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'PERL_PATH' at line 1131 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'CLASS_DIAGRAMS' at line 1144 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'MAX_DOT_GRAPH_WIDTH' at line 1246 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'MAX_DOT_GRAPH_HEIGHT' at line 1254 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: Tag 'DOT_TRANSPARENT' at line 1274 of file 'docs/doxyfiles/Doxyfile' has become obsolete.
         To avoid this warning please remove this line from your configuration file or upgrade it using "doxygen -u"
warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value
Using the default: a4!
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/CifFileUtil.h:39: warning: The following parameter of DataCorrection(CifFile &cifFile, DicFile &dicRef) is not documented:
  parameter 'cifFile'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/CifFile.h:421: warning: The following parameter of CifFile::DataChecking(Block &block, Block &refBlock, std::ostringstream &buf, const bool extraDictChecks=false, const bool extraCifChecks=false) is not documented:
  parameter 'buf'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/DicFile.h:42: warning: The following parameter of DicFile::DicFile(const eFileMode fileMode, const std::string &objFileName, const bool verbose=false, const Char::eCompareType caseSense=Char::eCASE_SENSITIVE, const unsigned int maxLineLength=STD_CIF_LINE_LENGTH, const std::string &nullValue=CifString::UnknownValue) is not documented:
  parameter 'objFileName'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/DictObjFile.h:45: warning: The following parameter of DictObjFile::DictObjFile(const string &persStorFileName, const eFileMode fileMode=READ_MODE, const bool verbose=false, const string &dictSdbFileName=std::string()) is not documented:
  parameter 'persStorFileName'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:527: warning: The following parameter of ISTable::GetColumn(std::vector< std::string > &col, const std::string &colName, const std::vector< unsigned int > &rowIndex) is not documented:
  parameter 'rowIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:396: warning: The following parameter of ISTable::InsertColumn(const std::string &colName, const std::string &afColName, const std::vector< std::string > &col=std::vector< std::string >()) is not documented:
  parameter 'afColName'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:1003: warning: The following parameters of ISTable::Search(std::vector< unsigned int > &res, const std::string &target, const std::string &colName, const unsigned int fromRowIndex=0, const eSearchDir searchDir=eFORWARD, const eSearchType searchType=eEQUAL) are not documented:
  parameter 'fromRowIndex'
  parameter 'searchDir'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ISTable.h:1031: warning: The following parameters of ISTable::Search(std::vector< unsigned int > &res, const std::vector< std::string > &targets, const std::vector< std::string > &colNames, const unsigned int fromRowIndex=0, const eSearchDir searchDir=eFORWARD, const eSearchType searchType=eEQUAL, const std::string &indexName=std::string()) are not documented:
  parameter 'fromRowIndex'
  parameter 'searchDir'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/ITTable.h:410: warning: The following parameter of ITTable::GetColumn(std::vector< std::string > &col, const std::string &colName, const std::vector< unsigned int > &rowIndex) is not documented:
  parameter 'rowIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:278: warning: The following parameter of TTable::AddColumn(const std::vector< std::string > &col=std::vector< std::string >()) is not documented:
  parameter 'col'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:229: warning: The following parameter of TTable::ClearTuple(const unsigned int tupleIndex) is not documented:
  parameter 'tupleIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:247: warning: The following parameter of TTable::DeleteTuple(const unsigned int tupleIndex) is not documented:
  parameter 'tupleIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:360: warning: The following parameters of TTable::FillColumn(const unsigned int colIndex, const std::vector< std::string > &col, const unsigned int fromTupleIndex=0) are not documented:
  parameter 'col'
  parameter 'fromTupleIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:186: warning: The following parameter of TTable::FillTuple(const unsigned int tupleIndex, const std::vector< std::string > &tuple, const unsigned int fromColIndex=0) is not documented:
  parameter 'fromColIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:393: warning: The following parameters of TTable::GetColumn(std::vector< std::string > &col, const unsigned int colIndex, const unsigned int fromTupleIndex, unsigned int toTupleIndex) are not documented:
  parameter 'col'
  parameter 'fromTupleIndex'
  parameter 'toTupleIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:311: warning: The following parameter of TTable::InsertColumn(const unsigned int atColIndex, const std::vector< std::string > &col=std::vector< std::string >()) is not documented:
  parameter 'col'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:471: warning: The following parameter of TTable::operator()(const unsigned int tupleIndex, const unsigned int colIndex) is not documented:
  parameter 'tupleIndex'
/build/reproducible-path/librcsb-core-wrapper-1.005/rcsb/TTable.h:495: warning: The following parameter of TTable::operator()(const unsigned int tupleIndex, const unsigned int colIndex) const is not documented:
  parameter 'tupleIndex'
make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
dh_auto_build --sourcedirectory=wrapper/python --buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3 setup.py build 
/usr/lib/python3/dist-packages/setuptools/dist.py:330: InformationOnly: Normalizing '1.000' to '1.0'
  self.metadata.version = self._normalize_version(self.metadata.version)
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from src/CharPyWrap.C:3:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/CharPyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/DataInfo.h:23,
                 from ../../include/CifDataInfo.h:21,
                 from src/CifDataInfoPyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/CifDataInfoPyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/CifFile.h:29,
                 from src/CifFilePyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/CifFilePyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
src/CifFilePyWrap.C: In function 'void InitCifFilePyWrapper()':
src/CifFilePyWrap.C:168:40: warning: typedef 'GetAttributeValue_function_type' locally defined but not used [-Wunused-local-typedefs]
  168 |             typedef void ( ::CifFile::*GetAttributeValue_function_type )( ::std::string &,::std::string const &,::std::string const &,::std::string const & ) ;
      |                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
src/CifFilePyWrap.C:182:40: warning: typedef 'GetAttributeValueIf_function_type' locally defined but not used [-Wunused-local-typedefs]
  182 |             typedef void ( ::CifFile::*GetAttributeValueIf_function_type )( ::std::string &,::std::string const &,::std::string const &,::std::string const &,::std::string const &,::std::string const & ) ;
      |                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
src/CifFilePyWrap.C:196:40: warning: typedef 'GetAttributeValues_function_type' locally defined but not used [-Wunused-local-typedefs]
  196 |             typedef void ( ::CifFile::*GetAttributeValues_function_type )( ::std::vector< std::string > &,::std::string const &,::std::string const &,::std::string const & ) ;
      |                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
src/CifFilePyWrap.C:210:40: warning: typedef 'GetAttributeValuesIf_function_type' locally defined but not used [-Wunused-local-typedefs]
  210 |             typedef void ( ::CifFile::*GetAttributeValuesIf_function_type )( ::std::vector< std::string > &,::std::string const &,::std::string const &,::std::string const &,::std::string const &,::std::string const & ) ;
      |                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/DataInfo.h:23,
                 from src/DataInfoPyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/DataInfoPyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/DicFile.h:21,
                 from src/DicFilePyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/DicFilePyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/DataInfo.h:23,
                 from ../../include/DictDataInfo.h:21,
                 from src/DictDataInfoPyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/DictDataInfoPyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/DicFile.h:21,
                 from ../../include/DictObjCont.h:22,
                 from ../../include/DictObjFile.h:21,
                 from src/DictObjFilePyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/DictObjFilePyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/ISTable.h:26,
                 from src/ISTablePyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/ISTablePyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
src/ISTablePyWrap.C: In function 'void InitISTablePyWrapper()':
src/ISTablePyWrap.C:205:40: warning: typedef 'Search_function_type' locally defined but not used [-Wunused-local-typedefs]
  205 |             typedef void ( ::ISTable::*Search_function_type )( ::std::vector< unsigned int > &,::std::vector< std::string > const &,::std::vector< std::string > const &,unsigned int const,::ITTable::eSearchDir const,::ITTable::eSearchType const,::std::string const & ) ;
      |                                        ^~~~~~~~~~~~~~~~~~~~
src/ISTablePyWrap.C:245:40: warning: typedef 'GetColumn_function_type' locally defined but not used [-Wunused-local-typedefs]
  245 |             typedef void ( ::ISTable::*GetColumn_function_type )( ::std::vector< std::string > &,::std::string const & ) ;
      |                                        ^~~~~~~~~~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/DataInfo.h:23,
                 from src/PdbMlFilePyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/PdbMlFilePyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
In file included from ../../include/ISTable.h:26,
                 from src/TableFilePyWrap.C:6:
../../include/GenString.h:76:33: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
   76 | class CharEqualTo : public std::binary_function<char, char, bool>
      |                                 ^~~~~~~~~~~~~~~
In file included from /usr/include/c++/14/functional:49,
                 from /usr/include/boost/config/no_tr1/functional.hpp:21,
                 from /usr/include/boost/function/detail/prologue.hpp:15,
                 from /usr/include/boost/function/function_template.hpp:13,
                 from /usr/include/boost/function/detail/maybe_include.hpp:15,
                 from /usr/include/boost/function/function0.hpp:11,
                 from /usr/include/boost/python/errors.hpp:13,
                 from /usr/include/boost/python/handle.hpp:11,
                 from /usr/include/boost/python/args_fwd.hpp:10,
                 from /usr/include/boost/python/args.hpp:10,
                 from /usr/include/boost/python.hpp:11,
                 from src/TableFilePyWrap.C:1:
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
../../include/GenString.h:92:32: warning: 'template<class _Arg, class _Result> struct std::unary_function' is deprecated [-Wdeprecated-declarations]
   92 | class WhiteSpace : public std::unary_function<char, bool>
      |                                ^~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:117:12: note: declared here
  117 |     struct unary_function
      |            ^~~~~~~~~~~~~~
../../include/GenString.h:132:35: warning: 'template<class _Arg1, class _Arg2, class _Result> struct std::binary_function' is deprecated [-Wdeprecated-declarations]
  132 | class StringEqualTo : public std::binary_function<std::string, std::string,
      |                                   ^~~~~~~~~~~~~~~
/usr/include/c++/14/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
cc1plus: warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for C++
dh override_dh_auto_build
make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
   dh_auto_test
	make -j3 test
make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'

------- compile targets are compile_lnx_38, compile_lnx_41, compile_wwpdb_py27 and compile_osx -------

------------------------------------------------------------
**** Testing dict-obj-file ****
------------------------------------------------------------
make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'

Creating mmCIF/DDL object dictionary

DictObjFileCreator Version 8.0

Dictionary SDB filename: ./mmcif_std.sdb
Object filename:     ./mmcif_std.odb

Number of dictionary datablocks: 1
Building dictionary object: mmcif_std.dic
Writing dictionary object: mmcif_std.dic
Last index = 19806
Return code = 0

Running reading test 1
Running reading test 2


Tests execution time is 2 seconds.


make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/dict-obj-file'

------------------------------------------------------------
**** Testing pdbml-parser ****
------------------------------------------------------------
make[2]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'
/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser/test/1ysh.xml
Saving 1 columns and 5 rows  in table audit_author
Saving 19 columns and 1 rows  in table pdbx_database_status
Saving 5 columns and 1 rows  in table database_PDB_rev
Saving 7 columns and 3 rows  in table struct_ref
Saving 11 columns and 3 rows  in table struct_ref_seq
Saving 12 columns and 3 rows  in table struct_ref_seq_dif
Saving 3 columns and 1 rows  in table struct_keywords
Saving 3 columns and 1 rows  in table em_assembly
Saving 3 columns and 1 rows  in table em_sample_preparation
Saving 2 columns and 1 rows  in table em_sample_support
Saving 3 columns and 1 rows  in table em_vitrification
Saving 2 columns and 1 rows  in table symmetry
Saving 21 columns and 1 rows  in table em_imaging
Saving 3 columns and 1 rows  in table em_detector
Saving 3 columns and 1 rows  in table refine
Saving 4 columns and 1 rows  in table em_3d_reconstruction
Saving 13 columns and 1 rows  in table database_PDB_matrix
Saving 2 columns and 1 rows  in table database_PDB_remark
Saving 3 columns and 1 rows  in table em_2d_projection_selection
Saving 3 columns and 1 rows  in table em_image_scans
Saving 1 columns and 1 rows  in table entry
Saving 2 columns and 1 rows  in table exptl
Saving 2 columns and 9 rows  in table ndb_struct_conf_na
Saving 24 columns and 65 rows  in table ndb_struct_na_base_pair
Saving 43 columns and 59 rows  in table ndb_struct_na_base_pair_step
Saving 3 columns and 3 rows  in table pdbx_entity_name
Saving 3 columns and 1 rows  in table software
Saving 13 columns and 1 rows  in table atom_sites
Saving 11 columns and 1 rows  in table citation
Saving 2 columns and 1 rows  in table computing
Saving 2 columns and 3 rows  in table database_2
Saving 6 columns and 6 rows  in table entity
Saving 3 columns and 424 rows  in table entity_poly_seq
Saving 6 columns and 6 rows  in table entity_poly
Saving 8 columns and 3 rows  in table entity_src_nat
Saving 10 columns and 424 rows  in table pdbx_poly_seq_scheme
Saving 8 columns and 1 rows  in table refine_hist
Saving 3 columns and 1 rows  in table struct
Saving 4 columns and 6 rows  in table struct_asym
Saving 4 columns and 6 rows  in table struct_biol_gen
Saving 17 columns and 11 rows  in table struct_conf
Saving 19 columns and 186 rows  in table struct_conn
Saving 2 columns and 1 rows  in table struct_conn_type
Saving 2 columns and 2 rows  in table struct_sheet
Saving 4 columns and 5 rows  in table struct_sheet_order
Saving 14 columns and 7 rows  in table struct_sheet_range
Saving 19 columns and 5 rows  in table pdbx_struct_sheet_hbond
Saving 1 columns and 5 rows  in table atom_type
Saving 6 columns and 24 rows  in table chem_comp
Saving 3 columns and 5 rows  in table citation_author
Saving 3 columns and 2 rows  in table audit_conform
Saving 3 columns and 1 rows  in table audit
Saving 2 columns and 1 rows  in table pdbx_audit
Saving 19 columns and 5576 rows  in table atom_site
/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser/test/1ysh.xml


Tests execution time is 1 seconds.


make[2]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005/pdbml-parser'
make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
   create-stamp debian/debhelper-build-stamp
   dh_prep
   debian/rules override_dh_auto_install
make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
# lkajan: there is no real install mechanism in the upstream sources
dh_auto_install --sourcedirectory=wrapper/python --buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/librcsb-core-wrapper-1.005/debian/tmp 
/usr/lib/python3/dist-packages/setuptools/dist.py:330: InformationOnly: Normalizing '1.000' to '1.0'
  self.metadata.version = self._normalize_version(self.metadata.version)
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

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

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

!!
  self.initialize_options()
dh override_dh_auto_install
make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
   dh_install
   debian/rules override_dh_installdocs
make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
dh_installdocs
dh_installdocs: warning: Cannot auto-detect main package for librcsb-core-wrapper-doc.  If the default is wrong, please use --doc-main-package
find debian -name "*.md5" -delete
make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
   dh_installchangelogs
   dh_installexamples
   dh_python3
   dh_lintian
   dh_perl
   dh_link
   dh_strip_nondeterminism
   dh_compress
   dh_fixperms
   dh_missing
   dh_dwz -a
   dh_strip -a
   debian/rules override_dh_makeshlibs
make[1]: Entering directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
dh_makeshlibs -V
make[1]: Leaving directory '/build/reproducible-path/librcsb-core-wrapper-1.005'
   dh_shlibdeps -a
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib/ld-linux-armhf.so.3
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 from: /lib/ld-linux-armhf.so.3
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
 diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/librcsb-core-wrapper0t64/usr/lib/librcsb-core-wrapper.so.0.0.1 found in none of the libraries
   dh_installdeb
   dh_gencontrol
dpkg-gencontrol: warning: Provides field of package python3-corepywrap: substitution variable ${python3:Provides} used, but is not defined
dpkg-gencontrol: warning: Provides field of package python3-corepywrap: substitution variable ${python3:Provides} used, but is not defined
   dh_md5sums
   dh_builddeb
dpkg-deb: building package 'librcsb-core-wrapper0t64' in '../librcsb-core-wrapper0t64_1.005-13_armhf.deb'.
dpkg-deb: building package 'python3-corepywrap' in '../python3-corepywrap_1.005-13_armhf.deb'.
dpkg-deb: building package 'librcsb-core-wrapper0-dev' in '../librcsb-core-wrapper0-dev_1.005-13_armhf.deb'.
dpkg-deb: building package 'python3-corepywrap-dbgsym' in '../python3-corepywrap-dbgsym_1.005-13_armhf.deb'.
dpkg-deb: building package 'librcsb-core-wrapper0t64-dbgsym' in '../librcsb-core-wrapper0t64-dbgsym_1.005-13_armhf.deb'.
dpkg-deb: building package 'librcsb-core-wrapper-doc' in '../librcsb-core-wrapper-doc_1.005-13_all.deb'.
 dpkg-genbuildinfo --build=binary -O../librcsb-core-wrapper_1.005-13_armhf.buildinfo
 dpkg-genchanges --build=binary -O../librcsb-core-wrapper_1.005-13_armhf.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/15720 and its subdirectories
I: Current time: Fri Dec 20 01:15:56 -12 2024
I: pbuilder-time-stamp: 1734700556