Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/m/macromoleculebuilder/macromoleculebuilder_3.2+dfsg-2_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/macromoleculebuilder-3.2+dfsg-2x91qw83z/macromoleculebuilder_3.2+dfsg-2_all.buildinfo Get source package info: macromoleculebuilder=3.2+dfsg-2 Source URL: http://snapshot.notset.fr/mr/package/macromoleculebuilder/3.2+dfsg-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=asciidoc-base=9.0.0~rc2-1 asciidoc-common=9.0.0~rc2-1 autoconf=2.69-12 automake=1:1.16.3-1 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.48 bash=5.1-1 binutils=2.35.1-4 binutils-common=2.35.1-4 binutils-x86-64-linux-gnu=2.35.1-4 bsdextrautils=2.36.1-2 bsdutils=1:2.36.1-2 build-essential=12.8 bzip2=1.0.8-4 cmake=3.18.4-1+b1 cmake-data=3.18.4-1 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.1-1 dash=0.5.11+git20200708+dd9ef66-5 debconf=1.5.74 debhelper=13.3 debianutils=4.11.2 dh-autoreconf=19 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 docbook-xml=4.5-9 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13+20201015-2 file=1:5.39-3 findutils=4.7.0+git20201010-2 freeglut3=2.8.1-6 freeglut3-dev=2.8.1-6 g++=4:10.2.0-1 g++-10=10.2.1-1 gcc=4:10.2.0-1 gcc-10=10.2.1-1 gcc-10-base=10.2.1-1 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.6-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.59 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-2 libasan6=10.2.1-1 libatomic1=10.2.1-1 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3.1 libaudit1=1:2.8.5-3.1+b1 libbinutils=2.35.1-4 libblas-dev=3.9.0-3 libblas3=3.9.0-3 libblkid1=2.36.1-2 libbrotli1=1.0.9-2+b2 libbsd0=0.10.0-1 libbz2-1.0=1.0.8-4 libc-bin=2.31-5 libc-dev-bin=2.31-5 libc6=2.31-5 libc6-dev=2.31-5 libcap-ng0=0.7.9-2.2+b1 libcc1-0=10.2.1-1 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-4 libctf0=2.35.1-4 libcurl4=7.72.0-1 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.255 libdebhelper-perl=13.3 libdpkg-perl=1.20.5 libdrm-amdgpu1=2.4.103-2 libdrm-common=2.4.103-2 libdrm-intel1=2.4.103-2 libdrm-nouveau2=2.4.103-2 libdrm-radeon1=2.4.103-2 libdrm2=2.4.103-2 libedit2=3.1-20191231-1 libegl-dev=1.3.2-1 libegl-mesa0=20.2.4-1 libegl1=1.3.2-1 libelf1=0.182-1 libexpat1=2.2.10-1 libffi7=3.3-5 libfile-stripnondeterminism-perl=1.9.0-1 libgbm1=20.2.4-1 libgcc-10-dev=10.2.1-1 libgcc-s1=10.2.1-1 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgfortran5=10.2.1-1 libgl-dev=1.3.2-1 libgl1=1.3.2-1 libgl1-mesa-dev=20.2.4-1 libgl1-mesa-dri=20.2.4-1 libglapi-mesa=20.2.4-1 libgles-dev=1.3.2-1 libgles1=1.3.2-1 libgles2=1.3.2-1 libglib2.0-0=2.66.3-2 libglu1-mesa=9.0.1-1 libglu1-mesa-dev=9.0.1-1 libglvnd-dev=1.3.2-1 libglvnd0=1.3.2-1 libglx-dev=1.3.2-1 libglx-mesa0=20.2.4-1 libglx0=1.3.2-1 libgmp10=2:6.2.1+dfsg-1 libgnutls30=3.7.0-3 libgomp1=10.2.1-1 libgpg-error0=1.38-2 libgssapi-krb5-2=1.18.3-4 libhogweed6=3.6-2 libice-dev=2:1.0.10-1 libice6=2:1.0.10-1 libicu67=67.1-5 libidn2-0=2.3.0-4 libisl23=0.23-1 libitm1=10.2.1-1 libjsoncpp24=1.9.4-4 libk5crypto3=1.18.3-4 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-4 libkrb5support0=1.18.3-4 liblapack-dev=3.9.0-3 liblapack3=3.9.0-3 libldap-2.4-2=2.4.56+dfsg-1 libllvm11=1:11.0.0-5+b1 liblsan0=10.2.1-1 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmmdb2-0=2.0.5-1 libmount1=2.36.1-2 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncurses6=6.2+20201114-1 libncursesw6=6.2+20201114-1 libnettle8=3.6-2 libnghttp2-14=1.42.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libopengl-dev=1.3.2-1 libopengl0=1.3.2-1 libopenmm-dev=7.5.0+dfsg-1 libopenmm7.5=7.5.0+dfsg-1 libp11-kit0=0.23.22-1 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpciaccess0=0.16-1 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libperl5.32=5.32.0-5 libpipeline1=1.5.3-1 libprocps8=2:3.3.16-5 libpsl5=0.21.0-1.1 libpthread-stubs0-dev=0.4-1 libpython3-stdlib=3.9.0-4 libpython3.9-minimal=3.9.1-1 libpython3.9-stdlib=3.9.1-1 libquadmath0=10.2.1-1 libreadline8=8.1-1 librhash0=1.4.0-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.5.0-3+b1 libselinux1=3.1-2+b2 libsensors-config=1:3.6.0-2 libsensors5=1:3.6.0-2 libseqan2-dev=2.4.0+dfsg-12 libsigsegv2=2.12-2 libsimbody-dev=3.6.1+dfsg-7 libsimbody3.6=3.6.1+dfsg-7 libsimtkmolmodel-dev=3.0~svn842-2 libsimtkmolmodel3.0=3.0~svn842-2 libsm-dev=2:1.2.3-1 libsm6=2:1.2.3-1 libsmartcols1=2.36.1-2 libsqlite3-0=3.34.0-1 libssh2-1=1.9.0-2 libssl1.1=1.1.1i-1 libstdc++-10-dev=10.2.1-1 libstdc++6=10.2.1-1 libsub-override-perl=0.09-2 libsystemd0=247.1-4 libtasn1-6=4.16.0-2 libtinfo6=6.2+20201114-1 libtirpc-common=1.2.6-3 libtirpc-dev=1.2.6-3 libtirpc3=1.2.6-3 libtool=2.4.6-14 libtsan0=10.2.1-1 libubsan1=10.2.1-1 libuchardet0=0.0.7-1 libudev1=247.1-4 libunistring2=0.9.10-4 libuuid1=2.36.1-2 libuv1=1.40.0-1 libvulkan1=1.2.154.1-1 libwayland-client0=1.18.0-2~exp1.1 libwayland-server0=1.18.0-2~exp1.1 libx11-6=2:1.6.12-1 libx11-data=2:1.6.12-1 libx11-dev=2:1.6.12-1 libx11-xcb1=2:1.6.12-1 libxau-dev=1:1.0.8-1+b2 libxau6=1:1.0.8-1+b2 libxcb-dri2-0=1.14-2 libxcb-dri3-0=1.14-2 libxcb-glx0=1.14-2 libxcb-present0=1.14-2 libxcb-sync1=1.14-2 libxcb-xfixes0=1.14-2 libxcb1=1.14-2 libxcb1-dev=1.14-2 libxdamage1=1:1.1.5-2 libxdmcp-dev=1:1.1.2-3 libxdmcp6=1:1.1.2-3 libxext-dev=2:1.3.3-1+b2 libxext6=2:1.3.3-1+b2 libxfixes-dev=1:5.0.3-2 libxfixes3=1:5.0.3-2 libxi-dev=2:1.7.10-1 libxi6=2:1.7.10-1 libxml2=2.9.10+dfsg-6.3+b1 libxml2-utils=2.9.10+dfsg-6.3+b1 libxmu-dev=2:1.1.2-2+b3 libxmu-headers=2:1.1.2-2 libxmu6=2:1.1.2-2+b3 libxshmfence1=1.3-1 libxslt1.1=1.1.34-4 libxt-dev=1:1.2.0-1 libxt6=1:1.2.0-1 libxxf86vm1=1:1.1.4-1+b2 libz3-4=4.8.9-1 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.9.11-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 mailcap=3.67 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 media-types=1.0.1 mime-support=3.66 ncurses-base=6.2+20201114-1 ncurses-bin=6.2+20201114-1 patch=2.7.6-6 perl=5.32.0-5 perl-base=5.32.0-5 perl-modules-5.32=5.32.0-5 po-debconf=1.0.21 procps=2:3.3.16-5 python3=3.9.0-4 python3-minimal=3.9.0-4 python3.9=3.9.1-1 python3.9-minimal=3.9.1-1 readline-common=8.1-1 sed=4.7-1 sensible-utils=0.0.12+nmu1 sgml-base=1.30 sgml-data=2.0.11 sysvinit-utils=2.96-5 tar=1.32+dfsg-1 tzdata=2020d-1 util-linux=2.36.1-2 x11-common=1:7.7+21 x11proto-core-dev=2020.1-1 x11proto-dev=2020.1-1 x11proto-input-dev=2020.1-1 x11proto-xext-dev=2020.1-1 xml-core=0.18+nmu1 xorg-sgml-doctools=1:1.11-1 xsltproc=1.1.34-4 xtrans-dev=1.4.0-1 xz-utils=5.2.4-1+b1 zlib1g=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210327T142656Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20201214T150912Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d macromoleculebuilder=3.2+dfsg-2 && mkdir -p /build/macromoleculebuilder-DlTNxF && dpkg-source --no-check -x /*.dsc /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg && chown -R builduser:builduser /build/macromoleculebuilder-DlTNxF" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1608126154" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/macromoleculebuilder-DlTNxF /tmp/macromoleculebuilder-3.2+dfsg-2x91qw83z bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20201214T150912Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.WAsSAYTcEi as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.WAsSAYTcEi Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-2). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20201214T150912Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201214T150912Z unstable/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (818 kB/s) Selecting previously unselected package libfakeroot:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4616 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1.1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ... Unpacking fakeroot (1.25.3-1.1) ... Setting up libfakeroot:amd64 (1.25.3-1.1) ... Setting up fakeroot (1.25.3-1.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-5) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210327T142656Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20201214T150912Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.WAsSAYTcEi Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210327T142656Z unstable InRelease [154 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20201214T150912Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20210327T142656Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20210327T142656Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20210327T142656Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20210327T142656Z unstable/main amd64 Packages [11.7 MB] Fetched 34.4 MB in 30s (1153 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.WAsSAYTcEi I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d macromoleculebuilder=3.2+dfsg-2 && mkdir -p /build/macromoleculebuilder-DlTNxF && dpkg-source --no-check -x /*.dsc /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg && chown -R builduser:builduser /build/macromoleculebuilder-DlTNxF"' exec /tmp/mmdebstrap.WAsSAYTcEi Reading package lists... NOTICE: 'macromoleculebuilder' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/debichem-team/macromoleculebuilder.git Please use: git clone https://salsa.debian.org/debichem-team/macromoleculebuilder.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2479 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main macromoleculebuilder 3.2+dfsg-2 (dsc) [2334 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main macromoleculebuilder 3.2+dfsg-2 (tar) [2474 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main macromoleculebuilder 3.2+dfsg-2 (diff) [3060 B] Fetched 2479 kB in 2s (1197 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'macromoleculebuilder_3.2+dfsg-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting macromoleculebuilder in /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg dpkg-source: info: unpacking macromoleculebuilder_3.2+dfsg.orig.tar.xz dpkg-source: info: unpacking macromoleculebuilder_3.2+dfsg-2.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1608126154" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.WAsSAYTcEi dpkg-buildpackage: info: source package macromoleculebuilder dpkg-buildpackage: info: source version 3.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andrius Merkys dpkg-source --before-build . debian/rules clean dh clean dh_clean debian/rules binary-indep dh binary-indep dh_update_autotools_config -i dh_autoreconf -i debian/rules override_dh_auto_configure make[1]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg' rm -rf parameterization/build dh_auto_configure -- \ -DOpenMM_INCLUDE_DIR=/usr/include \ -DCMAKE_CXX_FLAGS="-D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0" cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DOpenMM_INCLUDE_DIR=/usr/include "-DCMAKE_CXX_FLAGS=-D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0" .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg' dh_auto_build -i cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg -B/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/MMBlib.dir/build.make CMakeFiles/MMBlib.dir/depend make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' cd /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMBlib.dir/DependInfo.cmake --color= Dependee "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMBlib.dir/DependInfo.cmake" is newer than depender "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMBlib.dir/depend.internal". Dependee "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMBlib.dir/depend.internal". Scanning dependencies of target MMBlib make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/MMBlib.dir/build.make CMakeFiles/MMBlib.dir/build make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' [ 10%] Building CXX object CMakeFiles/MMBlib.dir/src/AtomSpringContainer.cpp.o [ 10%] Building CXX object CMakeFiles/MMBlib.dir/src/Utils.cpp.o [ 10%] Building CXX object CMakeFiles/MMBlib.dir/src/UnitCellParameters.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/AtomSpringContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/AtomSpringContainer.cpp /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/Utils.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Utils.cpp /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/UnitCellParameters.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/UnitCellParameters.cpp [ 13%] Building CXX object CMakeFiles/MMBlib.dir/src/BiopolymerClass.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/BiopolymerClass.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/UnitCellParameters.cpp: In member function ‘const double UnitCellParameters::angleInRange(double)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/UnitCellParameters.cpp:165:2: warning: control reaches end of non-void function [-Wreturn-type] 165 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/UnitCellParameters.cpp: In member function ‘const bool UnitCellParameters::exitIfNotValid() const’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/UnitCellParameters.cpp:270:1: warning: control reaches end of non-void function [-Wreturn-type] 270 | } | ^ [ 17%] Building CXX object CMakeFiles/MMBlib.dir/src/DisplacementContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/DisplacementContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DisplacementContainer.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Mutation.h:4, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClass.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:13: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Utils.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/AtomSpringContainer.cpp:12: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘bool BiopolymerClass::setRenumberPdbResidues(bool)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:1067:5: warning: no return statement in function returning non-void [-Wreturn-type] 1067 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘bool BiopolymerClassContainer::setRenumberPdbResidues(bool)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:4725:1: warning: no return statement in function returning non-void [-Wreturn-type] 4725 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Utils.cpp: In function ‘int ValidateNonNegativeInt(int)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Utils.cpp:526:1: warning: control reaches end of non-void function [-Wreturn-type] 526 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘int BiopolymerClass::validateBiopolymerType() const’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:356:1: warning: control reaches end of non-void function [-Wreturn-type] 356 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘SimTK::String BiopolymerClass::getBiopolymerTypeAsString()’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:1062:1: warning: control reaches end of non-void function [-Wreturn-type] 1062 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘int BiopolymerClass::validateAtomPathName(SimTK::Compound::AtomPathName)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:1133:1: warning: control reaches end of non-void function [-Wreturn-type] 1133 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘const SimTK::ResidueInfo::Index BiopolymerClass::getResidueIndex(ResidueID)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:1529:1: warning: control reaches end of non-void function [-Wreturn-type] 1529 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘SimTK::String BiopolymerClass::getRepresentativeAtomName()’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:1552:1: warning: control reaches end of non-void function [-Wreturn-type] 1552 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘double BiopolymerClass::getRepresentativeAtomMassThreshold()’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:1569:1: warning: control reaches end of non-void function [-Wreturn-type] 1569 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘int BiopolymerClassContainer::initializeBiopolymer(SimTK::String, SimTK::CompoundSystem&, bool, bool, bool, bool, bool, bool, bool, double, std::vector, double, double, std::vector)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:2749:1: warning: control reaches end of non-void function [-Wreturn-type] 2749 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘int BiopolymerClassContainer::getBiopolymerClassIndex(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:2850:1: warning: control reaches end of non-void function [-Wreturn-type] 2850 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘BiopolymerClass& BiopolymerClassContainer::updBiopolymerClass(int)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:2867:1: warning: control reaches end of non-void function [-Wreturn-type] 2867 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘int BiopolymerClassContainer::validateChainID(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:3038:1: warning: control reaches end of non-void function [-Wreturn-type] 3038 | } | ^ [ 20%] Building CXX object CMakeFiles/MMBlib.dir/src/MobilizerContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/MobilizerContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MobilizerContainer.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp: In member function ‘ResidueID BiopolymerClassContainer::residueID(std::map, const char*, SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClass.cpp:4174:1: warning: control reaches end of non-void function [-Wreturn-type] 4174 | } | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Mutation.h:4, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClass.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/DisplacementContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DisplacementContainer.cpp:12: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 24%] Building CXX object CMakeFiles/MMBlib.dir/src/MoleculeContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/MoleculeContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DisplacementContainer.cpp: In member function ‘Displacement& DisplacementContainer::updDisplacement(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DisplacementContainer.cpp:41:1: warning: control reaches end of non-void function [-Wreturn-type] 41 | }; | ^ [ 27%] Building CXX object CMakeFiles/MMBlib.dir/src/DensityContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/DensityContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityContainer.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MobilizerContainer.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 31%] Building CXX object CMakeFiles/MMBlib.dir/src/BasePairContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/BasePairContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ConstraintContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/MoleculeContainer.h:9, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp:3: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 34%] Building CXX object CMakeFiles/MMBlib.dir/src/ContactContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/ContactContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ContactContainer.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp: In member function ‘SimTK::Compound CompoundObjectMapContainer::fetchCompound(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp:73:1: warning: control reaches end of non-void function [-Wreturn-type] 73 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp: In member function ‘SimTK::Biotype CompoundObjectMapContainer::fetchBiotype(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp:92:1: warning: control reaches end of non-void function [-Wreturn-type] 92 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp: In member function ‘const SimTK::Element CompoundObjectMapContainer::fetchElement(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp:220:1: warning: control reaches end of non-void function [-Wreturn-type] 220 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp: In member function ‘SimTK::Compound::SingleAtom CompoundObjectMapContainer::fetchSingleAtom(SimTK::String, SimTK::Compound::AtomName&, SimTK::String, SimTK::Angle)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp:244:1: warning: control reaches end of non-void function [-Wreturn-type] 244 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp: In member function ‘bool MoleculeClassContainer::hasChainID(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MoleculeContainer.cpp:722:1: warning: control reaches end of non-void function [-Wreturn-type] 722 | } | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Mutation.h:4, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClass.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/DensityContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityContainer.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Mutation.h:4, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClass.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BasePairContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 37%] Building CXX object CMakeFiles/MMBlib.dir/src/ConstraintContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/ConstraintContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ConstraintContainer.cpp [ 41%] Building CXX object CMakeFiles/MMBlib.dir/src/Repel.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/Repel.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Repel.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp: In member function ‘bool BasePairContainer::hasWatsonCrickCisPair(SimTK::String, ResidueID)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp:184:1: warning: control reaches end of non-void function [-Wreturn-type] 184 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp: In member function ‘const BaseInteraction BasePairContainer::getWatsonCrickCisPair(SimTK::String, ResidueID)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp:206:1: warning: control reaches end of non-void function [-Wreturn-type] 206 | } // of method | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp: In member function ‘const ResidueID BasePairContainer::getWatsonCrickCisPairingResidue(SimTK::String, ResidueID)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp:223:1: warning: control reaches end of non-void function [-Wreturn-type] 223 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp: In member function ‘const SimTK::String BasePairContainer::getWatsonCrickCisPairingChain(SimTK::String, ResidueID)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp:237:1: warning: control reaches end of non-void function [-Wreturn-type] 237 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp: In member function ‘const ResidueID BasePairContainer::getLastWatsonCrickCisPairingResidueOfRun(SimTK::String, ResidueID, BiopolymerClassContainer&)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BasePairContainer.cpp:289:1: warning: control reaches end of non-void function [-Wreturn-type] 289 | } // of getLastWatsonCrickCisPairingResidueOfRun | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ContactContainer.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 44%] Building CXX object CMakeFiles/MMBlib.dir/src/MonoAtoms.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/MonoAtoms.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MonoAtoms.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ConstraintContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ConstraintContainer.cpp:10: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 48%] Building CXX object CMakeFiles/MMBlib.dir/src/ParameterReader.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/ParameterReader.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ParameterReader.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/PeriodicScrubber.h:16, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Repel.h:21, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Repel.cpp:12: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Repel.cpp: In member function ‘void ConstrainedDynamics::constraintsAndRestraints(ParameterReader&, BiopolymerClassContainer&, SimTK::GeneralForceSubsystem&, SimTK::SimbodyMatterSubsystem&, SimTK::State&, SimTK::CompoundSystem&)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/Repel.cpp:127:49: note: ‘#pragma message: USE_OPENMM is defined’ 127 | #pragma message ("USE_OPENMM is defined") | ^ [ 51%] Building CXX object CMakeFiles/MMBlib.dir/src/BaseInteractionParameterReader.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/BaseInteractionParameterReader.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BaseInteractionParameterReader.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MonoAtoms.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MonoAtoms.cpp: In member function ‘const int MonoAtoms::getResidueIndex(ResidueID)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MonoAtoms.cpp:153:1: warning: control reaches end of non-void function [-Wreturn-type] 153 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MonoAtoms.cpp: In member function ‘MonoAtoms MonoAtomsContainer::getMonoAtoms(SimTK::String)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/MonoAtoms.cpp:277:1: warning: control reaches end of non-void function [-Wreturn-type] 277 | } | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ParameterReader.cpp:17: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 55%] Building CXX object CMakeFiles/MMBlib.dir/src/TetherForce.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/TetherForce.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/TetherForce.cpp [ 58%] Building CXX object CMakeFiles/MMBlib.dir/src/BiopolymerClassTwoTransformForces.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/BiopolymerClassTwoTransformForces.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClassTwoTransformForces.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BaseInteractionParameterReader.h:22, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BaseInteractionParameterReader.cpp:16: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 62%] Building CXX object CMakeFiles/MMBlib.dir/src/WaterDroplet.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/WaterDroplet.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/WaterDroplet.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/TetherForce.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/TetherForce.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClassTwoTransformForces.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/BiopolymerClassTwoTransformForces.cpp:10: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/WaterDroplet.h:16, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/WaterDroplet.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 65%] Building CXX object CMakeFiles/MMBlib.dir/src/DensityMap.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/DensityMap.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityMap.cpp [ 68%] Building CXX object CMakeFiles/MMBlib.dir/src/DensityForce.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/DensityForce.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityForce.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/WaterDroplet.cpp: In member function ‘WaterDroplet WaterDropletContainer::getWaterDroplet(std::string)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/WaterDroplet.cpp:108:1: warning: control reaches end of non-void function [-Wreturn-type] 108 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/WaterDroplet.cpp: In member function ‘WaterDroplet& WaterDropletContainer::updWaterDroplet(std::string)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/WaterDroplet.cpp:120:1: warning: control reaches end of non-void function [-Wreturn-type] 120 | } | ^ [ 72%] Building CXX object CMakeFiles/MMBlib.dir/src/ElectrostaticPotentialGridForce.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/ElectrostaticPotentialGridForce.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ElectrostaticPotentialGridForce.cpp [ 75%] Building CXX object CMakeFiles/MMBlib.dir/src/ErrorManager.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/ErrorManager.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ErrorManager.cpp /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ErrorManager.cpp: In member function ‘ErrorManager& ErrorManager::operator=(const ErrorManager&)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ErrorManager.cpp:25:1: warning: no return statement in function returning non-void [-Wreturn-type] 24 | _buffer << em._buffer.rdbuf(); +++ |+ return *this; 25 | } | ^ [ 79%] Building CXX object CMakeFiles/MMBlib.dir/src/PeriodicPdbAndEnergyWriter.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/PeriodicPdbAndEnergyWriter.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/PeriodicPdbAndEnergyWriter.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityMap.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/DensityForce.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityForce.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityMap.cpp: In member function ‘GridPoint& DensityMap::updGridPoint(GridIndices)’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityMap.cpp:127:5: warning: control reaches end of non-void function [-Wreturn-type] 127 | } | ^ /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityMap.cpp: In member function ‘SimTK::Vec3 DensityMap::calcInterpolatedFirstQuadrantGradient(GridPoint&, SimTK::Vec3) const’: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/DensityMap.cpp:1448:1: warning: control reaches end of non-void function [-Wreturn-type] 1448 | } | ^ [ 82%] Building CXX object CMakeFiles/MMBlib.dir/src/NTC_PARAMETER_READER.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/NTC_PARAMETER_READER.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/NTC_PARAMETER_READER.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ElectrostaticPotentialGridForce.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/ElectrostaticPotentialGridForce.cpp:11: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/PeriodicPdbAndEnergyWriter.h:13, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/PeriodicPdbAndEnergyWriter.cpp:15: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 86%] Building CXX object CMakeFiles/MMBlib.dir/src/NtCClassContainer.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/NtCClassContainer.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/NtCClassContainer.cpp [ 89%] Building CXX object CMakeFiles/MMBlib.dir/src/NtCForces.cpp.o /usr/bin/c++ -DMMBlib_EXPORTS -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -fPIC -DMMB_BUILDING_SHARED_LIBRARY -o CMakeFiles/MMBlib.dir/src/NtCForces.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/NtCForces.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Mutation.h:4, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClass.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/NtC_Class_Container.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/NTC_PARAMETER_READER.cpp:16: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Mutation.h:4, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/BiopolymerClass.h:18, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/NtCClassContainer.cpp:12: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/NtCForces.h:19, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/NtCForces.cpp:10: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [ 93%] Linking CXX shared library libMMBlib.so /usr/bin/cmake -E cmake_link_script CMakeFiles/MMBlib.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -Wl,-z,relro -shared -Wl,-soname,libMMBlib.so.3.2 -o libMMBlib.so.3.2 CMakeFiles/MMBlib.dir/src/Utils.cpp.o CMakeFiles/MMBlib.dir/src/BiopolymerClass.cpp.o CMakeFiles/MMBlib.dir/src/UnitCellParameters.cpp.o CMakeFiles/MMBlib.dir/src/AtomSpringContainer.cpp.o CMakeFiles/MMBlib.dir/src/DisplacementContainer.cpp.o CMakeFiles/MMBlib.dir/src/MobilizerContainer.cpp.o CMakeFiles/MMBlib.dir/src/MoleculeContainer.cpp.o CMakeFiles/MMBlib.dir/src/DensityContainer.cpp.o CMakeFiles/MMBlib.dir/src/BasePairContainer.cpp.o CMakeFiles/MMBlib.dir/src/ContactContainer.cpp.o CMakeFiles/MMBlib.dir/src/ConstraintContainer.cpp.o CMakeFiles/MMBlib.dir/src/Repel.cpp.o CMakeFiles/MMBlib.dir/src/MonoAtoms.cpp.o CMakeFiles/MMBlib.dir/src/ParameterReader.cpp.o CMakeFiles/MMBlib.dir/src/BaseInteractionParameterReader.cpp.o CMakeFiles/MMBlib.dir/src/TetherForce.cpp.o CMakeFiles/MMBlib.dir/src/BiopolymerClassTwoTransformForces.cpp.o CMakeFiles/MMBlib.dir/src/WaterDroplet.cpp.o CMakeFiles/MMBlib.dir/src/DensityMap.cpp.o CMakeFiles/MMBlib.dir/src/DensityForce.cpp.o CMakeFiles/MMBlib.dir/src/ElectrostaticPotentialGridForce.cpp.o CMakeFiles/MMBlib.dir/src/ErrorManager.cpp.o CMakeFiles/MMBlib.dir/src/PeriodicPdbAndEnergyWriter.cpp.o CMakeFiles/MMBlib.dir/src/NTC_PARAMETER_READER.cpp.o CMakeFiles/MMBlib.dir/src/NtCClassContainer.cpp.o CMakeFiles/MMBlib.dir/src/NtCForces.cpp.o -L/usr/lib/x86_64-linux-gnu64 -L/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu64:/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu: -lSimTKmolmodel /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lOpenMM -llapack -lblas -ldl -lrt -lblas -llapack -lblas -llapack -lpthread -ldl -lrt -lm /usr/bin/cmake -E cmake_symlink_library libMMBlib.so.3.2 libMMBlib.so.3.2 libMMBlib.so make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target MMBlib make -f CMakeFiles/MMB.dir/build.make CMakeFiles/MMB.dir/depend make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' cd /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMB.dir/DependInfo.cmake --color= Dependee "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMB.dir/DependInfo.cmake" is newer than depender "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMB.dir/depend.internal". Dependee "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMB.dir/depend.internal". Scanning dependencies of target MMB make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/MMB.dir/build.make CMakeFiles/MMB.dir/build make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object CMakeFiles/MMB.dir/src/RNABuilder.cpp.o /usr/bin/c++ -I/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include -I/usr/include/openmm -I/usr/include/openmm/reference -isystem /usr/include/simbody -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -o CMakeFiles/MMB.dir/src/RNABuilder.cpp.o -c /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/RNABuilder.cpp In file included from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/AtomSpringContainer.h:14, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/ParameterReader.h:20, from /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/src/RNABuilder.cpp:15: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/include/Utils.h:33:70: note: ‘#pragma message: using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined’ 33 | #pragma message ("using OpenMM::Vec3: USE_OPENMM_REALVEC NOT defined") | ^ [100%] Linking CXX executable MMB /usr/bin/cmake -E cmake_link_script CMakeFiles/MMB.dir/link.txt --verbose=1 /usr/bin/c++ -D BuildNtC -D USE_OPENMM -g -O2 -fdebug-prefix-map=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O0 -Wl,-z,relro -rdynamic CMakeFiles/MMB.dir/src/RNABuilder.cpp.o -o MMB -L/usr/lib/x86_64-linux-gnu64 -L/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu64:/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu: libMMBlib.so.3.2 -lSimTKmolmodel /usr/lib/x86_64-linux-gnu/libSimTKsimbody.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKmath.so.3.6 /usr/lib/x86_64-linux-gnu/libSimTKcommon.so.3.6 -lOpenMM -llapack -lblas -ldl -lrt -lblas -llapack -lblas -llapack -lpthread -lm -ldl -lrt make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' [100%] Built target MMB make[2]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' dh_auto_test -i create-stamp debian/debhelper-build-stamp dh_prep -i dh_auto_install -i cd obj-x86_64-linux-gnu && make -j4 install DESTDIR=/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg -B/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/MMBlib.dir/build.make CMakeFiles/MMBlib.dir/depend make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' cd /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMBlib.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/MMBlib.dir/build.make CMakeFiles/MMBlib.dir/build make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'CMakeFiles/MMBlib.dir/build'. make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target MMBlib make -f CMakeFiles/MMB.dir/build.make CMakeFiles/MMB.dir/depend make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' cd /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/MMB.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/MMB.dir/build.make CMakeFiles/MMB.dir/build make[3]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'CMakeFiles/MMB.dir/build'. make[3]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' [100%] Built target MMB make[2]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/lib/libMMBlib.so.3.2 -- Set runtime path of "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/lib/libMMBlib.so.3.2" to "" -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/lib/libMMBlib.so -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/bin/MMB -- Set runtime path of "/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/bin/MMB" to "" -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/share/MMB/parameters.csv -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/renumber.pl -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/extract_FASTA.awk -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/add-chain-IDs.pl -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/renumber-loop.pl -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/parse-restraints.pl -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/add-precision.awk -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/b-factor-per-residue.pl -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/extract_FASTA.bak.awk -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/scripts/format-for-pdb.awk -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.template_docking.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1UAO-disre-simple.txt -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.benzene.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.tRNA-fitting.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1UAO.short.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.TetR_threading_TUT.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1FC2.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.NMR.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.GlnBP-thermal-exploration.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1GGG.short.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/TetRB.scanning.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.antibody-antigen.flexible-interfaces.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.A_N.32.G.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/antibody-antigen.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/TetR.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1FC2.C-to-A.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.disulphide-bonded-cysteines.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.GNRA-NtC.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1WDN.short.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.A_N.32.N.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.DNA-helix.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.RNA-homology-modeling.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.singlebasepair.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.protein-morphing.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/.commands.GNRA-NtC.dat.swp -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.protein-homology-modeling.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/parameters.csv -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/protein-template.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.hairpin-short.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/2AVY.A.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1BA2.aligned.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.long-chain-ID.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1UAO.atoms-renamed.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.TetRB.scanning.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/6TNA.short.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/tRNA.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.RBP-fitting.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.template-docking.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1ARJ.short.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/commands.TAR.dat -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1dpx.C.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1mlb.AB.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1mlc.DEF.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/1GID.shifted.pdb -- Installing: /build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/debian/tmp/usr/examples/5MRC.GNRA.pdb make[1]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg' dh_install dh_install -plibmmblib3.2 debian/tmp/usr/lib/libMMBlib.so.* usr/lib/x86_64-linux-gnu dh_install: warning: All requested packages have been excluded (e.g. via a Build-Profile or due to architecture restrictions). dh_install -plibmmblib-dev debian/tmp/usr/lib/libMMBlib.so usr/lib/x86_64-linux-gnu dh_install: warning: All requested packages have been excluded (e.g. via a Build-Profile or due to architecture restrictions). make[1]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg' dh_installdocs -i dh_installchangelogs -i debian/rules override_dh_installman make[1]: Entering directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg' a2x -d manpage -f manpage -D debian/tmp debian/MMB.1.asciidoc dh_installman make[1]: Leaving directory '/build/macromoleculebuilder-DlTNxF/macromoleculebuilder-3.2+dfsg' dh_perl -i dh_link -i dh_strip_nondeterminism -i dh_compress -i dh_fixperms -i dh_missing -i dh_missing: warning: usr/examples/.commands.GNRA-NtC.dat.swp exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1ARJ.short.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1BA2.aligned.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1FC2.C-to-A.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1FC2.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1GGG.short.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1GID.shifted.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1UAO-disre-simple.txt exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1UAO.atoms-renamed.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1UAO.short.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1WDN.short.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1dpx.C.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1mlb.AB.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/1mlc.DEF.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/2AVY.A.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/5MRC.GNRA.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/6TNA.short.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/TetR.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/TetRB.scanning.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/antibody-antigen.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.A_N.32.G.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.A_N.32.N.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.DNA-helix.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.GNRA-NtC.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.GlnBP-thermal-exploration.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.NMR.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.RBP-fitting.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.RNA-homology-modeling.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.TAR.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.TetRB.scanning.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.TetR_threading_TUT.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.antibody-antigen.flexible-interfaces.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.benzene.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.disulphide-bonded-cysteines.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.hairpin-short.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.long-chain-ID.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.protein-homology-modeling.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.protein-morphing.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.singlebasepair.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.tRNA-fitting.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.template-docking.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/commands.template_docking.dat exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/parameters.csv exists in debian/tmp but is not installed to anywhere (related file: "debian/tmp/usr/share/MMB/parameters.csv") dh_missing: warning: usr/examples/protein-template.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/examples/tRNA.pdb exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/lib/libMMBlib.so exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/lib/libMMBlib.so.3.2 exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/add-chain-IDs.pl exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/add-precision.awk exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/b-factor-per-residue.pl exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/extract_FASTA.awk exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/extract_FASTA.bak.awk exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/format-for-pdb.awk exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/parse-restraints.pl exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/renumber-loop.pl exists in debian/tmp but is not installed to anywhere dh_missing: warning: usr/scripts/renumber.pl exists in debian/tmp but is not installed to anywhere While detecting missing files, dh_missing noted some files with a similar name to those that were missing. This warning /might/ be resolved by replacing references to the missing files with the similarly named ones that dh_missing found - assuming the content is identical. As an example, you might want to replace: * debian/tmp/usr/share/MMB/parameters.csv with: * usr/examples/parameters.csv in a file in debian/ or as argument to one of the dh_* tools called from debian/rules. (Note it is possible the paths are not used verbatim but instead directories containing or globs matching them are used instead) Alternatively, add the missing file to debian/not-installed if it cannot and should not be used. The following debhelper tools have reported what they installed (with files per package) * dh_install: libmmblib-dev (0), libmmblib3.2 (0), mmb (1), mmb-common (1) * dh_installdocs: libmmblib-dev (0), libmmblib3.2 (0), mmb (0), mmb-common (0) * dh_installman: libmmblib-dev (0), libmmblib3.2 (0), mmb (1), mmb-common (0) If the missing files are installed by another tool, please file a bug against it. When filing the report, if the tool is not part of debhelper itself, please reference the "Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+). (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built If the omission is intentional or no other helper can take care of this consider adding the paths to debian/not-installed. dh_installdeb -i dh_gencontrol -i dh_md5sums -i dh_builddeb -i dpkg-deb: building package 'mmb-common' in '../mmb-common_3.2+dfsg-2_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../macromoleculebuilder_3.2+dfsg-2_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/macromoleculebuilder-DlTNxF /tmp/macromoleculebuilder-3.2+dfsg-2x91qw83z I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.WAsSAYTcEi... I: success in 775.5274 seconds md5: mmb-common_3.2+dfsg-2_all.deb: OK sha1: mmb-common_3.2+dfsg-2_all.deb: OK sha256: mmb-common_3.2+dfsg-2_all.deb: OK Checksums: OK