libpdb-redo →
1.0.2-3+b2 →
armhf → 2022-02-05 19:57:35
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-04
+==============================================================================+
| libpdb-redo 1.0.2-3+b2 (armhf) Sat, 05 Feb 2022 19:36:45 +0000 |
+==============================================================================+
Package: libpdb-redo
Version: 1.0.2-3+b2
Source Version: 1.0.2-3
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bookworm-staging-armhf-sbuild-eaab8758-67e4-4ecc-82a2-51e60a82ffef' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [12.7 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.6 MB]
Fetched 26.4 MB in 28s (954 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'libpdb-redo' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/libpdb-redo.git
Please use:
git clone https://salsa.debian.org/med-team/libpdb-redo.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 4170 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main libpdb-redo 1.0.2-3 (dsc) [2309 B]
Get:2 http://172.17.4.1/private bookworm-staging/main libpdb-redo 1.0.2-3 (tar) [4163 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main libpdb-redo 1.0.2-3 (diff) [4828 B]
Fetched 4170 kB in 0s (9365 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/libpdb-redo-dhRIGg/libpdb-redo-1.0.2' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/libpdb-redo-dhRIGg' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-opsPnk/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-opsPnk/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-opsPnk/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Packages [433 B]
Fetched 2109 B in 1s (2782 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
netbase sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 80 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (21.6 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12559 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), libcifpp-dev (>= 1.0.1-5), autoconf-archive, libnewuoa-dev, pkg-config, libgsl-dev, libboost-dev, libboost-iostreams-dev, libzeep-dev (>= 5.1.4), libclipper-dev, libccp4-dev (>= 6.5.1-5)
Filtered Build-Depends: debhelper-compat (= 13), libcifpp-dev (>= 1.0.1-5), autoconf-archive, libnewuoa-dev, pkg-config, libgsl-dev, libboost-dev, libboost-iostreams-dev, libzeep-dev (>= 5.1.4), libclipper-dev, libccp4-dev (>= 6.5.1-5)
dpkg-deb: building package 'sbuild-build-depends-libpdb-redo-dummy' in '/<<BUILDDIR>>/resolver-opsPnk/apt_archive/sbuild-build-depends-libpdb-redo-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-libpdb-redo-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Sources [587 B]
Get:5 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ Packages [668 B]
Fetched 2588 B in 1s (3527 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install libpdb-redo build dependencies (apt-based resolver)
-----------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf autoconf-archive automake autopoint autotools-dev bsdextrautils
cpp-11 debhelper dh-autoreconf dh-strip-nondeterminism dwz fftw-dev fftw2
file g++-11 gcc-11 gcc-11-base gettext gettext-base groff-base icu-devtools
intltool-debian libarchive-zip-perl libasan6 libatomic1
libboost-date-time-dev libboost-date-time1.74-dev libboost-date-time1.74.0
libboost-dev libboost-iostreams-dev libboost-iostreams1.74-dev
libboost-iostreams1.74.0 libboost-program-options-dev
libboost-program-options1.74-dev libboost-program-options1.74.0
libboost-regex1.74-dev libboost-regex1.74.0 libboost-serialization1.74-dev
libboost-serialization1.74.0 libboost-system-dev libboost-system1.74-dev
libboost-system1.74.0 libboost1.74-dev libbrotli1 libbsd0 libcc1-0
libccp4-data libccp4-dev libccp4c0 libccp4f0 libcifpp-data libcifpp-dev
libcifpp2 libclipper-dev libclipper2 libcurl3-gnutls libdebhelper-perl
libelf1 libevent-core-2.1-7 libevent-pthreads-2.1-7 libfabric1
libfile-stripnondeterminism-perl libgcc-11-dev libgcc-s1 libgfortran5
libglib2.0-0 libgomp1 libgsl-dev libgsl27 libgslcblas0 libhwloc-plugins
libhwloc15 libibverbs1 libicu-dev libicu67 libmagic-mgc libmagic1 libmd0
libmmdb2-0 libmmdb2-dev libnewuoa-dev libnewuoa0 libnghttp2-14 libnl-3-200
libnl-route-3-200 libopenmpi3 libpciaccess0 libpipeline1 libpmix2 libpsl5
librdmacm1 librtmp1 libsigsegv2 libssh2-1 libstdc++-11-dev libstdc++6
libsub-override-perl libtool libubsan1 libuchardet0 libx11-6 libx11-data
libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxnvctrl0 libzeep-dev
libzeep5.1 m4 man-db ocl-icd-libopencl1 pkg-config po-debconf sfftw-dev
sfftw2
Suggested packages:
gnu-standards autoconf-doc gcc-11-locales dh-make mpi-defaults-bin
gcc-11-doc gettext-doc libasprintf-dev libgettextpo-dev groff libboost-doc
libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev
libboost-container1.74-dev libboost-context1.74-dev
libboost-contract1.74-dev libboost-coroutine1.74-dev
libboost-exception1.74-dev libboost-fiber1.74-dev
libboost-filesystem1.74-dev libboost-graph1.74-dev
libboost-graph-parallel1.74-dev libboost-locale1.74-dev libboost-log1.74-dev
libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev
libboost-numpy1.74-dev libboost-python1.74-dev libboost-random1.74-dev
libboost-stacktrace1.74-dev libboost-test1.74-dev libboost-thread1.74-dev
libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev
libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev
libclipper-doc gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html
icu-doc pciutils libstdc++-11-doc libtool-doc gfortran | fortran95-compiler
gcj-jdk libzeep-doc mrc m4-doc apparmor less www-browser opencl-icd
libmail-box-perl
Recommended packages:
curl | wget | lynx ca-certificates libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs ibverbs-providers publicsuffix libltdl-dev
libmail-sendmail-perl
The following NEW packages will be installed:
autoconf autoconf-archive automake autopoint autotools-dev bsdextrautils
debhelper dh-autoreconf dh-strip-nondeterminism dwz fftw-dev fftw2 file
gettext gettext-base groff-base icu-devtools intltool-debian
libarchive-zip-perl libboost-date-time-dev libboost-date-time1.74-dev
libboost-date-time1.74.0 libboost-dev libboost-iostreams-dev
libboost-iostreams1.74-dev libboost-iostreams1.74.0
libboost-program-options-dev libboost-program-options1.74-dev
libboost-program-options1.74.0 libboost-regex1.74-dev libboost-regex1.74.0
libboost-serialization1.74-dev libboost-serialization1.74.0
libboost-system-dev libboost-system1.74-dev libboost-system1.74.0
libboost1.74-dev libbrotli1 libbsd0 libccp4-data libccp4-dev libccp4c0
libccp4f0 libcifpp-data libcifpp-dev libcifpp2 libclipper-dev libclipper2
libcurl3-gnutls libdebhelper-perl libelf1 libevent-core-2.1-7
libevent-pthreads-2.1-7 libfabric1 libfile-stripnondeterminism-perl
libgfortran5 libglib2.0-0 libgsl-dev libgsl27 libgslcblas0 libhwloc-plugins
libhwloc15 libibverbs1 libicu-dev libicu67 libmagic-mgc libmagic1 libmd0
libmmdb2-0 libmmdb2-dev libnewuoa-dev libnewuoa0 libnghttp2-14 libnl-3-200
libnl-route-3-200 libopenmpi3 libpciaccess0 libpipeline1 libpmix2 libpsl5
librdmacm1 librtmp1 libsigsegv2 libssh2-1 libsub-override-perl libtool
libuchardet0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2
libxnvctrl0 libzeep-dev libzeep5.1 m4 man-db ocl-icd-libopencl1 pkg-config
po-debconf sbuild-build-depends-libpdb-redo-dummy sfftw-dev sfftw2
The following packages will be upgraded:
cpp-11 g++-11 gcc-11 gcc-11-base libasan6 libatomic1 libcc1-0 libgcc-11-dev
libgcc-s1 libgomp1 libstdc++-11-dev libstdc++6 libubsan1
13 upgraded, 105 newly installed, 0 to remove and 67 not upgraded.
Need to get 89.9 MB of archives.
After this operation, 552 kB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-opsPnk/apt_archive ./ sbuild-build-depends-libpdb-redo-dummy 0.invalid.0 [952 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf autoconf-archive all 20210219-2.1 [767 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libcc1-0 armhf 11.2.0-14+rpi1 [37.9 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf libgomp1 armhf 11.2.0-14+rpi1 [88.0 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf libatomic1 armhf 11.2.0-14+rpi1 [8196 B]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf libasan6 armhf 11.2.0-14+rpi1 [1947 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf libubsan1 armhf 11.2.0-14+rpi1 [798 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf gcc-11-base armhf 11.2.0-14+rpi1 [207 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libstdc++6 armhf 11.2.0-14+rpi1 [467 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf g++-11 armhf 11.2.0-14+rpi1 [7912 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf libstdc++-11-dev armhf 11.2.0-14+rpi1 [1963 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf libgcc-11-dev armhf 11.2.0-14+rpi1 [697 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf gcc-11 armhf 11.2.0-14+rpi1 [14.0 MB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf cpp-11 armhf 11.2.0-14+rpi1 [7073 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf libgcc-s1 armhf 11.2.0-14+rpi1 [36.2 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-8 [793 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.3-1 [136 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.5-1 [32.9 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.9.4-4 [1308 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.14-1 [36.6 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.1 [823 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.6 [193 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-1 [15.8 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.12+dfsg-5 [584 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.6 [1054 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf libevent-core-2.1-7 armhf 2.1.12-stable-1 [126 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf libevent-pthreads-2.1-7 armhf 2.1.12-stable-1 [56.8 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf libnl-3-200 armhf 3.4.0-1 [55.0 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf libnl-route-3-200 armhf 3.4.0-1 [132 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf libibverbs1 armhf 39.0-1 [53.6 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf librdmacm1 armhf 39.0-1 [60.4 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf libfabric1 armhf 1.11.0-3 [310 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf libhwloc15 armhf 2.7.0-2 [127 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-2 [161 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf libcurl3-gnutls armhf 7.81.0-1 [315 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libpciaccess0 armhf 0.16-3 [51.2 kB]
Get:61 http://172.17.4.1/private bookworm-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:62 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-1 [28.9 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.5-1 [108 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libxcb1 armhf 1.14-3 [136 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf libx11-data all 2:1.7.2-2 [311 kB]
Get:67 http://172.17.4.1/private bookworm-staging/main armhf libx11-6 armhf 2:1.7.2-2 [704 kB]
Get:68 http://172.17.4.1/private bookworm-staging/main armhf libxext6 armhf 2:1.3.4-1 [48.0 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libxnvctrl0 armhf 470.94-1 [26.1 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf ocl-icd-libopencl1 armhf 2.2.14-3 [39.9 kB]
Get:71 http://172.17.4.1/private bookworm-staging/main armhf libhwloc-plugins armhf 2.7.0-2 [20.3 kB]
Get:72 http://172.17.4.1/private bookworm-staging/main armhf libpmix2 armhf 4.1.1~rc6-1 [481 kB]
Get:73 http://172.17.4.1/private bookworm-staging/main armhf libopenmpi3 armhf 4.1.2~rc1-5+rpi1+b1 [1776 kB]
Get:74 http://172.17.4.1/private bookworm-staging/main armhf fftw2 armhf 2.1.5-6 [184 kB]
Get:75 http://172.17.4.1/private bookworm-staging/main armhf fftw-dev armhf 2.1.5-6 [212 kB]
Get:76 http://172.17.4.1/private bookworm-staging/main armhf icu-devtools armhf 67.1-7 [172 kB]
Get:77 http://172.17.4.1/private bookworm-staging/main armhf libboost1.74-dev armhf 1.74.0-14 [9533 kB]
Get:78 http://172.17.4.1/private bookworm-staging/main armhf libboost-date-time1.74.0 armhf 1.74.0-14 [242 kB]
Get:79 http://172.17.4.1/private bookworm-staging/main armhf libboost-serialization1.74.0 armhf 1.74.0-14 [319 kB]
Get:80 http://172.17.4.1/private bookworm-staging/main armhf libboost-serialization1.74-dev armhf 1.74.0-14 [387 kB]
Get:81 http://172.17.4.1/private bookworm-staging/main armhf libboost-date-time1.74-dev armhf 1.74.0-14 [251 kB]
Get:82 http://172.17.4.1/private bookworm-staging/main armhf libboost-date-time-dev armhf 1.74.0.3+b2 [4604 B]
Get:83 http://172.17.4.1/private bookworm-staging/main armhf libboost-dev armhf 1.74.0.3+b2 [4824 B]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf libboost-regex1.74.0 armhf 1.74.0-14 [449 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libicu-dev armhf 67.1-7 [9228 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf libboost-regex1.74-dev armhf 1.74.0-14 [551 kB]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf libboost-iostreams1.74.0 armhf 1.74.0-14 [260 kB]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf libboost-iostreams1.74-dev armhf 1.74.0-14 [269 kB]
Get:89 http://172.17.4.1/private bookworm-staging/main armhf libboost-iostreams-dev armhf 1.74.0.3+b2 [4588 B]
Get:90 http://172.17.4.1/private bookworm-staging/main armhf libboost-program-options1.74.0 armhf 1.74.0-14 [334 kB]
Get:91 http://172.17.4.1/private bookworm-staging/main armhf libboost-program-options1.74-dev armhf 1.74.0-14 [373 kB]
Get:92 http://172.17.4.1/private bookworm-staging/main armhf libboost-program-options-dev armhf 1.74.0.3+b2 [4616 B]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf libboost-system1.74.0 armhf 1.74.0-14 [242 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf libboost-system1.74-dev armhf 1.74.0-14 [243 kB]
Ign:94 http://172.17.4.1/private bookworm-staging/main armhf libboost-system1.74-dev armhf 1.74.0-14
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Get:96 http://172.17.4.1/private bookworm-staging/main armhf libccp4-data all 6.5.1-5 [61.6 kB]
Get:97 http://172.17.4.1/private bookworm-staging/main armhf libccp4c0 armhf 6.5.1-5 [74.3 kB]
Get:98 http://172.17.4.1/private bookworm-staging/main armhf libgfortran5 armhf 11.2.0-14+rpi1 [235 kB]
Get:99 http://172.17.4.1/private bookworm-staging/main armhf libmmdb2-0 armhf 2.0.5-1 [264 kB]
Get:100 http://172.17.4.1/private bookworm-staging/main armhf libccp4f0 armhf 6.5.1-5 [202 kB]
Get:101 http://172.17.4.1/private bookworm-staging/main armhf libccp4-dev armhf 6.5.1-5 [42.8 kB]
Get:102 http://172.17.4.1/private bookworm-staging/main armhf libcifpp-data all 2.0.4-8 [437 kB]
Get:103 http://172.17.4.1/private bookworm-staging/main armhf libcifpp2 armhf 2.0.4-8 [786 kB]
Get:104 http://172.17.4.1/private bookworm-staging/main armhf libcifpp-dev armhf 2.0.4-8 [74.4 kB]
Get:105 http://172.17.4.1/private bookworm-staging/main armhf sfftw2 armhf 2.1.5-6 [186 kB]
Get:106 http://172.17.4.1/private bookworm-staging/main armhf libclipper2 armhf 2.1.20201109-1 [1069 kB]
Get:107 http://172.17.4.1/private bookworm-staging/main armhf libmmdb2-dev armhf 2.0.5-1 [91.9 kB]
Get:108 http://172.17.4.1/private bookworm-staging/main armhf sfftw-dev armhf 2.1.5-6 [214 kB]
Get:109 http://172.17.4.1/private bookworm-staging/main armhf libclipper-dev armhf 2.1.20201109-1 [82.6 kB]
Get:110 http://172.17.4.1/private bookworm-staging/main armhf libglib2.0-0 armhf 2.70.3-1 [1209 kB]
Get:111 http://172.17.4.1/private bookworm-staging/main armhf libgslcblas0 armhf 2.7.1+dfsg-3 [81.4 kB]
Get:112 http://172.17.4.1/private bookworm-staging/main armhf libgsl27 armhf 2.7.1+dfsg-3 [758 kB]
Get:113 http://172.17.4.1/private bookworm-staging/main armhf libgsl-dev armhf 2.7.1+dfsg-3 [958 kB]
Get:114 http://172.17.4.1/private bookworm-staging/main armhf libnewuoa0 armhf 0.1.1-2 [16.4 kB]
Get:115 http://172.17.4.1/private bookworm-staging/main armhf libnewuoa-dev armhf 0.1.1-2 [4916 B]
Get:116 http://172.17.4.1/private bookworm-staging/main armhf libzeep5.1 armhf 5.1.7-1 [496 kB]
Get:117 http://172.17.4.1/private bookworm-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:118 http://172.17.4.1/private bookworm-staging/main armhf libzeep-dev armhf 5.1.7-1 [78.8 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf libboost-system1.74-dev armhf 1.74.0-14 [243 kB]
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Processing triggers for libc-bin (2.32-4+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.4-armmp armhf (armv7l)
Toolchain package versions: binutils_2.37-5+rpi1 dpkg-dev_1.20.9+rpi1 g++-11_11.2.0-14+rpi1 gcc-11_11.2.0-14+rpi1 libc6-dev_2.32-4+rpi1 libstdc++-11-dev_11.2.0-14+rpi1 libstdc++6_11.2.0-14+rpi1 linux-libc-dev_5.14.16-1+rpi1
Package versions: adduser_3.118 apt_2.3.12 autoconf_2.71-2 autoconf-archive_20210219-2.1 automake_1:1.16.5-1.1 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_12+rpi1 base-passwd_3.5.52 bash_5.1-3.1 binutils_2.37-5+rpi1 binutils-arm-linux-gnueabihf_2.37-5+rpi1 binutils-common_2.37-5+rpi1 bsdextrautils_2.37.3-1 bsdutils_1:2.37.2-4 build-essential_12.9 bzip2_1.0.8-4 coreutils_8.32-4.1 cpp_4:11.2.0-2+rpi1 cpp-11_11.2.0-14+rpi1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79 debhelper_13.6 debianutils_4.11.2 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-2 dpkg_1.20.9+rpi1 dpkg-dev_1.20.9+rpi1 dwz_0.14-1 e2fsprogs_1.46.4-1 fakeroot_1.25.3-1.1 fftw-dev_2.1.5-6 fftw2_2.1.5-6 file_1:5.41-2 findutils_4.8.0-1 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-14+rpi1 gcc_4:11.2.0-2+rpi1 gcc-11_11.2.0-14+rpi1 gcc-11-base_11.2.0-14+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-4 gettext-base_0.21-4 gnupg_2.2.27-2 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>> src/AtomShape.cpp
>> src/BondMap.cpp
>> src/ClipperWrapper.cpp
>> src/DistanceMap.cpp
src/BondMap.cpp: In function ‘void mmcif::createBondInfoFile(const std::filesystem::__cxx11::path&, const std::filesystem::__cxx11::path&)’:
src/BondMap.cpp:246:103: error: no matching function for call to ‘cif::Category::rows<std::string, std::string>(<brace-enclosed initializer list>)’
246 | for (const auto& [atom_id_1, atom_id_2]: chem_comp_bond->rows<std::string,std::string>({"atom_id_1", "atom_id_2"}))
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/BondMap.cpp:37:
/usr/include/cif++/Cif++.hpp:1850:42: note: candidate: ‘cif::iterator_proxy<const cif::Row, Ts ...> cif::Category::rows(Ns ...) const [with Ts = {std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >}; Ns = {}]’
1850 | iterator_proxy<const Row, Ts...> rows(Ns... names) const
| ^~~~
/usr/include/cif++/Cif++.hpp:1850:42: note: candidate expects 0 arguments, 1 provided
/usr/include/cif++/Cif++.hpp:1857:41: note: candidate: ‘cif::iterator_proxy<cif::Category, Ts ...> cif::Category::rows(Ns ...) [with Ts = {std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >}; Ns = {}]’
1857 | iterator_proxy<Category, Ts...> rows(Ns... names)
| ^~~~
/usr/include/cif++/Cif++.hpp:1857:41: note: candidate expects 0 arguments, 1 provided
src/BondMap.cpp:285:103: error: no matching function for call to ‘cif::Category::rows<std::string, std::string>(<brace-enclosed initializer list>)’
285 | for (const auto& [atom_id_1, atom_id_2]: chem_comp_bond->rows<std::string,std::string>({"atom_id_1", "atom_id_2"}))
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/BondMap.cpp:37:
/usr/include/cif++/Cif++.hpp:1850:42: note: candidate: ‘cif::iterator_proxy<const cif::Row, Ts ...> cif::Category::rows(Ns ...) const [with Ts = {std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >}; Ns = {}]’
1850 | iterator_proxy<const Row, Ts...> rows(Ns... names) const
| ^~~~
/usr/include/cif++/Cif++.hpp:1850:42: note: candidate expects 0 arguments, 1 provided
/usr/include/cif++/Cif++.hpp:1857:41: note: candidate: ‘cif::iterator_proxy<cif::Category, Ts ...> cif::Category::rows(Ns ...) [with Ts = {std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >}; Ns = {}]’
1857 | iterator_proxy<Category, Ts...> rows(Ns... names)
| ^~~~
/usr/include/cif++/Cif++.hpp:1857:41: note: candidate expects 0 arguments, 1 provided
src/BondMap.cpp:317:103: error: no matching function for call to ‘cif::Category::rows<std::string, std::string>(<brace-enclosed initializer list>)’
317 | for (const auto& [atom_id_1, atom_id_2]: chem_comp_bond->rows<std::string,std::string>({"atom_id_1", "atom_id_2"}))
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/BondMap.cpp:37:
/usr/include/cif++/Cif++.hpp:1850:42: note: candidate: ‘cif::iterator_proxy<const cif::Row, Ts ...> cif::Category::rows(Ns ...) const [with Ts = {std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >}; Ns = {}]’
1850 | iterator_proxy<const Row, Ts...> rows(Ns... names) const
| ^~~~
/usr/include/cif++/Cif++.hpp:1850:42: note: candidate expects 0 arguments, 1 provided
/usr/include/cif++/Cif++.hpp:1857:41: note: candidate: ‘cif::iterator_proxy<cif::Category, Ts ...> cif::Category::rows(Ns ...) [with Ts = {std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >}; Ns = {}]’
1857 | iterator_proxy<Category, Ts...> rows(Ns... names)
| ^~~~
/usr/include/cif++/Cif++.hpp:1857:41: note: candidate expects 0 arguments, 1 provided
src/BondMap.cpp: In constructor ‘mmcif::BondMap::BondMap(const mmcif::Structure&)’:
src/BondMap.cpp:676:69: error: ‘create’ is not a member of ‘mmcif::Compound’
676 | auto* compound = compound_nr < 0 ? mmcif::Compound::create(c) : nullptr;
| ^~~~~~
src/BondMap.cpp: In lambda function:
src/BondMap.cpp:688:36: error: ‘compound’ is not captured
688 | : (compound ? compound->atomsBonded(label_a, label_b) : false);
| ^~~~~~~~
src/BondMap.cpp:681:72: note: the lambda has no capture-default
681 | auto bonded = [compound_nr, compound, &compoundBondInfo](const Atom& a, const Atom& b)
| ^
src/BondMap.cpp:676:23: note: ‘<typeprefixerror>compound’ declared here
676 | auto* compound = compound_nr < 0 ? mmcif::Compound::create(c) : nullptr;
| ^~~~~~~~
src/BondMap.cpp:688:47: error: ‘compound’ is not captured
688 | : (compound ? compound->atomsBonded(label_a, label_b) : false);
| ^~~~~~~~
src/BondMap.cpp:681:72: note: the lambda has no capture-default
681 | auto bonded = [compound_nr, compound, &compoundBondInfo](const Atom& a, const Atom& b)
| ^
src/BondMap.cpp:676:23: note: ‘<typeprefixerror>compound’ declared here
676 | auto* compound = compound_nr < 0 ? mmcif::Compound::create(c) : nullptr;
| ^~~~~~~~
src/BondMap.cpp: In static member function ‘static std::vector<std::__cxx11::basic_string<char> > mmcif::BondMap::atomIDsForCompound(const string&)’:
src/BondMap.cpp:841:51: error: ‘create’ is not a member of ‘mmcif::Compound’
841 | auto* compound = mmcif::Compound::create(compoundID);
| ^~~~~~
>> src/MapMaker.cpp
>> src/Minimizer.cpp
In file included from /usr/include/c++/11/vector:72,
from /usr/include/cif++/CifUtils.hpp:35,
from src/DistanceMap.cpp:32:
/usr/include/c++/11/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {clipper::RTop_orth}; _Tp = clipper::RTop_orth; _Alloc = std::allocator<clipper::RTop_orth>]’:
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<clipper::RTop_orth>::iterator’ changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/11/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {clipper::RTop_orth}; _Tp = clipper::RTop_orth; _Alloc = std::allocator<clipper::RTop_orth>]’:
/usr/include/c++/11/bits/vector.tcc:121:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<clipper::RTop_orth*, std::vector<clipper::RTop_orth> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make[1]: *** [GNUmakefile:175: obj/BondMap.lo] Error 1
make[1]: *** Waiting for unfinished jobs....
In file included from src/Minimizer.cpp:42:
include/pdb-redo/Minimizer.hpp:116:95: error: ‘Link’ in namespace ‘mmcif’ does not name a type; did you mean ‘Li’?
116 | void addLinkRestraints(const mmcif::Monomer& a, const mmcif::Monomer& b, const mmcif::Link& link);
| ^~~~
| Li
include/pdb-redo/Minimizer.hpp: In member function ‘void Minimizer::addLinkRestraints(const mmcif::Monomer&, const mmcif::Monomer&, const string&)’:
include/pdb-redo/Minimizer.hpp:113:48: error: ‘mmcif::Link’ has not been declared
113 | addLinkRestraints(a, b, mmcif::Link::create(linkName));
| ^~~~
src/Minimizer.cpp: In constructor ‘Minimizer::Minimizer(const mmcif::Polymer&, int, int, const mmcif::BondMap&, const XMap&, float, float)’:
src/Minimizer.cpp:171:82: error: ‘const struct mmcif::CompoundBond’ has no member named ‘distance’
171 | mBondRestraints.emplace_back(ref(a1), ref(a2), b.distance, b.esd);
| ^~~~~~~~
src/Minimizer.cpp:171:94: error: ‘const struct mmcif::CompoundBond’ has no member named ‘esd’
171 | mBondRestraints.emplace_back(ref(a1), ref(a2), b.distance, b.esd);
| ^~~
src/Minimizer.cpp:181:40: error: ‘const class mmcif::Compound’ has no member named ‘angles’
181 | for (auto& a: compound.angles())
| ^~~~~~
src/Minimizer.cpp:237:41: error: ‘const class mmcif::Compound’ has no member named ‘chiralCentres’
237 | for (auto& cv: compound.chiralCentres())
| ^~~~~~~~~~~~~
src/Minimizer.cpp:253:56: error: ‘const class mmcif::Compound’ has no member named ‘chiralVolume’
253 | auto volume = compound.chiralVolume(cv.id);
| ^~~~~~~~~~~~
src/Minimizer.cpp:266:40: error: ‘const class mmcif::Compound’ has no member named ‘planes’
266 | for (auto& p: compound.planes())
| ^~~~~~
src/Minimizer.cpp:281:112: error: no matching function for call to ‘PlanarityRestraint::PlanarityRestraint(<brace-enclosed initializer list>)’
281 | mPlanarityRestraints.emplace_back(PlanarityRestraint{move(atoms), p.esd});
| ^
In file included from include/pdb-redo/Minimizer.hpp:40,
from src/Minimizer.cpp:42:
include/pdb-redo/Restraints.hpp:126:9: note: candidate: ‘PlanarityRestraint::PlanarityRestraint(std::vector<unsigned int>&&, double)’
126 | PlanarityRestraint(std::vector<AtomRef>&& atoms, double esd)
| ^~~~~~~~~~~~~~~~~~
include/pdb-redo/Restraints.hpp:126:9: note: conversion of argument 2 would be ill-formed:
include/pdb-redo/Restraints.hpp:124:8: note: candidate: ‘PlanarityRestraint::PlanarityRestraint(const PlanarityRestraint&)’
124 | struct PlanarityRestraint : public Restraint
| ^~~~~~~~~~~~~~~~~~
include/pdb-redo/Restraints.hpp:124:8: note: candidate expects 1 argument, 2 provided
include/pdb-redo/Restraints.hpp:124:8: note: candidate: ‘PlanarityRestraint::PlanarityRestraint(PlanarityRestraint&&)’
include/pdb-redo/Restraints.hpp:124:8: note: candidate expects 1 argument, 2 provided
src/Minimizer.cpp:380:62: error: ‘class mmcif::Atom’ has no member named ‘energyType’
380 | std::string et1 = a1.energyType();
| ^~~~~~~~~~
src/Minimizer.cpp:381:62: error: ‘const class mmcif::Atom’ has no member named ‘energyType’
381 | std::string et2 = a2.energyType();
| ^~~~~~~~~~
src/Minimizer.cpp: At global scope:
src/Minimizer.cpp:542:77: error: ‘Link’ does not name a type
542 | void Minimizer::addLinkRestraints(const Monomer& a, const Monomer& b, const Link& link)
| ^~~~
src/Minimizer.cpp: In member function ‘void Minimizer::addLinkRestraints(const mmcif::Monomer&, const mmcif::Monomer&, const int&)’:
src/Minimizer.cpp:547:42: error: ‘LinkAtom’ does not name a type
547 | auto getCompoundAtom = [&](const LinkAtom& la)
| ^~~~~~~~
src/Minimizer.cpp:550:10: error: expected ‘)’ before ‘;’ token
550 | };
| ^
| )
src/Minimizer.cpp:547:35: note: to match this ‘(’
547 | auto getCompoundAtom = [&](const LinkAtom& la)
| ^
src/Minimizer.cpp: In lambda function:
src/Minimizer.cpp:550:10: error: expected ‘{’ before ‘;’ token
550 | };
| ^
src/Minimizer.cpp: In member function ‘void Minimizer::addLinkRestraints(const mmcif::Monomer&, const mmcif::Monomer&, const int&)’:
src/Minimizer.cpp:552:34: error: ‘LinkAtom’ does not name a type
552 | auto getAtom = [&](const LinkAtom& la)
| ^~~~~~~~
src/Minimizer.cpp:556:10: error: expected ‘)’ before ‘;’ token
556 | };
| ^
| )
src/Minimizer.cpp:552:27: note: to match this ‘(’
552 | auto getAtom = [&](const LinkAtom& la)
| ^
src/Minimizer.cpp: In lambda function:
src/Minimizer.cpp:556:10: error: expected ‘{’ before ‘;’ token
556 | };
| ^
src/Minimizer.cpp: In member function ‘void Minimizer::addLinkRestraints(const mmcif::Monomer&, const mmcif::Monomer&, const int&)’:
src/Minimizer.cpp:558:28: error: request for member ‘bonds’ in ‘link’, which is of non-class type ‘const int’
558 | for (auto& b: link.bonds())
| ^~~~~
src/Minimizer.cpp:581:28: error: request for member ‘angles’ in ‘link’, which is of non-class type ‘const int’
581 | for (auto& a: link.angles())
| ^~~~~~
src/Minimizer.cpp:636:29: error: request for member ‘chiralCentres’ in ‘link’, which is of non-class type ‘const int’
636 | for (auto& cv: link.chiralCentres())
| ^~~~~~~~~~~~~
src/Minimizer.cpp:652:44: error: request for member ‘chiralVolume’ in ‘link’, which is of non-class type ‘const int’
652 | auto volume = link.chiralVolume(cv.id);
| ^~~~~~~~~~~~
src/Minimizer.cpp:664:28: error: request for member ‘planes’ in ‘link’, which is of non-class type ‘const int’
664 | for (auto& p: link.planes())
| ^~~~~~
src/Minimizer.cpp:679:104: error: no matching function for call to ‘PlanarityRestraint::PlanarityRestraint(<brace-enclosed initializer list>)’
679 | mPlanarityRestraints.emplace_back(PlanarityRestraint{move(atoms), p.esd});
| ^
In file included from include/pdb-redo/Minimizer.hpp:40,
from src/Minimizer.cpp:42:
include/pdb-redo/Restraints.hpp:126:9: note: candidate: ‘PlanarityRestraint::PlanarityRestraint(std::vector<unsigned int>&&, double)’
126 | PlanarityRestraint(std::vector<AtomRef>&& atoms, double esd)
| ^~~~~~~~~~~~~~~~~~
include/pdb-redo/Restraints.hpp:126:9: note: conversion of argument 2 would be ill-formed:
include/pdb-redo/Restraints.hpp:124:8: note: candidate: ‘PlanarityRestraint::PlanarityRestraint(const PlanarityRestraint&)’
124 | struct PlanarityRestraint : public Restraint
| ^~~~~~~~~~~~~~~~~~
include/pdb-redo/Restraints.hpp:124:8: note: candidate expects 1 argument, 2 provided
include/pdb-redo/Restraints.hpp:124:8: note: candidate: ‘PlanarityRestraint::PlanarityRestraint(PlanarityRestraint&&)’
include/pdb-redo/Restraints.hpp:124:8: note: candidate expects 1 argument, 2 provided
src/Minimizer.cpp:544:15: warning: unused variable ‘c1’ [-Wunused-variable]
544 | auto& c1 = a.compound();
| ^~
src/Minimizer.cpp:545:15: warning: unused variable ‘c2’ [-Wunused-variable]
545 | auto& c2 = b.compound();
| ^~
make[1]: *** [GNUmakefile:174: obj/Minimizer.lo] Error 1
src/MapMaker.cpp: In member function ‘void mmcif::MapMaker<FTYPE>::fixMTZ() [with FTYPE = float]’:
src/MapMaker.cpp:1033:22: note: parameter passing for argument of type ‘clipper::datatypes::F_phi<float>’ when C++17 is enabled changed to match C++14 in GCC 10.1
1033 | auto mFo = mFbData[ih] - mFdData[ih];
| ^~~
In file included from /usr/include/c++/11/vector:72,
from /usr/include/boost/format.hpp:17,
from src/MapMaker.cpp:33:
/usr/include/c++/11/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]’:
/usr/include/c++/11/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector<double>::iterator’ changed in GCC 7.1
509 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/vector:67,
from /usr/include/boost/format.hpp:17,
from src/MapMaker.cpp:33:
/usr/include/c++/11/bits/stl_vector.h: In constructor ‘clipper::BasisFn_spline::BasisFn_spline(const clipper::HKL_data_base&, const int&, clipper::ftype)’:
/usr/include/c++/11/bits/stl_vector.h:960:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
960 | _M_fill_insert(end(), __new_size - size(), __x);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/vector:72,
from /usr/include/boost/format.hpp:17,
from src/MapMaker.cpp:33:
/usr/include/c++/11/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {clipper::Atom}; _Tp = clipper::Atom; _Alloc = std::allocator<clipper::Atom>]’:
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<clipper::Atom>::iterator’ changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/11/bits/vector.tcc: In function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {clipper::Atom}; _Tp = clipper::Atom; _Alloc = std::allocator<clipper::Atom>]’:
/usr/include/c++/11/bits/vector.tcc:121:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<clipper::Atom*, std::vector<clipper::Atom> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build: error: make -j4 returned exit code 2
make: *** [debian/rules:12: binary-arch] Error 25
dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2022-02-05T19:57:30Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 0
Build-Time: 383
Distribution: bookworm-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 809
Job: libpdb-redo_1.0.2-3
Machine Architecture: armhf
Package: libpdb-redo
Package-Time: 1245
Source-Version: 1.0.2-3
Space: 0
Status: failed
Version: 1.0.2-3+b2
--------------------------------------------------------------------------------
Finished at 2022-02-05T19:57:30Z
Build needed 00:00:00, 0k disc space