shapeit4 →
4.1.3+dfsg-1+b1 →
armhf → 2020-06-10 09:20:33
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on testbuildd
+==============================================================================+
| shapeit4 4.1.3+dfsg-1+b1 (armhf) Wed, 10 Jun 2020 09:06:11 +0000 |
+==============================================================================+
Package: shapeit4
Version: 4.1.3+dfsg-1+b1
Source Version: 4.1.3+dfsg-1
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-41e00a4a-2626-42d8-a3b3-a9b10ae806f9' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.7 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.5 MB in 27s (908 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: 'shapeit4' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/shapeit4.git
Please use:
git clone https://salsa.debian.org/med-team/shapeit4.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 52.3 MB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main shapeit4 4.1.3+dfsg-1 (dsc) [2147 B]
Get:2 http://172.17.0.1/private bullseye-staging/main shapeit4 4.1.3+dfsg-1 (tar) [52.3 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main shapeit4 4.1.3+dfsg-1 (diff) [4960 B]
Fetched 52.3 MB in 22s (2417 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/shapeit4-TaIAdD/shapeit4-4.1.3+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/shapeit4-TaIAdD' 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-0mkhet/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-0mkhet/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-0mkhet/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-0mkhet/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (2841 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 package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 16 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (23.9 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12213 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 all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), libboost-iostreams-dev, libboost-program-options-dev, libbz2-dev, libhts-dev
Filtered Build-Depends: debhelper-compat (= 12), libboost-iostreams-dev, libboost-program-options-dev, libbz2-dev, libhts-dev
dpkg-deb: building package 'sbuild-build-depends-shapeit4-dummy' in '/<<BUILDDIR>>/resolver-0mkhet/apt_archive/sbuild-build-depends-shapeit4-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-shapeit4-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-0mkhet/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Sources [531 B]
Get:5 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ Packages [607 B]
Fetched 2471 B in 1s (3324 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install shapeit4 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 automake autopoint autotools-dev bsdmainutils bzip2 debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base icu-devtools intltool-debian libarchive-zip-perl
libboost-iostreams-dev libboost-iostreams1.71-dev libboost-iostreams1.71.0
libboost-program-options-dev libboost-program-options1.71-dev
libboost-program-options1.71.0 libboost-regex1.71-dev libboost-regex1.71.0
libboost1.71-dev libbrotli1 libbsd0 libbz2-1.0 libbz2-dev libcroco3
libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev
libhts3 libicu-dev libicu67 libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14
libpipeline1 libpsl5 librtmp1 libsigsegv2 libssh2-1 libssl1.1
libsub-override-perl libtinfo5 libtool libuchardet0 libxml2 m4 man-db
po-debconf sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation bzip2-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev
groff libboost1.71-doc libboost-atomic1.71-dev libboost-chrono1.71-dev
libboost-container1.71-dev libboost-context1.71-dev
libboost-contract1.71-dev libboost-coroutine1.71-dev
libboost-date-time1.71-dev libboost-exception1.71-dev libboost-fiber1.71-dev
libboost-filesystem1.71-dev libboost-graph1.71-dev
libboost-graph-parallel1.71-dev libboost-locale1.71-dev libboost-log1.71-dev
libboost-math1.71-dev libboost-mpi1.71-dev libboost-mpi-python1.71-dev
libboost-numpy1.71-dev libboost-python1.71-dev libboost-random1.71-dev
libboost-serialization1.71-dev libboost-stacktrace1.71-dev
libboost-system1.71-dev libboost-test1.71-dev libboost-thread1.71-dev
libboost-timer1.71-dev libboost-type-erasure1.71-dev libboost-wave1.71-dev
libboost1.71-tools-dev libmpfrc++-dev libntl-dev krb5-doc krb5-user icu-doc
liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx bzip2-doc ca-certificates libarchive-cpio-perl
libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales publicsuffix
libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base icu-devtools intltool-debian libarchive-zip-perl
libboost-iostreams-dev libboost-iostreams1.71-dev libboost-iostreams1.71.0
libboost-program-options-dev libboost-program-options1.71-dev
libboost-program-options1.71.0 libboost-regex1.71-dev libboost-regex1.71.0
libboost1.71-dev libbrotli1 libbsd0 libbz2-dev libcroco3 libcurl3-gnutls
libdebhelper-perl libdeflate0 libelf1 libfile-stripnondeterminism-perl
libglib2.0-0 libgssapi-krb5-2 libhts-dev libhts3 libicu-dev libicu67
libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblzma-dev libmagic-mgc
libmagic1 libnghttp2-14 libpipeline1 libpsl5 librtmp1 libsigsegv2 libssh2-1
libssl1.1 libsub-override-perl libtinfo5 libtool libuchardet0 libxml2 m4
man-db po-debconf sbuild-build-depends-shapeit4-dummy sensible-utils
zlib1g-dev
The following packages will be upgraded:
bzip2 libbz2-1.0
2 upgraded, 65 newly installed, 0 to remove and 14 not upgraded.
Need to get 48.2 MB of archives.
After this operation, 284 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-0mkhet/apt_archive ./ sbuild-build-depends-shapeit4-dummy 0.invalid.0 [892 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.2-1 [318 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.2-1 [1269 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf bzip2 armhf 1.0.8-3 [46.9 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libbz2-1.0 armhf 1.0.8-3 [44.0 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-1 [775 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.1 [187 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.8.1-1 [14.9 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.64.3-1 [1159 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-2 [8286 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-5+b1 [593 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.1 [1012 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf icu-devtools armhf 67.1-2 [170 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libboost1.71-dev armhf 1.71.0-6+b1 [9099 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libboost-regex1.71.0 armhf 1.71.0-6+b1 [435 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libicu-dev armhf 67.1-2 [9216 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libboost-regex1.71-dev armhf 1.71.0-6+b1 [571 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libboost-iostreams1.71.0 armhf 1.71.0-6+b1 [256 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libboost-iostreams1.71-dev armhf 1.71.0-6+b1 [271 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libboost-iostreams-dev armhf 1.71.0.3+b1 [4388 B]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libboost-program-options1.71.0 armhf 1.71.0-6+b1 [341 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libboost-program-options1.71-dev armhf 1.71.0-6+b1 [396 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libboost-program-options-dev armhf 1.71.0.3+b1 [4412 B]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-6.1 [255 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libbz2-dev armhf 1.0.8-3 [28.0 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-7+rpi1+b1 [61.8 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-7+rpi1+b1 [112 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6.1-2 [14.5 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1g-1 [1272 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-7+rpi1+b1 [318 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-7+rpi1+b1 [136 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.41.0-2 [61.2 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.21.0-1.1 [54.2 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.68.0-1 [284 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libdeflate0 armhf 1.6-1 [47.4 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libhts3 armhf 1.10.2-3 [319 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf liblzma-dev armhf 5.2.4-1 [203 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libhts-dev armhf 1.10.2-3 [4796 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Selecting previously unselected package libbsd0:armhf.
(Reading database ... 12213 files and directories currently installed.)
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Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
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Processing triggers for libc-bin (2.30-8+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.34-8+rpi1 dpkg-dev_1.19.7 g++-9_9.3.0-13+rpi1 gcc-9_9.3.0-13+rpi1 libc6-dev_2.30-8+rpi1 libstdc++-9-dev_9.3.0-13+rpi1 libstdc++6_10.1.0-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_2.1.5 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8+rpi1 binutils-arm-linux-gnueabihf_2.34-8+rpi1 binutils-common_2.34-8+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.35.2-2 build-essential_12.8 bzip2_1.0.8-3 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.3.0-13+rpi1 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.3.0-13+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-10-base_10.1.0-1+rpi1 gcc-6-base_6.5.0-1+rpi3 gcc-7-base_7.5.0-6+rpi1 gcc-8-base_8.4.0-4+rpi1 gcc-9_9.3.0-13+rpi1 gcc-9-base_9.3.0-13+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 icu-devtools_67.1-2 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg6.0_2.1.5 libarchive-zip-perl_1.68-1 libasan5_9.3.0-13+rpi1 libassuan0_2.5.3-7 libatomic1_10.1.0-1+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3 libbinutils_2.34-8+rpi1 libblkid1_2.35.2-2 libboost-iostreams-dev_1.71.0.3+b1 libboost-iostreams1.71-dev_1.71.0-6+b1 libboost-iostreams1.71.0_1.71.0-6+b1 libboost-program-options-dev_1.71.0.3+b1 libboost-program-options1.71-dev_1.71.0-6+b1 libboost-program-options1.71.0_1.71.0-6+b1 libboost-regex1.71-dev_1.71.0-6+b1 libboost-regex1.71.0_1.71.0-6+b1 libboost1.71-dev_1.71.0-6+b1 libbrotli1_1.0.7-6.1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-3 libbz2-dev_1.0.8-3 libc-bin_2.30-8+rpi1 libc-dev-bin_2.30-8+rpi1 libc6_2.30-8+rpi1 libc6-dev_2.30-8+rpi1 libcap-ng0_0.7.9-2.1+b1 libcc1-0_10.1.0-1+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-8+rpi1 libctf0_2.34-8+rpi1 libcurl3-gnutls_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdeflate0_1.6-1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.8.1-1 libgcc-9-dev_9.3.0-13+rpi1 libgcc-s1_10.1.0-1+rpi1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.3-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10.1.0-1+rpi1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-7+rpi1+b1 libhogweed5_3.5.1+really3.5.1-2 libhts-dev_1.10.2-3 libhts3_1.10.2-3 libicu-dev_67.1-2 libicu67_67.1-2 libidn2-0_2.3.0-1 libisl22_0.22.1-1 libk5crypto3_1.17-7+rpi1+b1 libkeyutils1_1.6.1-2 libkrb5-3_1.17-7+rpi1+b1 libkrb5support0_1.17-7+rpi1+b1 libksba8_1.3.5-2 libldap-2.4-2_2.4.50+dfsg-1 libldap-common_2.4.50+dfsg-1 liblocale-gettext-perl_1.07-4 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.35.2-2 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncursesw6_6.2-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.41.0-2 libnpth0_1.6-1 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.2-1 libpipeline1_1.5.2-2 libpsl5_0.21.0-1.1 libreadline8_8.0-4 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+rpi1 libselinux1_3.0-1+b1 libsemanage-common_3.0-1 libsemanage1_3.0-1+b1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.2-2 libsqlite3-0_3.31.1-5 libss2_1.45.6-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-13+rpi1 libstdc++6_10.1.0-1+rpi1 libsub-override-perl_0.09-2 libsystemd0_245.5-3+rpi1 libtasn1-6_4.16.0-2 libtext-charwidth-perl_0.04-10 libtext-iconv-perl_1.7-7 libtinfo5_6.2-1 libtinfo6_6.2-1 libtool_2.4.6-14 libubsan1_10.1.0-1+rpi1 libuchardet0_0.0.7-1 libudev1_245.5-3+rpi1 libunistring2_0.9.10-2 libuuid1_2.35.2-2 libxml2_2.9.10+dfsg-5+b1 libzstd1_1.4.4+dfsg-3+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-2 man-db_2.9.2-1 mawk_1.3.4.20200120-2 mount_2.35.2-2 ncurses-base_6.2-1 ncurses-bin_6.2-1 netbase_6.1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.2-1 perl-base_5.30.2-1 perl-modules-5.30_5.30.2-1 pinentry-curses_1.1.0-4 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.0-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-shapeit4-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 util-linux_2.35.2-2 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Mar 5 07:49:29 2020 UTC
gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54
gpgv: issuer "daissi@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./shapeit4_4.1.3+dfsg-1.dsc
dpkg-source: info: extracting shapeit4 in /<<BUILDDIR>>/shapeit4-4.1.3+dfsg
dpkg-source: info: unpacking shapeit4_4.1.3+dfsg.orig.tar.xz
dpkg-source: info: unpacking shapeit4_4.1.3+dfsg-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_shared_libs.patch
Check disc space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 4.1.3+dfsg-1+b1
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-41e00a4a-2626-42d8-a3b3-a9b10ae806f9
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package shapeit4
dpkg-buildpackage: info: source version 4.1.3+dfsg-1+b1
dpkg-buildpackage: info: source distribution bullseye-staging
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<BUILDDIR>>/shapeit4-4.1.3+dfsg'
rm -f obj/*.o bin/shapeit4
make[1]: Leaving directory '/<<BUILDDIR>>/shapeit4-4.1.3+dfsg'
dh_clean
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
dh_auto_build -a
make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/shapeit4-4.1.3+dfsg'
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/containers/genotype_set.cpp -o obj/genotype_set.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/containers/haplotype_set.cpp -o obj/haplotype_set.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/containers/variant_map.cpp -o obj/variant_map.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/io/genotype_reader1.cpp -o obj/genotype_reader1.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/containers/haplotype_set.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
In file included from src/containers/haplotype_set.h:27,
from src/io/genotype_reader.h:28,
from src/io/genotype_reader1.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/io/genotype_reader2.cpp -o obj/genotype_reader2.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/io/gmap_reader.cpp -o obj/gmap_reader.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/io/haplotype_writer.cpp -o obj/haplotype_writer.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from /usr/include/c++/9/vector:72,
from src/utils/otools.h:26,
from src/containers/haplotype_set.h:25,
from src/containers/haplotype_set.cpp:22:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from src/containers/haplotype_set.h:27,
from src/io/genotype_reader.h:28,
from src/io/genotype_reader2.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
In file included from /usr/include/c++/9/vector:67,
from src/utils/otools.h:26,
from src/containers/haplotype_set.h:25,
from src/containers/haplotype_set.cpp:22:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void haplotype_set::initializePBWTmapping(variant_map&)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In member function 'void haplotype_set::searchIBD2matching(variant_map&, double, double, double, double, int)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from src/containers/haplotype_set.h:27,
from src/io/haplotype_writer.h:28,
from src/io/haplotype_writer.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
src/io/haplotype_writer.cpp: In member function 'void haplotype_writer::writeHaplotypes(std::string)':
src/io/haplotype_writer.cpp:57:15: warning: ignoring return value of 'int bcf_hdr_write(htsFile*, bcf_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result]
57 | bcf_hdr_write(fp, hdr);
| ~~~~~~~~~~~~~^~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from src/utils/otools.h:26,
from src/io/gmap_reader.h:25,
from src/io/gmap_reader.cpp:23:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/main.cpp -o obj/main.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/models/haplotype_segment_double.cpp -o obj/haplotype_segment_double.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from /usr/include/c++/9/vector:67,
from src/utils/otools.h:26,
from src/io/gmap_reader.h:25,
from src/io/gmap_reader.cpp:23:
/usr/include/c++/9/bits/stl_vector.h: In member function 'void gmap_reader::readGeneticMapFile(std::string)':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/models/haplotype_segment_single.cpp -o obj/haplotype_segment_single.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/phaser/phaser_header.h:29,
from src/main.cpp:23:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_double.h:26,
from src/models/haplotype_segment_double.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/modules/builder.cpp -o obj/builder.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/modules/pbwt_solver.cpp -o obj/pbwt_solver.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/models/haplotype_segment_single.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/compute_job.cpp -o obj/compute_job.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/modules/pbwt_solver.h:26,
from src/modules/pbwt_solver.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
src/modules/pbwt_solver.cpp: In member function 'void pbwt_solver::sweep(genotype_set&)':
src/modules/pbwt_solver.cpp:93:57: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
93 | if (s > thresh) { Guess[h+0] = 1.0; Guess[h+1] = -1.0; Amb[i] = false; }
| ^~~~
src/modules/pbwt_solver.cpp:94:45: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
94 | else if (s < -thresh) { Guess[h+0] = -1.0; Guess[h+1] = 1.0; Amb[i] = false; }
| ^~~~
src/modules/pbwt_solver.cpp:103:49: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
103 | if (s0 == -2 && s1 == -2) { Guess[h+0] = -1.0; Guess[h+1] = -1.0; Amb[i] = false; }
| ^~~~
src/modules/pbwt_solver.cpp:103:68: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
103 | if (s0 == -2 && s1 == -2) { Guess[h+0] = -1.0; Guess[h+1] = -1.0; Amb[i] = false; }
| ^~~~
src/modules/pbwt_solver.cpp:104:53: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
104 | else if (s0 == -2 && s1 == 2) { Guess[h+0] = -1.0; Guess[h+1] = 1.0; Amb[i] = false; }
| ^~~~
src/modules/pbwt_solver.cpp:105:71: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
105 | else if (s0 == 2 && s1 == -2) { Guess[h+0] = 1.0; Guess[h+1] = -1.0; Amb[i] = false; }
| ^~~~
src/modules/pbwt_solver.cpp:134:26: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
134 | else Guess[h+0] = -1.0;
| ^~~~
src/modules/pbwt_solver.cpp:136:26: warning: overflow in conversion from 'double' to '__gnu_cxx::__alloc_traits<std::allocator<char>, char>::value_type' {aka 'char'} changes value from '-1.0e+0' to '0' [-Woverflow]
136 | else Guess[h+1] = -1.0;
| ^~~~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/genotype/genotype_build.cpp -o obj/genotype_build.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/genotype/genotype_managment.cpp -o obj/genotype_managment.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/objects/compute_job.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/genotype/genotype_mask.cpp -o obj/genotype_mask.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/genotype/genotype_prune.cpp -o obj/genotype_prune.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/genotype/genotype_sweep.cpp -o obj/genotype_sweep.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/hmm_parameters.cpp -o obj/hmm_parameters.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/objects/variant.cpp -o obj/variant.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from /usr/include/c++/9/algorithm:62,
from src/utils/otools.h:35,
from src/objects/genotype/genotype_header.h:25,
from src/objects/genotype/genotype_prune.cpp:22:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >; _Compare = __gnu_cxx::__ops::_Val_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1820 | __unguarded_linear_insert(_RandomAccessIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >; _Compare = __gnu_cxx::__ops::_Val_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1820 | __unguarded_linear_insert(_RandomAccessIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
In file included from /usr/include/c++/9/queue:62,
from src/utils/otools.h:28,
from src/objects/genotype/genotype_header.h:25,
from src/objects/genotype/genotype_prune.cpp:22:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >; _Distance = int; _Tp = Transition; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from src/utils/otools.h:35,
from src/objects/genotype/genotype_header.h:25,
from src/objects/genotype/genotype_prune.cpp:22:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/phaser/phaser_algorithm.cpp -o obj/phaser_algorithm.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
/usr/include/c++/9/bits/stl_algo.h: In member function 'void genotype::performMerges(std::vector<double>&, std::vector<bool>&)':
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/queue:62,
from src/utils/otools.h:28,
from src/objects/genotype/genotype_header.h:25,
from src/objects/genotype/genotype_prune.cpp:22:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >; _Distance = int; _Tp = TransStatistics; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from src/utils/otools.h:35,
from src/objects/genotype/genotype_header.h:25,
from src/objects/genotype/genotype_prune.cpp:22:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In member function 'void genotype::mapMerges(std::vector<double>&, double, std::vector<bool>&)':
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<Transition*, std::vector<Transition> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<TransStatistics*, std::vector<TransStatistics> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/phaser/phaser_finalise.cpp -o obj/phaser_finalise.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/phaser/phaser_initialise.cpp -o obj/phaser_initialise.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/phaser/phaser_management.cpp -o obj/phaser_management.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/phaser/phaser_header.h:29,
from src/phaser/phaser_algorithm.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/phaser/phaser_header.h:29,
from src/phaser/phaser_finalise.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/phaser/phaser_header.h:29,
from src/phaser/phaser_initialise.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/phaser/phaser_header.h:29,
from src/phaser/phaser_management.cpp:22:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
g++ -std=c++11 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/shapeit4-4.1.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -c src/phaser/phaser_parameters.cpp -o obj/phaser_parameters.o -Isrc -I/sbuild-nonexistent/Tools/htslib-1.9 -I/usr/include
In file included from src/containers/haplotype_set.h:27,
from src/objects/compute_job.h:27,
from src/models/haplotype_segment_single.h:26,
from src/phaser/phaser_header.h:29,
from src/phaser/phaser_parameters.cpp:23:
src/containers/bitmatrix.h: In function 'unsigned int abracadabra(const unsigned int&, const unsigned int&)':
src/containers/bitmatrix.h:28:112: warning: right shift count >= width of type [-Wshift-count-overflow]
28 | return static_cast<unsigned int>((static_cast<unsigned long int>(i1) * static_cast<unsigned long int>(i2)) >> 32);
| ^~
g++ -std=c++11 -Wl,-z,relro -Wl,-z,now -O3 obj/genotype_set.o obj/haplotype_set.o obj/variant_map.o obj/genotype_reader1.o obj/genotype_reader2.o obj/gmap_reader.o obj/haplotype_writer.o obj/main.o obj/haplotype_segment_double.o obj/haplotype_segment_single.o obj/builder.o obj/pbwt_solver.o obj/compute_job.o obj/genotype_build.o obj/genotype_managment.o obj/genotype_mask.o obj/genotype_prune.o obj/genotype_sweep.o obj/hmm_parameters.o obj/variant.o obj/phaser_algorithm.o obj/phaser_finalise.o obj/phaser_initialise.o obj/phaser_management.o obj/phaser_parameters.o -lhts -lboost_iostreams -lboost_program_options -o bin/shapeit4 -lz -lbz2 -lm -lpthread -llzma
make[1]: Leaving directory '/<<BUILDDIR>>/shapeit4-4.1.3+dfsg'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/shapeit4/usr/bin/shapeit4 contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/shapeit4/usr/bin/shapeit4 was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'shapeit4-dbgsym' in '../shapeit4-dbgsym_4.1.3+dfsg-1+b1_armhf.deb'.
dpkg-deb: building package 'shapeit4' in '../shapeit4_4.1.3+dfsg-1+b1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../shapeit4_4.1.3+dfsg-1+b1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-06-10T09:20:26Z
Finished
--------
I: Built successfully
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shapeit4_4.1.3+dfsg-1+b1_armhf.changes:
---------------------------------------
Format: 1.8
Date: Thu, 05 Mar 2020 08:44:24 +0100
Source: shapeit4 (4.1.3+dfsg-1)
Binary: shapeit4 shapeit4-dbgsym
Binary-Only: yes
Architecture: armhf
Version: 4.1.3+dfsg-1+b1
Distribution: bullseye-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Raspbian wandboard test autobuilder <root@raspbian.org>
Description:
shapeit4 - fast and accurate method for estimation of haplotypes (phasing)
Changes:
shapeit4 (4.1.3+dfsg-1+b1) bullseye-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild for boost 1.71
Checksums-Sha1:
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8628522576ec0ff8eae9e6c71e6922247b276999 6270 shapeit4_4.1.3+dfsg-1+b1_armhf.buildinfo
1c31903aa809cd62ad6611af4a5ba1fd23d0545d 145900 shapeit4_4.1.3+dfsg-1+b1_armhf.deb
Checksums-Sha256:
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65cb5457aaa286ce9852243eefada18855f3c5a30ee5519aba7075548c9665c9 6270 shapeit4_4.1.3+dfsg-1+b1_armhf.buildinfo
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Files:
997feee28368ebe175a3a256f13dd977 3353492 debug optional shapeit4-dbgsym_4.1.3+dfsg-1+b1_armhf.deb
1423b310ae6e7ed5dd628a5188f4c0f6 6270 science optional shapeit4_4.1.3+dfsg-1+b1_armhf.buildinfo
812451f13fe2f9fd4351477d6b6a655b 145900 science optional shapeit4_4.1.3+dfsg-1+b1_armhf.deb
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| Package contents |
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shapeit4-dbgsym_4.1.3+dfsg-1+b1_armhf.deb
-----------------------------------------
new Debian package, version 2.0.
size 3353492 bytes: control archive=544 bytes.
406 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: shapeit4-dbgsym
Source: shapeit4 (4.1.3+dfsg-1)
Version: 4.1.3+dfsg-1+b1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3471
Depends: shapeit4 (= 4.1.3+dfsg-1+b1)
Section: debug
Priority: optional
Description: debug symbols for shapeit4
Build-Ids: f85fba673aae7a175be764cafbeac01077f6a923
drwxr-xr-x root/root 0 2020-03-05 07:44 ./
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/lib/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/lib/debug/.build-id/f8/
-rw-r--r-- root/root 3543380 2020-03-05 07:44 ./usr/lib/debug/.build-id/f8/5fba673aae7a175be764cafbeac01077f6a923.debug
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-03-05 07:44 ./usr/share/doc/shapeit4-dbgsym -> shapeit4
shapeit4_4.1.3+dfsg-1+b1_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 145900 bytes: control archive=848 bytes.
725 bytes, 15 lines control
345 bytes, 5 lines md5sums
Package: shapeit4
Source: shapeit4 (4.1.3+dfsg-1)
Version: 4.1.3+dfsg-1+b1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 474
Depends: libboost-iostreams1.71.0, libboost-program-options1.71.0, libc6 (>= 2.29), libgcc-s1 (>= 3.5), libhts3 (>= 1.10), libstdc++6 (>= 5.2)
Suggests: shapeit4-example
Section: science
Priority: optional
Homepage: https://odelaneau.github.io/shapeit4/
Description: fast and accurate method for estimation of haplotypes (phasing)
Segmented HAPlotype Estimation and Imputation Tools version 4 (SHAPEIT4).
SHAPEIT4 is a fast and accurate method for estimation of haplotypes (aka
phasing) for SNP array and sequencing data.
drwxr-xr-x root/root 0 2020-03-05 07:44 ./
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/bin/
-rwxr-xr-x root/root 468488 2020-03-05 07:44 ./usr/bin/shapeit4
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/doc/shapeit4/
-rw-r--r-- root/root 219 2020-03-05 07:44 ./usr/share/doc/shapeit4/changelog.Debian.armhf.gz
-rw-r--r-- root/root 393 2020-03-05 07:44 ./usr/share/doc/shapeit4/changelog.Debian.gz
-rw-r--r-- root/root 2990 2020-03-05 07:44 ./usr/share/doc/shapeit4/copyright
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/man/
drwxr-xr-x root/root 0 2020-03-05 07:44 ./usr/share/man/man1/
-rw-r--r-- root/root 1160 2020-03-05 07:44 ./usr/share/man/man1/shapeit4.1.gz
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build-Space: 104432
Build-Time: 411
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 364
Job: shapeit4_4.1.3+dfsg-1
Machine Architecture: armhf
Package: shapeit4
Package-Time: 855
Source-Version: 4.1.3+dfsg-1
Space: 104432
Status: successful
Version: 4.1.3+dfsg-1+b1
--------------------------------------------------------------------------------
Finished at 2020-06-10T09:20:26Z
Build needed 00:14:15, 104432k disc space