fastqtl →
2.184+dfsg-8+b1 →
armhf → 2021-12-09 04:57:49
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| fastqtl 2.184+dfsg-8+b1 (armhf) Thu, 09 Dec 2021 04:49:51 +0000 |
+==============================================================================+
Package: fastqtl
Version: 2.184+dfsg-8+b1
Source Version: 2.184+dfsg-8
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-04c6e12d-6e35-47ea-9d9c-ba1219b5b318' 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 [12.6 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.5 MB]
Fetched 26.1 MB in 10s (2564 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: 'fastqtl' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/fastqtl.git
Please use:
git clone https://salsa.debian.org/med-team/fastqtl.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 17.1 MB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main fastqtl 2.184+dfsg-8 (dsc) [2188 B]
Get:2 http://172.17.4.1/private bookworm-staging/main fastqtl 2.184+dfsg-8 (tar) [17.1 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main fastqtl 2.184+dfsg-8 (diff) [19.8 kB]
Fetched 17.1 MB in 4s (4873 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/fastqtl-uWgTsp/fastqtl-2.184+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/fastqtl-uWgTsp' 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-UXVsZW/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-UXVsZW/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-UXVsZW/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: 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 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: 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-UXVsZW/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Packages [432 B]
Fetched 2108 B in 0s (9882 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 24 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-UXVsZW/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 (65.7 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 all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libgsl-dev, r-mathlib, zlib1g-dev, libblas-dev, libeigen3-dev, libhts-dev
Filtered Build-Depends: debhelper-compat (= 13), libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libgsl-dev, r-mathlib, zlib1g-dev, libblas-dev, libeigen3-dev, libhts-dev
dpkg-deb: building package 'sbuild-build-depends-fastqtl-dummy' in '/<<BUILDDIR>>/resolver-UXVsZW/apt_archive/sbuild-build-depends-fastqtl-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-fastqtl-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-UXVsZW/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Sources [553 B]
Get:5 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ Packages [634 B]
Fetched 2520 B in 0s (11.9 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install fastqtl 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 bsdextrautils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gcc-10-base gettext
gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl
libblas-dev libblas3 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
libboost1.74-dev libbrotli1 libcurl3-gnutls libcurl4-gnutls-dev
libdebhelper-perl libdeflate-dev libdeflate0 libeigen3-dev libelf1
libfile-stripnondeterminism-perl libgcc-10-dev libglib2.0-0 libgsl-dev
libgsl27 libgslcblas0 libhts-dev libhts3 libhtscodecs2 libicu-dev libicu67
liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5
librtmp1 libsigsegv2 libssh2-1 libstdc++-10-dev libsub-override-perl libtool
libuchardet0 libxml2 m4 man-db pkg-config po-debconf r-mathlib zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff liblapack-doc 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-date-time1.74-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-serialization1.74-dev libboost-stacktrace1.74-dev
libboost-system1.74-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
libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev
librtmp-dev libssh2-1-dev libeigen3-doc gsl-ref-psdoc | gsl-doc-pdf
| gsl-doc-info | gsl-ref-html icu-doc liblzma-doc libstdc++-10-doc
libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less
www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx ca-certificates libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs publicsuffix libltdl-dev
libmail-sendmail-perl r-base-core r-base-dev
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gcc-10-base gettext
gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl
libblas-dev libblas3 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
libboost1.74-dev libbrotli1 libcurl3-gnutls libcurl4-gnutls-dev
libdebhelper-perl libdeflate-dev libdeflate0 libeigen3-dev libelf1
libfile-stripnondeterminism-perl libgcc-10-dev libglib2.0-0 libgsl-dev
libgsl27 libgslcblas0 libhts-dev libhts3 libhtscodecs2 libicu-dev libicu67
liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5
librtmp1 libsigsegv2 libssh2-1 libstdc++-10-dev libsub-override-perl libtool
libuchardet0 libxml2 m4 man-db pkg-config po-debconf r-mathlib
sbuild-build-depends-fastqtl-dummy zlib1g-dev
0 upgraded, 69 newly installed, 0 to remove and 24 not upgraded.
Need to get 53.9 MB of archives.
After this operation, 327 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-UXVsZW/apt_archive ./ sbuild-build-depends-fastqtl-dummy 0.invalid.0 [920 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.2-4 [135 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-7 [793 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.4-1 [31.6 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.9.4-2 [1307 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf gcc-10-base armhf 10.3.0-13+rpi1 [206 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.13-1 [34.3 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.1 [823 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.5.2 [192 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.12.1-1 [26.5 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.12.1-1 [15.6 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.12+dfsg-5 [584 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.5.2 [1056 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf icu-devtools armhf 67.1-7 [172 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf libblas3 armhf 3.10.0-1 [108 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf libblas-dev armhf 3.10.0-1 [113 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf libgcc-10-dev armhf 10.3.0-13+rpi1 [679 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf libstdc++-10-dev armhf 10.3.0-13+rpi1 [1758 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf libboost1.74-dev armhf 1.74.0-13 [9537 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf libboost-dev armhf 1.74.0.3+b2 [4824 B]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf libboost-regex1.74.0 armhf 1.74.0-13 [448 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libicu-dev armhf 67.1-7 [9228 kB]
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Get:43 http://172.17.4.1/private bookworm-staging/main armhf libboost-iostreams1.74.0 armhf 1.74.0-13 [260 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf libboost-iostreams1.74-dev armhf 1.74.0-13 [270 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf libboost-iostreams-dev armhf 1.74.0.3+b2 [4588 B]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf libboost-program-options1.74.0 armhf 1.74.0-13 [334 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf libboost-program-options1.74-dev armhf 1.74.0-13 [374 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf libboost-program-options-dev armhf 1.74.0.3+b2 [4616 B]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-2 [161 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf libcurl3-gnutls armhf 7.79.1-2 [317 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf libcurl4-gnutls-dev armhf 7.79.1-2 [392 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf libdeflate0 armhf 1.8-1 [44.1 kB]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf libdeflate-dev armhf 1.8-1 [40.4 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libglib2.0-0 armhf 2.70.2-1 [1210 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libeigen3-dev all 3.3.9-2 [858 kB]
Get:61 http://172.17.4.1/private bookworm-staging/main armhf libgslcblas0 armhf 2.7.1+dfsg-3 [81.4 kB]
Get:62 http://172.17.4.1/private bookworm-staging/main armhf libgsl27 armhf 2.7.1+dfsg-3 [758 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf libgsl-dev armhf 2.7.1+dfsg-3 [958 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf libhtscodecs2 armhf 1.1.1-3 [49.8 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libhts3 armhf 1.13+ds-2 [339 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf liblzma-dev armhf 5.2.5-2 [219 kB]
Get:67 http://172.17.4.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:68 http://172.17.4.1/private bookworm-staging/main armhf libhts-dev armhf 1.13+ds-2 [4049 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf r-mathlib armhf 4.1.2-1 [2190 kB]
debconf: delaying package configuration, since apt-utils is not installed
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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 4.15.0-76-generic armhf (armv8l)
Toolchain package versions: binutils_2.37-5+rpi1 dpkg-dev_1.20.9+rpi1 g++-11_11.2.0-10+rpi1 gcc-11_11.2.0-10+rpi1 libc6-dev_2.32-4+rpi1 libstdc++-10-dev_10.3.0-13+rpi1 libstdc++-11-dev_11.2.0-10+rpi1 libstdc++6_11.2.0-10+rpi1 linux-libc-dev_5.14.16-1+rpi1
Package versions: adduser_3.118 apt_2.3.12 autoconf_2.71-2 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_2.37.2-4 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_11.2.0-10+rpi1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79 debhelper_13.5.2 debianutils_4.11.2 dh-autoreconf_20 dh-strip-nondeterminism_1.12.1-1 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 file_1:5.41-2 findutils_4.8.0-1 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-10+rpi1 gcc_4:11.2.0-2+rpi1 gcc-10-base_10.3.0-13+rpi1 gcc-11_11.2.0-10+rpi1 gcc-11-base_11.2.0-10+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 gnupg-l10n_2.2.27-2 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libc6_2.32-4+rpi1 libc6-dev_2.32-4+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-10+rpi1 libcom-err2_1.46.4-1 libcrypt-dev_1:4.4.26-1 libcrypt1_1:4.4.26-1 libctf-nobfd0_2.37-5+rpi1 libctf0_2.37-5+rpi1 libcurl3-gnutls_7.79.1-2 libcurl4-gnutls-dev_7.79.1-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.261 libdebhelper-perl_13.5.2 libdeflate-dev_1.8-1 libdeflate0_1.8-1 libdpkg-perl_1.20.9+rpi1 libeigen3-dev_3.3.9-2 libelf1_0.186-1 libext2fs2_1.46.4-1 libfakeroot_1.25.3-1.1 libffi8_3.4.2-3 libfile-stripnondeterminism-perl_1.12.1-1 libgcc-10-dev_10.3.0-13+rpi1 libgcc-11-dev_11.2.0-10+rpi1 libgcc-s1_11.2.0-10+rpi1 libgcrypt20_1.9.4-3 libgdbm-compat4_1.22-1 libgdbm6_1.22-1 libglib2.0-0_2.70.2-1 libgmp10_2:6.2.1+dfsg-3 libgnutls30_3.7.2-2 libgomp1_11.2.0-10+rpi1 libgpg-error0_1.42-3 libgsl-dev_2.7.1+dfsg-3 libgsl27_2.7.1+dfsg-3 libgslcblas0_2.7.1+dfsg-3 libgssapi-krb5-2_1.18.3-7 libhogweed6_3.7.3-1 libhts-dev_1.13+ds-2 libhts3_1.13+ds-2 libhtscodecs2_1.1.1-3 libicu-dev_67.1-7 libicu67_67.1-7 libidn2-0_2.3.2-2 libisl23_0.24-2 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libksba8_1.6.0-2 libldap-2.4-2_2.4.59+dfsg-1 liblocale-gettext-perl_1.07-4+b1 liblz4-1_1.9.3-2 liblzma-dev_5.2.5-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmount1_2.37.2-4 libmpc3_1.2.1-1 libmpfr6_4.1.0-3 libncursesw6_6.3-1 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.0-5 libpam-modules_1.4.0-10 libpam-modules-bin_1.4.0-10 libpam-runtime_1.4.0-10 libpam0g_1.4.0-10 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13 libperl5.32_5.32.1-6 libpipeline1_1.5.4-1 libpsl5_0.21.0-1.2 libreadline8_8.1-2 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.27+dfsg2-2 libsasl2-modules-db_2.1.27+dfsg2-2 libseccomp2_2.5.3-2+rpi1 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsepol1_3.1-1 libsepol2_3.3-1 libsigsegv2_2.13-1 libsmartcols1_2.37.2-4 libsqlite3-0_3.36.0-2 libss2_1.46.4-1 libssh2-1_1.10.0-2 libssl1.1_1.1.1l-1 libstdc++-10-dev_10.3.0-13+rpi1 libstdc++-11-dev_11.2.0-10+rpi1 libstdc++6_11.2.0-10+rpi1 libsub-override-perl_0.09-2 libsystemd0_249.7-1+rpi1 libtasn1-6_4.18.0-4 libtext-charwidth-perl_0.04-10+b1 libtext-iconv-perl_1.7-7+b1 libtinfo6_6.3-1 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15 libubsan1_11.2.0-10+rpi1 libuchardet0_0.0.7-1 libudev1_249.7-1+rpi1 libunistring2_0.9.10-6 libuuid1_2.37.2-4 libxml2_2.9.12+dfsg-5 libxxhash0_0.8.0-2+rpi1 libzstd1_1.4.8+dfsg-3+rpi1 linux-libc-dev_5.14.16-1+rpi1 login_1:4.8.1-2 logsave_1.46.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-5 make_4.3-4.1 man-db_2.9.4-2 mawk_1.3.4.20200120-2 mount_2.37.2-4 ncurses-base_6.3-1 ncurses-bin_6.3-1 netbase_6.3 passwd_1:4.8.1-2 patch_2.7.6-7 perl_5.32.1-6 perl-base_5.32.1-6 perl-modules-5.32_5.32.1-6 pinentry-curses_1.1.0-4 pkg-config_0.29.2-1 po-debconf_1.0.21+nmu1 r-mathlib_4.1.2-1 raspbian-archive-keyring_20120528.2 readline-common_8.1-2 rpcsvc-proto_1.4.2-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-fastqtl-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 sysvinit-utils_3.00-1 tar_1.34+dfsg-1 tzdata_2021e-1 util-linux_2.37.2-4 xz-utils_5.2.5-2 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 '/tmp/dpkg-verify-sig.tAlzBA54/trustedkeys.kbx': General error
gpgv: Signature made Sat Oct 23 12:57:53 2021 UTC
gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1
gpgv: issuer "nilesh@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./fastqtl_2.184+dfsg-8.dsc
dpkg-source: info: extracting fastqtl in /<<BUILDDIR>>/fastqtl-2.184+dfsg
dpkg-source: info: unpacking fastqtl_2.184+dfsg.orig.tar.xz
dpkg-source: info: unpacking fastqtl_2.184+dfsg-8.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 01_Makefile_dynamic_hardenings.patch
dpkg-source: info: applying 02_Replace_libtabix_by_libhts.patch
dpkg-source: info: applying 03_Reproducible_builds.patch
dpkg-source: info: applying cross.patch
Check disk space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 2.184+dfsg-8+b1
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-04c6e12d-6e35-47ea-9d9c-ba1219b5b318
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package fastqtl
dpkg-buildpackage: info: source version 2.184+dfsg-8+b1
dpkg-buildpackage: info: source distribution bookworm-staging
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<BUILDDIR>>/fastqtl-2.184+dfsg'
rm -f obj/*.o bin/fastQTL
make[1]: Leaving directory '/<<BUILDDIR>>/fastqtl-2.184+dfsg'
dh_clean
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/fastqtl-2.184+dfsg'
mkdir -p /<<BUILDDIR>>/fastqtl-2.184+dfsg/obj/
mkdir -p /<<BUILDDIR>>/fastqtl-2.184+dfsg/bin/
dh_auto_build -- CXXFLAGS='-g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14'
make -j4 "INSTALL=install --strip-program=true" "CXXFLAGS=-g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14"
make[2]: Entering directory '/<<BUILDDIR>>/fastqtl-2.184+dfsg'
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisMapping.o -c src/analysisMapping.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisNominal.o -c src/analysisNominal.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutation.o -c src/analysisPermutation.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationInteraction.o -c src/analysisPermutationInteraction.cpp -Isrc
In file included from src/analysisNominal.cpp:17:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
In file included from src/analysisPermutation.cpp:17:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
In file included from src/analysisPermutationInteraction.cpp:17:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
In file included from src/analysisMapping.cpp:17:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
In file included from /usr/include/c++/11/vector:72,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutation.cpp:17:
/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 = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/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 = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In file included from /usr/include/c++/11/vector:67,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutation.cpp:17:
/usr/include/c++/11/bits/stl_vector.h: In member function 'void data::runPermutation(std::string, std::vector<int>)':
/usr/include/c++/11/bits/stl_vector.h:1198:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/11/vector:72,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutation.cpp:17:
/usr/include/c++/11/bits/vector.tcc:121:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationPerGroup.o -c src/analysisPermutationPerGroup.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationSequence.o -c src/analysisPermutationSequence.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/commands.o -c src/commands.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/df.o -c src/df.cpp -Isrc
In file included from src/analysisPermutationPerGroup.cpp:17:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
In file included from /usr/include/c++/11/vector:72,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutationPerGroup.cpp:17:
/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 = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/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 = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In file included from src/analysisPermutationSequence.cpp:17:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
In file included from /usr/include/c++/11/vector:72,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutationSequence.cpp:17:
/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 = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/vector:67,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutationPerGroup.cpp:17:
/usr/include/c++/11/bits/stl_vector.h: In member function 'void data::runPermutationPerGroup(std::string, std::vector<int>)':
/usr/include/c++/11/bits/stl_vector.h:1198:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/11/vector:72,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutationPerGroup.cpp:17:
/usr/include/c++/11/bits/vector.tcc:121:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/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 = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/11/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
In file included from /usr/include/c++/11/vector:67,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutationSequence.cpp:17:
/usr/include/c++/11/bits/stl_vector.h: In member function 'void data::runPermutation(std::string, std::string)':
/usr/include/c++/11/bits/stl_vector.h:1198:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/11/vector:72,
from src/utils/utils.h:46,
from src/data.h:25,
from src/analysisPermutationSequence.cpp:17:
/usr/include/c++/11/bits/vector.tcc:121:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/fastQTL.o -c src/fastQTL.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/management.o -c src/management.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/mle.o -c src/mle.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readCovariates.o -c src/readCovariates.cpp -Isrc
In file included from src/management.cpp:20:
src/data.h: In member function 'double data::getCorrelation(std::vector<float>&, std::vector<float>&)':
src/data.h:170:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
170 | case 3: sum0 += vec1[i+2] * vec2[i+2];
src/data.h:171:9: note: here
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
| ^~~~
src/data.h:171:22: warning: this statement may fall through [-Wimplicit-fallthrough=]
171 | case 2: sum0 += vec1[i+1] * vec2[i+1];
src/data.h:172:9: note: here
172 | case 1: sum0 += vec1[i+0] * vec2[i+0];
| ^~~~
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readGenotypes.o -c src/readGenotypes.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readGroups.o -c src/readGroups.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readInclusionsExclusions.o -c src/readInclusionsExclusions.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readInteractions.o -c src/readInteractions.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readPhenotypes.o -c src/readPhenotypes.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readThresholds.o -c src/readThresholds.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/residualizer.o -c src/residualizer.cpp -Isrc
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/tabix.o -c src/utils/tabix.cpp -Isrc
src/utils/tabix.cpp: In constructor 'Tabix::Tabix(std::string&)':
src/utils/tabix.cpp:17:22: warning: 'int bgzf_is_bgzf(const char*)' is deprecated: Use bgzf_compression() or hts_detect_format() instead [-Wdeprecated-declarations]
17 | if ( bgzf_is_bgzf(cfilename)!=1 )
| ~~~~~~~~~~~~^~~~~~~~~~~
In file included from src/utils/tabix.hpp:12,
from src/utils/tabix.cpp:6:
/usr/include/htslib/bgzf.h:263:9: note: declared here
263 | int bgzf_is_bgzf(const char *fn) HTS_DEPRECATED("Use bgzf_compression() or hts_detect_format() instead");
| ^~~~~~~~~~~~
g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -ffile-prefix-map=/<<BUILDDIR>>/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/utils.o -c src/utils/utils.cpp -Isrc
g++ -O3 -Wl,-z,relro -Wl,-z,now obj/analysisMapping.o obj/analysisNominal.o obj/analysisPermutation.o obj/analysisPermutationInteraction.o obj/analysisPermutationPerGroup.o obj/analysisPermutationSequence.o obj/commands.o obj/df.o obj/fastQTL.o obj/management.o obj/mle.o obj/readCovariates.o obj/readGenotypes.o obj/readGroups.o obj/readInclusionsExclusions.o obj/readInteractions.o obj/readPhenotypes.o obj/readThresholds.o obj/residualizer.o obj/tabix.o obj/utils.o -lRmath -lhts -lm -lz -lboost_iostreams -lboost_program_options -lgsl -lblas -o bin/fastQTL
make[2]: Leaving directory '/<<BUILDDIR>>/fastqtl-2.184+dfsg'
cd /<<BUILDDIR>>/fastqtl-2.184+dfsg/example/ && \
tar Jcvf examples.tar.xz * --sort=name --mode=go=rX,u+rw,a-s --owner=root --group=root --numeric-owner
covariates.txt.gz
genotypes.vcf.gz
genotypes.vcf.gz.tbi
interaction.txt
phenotypes.bed.gz
phenotypes.bed.gz.tbi
make[1]: Leaving directory '/<<BUILDDIR>>/fastqtl-2.184+dfsg'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_auto_install -a
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_lintian -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/fastqtl/usr/bin/fastQTL 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/fastqtl/usr/bin/fastQTL was not linked against libblas.so.3 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/fastqtl/usr/bin/fastQTL 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 'fastqtl-dbgsym' in '../fastqtl-dbgsym_2.184+dfsg-8+b1_armhf.deb'.
dpkg-deb: building package 'fastqtl' in '../fastqtl_2.184+dfsg-8+b1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../fastqtl_2.184+dfsg-8+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 2021-12-09T04:57:46Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
fastqtl_2.184+dfsg-8+b1_armhf.changes:
--------------------------------------
Format: 1.8
Date: Sat, 23 Oct 2021 18:14:58 +0530
Source: fastqtl (2.184+dfsg-8)
Binary: fastqtl fastqtl-dbgsym
Binary-Only: yes
Architecture: armhf
Version: 2.184+dfsg-8+b1
Distribution: bookworm-staging
Urgency: low
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Description:
fastqtl - Quantitative Trait Loci (QTL) mapper in cis for molecular phenoty
Changes:
fastqtl (2.184+dfsg-8+b1) bookworm-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
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Files:
8e0bb84a7a1b38cc6ca9f9497f992ad8 5076160 debug optional fastqtl-dbgsym_2.184+dfsg-8+b1_armhf.deb
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c547f875920ef4b26b3d5b56ccffc60c 149268 science optional fastqtl_2.184+dfsg-8+b1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
fastqtl-dbgsym_2.184+dfsg-8+b1_armhf.deb
----------------------------------------
new Debian package, version 2.0.
size 5076160 bytes: control archive=544 bytes.
402 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: fastqtl-dbgsym
Source: fastqtl (2.184+dfsg-8)
Version: 2.184+dfsg-8+b1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 5146
Depends: fastqtl (= 2.184+dfsg-8+b1)
Section: debug
Priority: optional
Description: debug symbols for fastqtl
Build-Ids: c44a954ea978ab8aa81ed74f47530e0b826ff016
drwxr-xr-x root/root 0 2021-10-23 12:44 ./
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/lib/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/lib/debug/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/lib/debug/.build-id/c4/
-rw-r--r-- root/root 5258788 2021-10-23 12:44 ./usr/lib/debug/.build-id/c4/4a954ea978ab8aa81ed74f47530e0b826ff016.debug
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/doc/
lrwxrwxrwx root/root 0 2021-10-23 12:44 ./usr/share/doc/fastqtl-dbgsym -> fastqtl
fastqtl_2.184+dfsg-8+b1_armhf.deb
---------------------------------
new Debian package, version 2.0.
size 149268 bytes: control archive=1128 bytes.
1120 bytes, 20 lines control
410 bytes, 6 lines md5sums
Package: fastqtl
Source: fastqtl (2.184+dfsg-8)
Version: 2.184+dfsg-8+b1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 509
Depends: libblas3 | libblas.so.3, libboost-iostreams1.74.0 (>= 1.74.0), libboost-program-options1.74.0 (>= 1.74.0), libc6 (>= 2.29), libgcc-s1 (>= 3.5), libgsl27 (>= 2.7.1), libhts3 (>= 1.10), libstdc++6 (>= 11), r-mathlib
Suggests: fastqtl-doc
Section: science
Priority: optional
Homepage: http://fastqtl.sourceforge.net/
Description: Quantitative Trait Loci (QTL) mapper in cis for molecular phenotypes
The goal of FastQTL is to identify single-nucleotide polymorphisms (SNPs)
which are significantly associated with various molecular phenotypes
(i.e. expression of known genes, cytosine methylation levels, etc).
It performs scans for all possible phenotype-variant pairs in cis
(i.e. variants located within a specific window around a phenotype).
FastQTL implements a new permutation scheme (Beta approximation) to accurately
and rapidly correct for multiple-testing at both the genotype and phenotype
levels.
drwxr-xr-x root/root 0 2021-10-23 12:44 ./
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/bin/
-rwxr-xr-x root/root 464396 2021-10-23 12:44 ./usr/bin/fastQTL
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/doc/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/doc/fastqtl/
-rw-r--r-- root/root 227 2021-10-23 12:44 ./usr/share/doc/fastqtl/changelog.Debian.armhf.gz
-rw-r--r-- root/root 1106 2021-10-23 12:44 ./usr/share/doc/fastqtl/changelog.Debian.gz
-rw-r--r-- root/root 38452 2021-10-23 12:30 ./usr/share/doc/fastqtl/copyright
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/lintian/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 184 2021-10-23 12:44 ./usr/share/lintian/overrides/fastqtl
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/man/
drwxr-xr-x root/root 0 2021-10-23 12:44 ./usr/share/man/man1/
-rw-r--r-- root/root 1573 2021-10-23 12:44 ./usr/share/man/man1/fastQTL.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 102124
Build-Time: 141
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 312
Job: fastqtl_2.184+dfsg-8
Machine Architecture: armhf
Package: fastqtl
Package-Time: 475
Source-Version: 2.184+dfsg-8
Space: 102124
Status: successful
Version: 2.184+dfsg-8+b1
--------------------------------------------------------------------------------
Finished at 2021-12-09T04:57:46Z
Build needed 00:07:55, 102124k disk space