examl →
3.0.22-1 →
armhf → 2020-06-04 17:50:33
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on testbuildd
+==============================================================================+
| examl 3.0.22-1 (armhf) Thu, 04 Jun 2020 17:33:58 +0000 |
+==============================================================================+
Package: examl
Version: 3.0.22-1
Source Version: 3.0.22-1
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-6dde5577-7e70-4ddc-86c2-231a780a08b5' 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 (912 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: 'examl' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/examl.git
Please use:
git clone https://salsa.debian.org/med-team/examl.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 970 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main examl 3.0.22-1 (dsc) [1976 B]
Get:2 http://172.17.0.1/private bullseye-staging/main examl 3.0.22-1 (tar) [941 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main examl 3.0.22-1 (diff) [26.9 kB]
Fetched 970 kB in 1s (1905 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/examl-wqRGGH/examl-3.0.22' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/examl-wqRGGH' 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-ZP12bF/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-ZP12bF/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-ZP12bF/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-ZP12bF/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (2858 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 7 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-ZP12bF/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 (23.1 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)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), libopenmpi-dev, libsimde-dev
Filtered Build-Depends: debhelper-compat (= 12), libopenmpi-dev, libsimde-dev
dpkg-deb: building package 'sbuild-build-depends-examl-dummy' in '/<<BUILDDIR>>/resolver-ZP12bF/apt_archive/sbuild-build-depends-examl-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-examl-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-ZP12bF/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Sources [505 B]
Get:5 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ Packages [587 B]
Fetched 2425 B in 1s (3271 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install examl 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 debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gcc-10-base gettext
gettext-base gfortran-9 groff-base ibverbs-providers intltool-debian
libarchive-zip-perl libatomic1 libbsd0 libcbor0 libcc1-0 libcroco3
libdebhelper-perl libedit2 libelf1 libevent-2.1-7 libevent-core-2.1-7
libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7
libevent-pthreads-2.1-7 libfido2-1 libfile-stripnondeterminism-perl
libgcc-s1 libgfortran-9-dev libgfortran5 libglib2.0-0 libgomp1
libgssapi-krb5-2 libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev
libibverbs1 libicu63 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libltdl-dev libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-3-dev
libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopenmpi-dev
libopenmpi3 libpciaccess0 libpipeline1 libpmix2 librdmacm1 libsigsegv2
libsimde-dev libssl1.1 libstdc++6 libsub-override-perl libtinfo5 libtool
libubsan1 libuchardet0 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6
libxext6 libxml2 libxnvctrl0 m4 man-db ocl-icd-libopencl1 openmpi-bin
openmpi-common openssh-client po-debconf sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-9-doc
libcoarrays-dev groff krb5-doc krb5-user libtool-doc openmpi-doc pciutils
gcj-jdk m4-doc apparmor less www-browser opencl-icd gfortran
| fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass
libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs krb5-locales libcoarrays-openmpi-dev xauth
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
gfortran-9 groff-base ibverbs-providers intltool-debian libarchive-zip-perl
libbsd0 libcbor0 libcroco3 libdebhelper-perl libedit2 libelf1 libevent-2.1-7
libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7
libevent-pthreads-2.1-7 libfido2-1 libfile-stripnondeterminism-perl
libgfortran-9-dev libgfortran5 libglib2.0-0 libgssapi-krb5-2 libhwloc-dev
libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libicu63 libk5crypto3
libkeyutils1 libkrb5-3 libkrb5support0 libltdl-dev libltdl7 libmagic-mgc
libmagic1 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev
libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libpciaccess0 libpipeline1
libpmix2 librdmacm1 libsigsegv2 libsimde-dev libssl1.1 libsub-override-perl
libtinfo5 libtool libuchardet0 libx11-6 libx11-data libxau6 libxcb1
libxdmcp6 libxext6 libxml2 libxnvctrl0 m4 man-db ocl-icd-libopencl1
openmpi-bin openmpi-common openssh-client po-debconf
sbuild-build-depends-examl-dummy sensible-utils zlib1g-dev
The following packages will be upgraded:
gcc-10-base libatomic1 libcc1-0 libgcc-s1 libgomp1 libstdc++6 libubsan1
7 upgraded, 86 newly installed, 0 to remove and 0 not upgraded.
Need to get 38.5 MB of archives.
After this operation, 132 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-ZP12bF/apt_archive ./ sbuild-build-depends-examl-dummy 0.invalid.0 [872 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 libatomic1 armhf 10.1.0-2+rpi1 [8172 B]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libubsan1 armhf 10.1.0-2+rpi1 [115 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libgomp1 armhf 10.1.0-2+rpi1 [82.9 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf gcc-10-base armhf 10.1.0-2+rpi1 [197 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libgcc-s1 armhf 10.1.0-2+rpi1 [36.1 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libcc1-0 armhf 10.1.0-2+rpi1 [31.7 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libstdc++6 armhf 10.1.0-2+rpi1 [408 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.1-1 [1262 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libedit2 armhf 3.1-20191231-1 [79.2 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libcbor0 armhf 0.5.0+dfsg-2 [19.5 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1g-1 [1272 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libfido2-1 armhf 1.4.0-1 [43.7 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-7+rpi1 [61.5 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-7+rpi1 [112 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6.1-2 [14.5 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-7+rpi1 [318 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-7+rpi1 [135 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf openssh-client armhf 1:8.2p1-4 [781 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-1 [775 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.1 [187 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.8.1-1 [14.9 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.64.2-1 [1158 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-3 [7987 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-5 [592 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.1 [1012 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 10.1.0-2+rpi1 [232 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libgfortran-9-dev armhf 9.3.0-13+rpi1 [278 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf gfortran-9 armhf 9.3.0-13+rpi1 [8108 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libnl-3-200 armhf 3.4.0-1 [55.0 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libnl-route-3-200 armhf 3.4.0-1 [132 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libibverbs1 armhf 29.0-1 [47.5 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf ibverbs-providers armhf 29.0-1 [24.2 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libevent-2.1-7 armhf 2.1.11-stable-1 [165 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libevent-core-2.1-7 armhf 2.1.11-stable-1 [124 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libevent-extra-2.1-7 armhf 2.1.11-stable-1 [98.7 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libevent-pthreads-2.1-7 armhf 2.1.11-stable-1 [54.7 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libevent-openssl-2.1-7 armhf 2.1.11-stable-1 [59.7 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libevent-dev armhf 2.1.11-stable-1 [279 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libhwloc15 armhf 2.2.0+dfsg-3 [113 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libnuma1 armhf 2.0.12-1 [22.5 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libnuma-dev armhf 2.0.12-1 [35.6 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libltdl7 armhf 2.4.6-14 [388 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libltdl-dev armhf 2.4.6-14 [159 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf libhwloc-dev armhf 2.2.0+dfsg-3 [174 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libpciaccess0 armhf 0.14-1 [51.0 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-2 [135 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libx11-data all 2:1.6.9-2 [298 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libx11-6 armhf 2:1.6.9-2 [692 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libxext6 armhf 2:1.3.3-1+b2 [47.8 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf libxnvctrl0 armhf 440.82-1 [25.2 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf ocl-icd-libopencl1 armhf 2.2.12-4 [36.0 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libhwloc-plugins armhf 2.2.0+dfsg-3 [19.0 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libnl-3-dev armhf 3.4.0-1 [92.4 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libnl-route-3-dev armhf 3.4.0-1 [145 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libibverbs-dev armhf 29.0-1 [199 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libpmix2 armhf 3.1.5-1 [377 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf librdmacm1 armhf 29.0-1 [58.2 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf libopenmpi3 armhf 4.0.3-6+rpi1 [1690 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf openmpi-common all 4.0.3-6+rpi1 [170 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf openmpi-bin armhf 4.0.3-6+rpi1 [185 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libopenmpi-dev armhf 4.0.3-6+rpi1 [923 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf libsimde-dev all 0.0.0.git.20200531-1 [117 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 38.5 MB in 11s (3419 kB/s)
Selecting previously unselected package libbsd0:armhf.
(Reading database ... 12213 files and directories currently installed.)
Preparing to unpack .../0-libbsd0_0.10.0-1_armhf.deb ...
Unpacking libbsd0:armhf (0.10.0-1) ...
Selecting previously unselected package libtinfo5:armhf.
Preparing to unpack .../1-libtinfo5_6.2-1_armhf.deb ...
Unpacking libtinfo5:armhf (6.2-1) ...
Selecting previously unselected package bsdmainutils.
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update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
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Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libxnvctrl0:armhf (440.82-1) ...
Setting up libnl-route-3-dev:armhf (3.4.0-1) ...
Setting up libltdl-dev:armhf (2.4.6-14) ...
Setting up libhwloc-dev:armhf (2.2.0+dfsg-3) ...
Setting up librdmacm1:armhf (29.0-1) ...
Setting up po-debconf (1.0.21) ...
Setting up libibverbs-dev:armhf (29.0-1) ...
Setting up libhwloc-plugins:armhf (2.2.0+dfsg-3) ...
Setting up libpmix2:armhf (3.1.5-1) ...
Setting up libopenmpi3:armhf (4.0.3-6+rpi1) ...
Setting up openmpi-bin (4.0.3-6+rpi1) ...
update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode
update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode
Setting up libopenmpi-dev:armhf (4.0.3-6+rpi1) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) in auto mode
Setting up debhelper (13.1) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-examl-dummy (0.invalid.0) ...
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_10.1.0-2+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_1.0.8-2 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_10.1.0-2+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 gfortran-9_9.3.0-13+rpi1 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 ibverbs-providers_29.0-1 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_10.1.0-2+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 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 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 libcbor0_0.5.0+dfsg-2 libcc1-0_10.1.0-2+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 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdpkg-perl_1.19.7 libedit2_3.1-20191231-1 libelf1_0.176-1.1 libevent-2.1-7_2.1.11-stable-1 libevent-core-2.1-7_2.1.11-stable-1 libevent-dev_2.1.11-stable-1 libevent-extra-2.1-7_2.1.11-stable-1 libevent-openssl-2.1-7_2.1.11-stable-1 libevent-pthreads-2.1-7_2.1.11-stable-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libffi7_3.3-4 libfido2-1_1.4.0-1 libfile-stripnondeterminism-perl_1.8.1-1 libgcc-9-dev_9.3.0-13+rpi1 libgcc-s1_10.1.0-2+rpi1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran-9-dev_9.3.0-13+rpi1 libgfortran5_10.1.0-2+rpi1 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10.1.0-2+rpi1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-7+rpi1 libhogweed5_3.5.1+really3.5.1-2 libhwloc-dev_2.2.0+dfsg-3 libhwloc-plugins_2.2.0+dfsg-3 libhwloc15_2.2.0+dfsg-3 libibverbs-dev_29.0-1 libibverbs1_29.0-1 libicu63_63.2-3 libidn2-0_2.3.0-1 libisl22_0.22.1-1 libk5crypto3_1.17-7+rpi1 libkeyutils1_1.6.1-2 libkrb5-3_1.17-7+rpi1 libkrb5support0_1.17-7+rpi1 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 libltdl-dev_2.4.6-14 libltdl7_2.4.6-14 liblz4-1_1.9.2-2 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 libnl-3-200_3.4.0-1 libnl-3-dev_3.4.0-1 libnl-route-3-200_3.4.0-1 libnl-route-3-dev_3.4.0-1 libnpth0_1.6-1 libnuma-dev_2.0.12-1 libnuma1_2.0.12-1 libopenmpi-dev_4.0.3-6+rpi1 libopenmpi3_4.0.3-6+rpi1 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 libpciaccess0_0.14-1 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.2-1 libpipeline1_1.5.2-2 libpmix2_3.1.5-1 librdmacm1_29.0-1 libreadline8_8.0-4 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 libsimde-dev_0.0.0.git.20200531-1 libsmartcols1_2.35.2-2 libsqlite3-0_3.31.1-5 libss2_1.45.6-1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-13+rpi1 libstdc++6_10.1.0-2+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_10.1.0-2+rpi1 libuchardet0_0.0.6-3 libudev1_245.5-3+rpi1 libunistring2_0.9.10-2 libuuid1_2.35.2-2 libx11-6_2:1.6.9-2 libx11-data_2:1.6.9-2 libxau6_1:1.0.8-1+b2 libxcb1_1.14-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxml2_2.9.10+dfsg-5 libxnvctrl0_440.82-1 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_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.35.2-2 ncurses-base_6.2-1 ncurses-bin_6.2-1 netbase_6.1 ocl-icd-libopencl1_2.2.12-4 openmpi-bin_4.0.3-6+rpi1 openmpi-common_4.0.3-6+rpi1 openssh-client_1:8.2p1-4 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-examl-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 Mon Jun 1 14:10:18 2020 UTC
gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./examl_3.0.22-1.dsc
dpkg-source: info: extracting examl in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking examl_3.0.22.orig.tar.gz
dpkg-source: info: unpacking examl_3.0.22-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying simde
Check disc space
----------------
Sufficient free space for build
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-6dde5577-7e70-4ddc-86c2-231a780a08b5
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package examl
dpkg-buildpackage: info: source version 3.0.22-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --sourcedirectory=examl
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_clean
/usr/bin/make --directory=parser -f Makefile.SSE3.gcc clean
make[2]: Entering directory '/<<PKGBUILDDIR>>/parser'
rm -f *.o parse-examl""
make[2]: Leaving directory '/<<PKGBUILDDIR>>/parser'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_autoreconf_clean -O--sourcedirectory=examl
dh_clean -O--sourcedirectory=examl
debian/rules binary-arch
dh binary-arch --sourcedirectory=examl
dh_update_autotools_config -a -O--sourcedirectory=examl
dh_autoreconf -a -O--sourcedirectory=examl
dh_auto_configure -a -O--sourcedirectory=examl
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build
/usr/bin/make --directory=examl -f Makefile.AVX.gcc
make[2]: Entering directory '/<<PKGBUILDDIR>>/examl'
rm -f *.o examl""
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c
In function ‘initializePartitions’,
inlined from ‘initializeTree’ at axml.c:2217:3,
inlined from ‘main’ at axml.c:2631:5:
axml.c:2121:40: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
2121 | *modelWeights = (unsigned long*) calloc(tr->NumberOfModels, sizeof(unsigned long));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from axml.c:44:
axml.c: In function ‘main’:
/usr/include/stdlib.h:542:14: note: in a call to allocation function ‘calloc’ declared here
542 | extern void *calloc (size_t __nmemb, size_t __size)
| ^~~~~~
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o optimizeModel.o optimizeModel.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o trash.o trash.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o searchAlgo.o searchAlgo.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o topologies.o topologies.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o treeIO.o treeIO.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O1 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o models.o models.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluatePartialGenericSpecial.o evaluatePartialGenericSpecial.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o evaluateGenericSpecial.o evaluateGenericSpecial.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o newviewGenericSpecial.o newviewGenericSpecial.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o makenewzGenericSpecial.o makenewzGenericSpecial.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o bipartitionList.o bipartitionList.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o restartHashTable.o restartHashTable.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o avxLikelihood.o avxLikelihood.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o byteFile.o byteFile.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o partitionAssignment.o partitionAssignment.c
partitionAssignment.c: In function ‘printAssignment’:
partitionAssignment.c:457:21: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
457 | printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid);
| ~~^ ~~~~~~~~
| | |
| long unsigned int size_t {aka unsigned int}
| %u
partitionAssignment.c:457:25: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
457 | printf("p: %d\t(%lu,%lu) -> proc %d\n", a.partId, a.offset, a.width , procid);
| ~~^ ~~~~~~~
| | |
| long unsigned int size_t {aka unsigned int}
| %u
partitionAssignment.c: In function ‘printAssignments’:
partitionAssignment.c:470:18: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
470 | printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId);
| ~~^ ~~~~~~~~
| | |
| long unsigned int size_t {aka unsigned int}
| %u
partitionAssignment.c:470:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
470 | printf("%d\t%lu\t%lu\t%d\n", i,a.offset, a.width, a.partId);
| ~~^ ~~~~~~~
| | |
| long unsigned int size_t {aka unsigned int}
| %u
partitionAssignment.c: In function ‘printLoad’:
partitionAssignment.c:498:23: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=]
498 | printf("%d\t%d\t%lu\n", i, numsPerProc[i], sitesPerProc[i]);
| ~~^ ~~~~~~~~~~~~~~~
| | |
| long unsigned int size_t {aka unsigned int}
| %u
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o communication.o communication.c
mpicc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -D_OPTIMIZED_FUNCTIONS -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_ALLREDUCE -O2 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o quartets.o quartets.c
mpicc -o examl"" axml.o optimizeModel.o trash.o searchAlgo.o topologies.o treeIO.o models.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o bipartitionList.o restartHashTable.o avxLikelihood.o byteFile.o partitionAssignment.o communication.o quartets.o -lm -Wl,-z,relro -Wl,-z,now
make[2]: Leaving directory '/<<PKGBUILDDIR>>/examl'
/usr/bin/make --directory=examl -f Makefile.OMP.AVX.gcc
make[2]: Entering directory '/<<PKGBUILDDIR>>/examl'
mpicc -o examl-OMP"" axml.o optimizeModel.o trash.o searchAlgo.o topologies.o treeIO.o models.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o bipartitionList.o restartHashTable.o avxLikelihood.o byteFile.o partitionAssignment.o communication.o quartets.o -lm -fopenmp -Wl,-z,relro -Wl,-z,now
make[2]: Leaving directory '/<<PKGBUILDDIR>>/examl'
/usr/bin/make --directory=parser -f Makefile.SSE3.gcc
make[2]: Entering directory '/<<PKGBUILDDIR>>/parser'
rm -f *.o parse-examl""
gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fomit-frame-pointer -O2 -D_GNU_SOURCE -funroll-loops -Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function -Wunused-parameter -Wunused-value -Wunused-variable -Wformat -Wformat-nonliteral -Wparentheses -Wsequence-point -Wuninitialized -Wundef -Wbad-function-cast -Wdate-time -D_FORTIFY_SOURCE=2 -c -o axml.o axml.c
axml.c: In function ‘genericBaseFrequencies’:
axml.c:2509:19: warning: comparison is always true due to limited range of data type [-Wtype-limits]
2509 | if(yptr[j] >= 0 && yptr[j] < 20)
| ^~
gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -fomit-frame-pointer -O2 -D_GNU_SOURCE -funroll-loops -Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function -Wunused-parameter -Wunused-value -Wunused-variable -Wformat -Wformat-nonliteral -Wparentheses -Wsequence-point -Wuninitialized -Wundef -Wbad-function-cast -Wdate-time -D_FORTIFY_SOURCE=2 -c -o parsePartitions.o parsePartitions.c
gcc -o parse-examl"" axml.o parsePartitions.o -lm -Wl,-z,relro -Wl,-z,now
make[2]: Leaving directory '/<<PKGBUILDDIR>>/parser'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a -O--sourcedirectory=examl
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--sourcedirectory=examl
dh_prep -a -O--sourcedirectory=examl
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install examl/{examl,examl-OMP} parser/parse-examl /usr/bin/
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a -O--sourcedirectory=examl
dh_installchangelogs -a -O--sourcedirectory=examl
dh_installman -a -O--sourcedirectory=examl
dh_installinit -a -O--sourcedirectory=examl
dh_installsystemduser -a -O--sourcedirectory=examl
dh_perl -a -O--sourcedirectory=examl
dh_link -a -O--sourcedirectory=examl
dh_strip_nondeterminism -a -O--sourcedirectory=examl
dh_compress -a -O--sourcedirectory=examl
dh_fixperms -a -O--sourcedirectory=examl
dh_missing -a -O--sourcedirectory=examl
dh_dwz -a -O--sourcedirectory=examl
dh_strip -a -O--sourcedirectory=examl
dh_makeshlibs -a -O--sourcedirectory=examl
dh_shlibdeps -a -O--sourcedirectory=examl
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/examl/usr/bin/parse-examl debian/examl/usr/bin/examl-OMP debian/examl/usr/bin/examl were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a -O--sourcedirectory=examl
debian/rules override_dh_gencontrol
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.0.0.git.20200531-1), "
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_md5sums -a -O--sourcedirectory=examl
dh_builddeb -a -O--sourcedirectory=examl
dpkg-deb: building package 'examl' in '../examl_3.0.22-1_armhf.deb'.
dpkg-deb: building package 'examl-dbgsym' in '../examl-dbgsym_3.0.22-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../examl_3.0.22-1_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 2020-06-04T17:50:26Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
examl_3.0.22-1_armhf.changes:
-----------------------------
Format: 1.8
Date: Mon, 01 Jun 2020 16:09:49 +0200
Source: examl
Binary: examl examl-dbgsym
Architecture: armhf
Version: 3.0.22-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Michael R. Crusoe <crusoe@debian.org>
Description:
examl - Exascale Maximum Likelihood (ExaML) code for phylogenetic inferen
Changes:
examl (3.0.22-1) unstable; urgency=medium
.
* Team upload.
* New upstream release.
* For GPL compliance, document libsimde-dev usage and version number via
Built-Using
* Refresh hardening patch, almost all of it was applied upstream.
Checksums-Sha1:
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2a01a1accbd8c52767565b9d9f56b3c26e85894f 6190 examl_3.0.22-1_armhf.buildinfo
b134ddbc6d16203f8705396f528f62ec2fb3efa1 818732 examl_3.0.22-1_armhf.deb
Checksums-Sha256:
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31ab3179cee3755f1255663feafc127059fef037f4a130ca197b70d639d678ca 6190 examl_3.0.22-1_armhf.buildinfo
4b36edd6fcb498302e238ed214fc29731dc9d2e15c549d5fe67978d1227c2ccf 818732 examl_3.0.22-1_armhf.deb
Files:
247c207a80d22f261e6d4303895a80d0 544812 debug optional examl-dbgsym_3.0.22-1_armhf.deb
396ae5590d139501fcaacc4c694f46ff 6190 science optional examl_3.0.22-1_armhf.buildinfo
0a299081d59ee332b3a9860c2ed891c2 818732 science optional examl_3.0.22-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
examl-dbgsym_3.0.22-1_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 544812 bytes: control archive=636 bytes.
405 bytes, 12 lines control
297 bytes, 3 lines md5sums
Package: examl-dbgsym
Source: examl
Version: 3.0.22-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 579
Depends: examl (= 3.0.22-1)
Section: debug
Priority: optional
Description: debug symbols for examl
Build-Ids: 480088b6cf73815260413220b1b1d9a55aef9c40 ef5372b78e1782c6eb05c98745112354d7188a40
drwxr-xr-x root/root 0 2020-06-01 14:09 ./
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/debug/.build-id/48/
-rw-r--r-- root/root 482948 2020-06-01 14:09 ./usr/lib/debug/.build-id/48/0088b6cf73815260413220b1b1d9a55aef9c40.debug
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/debug/.build-id/ef/
-rw-r--r-- root/root 70496 2020-06-01 14:09 ./usr/lib/debug/.build-id/ef/5372b78e1782c6eb05c98745112354d7188a40.debug
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 25088 2020-06-01 14:09 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/examl.debug
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-06-01 14:09 ./usr/share/doc/examl-dbgsym -> examl
examl_3.0.22-1_armhf.deb
------------------------
new Debian package, version 2.0.
size 818732 bytes: control archive=1680 bytes.
1402 bytes, 29 lines control
1591 bytes, 23 lines md5sums
Package: examl
Version: 3.0.22-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1736
Depends: libc6 (>= 2.29), libopenmpi3 (>= 4.0.3), openmpi-bin
Built-Using: simde (= 0.0.0.git.20200531-1)
Section: science
Priority: optional
Homepage: https://github.com/stamatak/ExaML
Description: Exascale Maximum Likelihood (ExaML) code for phylogenetic inference
Exascale Maximum Likelihood (ExaML) is a code for phylogenetic inference
using MPI. This code implements the popular RAxML search algorithm for
maximum likelihood based inference of phylogenetic trees.
.
ExaML is a strapped-down light-weight version of RAxML for phylogenetic
inference on huge datasets. It can only execute some very basic
functions and is intended for computer-savvy users that can write little
perl-scripts and have experience using queue submission scripts for
clusters. ExaML only implements the CAT and GAMMA models of rate
heterogeneity for binary, DNA, and protein data.
.
ExaML uses a radically new MPI parallelization approach that yields
improved parallel efficiency, in particular on partitioned multi-gene or
whole-genome datasets. It also implements a new load balancing algorithm
that yields better parallel efficiency.
.
It is up to 4 times faster than its predecessor RAxML-Light and scales
to a larger number of processors.
drwxr-xr-x root/root 0 2020-06-01 14:09 ./
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/bin/
-rwxr-xr-x root/root 534844 2020-06-01 14:09 ./usr/bin/examl
-rwxr-xr-x root/root 534844 2020-06-01 14:09 ./usr/bin/examl-OMP
-rwxr-xr-x root/root 63792 2020-06-01 14:09 ./usr/bin/parse-examl
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/doc-base/
-rw-r--r-- root/root 1137 2020-01-09 18:52 ./usr/share/doc-base/examl
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/doc/examl/
-rw-r--r-- root/root 102882 2020-04-21 04:23 ./usr/share/doc/examl/ExaML.odt
-rw-r--r-- root/root 352609 2020-04-21 04:23 ./usr/share/doc/examl/ExaML.pdf.gz
-rw-r--r-- root/root 1178 2020-04-21 04:23 ./usr/share/doc/examl/README.md
-rw-r--r-- root/root 496 2020-01-09 10:54 ./usr/share/doc/examl/README.test
-rw-r--r-- root/root 914 2020-06-01 14:09 ./usr/share/doc/examl/changelog.Debian.gz
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/doc/examl/codeDocumentation/
-rw-r--r-- root/root 173 2020-04-21 04:23 ./usr/share/doc/examl/codeDocumentation/PSR.txt
-rw-r--r-- root/root 57843 2020-04-21 04:23 ./usr/share/doc/examl/codeDocumentation/startupIllustration.pdf.gz
-rw-r--r-- root/root 30059 2020-04-21 04:23 ./usr/share/doc/examl/codeDocumentation/startupIllustration.svg
-rw-r--r-- root/root 1133 2020-06-01 14:00 ./usr/share/doc/examl/copyright
-rw-r--r-- root/root 2979 2020-01-09 18:52 ./usr/share/doc/examl/run-unit-test
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/doc/examl/testData/
-rw-r--r-- root/root 49978 2020-04-21 04:23 ./usr/share/doc/examl/testData/140.gz
-rw-r--r-- root/root 55 2020-04-21 04:23 ./usr/share/doc/examl/testData/140.model
-rw-r--r-- root/root 1149 2020-04-21 04:23 ./usr/share/doc/examl/testData/140.tree
-rw-r--r-- root/root 2304 2020-04-21 04:23 ./usr/share/doc/examl/testData/354.tree.gz
-rw-r--r-- root/root 9101 2020-04-21 04:23 ./usr/share/doc/examl/testData/49.gz
-rw-r--r-- root/root 85 2020-04-21 04:23 ./usr/share/doc/examl/testData/49.model
-rw-r--r-- root/root 380 2020-04-21 04:23 ./usr/share/doc/examl/testData/49.tree
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/man/
drwxr-xr-x root/root 0 2020-06-01 14:09 ./usr/share/man/man1/
-rw-r--r-- root/root 2469 2020-06-01 14:09 ./usr/share/man/man1/examl.1.gz
-rw-r--r-- root/root 535 2020-06-01 14:09 ./usr/share/man/man1/parse-examl.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 15092
Build-Time: 504
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 433
Job: examl_3.0.22-1
Machine Architecture: armhf
Package: examl
Package-Time: 988
Source-Version: 3.0.22-1
Space: 15092
Status: successful
Version: 3.0.22-1
--------------------------------------------------------------------------------
Finished at 2020-06-04T17:50:26Z
Build needed 00:16:28, 15092k disc space