bio-eagle →
2.3-3 →
armhf → 2023-03-28 10:19:40
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-03
+==============================================================================+
| bio-eagle 2.3-3 (armhf) Tue, 28 Mar 2023 10:05:19 +0000 |
+==============================================================================+
Package: bio-eagle
Version: 2.3-3
Source Version: 2.3-3
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-87f53a4e-9996-4966-a6e5-badc7c352cfb' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private stretch-staging/main Sources [9731 kB]
Get:3 http://172.17.4.1/private stretch-staging/main armhf Packages [11.7 MB]
Fetched 21.4 MB in 40s (529 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: 'bio-eagle' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/eagle.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/eagle.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 1635 kB of source archives.
Get:1 http://172.17.4.1/private stretch-staging/main bio-eagle 2.3-3 (dsc) [2126 B]
Get:2 http://172.17.4.1/private stretch-staging/main bio-eagle 2.3-3 (tar) [1626 kB]
Get:3 http://172.17.4.1/private stretch-staging/main bio-eagle 2.3-3 (diff) [6548 B]
Fetched 1635 kB in 0s (6185 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/bio-eagle-Yego31/bio-eagle-2.3' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/bio-eagle-Yego31' 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-Mqn6Sq/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-Mqn6Sq/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-Mqn6Sq/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-Mqn6Sq/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Packages [430 B]
Fetched 2106 B in 0s (3137 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 NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 10 not upgraded.
Need to get 770 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [770 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 770 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12717 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 (>= 9), libopenblas-dev, libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libhts-dev, zlib1g-dev
Filtered Build-Depends: debhelper (>= 9), libopenblas-dev, libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libhts-dev, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-bio-eagle-dummy' in '/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive/sbuild-build-depends-bio-eagle-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-bio-eagle-dummy sbuild-build-depends-core-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-Mqn6Sq/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Sources [534 B]
Get:5 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ Packages [613 B]
Fetched 2480 B in 0s (3289 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install bio-eagle build dependencies (apt-based resolver)
---------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base gfortran
gfortran-6 groff-base icu-devtools intltool-debian libarchive-zip-perl
libblas-common libblas-dev libblas3 libboost-dev libboost-iostreams-dev
libboost-iostreams1.62-dev libboost-iostreams1.62.0
libboost-program-options-dev libboost-program-options1.62-dev
libboost-program-options1.62.0 libboost-regex1.62-dev libboost-regex1.62.0
libboost1.62-dev libbsd0 libcroco3 libcurl3-gnutls libffi6
libfile-stripnondeterminism-perl libgfortran-6-dev libgfortran3 libglib2.0-0
libgnutls30 libgssapi-krb5-2 libhogweed4 libhts-dev libhts1 libicu-dev
libicu57 libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libnettle6 libnghttp2-14
libopenblas-base libopenblas-dev libp11-kit0 libpipeline1 libpsl5 librtmp1
libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libssl1.1 libtasn1-6
libtimedate-perl libtool libunistring0 libxml2 m4 man-db po-debconf
zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-doc
gfortran-6-doc libgfortran3-dbg libcoarrays-dev groff liblapack-doc-man
liblapack-doc libboost-doc libboost1.62-doc libboost-atomic1.62-dev
libboost-chrono1.62-dev libboost-context1.62-dev libboost-coroutine1.62-dev
libboost-date-time1.62-dev libboost-exception1.62-dev libboost-fiber1.62-dev
libboost-filesystem1.62-dev libboost-graph1.62-dev
libboost-graph-parallel1.62-dev libboost-locale1.62-dev libboost-log1.62-dev
libboost-math1.62-dev libboost-mpi1.62-dev libboost-mpi-python1.62-dev
libboost-python1.62-dev libboost-random1.62-dev
libboost-serialization1.62-dev libboost-signals1.62-dev
libboost-system1.62-dev libboost-test1.62-dev libboost-thread1.62-dev
libboost-timer1.62-dev libboost-type-erasure1.62-dev libboost-wave1.62-dev
libboost1.62-tools-dev libmpfrc++-dev libntl-dev gnutls-bin krb5-doc
krb5-user icu-doc libtool-doc gcj-jdk m4-doc less www-browser
libmail-box-perl
Recommended packages:
curl | wget | lynx-cur ca-certificates libglib2.0-data shared-mime-info
xdg-user-dirs krb5-locales publicsuffix libsasl2-modules libltdl-dev
xml-core libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base gfortran
gfortran-6 groff-base icu-devtools intltool-debian libarchive-zip-perl
libblas-common libblas-dev libblas3 libboost-dev libboost-iostreams-dev
libboost-iostreams1.62-dev libboost-iostreams1.62.0
libboost-program-options-dev libboost-program-options1.62-dev
libboost-program-options1.62.0 libboost-regex1.62-dev libboost-regex1.62.0
libboost1.62-dev libbsd0 libcroco3 libcurl3-gnutls libffi6
libfile-stripnondeterminism-perl libgfortran-6-dev libgfortran3 libglib2.0-0
libgnutls30 libgssapi-krb5-2 libhogweed4 libhts-dev libhts1 libicu-dev
libicu57 libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libnettle6 libnghttp2-14
libopenblas-base libopenblas-dev libp11-kit0 libpipeline1 libpsl5 librtmp1
libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libssl1.1 libtasn1-6
libtimedate-perl libtool libunistring0 libxml2 m4 man-db po-debconf
sbuild-build-depends-bio-eagle-dummy zlib1g-dev
0 upgraded, 77 newly installed, 0 to remove and 10 not upgraded.
Need to get 57.7 MB of archives.
After this operation, 318 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-Mqn6Sq/apt_archive ./ sbuild-build-depends-bio-eagle-dummy 0.invalid.0 [822 B]
Get:2 http://172.17.4.1/private stretch-staging/main armhf groff-base armhf 1.22.3-9 [1005 kB]
Get:3 http://172.17.4.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1+deb9u1 [88.2 kB]
Get:4 http://172.17.4.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.12+nmu1 [178 kB]
Get:5 http://172.17.4.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:6 http://172.17.4.1/private stretch-staging/main armhf man-db armhf 2.7.6.1-2 [1014 kB]
Get:7 http://172.17.4.1/private stretch-staging/main armhf libssl1.1 armhf 1.1.0l-1~deb9u6 [1120 kB]
Get:8 http://172.17.4.1/private stretch-staging/main armhf libmagic-mgc armhf 1:5.30-1+deb9u3 [222 kB]
Get:9 http://172.17.4.1/private stretch-staging/main armhf libmagic1 armhf 1:5.30-1+deb9u3 [105 kB]
Get:10 http://172.17.4.1/private stretch-staging/main armhf file armhf 1:5.30-1+deb9u3 [63.7 kB]
Get:11 http://172.17.4.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-2+deb9u1 [117 kB]
Get:12 http://172.17.4.1/private stretch-staging/main armhf libnettle6 armhf 3.3-1+deb9u1 [204 kB]
Get:13 http://172.17.4.1/private stretch-staging/main armhf libhogweed4 armhf 3.3-1+deb9u1 [126 kB]
Get:14 http://172.17.4.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-6 [18.7 kB]
Get:15 http://172.17.4.1/private stretch-staging/main armhf libp11-kit0 armhf 0.23.3-2+deb9u1 [94.7 kB]
Get:16 http://172.17.4.1/private stretch-staging/main armhf libtasn1-6 armhf 4.10-1.1+deb9u1 [45.6 kB]
Get:17 http://172.17.4.1/private stretch-staging/main armhf libgnutls30 armhf 3.5.8-5+deb9u6 [826 kB]
Get:18 http://172.17.4.1/private stretch-staging/main armhf libkeyutils1 armhf 1.5.9-9 [11.9 kB]
Get:19 http://172.17.4.1/private stretch-staging/main armhf libkrb5support0 armhf 1.15-1+deb9u3 [58.4 kB]
Get:20 http://172.17.4.1/private stretch-staging/main armhf libk5crypto3 armhf 1.15-1+deb9u3 [115 kB]
Get:21 http://172.17.4.1/private stretch-staging/main armhf libkrb5-3 armhf 1.15-1+deb9u3 [265 kB]
Get:22 http://172.17.4.1/private stretch-staging/main armhf libgssapi-krb5-2 armhf 1.15-1+deb9u3 [132 kB]
Get:23 http://172.17.4.1/private stretch-staging/main armhf libsasl2-modules-db armhf 2.1.27~101-g0780600+dfsg-3+deb9u2 [67.1 kB]
Get:24 http://172.17.4.1/private stretch-staging/main armhf libsasl2-2 armhf 2.1.27~101-g0780600+dfsg-3+deb9u2 [98.3 kB]
Get:25 http://172.17.4.1/private stretch-staging/main armhf libldap-common all 2.4.44+dfsg-5+deb9u9 [86.3 kB]
Get:26 http://172.17.4.1/private stretch-staging/main armhf libldap-2.4-2 armhf 2.4.44+dfsg-5+deb9u8 [196 kB]
Get:27 http://172.17.4.1/private stretch-staging/main armhf libicu57 armhf 57.1-6+deb9u5 [7427 kB]
Get:28 http://172.17.4.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-2.2+deb9u7 [805 kB]
Get:29 http://172.17.4.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:30 http://172.17.4.1/private stretch-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:31 http://172.17.4.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:32 http://172.17.4.1/private stretch-staging/main armhf autotools-dev all 20161112.1 [73.4 kB]
Get:33 http://172.17.4.1/private stretch-staging/main armhf automake all 1:1.15-6 [733 kB]
Get:34 http://172.17.4.1/private stretch-staging/main armhf autopoint all 0.19.8.1-2+deb9u1 [433 kB]
Get:35 http://172.17.4.1/private stretch-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:36 http://172.17.4.1/private stretch-staging/main armhf dh-autoreconf all 14 [15.9 kB]
Get:37 http://172.17.4.1/private stretch-staging/main armhf libarchive-zip-perl all 1.59-1+deb9u1 [96.2 kB]
Get:38 http://172.17.4.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.034-1 [16.4 kB]
Get:39 http://172.17.4.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2+deb9u1 [37.9 kB]
Get:40 http://172.17.4.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.034-1 [10.5 kB]
Get:41 http://172.17.4.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.50.3-2+deb9u3 [2529 kB]
Get:42 http://172.17.4.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-3 [131 kB]
Get:43 http://172.17.4.1/private stretch-staging/main armhf libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:44 http://172.17.4.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-2+deb9u1 [1418 kB]
Get:45 http://172.17.4.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:46 http://172.17.4.1/private stretch-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:47 http://172.17.4.1/private stretch-staging/main armhf debhelper all 10.2.5 [961 kB]
Get:48 http://172.17.4.1/private stretch-staging/main armhf libgfortran3 armhf 6.3.0-18+rpi1+deb9u1 [166 kB]
Get:49 http://172.17.4.1/private stretch-staging/main armhf libgfortran-6-dev armhf 6.3.0-18+rpi1+deb9u1 [199 kB]
Get:50 http://172.17.4.1/private stretch-staging/main armhf gfortran-6 armhf 6.3.0-18+rpi1+deb9u1 [5421 kB]
Get:51 http://172.17.4.1/private stretch-staging/main armhf gfortran armhf 4:6.3.0-4 [1352 B]
Get:52 http://172.17.4.1/private stretch-staging/main armhf icu-devtools armhf 57.1-6+deb9u5 [157 kB]
Get:53 http://172.17.4.1/private stretch-staging/main armhf libblas-common armhf 3.7.0-2 [14.2 kB]
Get:54 http://172.17.4.1/private stretch-staging/main armhf libblas3 armhf 3.7.0-2 [107 kB]
Get:55 http://172.17.4.1/private stretch-staging/main armhf libblas-dev armhf 3.7.0-2 [114 kB]
Get:56 http://172.17.4.1/private stretch-staging/main armhf libboost1.62-dev armhf 1.62.0+dfsg-4 [7009 kB]
Get:57 http://172.17.4.1/private stretch-staging/main armhf libboost-dev armhf 1.62.0.1+b4 [3920 B]
Get:58 http://172.17.4.1/private stretch-staging/main armhf libboost-regex1.62.0 armhf 1.62.0+dfsg-4 [232 kB]
Get:59 http://172.17.4.1/private stretch-staging/main armhf libicu-dev armhf 57.1-6+deb9u5 [15.8 MB]
Get:60 http://172.17.4.1/private stretch-staging/main armhf libboost-regex1.62-dev armhf 1.62.0+dfsg-4 [325 kB]
Get:61 http://172.17.4.1/private stretch-staging/main armhf libboost-iostreams1.62.0 armhf 1.62.0+dfsg-4 [48.7 kB]
Get:62 http://172.17.4.1/private stretch-staging/main armhf libboost-iostreams1.62-dev armhf 1.62.0+dfsg-4 [57.7 kB]
Get:63 http://172.17.4.1/private stretch-staging/main armhf libboost-iostreams-dev armhf 1.62.0.1+b4 [3694 B]
Get:64 http://172.17.4.1/private stretch-staging/main armhf libboost-program-options1.62.0 armhf 1.62.0+dfsg-4 [136 kB]
Get:65 http://172.17.4.1/private stretch-staging/main armhf libboost-program-options1.62-dev armhf 1.62.0+dfsg-4 [178 kB]
Get:66 http://172.17.4.1/private stretch-staging/main armhf libboost-program-options-dev armhf 1.62.0.1+b4 [3716 B]
Get:67 http://172.17.4.1/private stretch-staging/main armhf libidn2-0 armhf 0.16-1+deb9u1 [59.5 kB]
Get:68 http://172.17.4.1/private stretch-staging/main armhf libnghttp2-14 armhf 1.18.1-1+deb9u2 [68.4 kB]
Get:69 http://172.17.4.1/private stretch-staging/main armhf libpsl5 armhf 0.17.0-3 [40.8 kB]
Get:70 http://172.17.4.1/private stretch-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-1 [54.2 kB]
Get:71 http://172.17.4.1/private stretch-staging/main armhf libssh2-1 armhf 1.7.0-1+deb9u2 [127 kB]
Get:72 http://172.17.4.1/private stretch-staging/main armhf libcurl3-gnutls armhf 7.52.1-5+deb9u16 [265 kB]
Get:73 http://172.17.4.1/private stretch-staging/main armhf libhts1 armhf 1.3.2-2+rpi1 [215 kB]
Get:74 http://172.17.4.1/private stretch-staging/main armhf libhts-dev armhf 1.3.2-2+rpi1 [270 kB]
Get:75 http://172.17.4.1/private stretch-staging/main armhf libopenblas-base armhf 0.2.19-3+rpi1 [1978 kB]
Get:76 http://172.17.4.1/private stretch-staging/main armhf libopenblas-dev armhf 0.2.19-3+rpi1 [1847 kB]
Get:77 http://172.17.4.1/private stretch-staging/main armhf zlib1g-dev armhf 1:1.2.8.dfsg-5+deb9u1 [198 kB]
debconf: delaying package configuration, since apt-utils is not installed
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update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up libssh2-1:armhf (1.7.0-1+deb9u2) ...
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update-alternatives: using /usr/lib/openblas-base/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up gfortran-6 (6.3.0-18+rpi1+deb9u1) ...
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Setting up libglib2.0-0:armhf (2.50.3-2+deb9u3) ...
No schema files found: doing nothing.
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Setting up autoconf (2.69-10) ...
Setting up libicu-dev (57.1-6+deb9u5) ...
Setting up file (1:5.30-1+deb9u3) ...
Setting up libkrb5support0:armhf (1.15-1+deb9u3) ...
Setting up libcroco3:armhf (0.6.11-3) ...
Setting up libp11-kit0:armhf (0.23.3-2+deb9u1) ...
Setting up automake (1:1.15-6) ...
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Setting up man-db (2.7.6.1-2) ...
Not building database; man-db/auto-update is not 'true'.
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Setting up gettext (0.19.8.1-2+deb9u1) ...
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Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-1) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up libldap-2.4-2:armhf (2.4.44+dfsg-5+deb9u8) ...
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update-alternatives: using /usr/lib/openblas-base/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode
Setting up po-debconf (1.0.20) ...
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Setting up sbuild-build-depends-bio-eagle-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.24-11+deb9u4) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.2-armmp armhf (armv7l)
Toolchain package versions: binutils_2.28-5 dpkg-dev_1.18.25 g++-6_6.3.0-18+rpi1+deb9u1 gcc-6_6.3.0-18+rpi1+deb9u1 libc6-dev_2.24-11+deb9u4 libstdc++-6-dev_6.3.0-18+rpi1+deb9u1 libstdc++6_6.3.0-18+rpi1+deb9u1 linux-libc-dev_4.9.82-1+deb9u3+rpi1
Package versions: adduser_3.115 apt_1.4.11 autoconf_2.69-10 automake_1:1.15-6 autopoint_0.19.8.1-2+deb9u1 autotools-dev_20161112.1 base-files_9.9+rpi1+deb9u13 base-passwd_3.5.43 bash_4.4-5 binutils_2.28-5 bsdmainutils_9.0.12+nmu1 bsdutils_1:2.29.2-1+deb9u1 build-essential_12.3 bzip2_1.0.6-8.1 coreutils_8.26-3 cpio_2.11+dfsg-6 cpp_4:6.3.0-4 cpp-6_6.3.0-18+rpi1+deb9u1 dash_0.5.8-2.4 debconf_1.5.61 debhelper_10.2.5 debianutils_4.8.1.1 dh-autoreconf_14 dh-strip-nondeterminism_0.034-1 diffutils_1:3.5-3 dmsetup_2:1.02.137-2 dpkg_1.18.25 dpkg-dev_1.18.25 e2fslibs_1.43.4-2+deb9u2 e2fsprogs_1.43.4-2+deb9u2 fakeroot_1.21-3.1 file_1:5.30-1+deb9u3 findutils_4.6.0+git+20161106-2 g++_4:6.3.0-4 g++-6_6.3.0-18+rpi1+deb9u1 gcc_4:6.3.0-4 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5-base_5.4.1-4 gcc-6_6.3.0-18+rpi1+deb9u1 gcc-6-base_6.3.0-18+rpi1+deb9u1 gettext_0.19.8.1-2+deb9u1 gettext-base_0.19.8.1-2+deb9u1 gfortran_4:6.3.0-4 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libustr-1.0-1_1.0.4-6 libuuid1_2.29.2-1+deb9u1 libxml2_2.9.4+dfsg1-2.2+deb9u7 linux-base_4.5 linux-libc-dev_4.9.82-1+deb9u3+rpi1 login_1:4.4-4.1+deb9u1 lsb-base_9.20161125+rpi1 m4_1.4.18-1 make_4.1-9.1 makedev_2.3.1-93 man-db_2.7.6.1-2 mawk_1.3.3-17 mount_2.29.2-1+deb9u1 mountall_2.54 multiarch-support_2.24-11+deb9u4 ncurses-base_6.0+20161126-1+deb9u2 ncurses-bin_6.0+20161126-1+deb9u2 passwd_1:4.4-4.1+deb9u1 patch_2.7.5-1+deb9u2 perl_5.24.1-3+deb9u7 perl-base_5.24.1-3+deb9u7 perl-modules-5.24_5.24.1-3+deb9u7 pinentry-curses_1.0.0-2 plymouth_0.9.2-4 po-debconf_1.0.20 procps_2:3.3.12-3+deb9u1 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 sbuild-build-depends-bio-eagle-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9+deb9u1 systemd_232-25+deb9u13 sysvinit-utils_2.88dsf-59.9 tar_1.29b-1.1+deb9u1 tzdata_2021a-0+deb9u3 udev_232-25+deb9u13 util-linux_2.29.2-1+deb9u1 xz-utils_5.2.2-1.2 zlib1g_1:1.2.8.dfsg-5+deb9u1 zlib1g-dev_1:1.2.8.dfsg-5+deb9u1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Wed Nov 2 21:02:15 2016 UTC
gpgv: using RSA key 612EF1613E050F54
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./bio-eagle_2.3-3.dsc
dpkg-source: info: extracting bio-eagle in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking bio-eagle_2.3.orig.tar.gz
dpkg-source: info: unpacking bio-eagle_2.3-3.debian.tar.xz
dpkg-source: info: applying Makefile_config.patch
dpkg-source: info: applying Fix_FTBFS.patch
dpkg-source: info: applying Clarify_license.patch
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=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-87f53a4e-9996-4966-a6e5-badc7c352cfb
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package bio-eagle
dpkg-buildpackage: info: source version 2.3-3
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build bio-eagle-2.3
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --sourcedirectory=src
dh_testdir -O--sourcedirectory=src
dh_auto_clean -O--sourcedirectory=src
make -j1 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
rm -f *.o
rm -f eagle
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
dh_clean -O--sourcedirectory=src
debian/rules build-arch
dh build-arch --sourcedirectory=src
dh_testdir -a -O--sourcedirectory=src
dh_update_autotools_config -a -O--sourcedirectory=src
dh_auto_configure -a -O--sourcedirectory=src
dh_auto_build -a -O--sourcedirectory=src
make -j1
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -std=c++0x -fopenmp -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -o EagleMain.o -c EagleMain.cpp
EagleMain.cpp: In function 'void phaseWithRef(EAGLE::EagleParams&, Timer&, double, int, char**)':
EagleMain.cpp:108:17: warning: unused variable 'hapBitsTptr' [-Wunused-variable]
HapBitsT *hapBitsTptr = NULL;
^~~~~~~~~~~
EagleMain.cpp:109:17: warning: unused variable 'hapHedgePtr' [-Wunused-variable]
HapHedge *hapHedgePtr = NULL;
^~~~~~~~~~~
EagleMain.cpp:103:25: warning: unused variable 'timeImpMissing' [-Wunused-variable]
double timeMN2 = 0, timeImpMissing = 0;
^~~~~~~~~~~~~~
EagleMain.cpp: In function 'int main(int, char**)':
EagleMain.cpp:442:61: warning: unused variable 'timeImpMissing' [-Wunused-variable]
double t23 = timer.get_time(); timer.update_time(); double timeImpMissing = 0;
^~~~~~~~~~~~~~
g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -std=c++0x -fopenmp -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -o DipTreePBWT.o -c DipTreePBWT.cpp
In file included from /usr/include/c++/6/algorithm:62:0,
from DipTreePBWT.cpp:23:
/usr/include/c++/6/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >; _Compare = __gnu_cxx::__ops::_Val_less_iter]':
/usr/include/c++/6/bits/stl_algo.h:1818:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
__unguarded_linear_insert(_RandomAccessIterator __last,
^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/6/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/6/bits/stl_algo.h:1837:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
__insertion_sort(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/6/bits/stl_algo.h:1837:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
In file included from /usr/include/c++/6/bits/stl_algo.h:61:0,
from /usr/include/c++/6/algorithm:62,
from DipTreePBWT.cpp:23:
/usr/include/c++/6/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >; _Distance = int; _Tp = EAGLE::DipTreeNode; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/6/bits/stl_heap.h:209:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
__adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
^~~~~~~~~~~~~
In file included from /usr/include/c++/6/algorithm:62:0,
from DipTreePBWT.cpp:23:
/usr/include/c++/6/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/6/bits/stl_algo.h:1937:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
__introsort_loop(_RandomAccessIterator __first,
^~~~~~~~~~~~~~~~
/usr/include/c++/6/bits/stl_algo.h:1937:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
/usr/include/c++/6/bits/stl_algo.h:1951:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
std::__introsort_loop(__cut, __last, __depth_limit, __comp);
^~~
/usr/include/c++/6/bits/stl_algo.h: In member function 'void EAGLE::DipTree::advance()':
/usr/include/c++/6/bits/stl_algo.h:1965:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
std::__introsort_loop(__first, __last,
^~~
/usr/include/c++/6/bits/stl_algo.h:1882:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
^~~
/usr/include/c++/6/bits/stl_algo.h:1887:2: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<EAGLE::DipTreeNode*, std::vector<EAGLE::DipTreeNode> >' will change in GCC 7.1
std::__insertion_sort(__first, __last, __comp);
^~~
g++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -O2 -std=c++0x -fopenmp -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -o Eagle.o -c Eagle.cpp
In file included from Eagle.cpp:43:0:
MemoryUtils.hpp:34:23: fatal error: xmmintrin.h: No such file or directory
#include <xmmintrin.h>
^
compilation terminated.
Makefile:99: recipe for target 'Eagle.o' failed
make[1]: *** [Eagle.o] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
dh_auto_build: make -j1 returned exit code 2
debian/rules:6: recipe for target 'build-arch' failed
make: *** [build-arch] Error 2
dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2
--------------------------------------------------------------------------------
Build finished at 2023-03-28T10:19:36Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 0
Build-Time: 78
Distribution: stretch-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 650
Job: bio-eagle_2.3-3
Machine Architecture: armhf
Package: bio-eagle
Package-Time: 857
Source-Version: 2.3-3
Space: 0
Status: failed
Version: 2.3-3
--------------------------------------------------------------------------------
Finished at 2023-03-28T10:19:36Z
Build needed 00:00:00, 0k disc space