estscan →
3.0.3-3 →
armhf → 2018-12-23 05:38:49
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-04
+==============================================================================+
| estscan 3.0.3-3 (armhf) Sun, 23 Dec 2018 05:30:18 +0000 |
+==============================================================================+
Package: estscan
Version: 3.0.3-3
Source Version: 3.0.3-3
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-651be422-7a38-4044-8d42-b32deef64e00' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [11.3 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [13.0 MB]
Fetched 24.4 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: 'estscan' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/estscan.git
Please use:
git clone https://salsa.debian.org/med-team/estscan.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 52.9 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main estscan 3.0.3-3 (dsc) [1928 B]
Get:2 http://172.17.0.1/private buster-staging/main estscan 3.0.3-3 (tar) [46.4 kB]
Get:3 http://172.17.0.1/private buster-staging/main estscan 3.0.3-3 (diff) [4512 B]
Fetched 52.9 kB in 0s (928 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/estscan-Y6HmTR/estscan-3.0.3' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/estscan-Y6HmTR' 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-GU0TNU/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-GU0TNU/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-GU0TNU/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-GU0TNU/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Packages [433 B]
Fetched 2109 B in 1s (2922 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:
ca-certificates dbus dbus-user-session krb5-locales libexpat1
libgpg-error-l10n libnss-systemd libpam-systemd libssl1.1 openssl
systemd-sysv
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 46 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-GU0TNU/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 (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 14027 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 (>= 11~), gfortran
Filtered Build-Depends: debhelper (>= 11~), gfortran
dpkg-deb: building package 'sbuild-build-depends-estscan-dummy' in '/<<BUILDDIR>>/resolver-GU0TNU/apt_archive/sbuild-build-depends-estscan-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-estscan-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-GU0TNU/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Sources [497 B]
Get:5 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ Packages [576 B]
Fetched 2406 B in 1s (3301 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install estscan 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:
ca-certificates dbus dbus-user-session krb5-locales libexpat1
libgpg-error-l10n libnss-systemd libpam-systemd libssl1.1 openssl
systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cpp-8 debhelper
dh-autoreconf dh-strip-nondeterminism dwz file g++-8 gcc-8 gcc-8-base
gettext gettext-base gfortran gfortran-8 groff-base intltool-debian
libarchive-zip-perl libasan5 libatomic1 libbsd0 libcc1-0 libcroco3 libelf1
libfile-stripnondeterminism-perl libgcc-8-dev libgcc1 libgfortran-8-dev
libgfortran5 libglib2.0-0 libgomp1 libicu63 libmagic-mgc libmagic1
libpipeline1 libsigsegv2 libstdc++-8-dev libstdc++6 libtool libubsan1
libxml2 m4 man-db po-debconf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation gcc-8-locales dh-make gcc-8-doc libstdc++6-8-dbg libgcc1-dbg
libgomp1-dbg libitm1-dbg libatomic1-dbg libasan5-dbg liblsan0-dbg
libtsan0-dbg libubsan1-dbg libmpx2-dbg libquadmath0-dbg gettext-doc
libasprintf-dev libgettextpo-dev gfortran-doc gfortran-8-doc
libgfortran5-dbg libcoarrays-dev groff libstdc++-8-doc libtool-doc gcj-jdk
m4-doc apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base gfortran
gfortran-8 groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3
libelf1 libfile-stripnondeterminism-perl libgfortran-8-dev libgfortran5
libglib2.0-0 libicu63 libmagic-mgc libmagic1 libpipeline1 libsigsegv2
libtool libxml2 m4 man-db po-debconf sbuild-build-depends-estscan-dummy
The following packages will be upgraded:
cpp-8 g++-8 gcc-8 gcc-8-base libasan5 libatomic1 libcc1-0 libgcc-8-dev
libgcc1 libgomp1 libstdc++-8-dev libstdc++6 libubsan1
13 upgraded, 35 newly installed, 0 to remove and 33 not upgraded.
Need to get 47.8 MB/47.9 MB of archives.
After this operation, 105 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-GU0TNU/apt_archive ./ sbuild-build-depends-estscan-dummy 0.invalid.0 [860 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.9.1-1 [104 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf libcc1-0 armhf 8.2.0-12+rpi1 [30.1 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf gcc-8-base armhf 8.2.0-12+rpi1 [188 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf libgcc1 armhf 1:8.2.0-12+rpi1 [36.6 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libgomp1 armhf 8.2.0-12+rpi1 [63.9 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libatomic1 armhf 8.2.0-12+rpi1 [8108 B]
Get:9 http://172.17.0.1/private buster-staging/main armhf libasan5 armhf 8.2.0-12+rpi1 [318 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf libubsan1 armhf 8.2.0-12+rpi1 [104 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf g++-8 armhf 8.2.0-12+rpi1 [5942 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf libstdc++-8-dev armhf 8.2.0-12+rpi1 [1565 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf libgcc-8-dev armhf 8.2.0-12+rpi1 [3743 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf gcc-8 armhf 8.2.0-12+rpi1 [5848 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf cpp-8 armhf 8.2.0-12+rpi1 [5475 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf libstdc++6 armhf 8.2.0-12+rpi1 [326 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-10 [1005 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.0-2 [25.1 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.4-3 [1160 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.34-2 [239 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.34-2 [107 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.34-2 [65.0 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-9 [117 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-2 [185 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-9 [434 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-6 [547 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 1.0.0-1 [19.5 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 1.0.0-1 [12.5 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.170-0.5 [160 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-3 [66.0 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.58.1-2 [1051 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf libicu63 armhf 63.1-5 [7976 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-7+b1 [570 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-9 [1219 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf debhelper all 11.5.4 [1003 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libgfortran5 armhf 8.2.0-12+rpi1 [205 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf libgfortran-8-dev armhf 8.2.0-12+rpi1 [248 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf gfortran-8 armhf 8.2.0-12+rpi1 [5812 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf gfortran armhf 4:8.2.0-2+rpi1 [1432 B]
debconf: delaying package configuration, since apt-utils is not installed
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Selecting previously unselected package libbsd0:armhf.
(Reading database ... 14027 files and directories currently installed.)
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Setting up gcc-8-base:armhf (8.2.0-12+rpi1) ...
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Setting up libgcc1:armhf (1:8.2.0-12+rpi1) ...
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Unpacking po-debconf (1.0.21) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../27-debhelper_11.5.4_all.deb ...
Unpacking debhelper (11.5.4) ...
Selecting previously unselected package libgfortran5:armhf.
Preparing to unpack .../28-libgfortran5_8.2.0-12+rpi1_armhf.deb ...
Unpacking libgfortran5:armhf (8.2.0-12+rpi1) ...
Selecting previously unselected package libgfortran-8-dev:armhf.
Preparing to unpack .../29-libgfortran-8-dev_8.2.0-12+rpi1_armhf.deb ...
Unpacking libgfortran-8-dev:armhf (8.2.0-12+rpi1) ...
Selecting previously unselected package gfortran-8.
Preparing to unpack .../30-gfortran-8_8.2.0-12+rpi1_armhf.deb ...
Unpacking gfortran-8 (8.2.0-12+rpi1) ...
Selecting previously unselected package gfortran.
Preparing to unpack .../31-gfortran_4%3a8.2.0-2+rpi1_armhf.deb ...
Unpacking gfortran (4:8.2.0-2+rpi1) ...
Selecting previously unselected package sbuild-build-depends-estscan-dummy.
Preparing to unpack .../32-sbuild-build-depends-estscan-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-estscan-dummy (0.invalid.0) ...
Setting up cpp-8 (8.2.0-12+rpi1) ...
Setting up libgomp1:armhf (8.2.0-12+rpi1) ...
Setting up libatomic1:armhf (8.2.0-12+rpi1) ...
Setting up libcc1-0:armhf (8.2.0-12+rpi1) ...
Setting up libarchive-zip-perl (1.64-1) ...
Setting up libicu63:armhf (63.1-5) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libelf1:armhf (0.170-0.5) ...
Setting up groff-base (1.22.3-10) ...
Setting up libglib2.0-0:armhf (2.58.1-2) ...
No schema files found: removed existing output file.
Setting up gettext-base (0.19.8.1-9) ...
Setting up libpipeline1:armhf (1.5.0-2) ...
Setting up m4 (1.4.18-2) ...
Setting up libbsd0:armhf (0.9.1-1) ...
Setting up libxml2:armhf (2.9.4+dfsg1-7+b1) ...
Setting up libmagic-mgc (1:5.34-2) ...
Setting up libmagic1:armhf (1:5.34-2) ...
Setting up libcroco3:armhf (0.6.12-2) ...
Processing triggers for libc-bin (2.28-2) ...
Setting up dwz (0.12-3) ...
Setting up autotools-dev (20180224.1) ...
Setting up bsdmainutils (11.1.2) ...
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
Setting up libasan5:armhf (8.2.0-12+rpi1) ...
Setting up libgfortran5:armhf (8.2.0-12+rpi1) ...
Setting up autopoint (0.19.8.1-9) ...
Setting up libfile-stripnondeterminism-perl (1.0.0-1) ...
Setting up libubsan1:armhf (8.2.0-12+rpi1) ...
Setting up gettext (0.19.8.1-9) ...
Setting up autoconf (2.69-11) ...
Setting up file (1:5.34-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up automake (1:1.16.1-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up man-db (2.8.4-3) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libgcc-8-dev:armhf (8.2.0-12+rpi1) ...
Setting up libgfortran-8-dev:armhf (8.2.0-12+rpi1) ...
Setting up libtool (2.4.6-6) ...
Setting up libstdc++-8-dev:armhf (8.2.0-12+rpi1) ...
Setting up po-debconf (1.0.21) ...
Setting up gcc-8 (8.2.0-12+rpi1) ...
Setting up g++-8 (8.2.0-12+rpi1) ...
Setting up gfortran-8 (8.2.0-12+rpi1) ...
Setting up gfortran (4:8.2.0-2+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up debhelper (11.5.4) ...
Setting up dh-autoreconf (19) ...
Setting up dh-strip-nondeterminism (1.0.0-1) ...
Setting up sbuild-build-depends-estscan-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.28-2) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.4-armmp armhf (armv7l)
Toolchain package versions: binutils_2.31.1-10+rpi1 dpkg-dev_1.19.2 g++-8_8.2.0-12+rpi1 gcc-8_8.2.0-12+rpi1 libc6-dev_2.28-2 libstdc++-8-dev_8.2.0-12+rpi1 libstdc++6_8.2.0-12+rpi1 linux-libc-dev_4.18.20-2+rpi1
Package versions: adduser_3.118 apt_1.8.0~alpha2 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_4.4.18-3.1 binutils_2.31.1-10+rpi1 binutils-arm-linux-gnueabihf_2.31.1-10+rpi1 binutils-common_2.31.1-10+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.33-0.2 build-essential_12.5 bzip2_1.0.6-9 ca-certificates_20170717 coreutils_8.30-1 cpio_2.12+dfsg-6 cpp_4:8.2.0-2+rpi1 cpp-8_8.2.0-12+rpi1 dash_0.5.10.2-2 dbus_1.12.12-1 dbus-user-session_1.12.12-1 debconf_1.5.69 debhelper_11.5.4 debianutils_4.8.6 dh-autoreconf_19 dh-strip-nondeterminism_1.0.0-1 diffutils_1:3.6-1 dirmngr_2.2.11-1 dmsetup_2:1.02.145-4.1+b5 dpkg_1.19.2 dpkg-dev_1.19.2 dwz_0.12-3 e2fslibs_1.44.4-2 e2fsprogs_1.44.4-2 fakeroot_1.23-1 fdisk_2.33-0.2 file_1:5.34-2 findutils_4.6.0+git+20181018-1 g++_4:8.2.0-2+rpi1 g++-8_8.2.0-12+rpi1 gcc_4:8.2.0-2+rpi1 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_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-6-base_6.5.0-1+rpi1 gcc-8_8.2.0-12+rpi1 gcc-8-base_8.2.0-12+rpi1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gfortran_4:8.2.0-2+rpi1 gfortran-8_8.2.0-12+rpi1 gnupg_2.2.11-1 gnupg-l10n_2.2.11-1 gnupg-utils_2.2.11-1 gpg_2.2.11-1 gpg-agent_2.2.11-1 gpg-wks-client_2.2.11-1 gpg-wks-server_2.2.11-1 gpgconf_2.2.11-1 gpgsm_2.2.11-1 gpgv_2.2.11-1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.9-2.1 hostname_3.21 inetutils-ping_2:1.9.4-5 init-system-helpers_1.56 initramfs-tools_0.132 initramfs-tools-core_0.132 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-14+rpi1 kmod_25-2 krb5-locales_1.16.1-1 libacl1_2.2.52-3 libapparmor1_2.13.1-3+b1 libapt-pkg5.0_1.8.0~alpha2 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-12+rpi1 libassuan0_2.5.1-2 libatomic1_8.2.0-12+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.8.4-2 libaudit1_1:2.8.4-2 libbinutils_2.31.1-10+rpi1 libblkid1_2.33-0.2 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-2 libc-dev-bin_2.28-2 libc6_2.28-2 libc6-dev_2.28-2 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.2.0-12+rpi1 libcom-err2_1.44.4-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.6-1 libcryptsetup4_2:1.7.5-1 libdb5.3_5.3.28+dfsg1-0.2 libdbus-1-3_1.12.12-1 libdebconfclient0_0.245 libdevmapper1.02.1_2:1.02.145-4.1+b5 libdpkg-perl_1.19.2 libdrm-common_2.4.95-1+rpi1 libdrm2_2.4.95-1+rpi1 libelf1_0.170-0.5 libexpat1_2.2.6-1 libext2fs2_1.44.4-2 libfakeroot_1.23-1 libfdisk1_2.33-0.2 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.0.0-1 libgcc-8-dev_8.2.0-12+rpi1 libgcc1_1:8.2.0-12+rpi1 libgcrypt20_1.8.4-4 libgdbm-compat4_1.18.1-2 libgdbm3_1.8.3-14 libgdbm6_1.18.1-2 libgfortran-8-dev_8.2.0-12+rpi1 libgfortran5_8.2.0-12+rpi1 libglib2.0-0_2.58.1-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.5.19-1+b1 libgomp1_8.2.0-12+rpi1 libgpg-error-l10n_1.32-3 libgpg-error0_1.32-3 libgssapi-krb5-2_1.16.1-1 libhogweed4_3.4.1~rc1-1 libicu63_63.1-5 libidn11_1.33-2.2 libidn2-0_2.0.5-1 libip4tc0_1.8.2-2+b1 libisl19_0.20-2 libjson-c3_0.12.1-1.3 libk5crypto3_1.16.1-1 libkeyutils1_1.5.9-9.3 libklibc_2.0.4-14+rpi1 libkmod2_25-2 libkrb5-3_1.16.1-1 libkrb5support0_1.16.1-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.46+dfsg-5+rpi1+b1 libldap-common_2.4.46+dfsg-5+rpi1 liblz4-1_1.8.2-1+rpi1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2 libmount1_2.33-0.2 libmpc3_1.1.0-1 libmpfr6_4.0.1-2 libncurses5_6.1+20181013-1 libncurses6_6.1+20181013-1 libncursesw5_6.1+20181013-1 libncursesw6_6.1+20181013-1 libnettle6_3.4.1~rc1-1 libnpth0_1.6-1 libnss-systemd_239-15+rpi1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-3.8 libpam-modules-bin_1.1.8-3.8 libpam-runtime_1.1.8-3.8 libpam-systemd_239-15+rpi1 libpam0g_1.1.8-3.8 libpcre3_2:8.39-11+rpi1 libperl5.28_5.28.1-3 libpipeline1_1.5.0-2 libplymouth4_0.9.4-1 libpng16-16_1.6.34-2+rpi1 libprocps7_2:3.3.15-2 libreadline7_7.0-5 libsasl2-2_2.1.27~rc8-1 libsasl2-modules-db_2.1.27~rc8-1 libseccomp2_2.3.3-3 libselinux1_2.8-1 libsemanage-common_2.8-1 libsemanage1_2.8-1 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.33-0.2 libsqlite3-0_3.26.0-3 libss2_1.44.4-2 libssl1.1_1.1.1a-1 libstdc++-8-dev_8.2.0-12+rpi1 libstdc++6_8.2.0-12+rpi1 libsystemd0_239-15+rpi1 libtasn1-6_4.13-3 libtinfo5_6.1+20181013-1 libtinfo6_6.1+20181013-1 libtool_2.4.6-6 libubsan1_8.2.0-12+rpi1 libudev1_239-15+rpi1 libunistring2_0.9.10-1 libuuid1_2.33-0.2 libxml2_2.9.4+dfsg1-7+b1 libzstd1_1.3.5+dfsg-1+rpi1 linux-base_4.5 linux-libc-dev_4.18.20-2+rpi1 login_1:4.5-1.1 lsb-base_10.2018112800+rpi1 m4_1.4.18-2 make_4.2.1-1.2 makedev_2.3.1-94 man-db_2.8.4-3 mawk_1.3.3-17 mount_2.33-0.2 multiarch-support_2.28-2 nano_3.2-1 ncurses-base_6.1+20181013-1 ncurses-bin_6.1+20181013-1 netbase_5.5 openssl_1.1.1a-1 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-3 perl-base_5.28.1-3 perl-modules-5.28_5.28.1-3 pinentry-curses_1.1.0-1 plymouth_0.9.4-1 po-debconf_1.0.21 procps_2:3.3.15-2 raspbian-archive-keyring_20120528.2 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-estscan-dummy_0.invalid.0 sed_4.5-2 sensible-utils_0.0.12 systemd_239-15+rpi1 systemd-sysv_239-15+rpi1 sysvinit-utils_2.93-1 tar_1.30+dfsg-3+rpi1 tzdata_2018g-1 udev_239-15+rpi1 util-linux_2.33-0.2 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Tue Dec 18 07:15:12 2018 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./estscan_3.0.3-3.dsc
dpkg-source: info: extracting estscan in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking estscan_3.0.3.orig.tar.gz
dpkg-source: info: unpacking estscan_3.0.3-3.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying Makfile.patch
dpkg-source: info: applying ld-as-needed.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=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-651be422-7a38-4044-8d42-b32deef64e00
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package estscan
dpkg-buildpackage: info: source version 3.0.3-3
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
\rm -f *~ maskred makesmat estscan winsegshuffle *.o
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_clean
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
dh_auto_build -a
make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<PKGBUILDDIR>>'
gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -c maskred.c
gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -c makesmat.c
gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -c estscan.c
gfortran -O2 -g -c winsegshuffle.f
winsegshuffle.f:121:72:
IF(J.GT.97.OR.J.LT.1) PAUSE
1
Warning: Deleted feature: PAUSE statement at (1)
estscan.c: In function 'Compute':
estscan.c:784:38: warning: variable 'tmpScore' set but not used [-Wunused-but-set-variable]
int iCurr, bPrev, bScore, tmpPrev, tmpScore;
^~~~~~~~
estscan.c:784:29: warning: variable 'tmpPrev' set but not used [-Wunused-but-set-variable]
int iCurr, bPrev, bScore, tmpPrev, tmpScore;
^~~~~~~
maskred.c:124:33: warning: 'bitValue' is static but used in inline function 'testBit' which is not static
{ return(bitField[index >> 3] & bitValue[index & 7]); }
^~~~~~~~
maskred.c:121:27: warning: 'bitValue' is static but used in inline function 'setBit' which is not static
{ bitField[index >> 3] |= bitValue[index & 7]; }
^~~~~~~~
maskred.c:161:13: warning: 'printTuple' defined but not used [-Wunused-function]
static void printTuple(unsigned long index, int len)
^~~~~~~~~~
gfortran -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o winsegshuffle winsegshuffle.o -lm
gcc -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o maskred maskred.o -lm
gcc -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o makesmat makesmat.o -lm
gcc -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o estscan estscan.o -lm
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install
for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \
sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \
done
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a
dh_installchangelogs -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/estscan/usr/bin/makesmat debian/estscan/usr/bin/maskred debian/estscan/usr/bin/estscan were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'estscan' in '../estscan_3.0.3-3_armhf.deb'.
dpkg-deb: building package 'estscan-dbgsym' in '../estscan-dbgsym_3.0.3-3_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../estscan_3.0.3-3_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 2018-12-23T05:38:44Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
estscan_3.0.3-3_armhf.changes:
------------------------------
Format: 1.8
Date: Tue, 18 Dec 2018 08:12:32 +0100
Source: estscan
Binary: estscan
Architecture: armhf
Version: 3.0.3-3
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
estscan - ORF-independent detector of coding DNA sequences
Closes: 916740
Changes:
estscan (3.0.3-3) unstable; urgency=medium
.
* Team upload.
* Build with ld --as-needed
Closes: #916740
* debhelper 11
* cme fix dpkg-control
* Standards-Version: 4.2.1
* Remove trailing whitespace in debian/copyright
* Fix Perl interpreter path
* hardening=+all
Checksums-Sha1:
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0ef27b499f6afe8675607966b4ca8973ef16e562 4534 estscan_3.0.3-3_armhf.buildinfo
297383153a65867d708bfff99e55d1199d0c3d56 40860 estscan_3.0.3-3_armhf.deb
Checksums-Sha256:
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7cc1f6480fc58429f55c23484f076ae33bb85dabfcc8bd470c5c073363e02ffc 4534 estscan_3.0.3-3_armhf.buildinfo
da3f1e092574b7676ecd7ed5f87512ae997467f66ae8f4d6619f263b2cc581f8 40860 estscan_3.0.3-3_armhf.deb
Files:
320ca527fd03ac3fbc91b7f574ba83e1 50356 debug optional estscan-dbgsym_3.0.3-3_armhf.deb
46698c5dac57a5d156f18ac297503662 4534 science optional estscan_3.0.3-3_armhf.buildinfo
d4406306b5fbee7324551aee0defd9b6 40860 science optional estscan_3.0.3-3_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
estscan-dbgsym_3.0.3-3_armhf.deb
--------------------------------
new Debian package, version 2.0.
size 50356 bytes: control archive=700 bytes.
492 bytes, 12 lines control
424 bytes, 4 lines md5sums
Package: estscan-dbgsym
Source: estscan
Version: 3.0.3-3
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 83
Depends: estscan (= 3.0.3-3)
Section: debug
Priority: optional
Description: debug symbols for estscan
Build-Ids: 4425c1120eda2974f59a3e1953881d1ca3047502 7aafdc94456f8cf992e0bd42649db13271410b99 9280f569afd1789b57c1c69aa51016d8c540198f ddb2b46cfbd0c04f2a77e9822d9ebd6de1794c17
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drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/lib/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/lib/debug/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/lib/debug/.build-id/44/
-rw-r--r-- root/root 12440 2018-12-18 07:12 ./usr/lib/debug/.build-id/44/25c1120eda2974f59a3e1953881d1ca3047502.debug
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/lib/debug/.build-id/7a/
-rw-r--r-- root/root 10160 2018-12-18 07:12 ./usr/lib/debug/.build-id/7a/afdc94456f8cf992e0bd42649db13271410b99.debug
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-rw-r--r-- root/root 17300 2018-12-18 07:12 ./usr/lib/debug/.build-id/92/80f569afd1789b57c1c69aa51016d8c540198f.debug
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drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/share/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/share/doc/
lrwxrwxrwx root/root 0 2018-12-18 07:12 ./usr/share/doc/estscan-dbgsym -> estscan
estscan_3.0.3-3_armhf.deb
-------------------------
new Debian package, version 2.0.
size 40860 bytes: control archive=1348 bytes.
1287 bytes, 24 lines control
643 bytes, 11 lines md5sums
Package: estscan
Version: 3.0.3-3
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 163
Depends: libc6 (>= 2.7), libgcc1 (>= 1:3.5), libgfortran5 (>= 8), perl:any
Section: science
Priority: optional
Homepage: http://estscan.sourceforge.net/
Description: ORF-independent detector of coding DNA sequences
ESTScan is a program that can detect coding regions in DNA sequences,
even if they are of low quality. ESTScan will also detect and correct
sequencing errors that lead to frameshifts. ESTScan is not a gene
prediction program , nor is it an open reading frame detector. In fact,
its strength lies in the fact that it does not require an open reading
frame to detect a coding region. As a result, the program may miss a
few translated amino acids at either the N or the C terminus, but will
detect coding regions with high selectivity and sensitivity.
.
ESTScan takes advantages of the bias in hexanucleotide usage found in
coding regions relative to non-coding regions. This bias is formalized
as an inhomogeneous 3-periodic fifth-order Hidden Markov Model
(HMM). Additionally, the HMM of ESTScan has been extended to allows
insertions and deletions when these improve the coding region statistics.
drwxr-xr-x root/root 0 2018-12-18 07:12 ./
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/bin/
-rwxr-xr-x root/root 26068 2018-12-18 07:12 ./usr/bin/estscan
-rwxr-xr-x root/root 25411 2018-12-18 07:12 ./usr/bin/evaluate_model
-rwxr-xr-x root/root 18833 2018-12-18 07:12 ./usr/bin/extract_EST
-rwxr-xr-x root/root 16560 2018-12-18 07:12 ./usr/bin/extract_UG_EST
-rwxr-xr-x root/root 13780 2018-12-18 07:12 ./usr/bin/makesmat
-rwxr-xr-x root/root 9684 2018-12-18 07:12 ./usr/bin/maskred
-rwxr-xr-x root/root 18178 2018-12-18 07:12 ./usr/bin/prepare_data
-rwxr-xr-x root/root 9632 2018-12-18 07:12 ./usr/bin/winsegshuffle
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/share/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/share/doc/
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/share/doc/estscan/
-rw-r--r-- root/root 432 2018-12-18 07:12 ./usr/share/doc/estscan/changelog.Debian.gz
-rw-r--r-- root/root 5478 2018-12-18 07:12 ./usr/share/doc/estscan/copyright
drwxr-xr-x root/root 0 2018-12-18 07:12 ./usr/share/perl5/
-rw-r--r-- root/root 8714 2006-12-19 16:01 ./usr/share/perl5/build_model_utils.pl
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| Cleanup |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build-Space: 1124
Build-Time: 37
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 421
Job: estscan_3.0.3-3
Machine Architecture: armhf
Package: estscan
Package-Time: 506
Source-Version: 3.0.3-3
Space: 1124
Status: successful
Version: 3.0.3-3
--------------------------------------------------------------------------------
Finished at 2018-12-23T05:38:44Z
Build needed 00:08:26, 1124k disc space