racon →
1.4.13-1 →
armhf → 2020-04-20 09:04:37
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| racon 1.4.13-1 (armhf) Mon, 20 Apr 2020 08:10:01 +0000 |
+==============================================================================+
Package: racon
Version: 1.4.13-1
Source Version: 1.4.13-1
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-6d7a2cb9-f203-4250-b6f4-eda5c33a3980' 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 [11.6 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.7 MB]
Fetched 24.4 MB in 10s (2513 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: 'racon' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/racon.git
Please use:
git clone https://salsa.debian.org/med-team/racon.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 3091 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main racon 1.4.13-1 (dsc) [2052 B]
Get:2 http://172.17.0.1/private bullseye-staging/main racon 1.4.13-1 (tar) [3083 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main racon 1.4.13-1 (diff) [5904 B]
Fetched 3091 kB in 1s (3957 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/racon-JTduOc/racon-1.4.13' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/racon-JTduOc' 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-0fbPfl/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-0fbPfl/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-0fbPfl/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Packages [430 B]
Fetched 2106 B in 0s (9718 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:
libpam-cap netbase
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 3 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (65.9 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12224 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), cmake, libgtest-dev, libbioparser-dev, libedlib-dev, libspoa-dev, libthread-pool-dev (>= 2), rampler
Filtered Build-Depends: debhelper-compat (= 12), cmake, libgtest-dev, libbioparser-dev, libedlib-dev, libspoa-dev, libthread-pool-dev (>= 2), rampler
dpkg-deb: building package 'sbuild-build-depends-racon-dummy' in '/<<BUILDDIR>>/resolver-0fbPfl/apt_archive/sbuild-build-depends-racon-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-racon-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-0fbPfl/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Sources [539 B]
Get:5 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ Packages [625 B]
Fetched 2497 B in 0s (11.4 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install racon 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:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data
debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base googletest groff-base intltool-debian libarchive-zip-perl
libarchive13 libbioparser-dev libbrotli1 libbsd0 libcroco3 libcurl4
libdebhelper-perl libedlib-dev libedlib0 libelf1 libexpat1
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libgtest-dev
libicu63 libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8
libpsl5 librhash0 librtmp1 libsigsegv2 libspoa-dev libspoa3 libssh2-1
libssl1.1 libsub-override-perl libthread-pool-dev libthread-pool0 libtinfo5
libtool libuchardet0 libuv1 libxml2 m4 man-db po-debconf procps rampler
sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation cmake-doc ninja-build dh-make gettext-doc libasprintf-dev
libgettextpo-dev groff lrzip krb5-doc krb5-user libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl
Recommended packages:
curl | wget | lynx ca-certificates libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs krb5-locales libgpm2 publicsuffix libltdl-dev
libmail-sendmail-perl psmisc
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data
debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
gettext-base googletest groff-base intltool-debian libarchive-zip-perl
libarchive13 libbioparser-dev libbrotli1 libbsd0 libcroco3 libcurl4
libdebhelper-perl libedlib-dev libedlib0 libelf1 libexpat1
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libgtest-dev
libicu63 libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8
libpsl5 librhash0 librtmp1 libsigsegv2 libspoa-dev libspoa3 libssh2-1
libssl1.1 libsub-override-perl libthread-pool-dev libthread-pool0 libtinfo5
libtool libuchardet0 libuv1 libxml2 m4 man-db po-debconf procps rampler
sbuild-build-depends-racon-dummy sensible-utils zlib1g-dev
0 upgraded, 69 newly installed, 0 to remove and 3 not upgraded.
Need to get 28.0 MB of archives.
After this operation, 108 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-0fbPfl/apt_archive ./ sbuild-build-depends-racon-dummy 0.invalid.0 [912 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.2-1 [318 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-4 [783 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.1-1 [1262 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.2-1 [79.5 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libprocps8 armhf 2:3.3.16-4 [59.8 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf procps armhf 2:3.3.16-4 [238 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-4 [262 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-4 [112 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-4 [66.9 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-1 [775 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf cmake-data all 3.16.3-1 [1628 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-3 [7987 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-4 [592 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libarchive13 armhf 3.4.0-2 [292 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-6 [261 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-7 [61.4 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-7 [112 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6.1-2 [14.5 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1f-1 [1272 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-7 [320 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-7 [135 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.40.0-1+b2 [74.2 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.21.0-1 [53.9 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libcurl4 armhf 7.68.0-1 [286 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libjsoncpp1 armhf 1.7.4-3.1 [65.8 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf librhash0 armhf 1.3.9-1 [133 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libuv1 armhf 1.35.0-2 [115 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf cmake armhf 3.16.3-1 [2648 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.10 [184 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.8.0-1 [24.2 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.8.0-1 [14.8 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.64.1-1 [1157 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.10 [1003 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf googletest all 1.10.0-2 [626 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libbioparser-dev all 2.0.1-1 [5700 B]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libedlib0 armhf 1.2.4-2+b1 [14.7 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libedlib-dev armhf 1.2.4-2+b1 [16.9 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libgtest-dev armhf 1.10.0-2 [218 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libspoa3 armhf 3.0.2-3 [71.2 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libspoa-dev armhf 3.0.2-3 [76.4 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libthread-pool0 armhf 2.0.1-4 [7992 B]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libthread-pool-dev armhf 2.0.1-4 [8432 B]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf rampler armhf 1.1.1-1 [15.8 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Selecting previously unselected package libkrb5-3:armhf.
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Setting up libexpat1:armhf (2.2.9-1) ...
Setting up libpipeline1:armhf (1.5.2-2) ...
Setting up libkeyutils1:armhf (1.6.1-2) ...
Setting up libpsl5:armhf (0.21.0-1) ...
Setting up libmagic-mgc (1:5.38-4) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libglib2.0-0:armhf (2.64.1-1) ...
No schema files found: doing nothing.
Setting up libssl1.1:armhf (1.1.1f-1) ...
Setting up libdebhelper-perl (12.10) ...
Setting up libbrotli1:armhf (1.0.7-6) ...
Setting up libnghttp2-14:armhf (1.40.0-1+b2) ...
Setting up libmagic1:armhf (1:5.38-4) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.38-4) ...
Setting up googletest (1.10.0-2) ...
Setting up libicu63:armhf (63.2-3) ...
Setting up libkrb5support0:armhf (1.17-7) ...
Setting up autotools-dev (20180224.1) ...
Setting up libuv1:armhf (1.35.0-2) ...
Setting up rampler (1.1.1-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b1) ...
Setting up libncurses6:armhf (6.2-1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up libedlib0 (1.2.4-2+b1) ...
Setting up libk5crypto3:armhf (1.17-7) ...
Setting up libthread-pool0 (2.0.1-4) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libspoa3 (3.0.2-3) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up libbioparser-dev (2.0.1-1) ...
Setting up librhash0:armhf (1.3.9-1) ...
Setting up libuchardet0:armhf (0.0.6-3) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.8.0-2.1) ...
Setting up cmake-data (3.16.3-1) ...
Setting up libkrb5-3:armhf (1.17-7) ...
Setting up libbsd0:armhf (0.10.0-1) ...
Setting up libtinfo5:armhf (6.2-1) ...
Setting up libelf1:armhf (0.176-1.1) ...
Setting up libxml2:armhf (2.9.10+dfsg-4) ...
Setting up libprocps8:armhf (2:3.3.16-4) ...
Setting up libjsoncpp1:armhf (1.7.4-3.1) ...
Setting up libfile-stripnondeterminism-perl (1.8.0-1) ...
Setting up libgtest-dev:armhf (1.10.0-2) ...
Setting up libspoa-dev (3.0.2-3) ...
Setting up libtool (2.4.6-14) ...
Setting up libarchive13:armhf (3.4.0-2) ...
Setting up m4 (1.4.18-4) ...
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 libthread-pool-dev (2.0.1-4) ...
Setting up libgssapi-krb5-2:armhf (1.17-7) ...
Setting up libedlib-dev (1.2.4-2+b1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.8.0-1) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-4) ...
Setting up procps (2:3.3.16-4) ...
update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode
Setting up libcurl4:armhf (7.68.0-1) ...
Setting up automake (1:1.16.2-1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gettext (0.19.8.1-10) ...
Setting up man-db (2.9.1-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up cmake (3.16.3-1) ...
Setting up po-debconf (1.0.21) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (12.10) ...
Setting up sbuild-build-depends-racon-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.30-4+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-76-generic armhf (armv8l)
Toolchain package versions: binutils_2.34-5+rpi1 dpkg-dev_1.19.7 g++-9_9.3.0-10+rpi1 gcc-9_9.3.0-10+rpi1 libc6-dev_2.30-4+rpi1 libstdc++-9-dev_9.3.0-10+rpi1 libstdc++6_10-20200324-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_2.0.2 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_2.34-5+rpi1 binutils-arm-linux-gnueabihf_2.34-5+rpi1 binutils-common_2.34-5+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 cmake_3.16.3-1 cmake-data_3.16.3-1 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.3.0-10+rpi1 dash_0.5.10.2-7 debconf_1.5.73 debhelper_12.10 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.0-1 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 fdisk_2.34-0.1 file_1:5.38-4 findutils_4.7.0-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.3.0-10+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-10-base_10-20200324-1+rpi1 gcc-9_9.3.0-10+rpi1 gcc-9-base_9.3.0-10+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 googletest_1.10.0-2 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_1.22.4-4 gzip_1.10-2 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-3 libacl1_2.2.53-6 libapt-pkg6.0_2.0.2 libarchive-zip-perl_1.68-1 libarchive13_3.4.0-2 libasan5_9.3.0-10+rpi1 libassuan0_2.5.3-7 libatomic1_10-20200324-1+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3 libbinutils_2.34-5+rpi1 libbioparser-dev_2.0.1-1 libblkid1_2.34-0.1 libbrotli1_1.0.7-6 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-4+rpi1 libc-dev-bin_2.30-4+rpi1 libc6_2.30-4+rpi1 libc6-dev_2.30-4+rpi1 libcap-ng0_0.7.9-2.1+b1 libcap2_1:2.33-1 libcap2-bin_1:2.33-1 libcc1-0_10-20200324-1+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-5+rpi1 libctf0_2.34-5+rpi1 libcurl4_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.251 libdebhelper-perl_12.10 libdpkg-perl_1.19.7 libedlib-dev_1.2.4-2+b1 libedlib0_1.2.4-2+b1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.8.0-1 libgcc-9-dev_9.3.0-10+rpi1 libgcc-s1_10-20200324-1+rpi1 libgcc1_1:10-20200324-1+rpi1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.1-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10-20200324-1+rpi1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-7 libgtest-dev_1.10.0-2 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-3 libidn2-0_2.3.0-1 libisl22_0.22.1-1 libjsoncpp1_1.7.4-3.1 libk5crypto3_1.17-7 libkeyutils1_1.6.1-2 libkrb5-3_1.17-7 libkrb5support0_1.17-7 libksba8_1.3.5-2 libldap-2.4-2_2.4.49+dfsg-2 libldap-common_2.4.49+dfsg-3 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-4 libmagic1_1:5.38-4 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses6_6.2-1 libncursesw6_6.2-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1+b2 libnpth0_1.6-1 libp11-kit0_0.23.20-1 libpam-cap_1:2.33-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2 libprocps8_2:3.3.16-4 libpsl5_0.21.0-1 libreadline7_7.0-5 libreadline8_8.0-4 librhash0_1.3.9-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+rpi1 libselinux1_3.0-1+b1 libsemanage-common_3.0-1 libsemanage1_3.0-1+b1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libspoa-dev_3.0.2-3 libspoa3_3.0.2-3 libsqlite3-0_3.31.1-4 libss2_1.45.6-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1f-1 libstdc++-9-dev_9.3.0-10+rpi1 libstdc++6_10-20200324-1+rpi1 libsub-override-perl_0.09-2 libsystemd0_244.3-1+rpi1 libtasn1-6_4.16.0-2 libthread-pool-dev_2.0.1-4 libthread-pool0_2.0.1-4 libtinfo5_6.2-1 libtinfo6_6.2-1 libtool_2.4.6-14 libubsan1_10-20200324-1+rpi1 libuchardet0_0.0.6-3 libudev1_244.3-1+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.35.0-2 libxml2_2.9.10+dfsg-4 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_4.2.1-1.2 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.34-0.1 ncurses-base_6.2-1 ncurses-bin_6.2-1 netbase_6.1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 po-debconf_1.0.21 procps_2:3.3.16-4 rampler_1.1.1-1 raspbian-archive-keyring_20120528.2 readline-common_8.0-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-racon-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_2019c-3 util-linux_2.34-0.1 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 Apr 13 17:17:13 2020 UTC
gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./racon_1.4.13-1.dsc
dpkg-source: info: extracting racon in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking racon_1.4.13.orig.tar.gz
dpkg-source: info: unpacking racon_1.4.13-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_debian_packaged_libs.patch
dpkg-source: info: applying remove_buildpath
dpkg-source: info: applying py3
Check disk 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=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-6d7a2cb9-f203-4250-b6f4-eda5c33a3980
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package racon
dpkg-buildpackage: info: source version 1.4.13-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --buildsystem=cmake
dh_auto_clean -O--buildsystem=cmake
dh_autoreconf_clean -O--buildsystem=cmake
dh_clean -O--buildsystem=cmake
debian/rules binary-arch
dh binary-arch --buildsystem=cmake
dh_update_autotools_config -a -O--buildsystem=cmake
dh_autoreconf -a -O--buildsystem=cmake
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
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/<<PKGBUILDDIR>>/src/overlap.cpp:219:48: warning: format '%zu' expects argument of type 'size_t', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_);
| ~~^ ~~~~~
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| %llu
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219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_);
| ~~^ ~~~~~
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/<<PKGBUILDDIR>>/src/overlap.cpp:219:48: warning: format '%zu' expects argument of type 'size_t', but argument 3 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_);
| ~~^ ~~~~~
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| %llu
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219 | "edlib unable to align pair (%zu x %zu)!\n", q_id_, t_id_);
| ~~^ ~~~~~
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135 | "contig %lu might be chimeric in window %u!\n", id_, rank_);
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cd test && ../obj-*/bin/racon_test
Running main() from /build/googletest-HKEF00/googletest-1.10.0/googletest/src/gtest_main.cc
[==========] Running 15 tests from 2 test suites.
[----------] Global test environment set-up.
[----------] 5 tests from RaconInitializeTest
[ RUN ] RaconInitializeTest.PolisherTypeError
[ OK ] RaconInitializeTest.PolisherTypeError (2 ms)
[ RUN ] RaconInitializeTest.WindowLengthError
[ OK ] RaconInitializeTest.WindowLengthError (2 ms)
[ RUN ] RaconInitializeTest.SequencesPathExtensionError
[ OK ] RaconInitializeTest.SequencesPathExtensionError (2 ms)
[ RUN ] RaconInitializeTest.OverlapsPathExtensionError
[ OK ] RaconInitializeTest.OverlapsPathExtensionError (14 ms)
[ RUN ] RaconInitializeTest.TargetPathExtensionError
[ OK ] RaconInitializeTest.TargetPathExtensionError (20 ms)
[----------] 5 tests from RaconInitializeTest (40 ms total)
[----------] 10 tests from RaconPolishingTest
[ RUN ] RaconPolishingTest.ConsensusWithQualities
[racon::Polisher::initialize] loaded target sequences 0.001337 s
[racon::Polisher::initialize] loaded sequences 0.068596 s
[racon::Polisher::initialize] loaded overlaps 0.001349 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.056198 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.090284 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.110595 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.148612 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.174444 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.196528 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.239146 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.276296 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.305292 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.344106 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.371226 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.406948 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.455662 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.482128 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.522609 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.563188 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.592133 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.623776 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.665369 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.717117 s
[racon::Polisher::initialize] transformed data into windows 0.011368 s
[racon::Polisher::polish] generating consensus [=> ] 1.283809 s
[racon::Polisher::polish] generating consensus [==> ] 2.465664 s
[racon::Polisher::polish] generating consensus [===> ] 3.506059 s
[racon::Polisher::polish] generating consensus [====> ] 4.252671 s
[racon::Polisher::polish] generating consensus [=====> ] 4.796588 s
[racon::Polisher::polish] generating consensus [======> ] 5.249273 s
[racon::Polisher::polish] generating consensus [=======> ] 5.751672 s
[racon::Polisher::polish] generating consensus [========> ] 6.484345 s
[racon::Polisher::polish] generating consensus [=========> ] 7.323472 s
[racon::Polisher::polish] generating consensus [==========> ] 8.357784 s
[racon::Polisher::polish] generating consensus [===========> ] 9.829414 s
[racon::Polisher::polish] generating consensus [============> ] 11.359493 s
[racon::Polisher::polish] generating consensus [=============> ] 13.680396 s
[racon::Polisher::polish] generating consensus [==============> ] 15.899544 s
[racon::Polisher::polish] generating consensus [===============> ] 17.422592 s
[racon::Polisher::polish] generating consensus [================> ] 18.792301 s
[racon::Polisher::polish] generating consensus [=================> ] 20.251371 s
[racon::Polisher::polish] generating consensus [==================> ] 21.356236 s
[racon::Polisher::polish] generating consensus [===================>] 22.642287 s
[racon::Polisher::polish] generating consensus [====================] 28.509122 s
[racon::Polisher::] total = 29.351083 s
[ OK ] RaconPolishingTest.ConsensusWithQualities (29378 ms)
[ RUN ] RaconPolishingTest.ConsensusWithoutQualities
[racon::Polisher::initialize] loaded target sequences 0.001162 s
[racon::Polisher::initialize] loaded sequences 0.038427 s
[racon::Polisher::initialize] loaded overlaps 0.001284 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.054866 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.088729 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.111917 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.148197 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.174072 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.196824 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.238469 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.274106 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.303303 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.344214 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.371238 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.406167 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.453267 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.480140 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.521994 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.562549 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.591365 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.622587 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.663007 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.715653 s
[racon::Polisher::initialize] transformed data into windows 0.004537 s
[racon::Polisher::polish] generating consensus [=> ] 1.380393 s
[racon::Polisher::polish] generating consensus [==> ] 2.965305 s
[racon::Polisher::polish] generating consensus [===> ] 4.233991 s
[racon::Polisher::polish] generating consensus [====> ] 5.200382 s
[racon::Polisher::polish] generating consensus [=====> ] 5.902996 s
[racon::Polisher::polish] generating consensus [======> ] 6.583218 s
[racon::Polisher::polish] generating consensus [=======> ] 7.347003 s
[racon::Polisher::polish] generating consensus [========> ] 8.374635 s
[racon::Polisher::polish] generating consensus [=========> ] 9.508894 s
[racon::Polisher::polish] generating consensus [==========> ] 11.209403 s
[racon::Polisher::polish] generating consensus [===========> ] 13.029412 s
[racon::Polisher::polish] generating consensus [============> ] 15.227122 s
[racon::Polisher::polish] generating consensus [=============> ] 18.376641 s
[racon::Polisher::polish] generating consensus [==============> ] 20.648071 s
[racon::Polisher::polish] generating consensus [===============> ] 23.019041 s
[racon::Polisher::polish] generating consensus [================> ] 24.860648 s
[racon::Polisher::polish] generating consensus [=================> ] 26.893843 s
[racon::Polisher::polish] generating consensus [==================> ] 28.011845 s
[racon::Polisher::polish] generating consensus [===================>] 29.693407 s
[racon::Polisher::polish] generating consensus [====================] 38.550556 s
[racon::Polisher::] total = 39.349394 s
[ OK ] RaconPolishingTest.ConsensusWithoutQualities (39372 ms)
[ RUN ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments
[racon::Polisher::initialize] loaded target sequences 0.001167 s
[racon::Polisher::initialize] loaded sequences 0.066160 s
[racon::Polisher::initialize] loaded overlaps 0.049777 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.016912 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.016997 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.017068 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.017138 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.017207 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.017276 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.017344 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.017414 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.017483 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.017549 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.017617 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.017682 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.017780 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.017853 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.017919 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.017984 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.018049 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.018113 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.018178 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.018243 s
[racon::Polisher::initialize] transformed data into windows 0.010428 s
[racon::Polisher::polish] generating consensus [=> ] 1.327969 s
[racon::Polisher::polish] generating consensus [==> ] 2.525303 s
[racon::Polisher::polish] generating consensus [===> ] 3.634736 s
[racon::Polisher::polish] generating consensus [====> ] 4.385863 s
[racon::Polisher::polish] generating consensus [=====> ] 4.923288 s
[racon::Polisher::polish] generating consensus [======> ] 5.354373 s
[racon::Polisher::polish] generating consensus [=======> ] 5.875995 s
[racon::Polisher::polish] generating consensus [========> ] 6.639572 s
[racon::Polisher::polish] generating consensus [=========> ] 7.191669 s
[racon::Polisher::polish] generating consensus [==========> ] 8.263877 s
[racon::Polisher::polish] generating consensus [===========> ] 9.728727 s
[racon::Polisher::polish] generating consensus [============> ] 11.330953 s
[racon::Polisher::polish] generating consensus [=============> ] 13.691461 s
[racon::Polisher::polish] generating consensus [==============> ] 15.923527 s
[racon::Polisher::polish] generating consensus [===============> ] 17.478225 s
[racon::Polisher::polish] generating consensus [================> ] 18.859041 s
[racon::Polisher::polish] generating consensus [=================> ] 20.509575 s
[racon::Polisher::polish] generating consensus [==================> ] 21.538102 s
[racon::Polisher::polish] generating consensus [===================>] 22.668687 s
[racon::Polisher::polish] generating consensus [====================] 27.943259 s
[racon::Polisher::] total = 28.130532 s
[ OK ] RaconPolishingTest.ConsensusWithQualitiesAndAlignments (28162 ms)
[ RUN ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments
[racon::Polisher::initialize] loaded target sequences 0.001192 s
[racon::Polisher::initialize] loaded sequences 0.038428 s
[racon::Polisher::initialize] loaded overlaps 0.049766 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.016410 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.016496 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.016566 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.016635 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.016707 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.016776 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.016846 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.016914 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.016983 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.017050 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.017117 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.017185 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.017250 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.017315 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.017381 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.017446 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.017510 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.017574 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.017639 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.017705 s
[racon::Polisher::initialize] transformed data into windows 0.004197 s
[racon::Polisher::polish] generating consensus [=> ] 1.337290 s
[racon::Polisher::polish] generating consensus [==> ] 2.762870 s
[racon::Polisher::polish] generating consensus [===> ] 3.950891 s
[racon::Polisher::polish] generating consensus [====> ] 4.959770 s
[racon::Polisher::polish] generating consensus [=====> ] 5.526894 s
[racon::Polisher::polish] generating consensus [======> ] 6.201628 s
[racon::Polisher::polish] generating consensus [=======> ] 6.879000 s
[racon::Polisher::polish] generating consensus [========> ] 7.931049 s
[racon::Polisher::polish] generating consensus [=========> ] 8.823806 s
[racon::Polisher::polish] generating consensus [==========> ] 10.445904 s
[racon::Polisher::polish] generating consensus [===========> ] 12.101961 s
[racon::Polisher::polish] generating consensus [============> ] 14.141215 s
[racon::Polisher::polish] generating consensus [=============> ] 17.281410 s
[racon::Polisher::polish] generating consensus [==============> ] 19.641796 s
[racon::Polisher::polish] generating consensus [===============> ] 21.751771 s
[racon::Polisher::polish] generating consensus [================> ] 23.731511 s
[racon::Polisher::polish] generating consensus [=================> ] 25.780843 s
[racon::Polisher::polish] generating consensus [==================> ] 26.847102 s
[racon::Polisher::polish] generating consensus [===================>] 28.098405 s
[racon::Polisher::polish] generating consensus [====================] 35.539817 s
[racon::Polisher::] total = 35.683313 s
[ OK ] RaconPolishingTest.ConsensusWithoutQualitiesAndWithAlignments (35712 ms)
[ RUN ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow
[racon::Polisher::initialize] loaded target sequences 0.001215 s
[racon::Polisher::initialize] loaded sequences 0.066391 s
[racon::Polisher::initialize] loaded overlaps 0.001300 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.053957 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.088061 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.109538 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.147906 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.174529 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.195668 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.238257 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.273906 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.302784 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.342535 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.369579 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.405658 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.455493 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.481536 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.522496 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.562902 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.591869 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.627265 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.664851 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.717810 s
[racon::Polisher::initialize] transformed data into windows 0.009401 s
[racon::Polisher::polish] generating consensus [=> ] 4.630744 s
[racon::Polisher::polish] generating consensus [==> ] 4.631358 s
[racon::Polisher::polish] generating consensus [===> ] 8.592962 s
[racon::Polisher::polish] generating consensus [====> ] 8.593606 s
[racon::Polisher::polish] generating consensus [=====> ] 9.734603 s
[racon::Polisher::polish] generating consensus [======> ] 10.554443 s
[racon::Polisher::polish] generating consensus [=======> ] 11.487385 s
[racon::Polisher::polish] generating consensus [========> ] 13.033379 s
[racon::Polisher::polish] generating consensus [=========> ] 14.434191 s
[racon::Polisher::polish] generating consensus [==========> ] 17.063052 s
[racon::Polisher::polish] generating consensus [===========> ] 19.771529 s
[racon::Polisher::polish] generating consensus [============> ] 22.917921 s
[racon::Polisher::polish] generating consensus [=============> ] 28.236447 s
[racon::Polisher::polish] generating consensus [==============> ] 30.958835 s
[racon::Polisher::polish] generating consensus [===============> ] 34.099558 s
[racon::Polisher::polish] generating consensus [================> ] 35.972009 s
[racon::Polisher::polish] generating consensus [=================> ] 39.531508 s
[racon::Polisher::polish] generating consensus [==================> ] 40.077678 s
[racon::Polisher::polish] generating consensus [===================>] 43.841175 s
[racon::Polisher::polish] generating consensus [====================] 53.688435 s
[racon::Polisher::] total = 54.529644 s
[ OK ] RaconPolishingTest.ConsensusWithQualitiesLargerWindow (54561 ms)
[ RUN ] RaconPolishingTest.ConsensusWithQualitiesEditDistance
[racon::Polisher::initialize] loaded target sequences 0.001155 s
[racon::Polisher::initialize] loaded sequences 0.066430 s
[racon::Polisher::initialize] loaded overlaps 0.001270 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.054698 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.088867 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.110186 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.148779 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.175149 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.196607 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.239276 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.277267 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.305239 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.343890 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.371235 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.408792 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.456574 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.483369 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.524487 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.564906 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.594026 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.629673 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.666770 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.719290 s
[racon::Polisher::initialize] transformed data into windows 0.011999 s
[racon::Polisher::polish] generating consensus [=> ] 1.219841 s
[racon::Polisher::polish] generating consensus [==> ] 2.357213 s
[racon::Polisher::polish] generating consensus [===> ] 3.390862 s
[racon::Polisher::polish] generating consensus [====> ] 4.105705 s
[racon::Polisher::polish] generating consensus [=====> ] 4.656582 s
[racon::Polisher::polish] generating consensus [======> ] 5.097219 s
[racon::Polisher::polish] generating consensus [=======> ] 5.561298 s
[racon::Polisher::polish] generating consensus [========> ] 6.275034 s
[racon::Polisher::polish] generating consensus [=========> ] 7.020613 s
[racon::Polisher::polish] generating consensus [==========> ] 8.021955 s
[racon::Polisher::polish] generating consensus [===========> ] 9.418593 s
[racon::Polisher::polish] generating consensus [============> ] 10.936933 s
[racon::Polisher::polish] generating consensus [=============> ] 13.027258 s
[racon::Polisher::polish] generating consensus [==============> ] 15.277760 s
[racon::Polisher::polish] generating consensus [===============> ] 16.746142 s
[racon::Polisher::polish] generating consensus [================> ] 18.054182 s
[racon::Polisher::polish] generating consensus [=================> ] 19.355272 s
[racon::Polisher::polish] generating consensus [==================> ] 20.413765 s
[racon::Polisher::polish] generating consensus [===================>] 21.652149 s
[racon::Polisher::polish] generating consensus [====================] 27.324720 s
[racon::Polisher::] total = 28.165224 s
[ OK ] RaconPolishingTest.ConsensusWithQualitiesEditDistance (28193 ms)
[ RUN ] RaconPolishingTest.FragmentCorrectionWithQualities
[racon::Polisher::initialize] loaded target sequences 0.066207 s
[racon::Polisher::initialize] loaded sequences 0.069603 s
[racon::Polisher::initialize] loaded overlaps 0.044687 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.055679 s
[racon::Polisher::initialize] aligning overlaps [==> ] 0.092185 s
[racon::Polisher::initialize] aligning overlaps [===> ] 0.128136 s
[racon::Polisher::initialize] aligning overlaps [====> ] 0.154472 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 0.185484 s
[racon::Polisher::initialize] aligning overlaps [======> ] 0.205605 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 0.241102 s
[racon::Polisher::initialize] aligning overlaps [========> ] 0.258626 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 0.294515 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 0.342410 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 0.364925 s
[racon::Polisher::initialize] aligning overlaps [============> ] 0.409498 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 0.461494 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 0.502359 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 0.547080 s
[racon::Polisher::initialize] aligning overlaps [================> ] 0.592593 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 0.625612 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 0.683918 s
[racon::Polisher::initialize] aligning overlaps [===================>] 0.714280 s
[racon::Polisher::initialize] aligning overlaps [====================] 0.820333 s
[racon::Polisher::initialize] transformed data into windows 0.045311 s
[racon::Polisher::polish] generating consensus [=> ] 1.043908 s
[racon::Polisher::polish] generating consensus [==> ] 2.072445 s
[racon::Polisher::polish] generating consensus [===> ] 3.099104 s
[racon::Polisher::polish] generating consensus [====> ] 3.102233 s
[racon::Polisher::polish] generating consensus [=====> ] 3.856661 s
[racon::Polisher::polish] generating consensus [======> ] 4.328927 s
[racon::Polisher::polish] generating consensus [=======> ] 5.079303 s
[racon::Polisher::polish] generating consensus [========> ] 5.102478 s
[racon::Polisher::polish] generating consensus [=========> ] 6.538382 s
[racon::Polisher::polish] generating consensus [==========> ] 7.114783 s
[racon::Polisher::polish] generating consensus [===========> ] 7.583435 s
[racon::Polisher::polish] generating consensus [============> ] 7.909354 s
[racon::Polisher::polish] generating consensus [=============> ] 8.512527 s
[racon::Polisher::polish] generating consensus [==============> ] 8.515860 s
[racon::Polisher::polish] generating consensus [===============> ] 9.972671 s
[racon::Polisher::polish] generating consensus [================> ] 9.976662 s
[racon::Polisher::polish] generating consensus [=================> ] 12.593658 s
[racon::Polisher::polish] generating consensus [==================> ] 13.546698 s
[racon::Polisher::polish] generating consensus [===================>] 14.620452 s
[racon::Polisher::polish] generating consensus [====================] 15.120224 s
[racon::Polisher::] total = 16.171161 s
[ OK ] RaconPolishingTest.FragmentCorrectionWithQualities (16203 ms)
[ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull
[racon::Polisher::initialize] loaded target sequences 0.066118 s
[racon::Polisher::initialize] loaded sequences 0.068609 s
[racon::Polisher::initialize] loaded overlaps 0.033385 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.886487 s
[racon::Polisher::initialize] aligning overlaps [==> ] 1.498067 s
[racon::Polisher::initialize] aligning overlaps [===> ] 2.055570 s
[racon::Polisher::initialize] aligning overlaps [====> ] 2.836059 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 3.446131 s
[racon::Polisher::initialize] aligning overlaps [======> ] 3.974472 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 4.658588 s
[racon::Polisher::initialize] aligning overlaps [========> ] 5.504360 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 6.364212 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 7.137764 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 7.767940 s
[racon::Polisher::initialize] aligning overlaps [============> ] 8.656835 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 9.573402 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 10.359777 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 11.294482 s
[racon::Polisher::initialize] aligning overlaps [================> ] 12.201022 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 13.033346 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 13.928728 s
[racon::Polisher::initialize] aligning overlaps [===================>] 14.858832 s
[racon::Polisher::initialize] aligning overlaps [====================] 15.729327 s
[racon::Polisher::initialize] transformed data into windows 0.329192 s
[racon::Polisher::polish] generating consensus [=> ] 46.433725 s
[racon::Polisher::polish] generating consensus [==> ] 78.993736 s
[racon::Polisher::polish] generating consensus [===> ] 116.542250 s
[racon::Polisher::polish] generating consensus [====> ] 146.647061 s
[racon::Polisher::polish] generating consensus [=====> ] 181.843435 s
[racon::Polisher::polish] generating consensus [======> ] 222.123277 s
[racon::Polisher::polish] generating consensus [=======> ] 261.844398 s
[racon::Polisher::polish] generating consensus [========> ] 291.284007 s
[racon::Polisher::polish] generating consensus [=========> ] 327.693886 s
[racon::Polisher::polish] generating consensus [==========> ] 371.854430 s
[racon::Polisher::polish] generating consensus [===========> ] 408.946679 s
[racon::Polisher::polish] generating consensus [============> ] 450.871053 s
[racon::Polisher::polish] generating consensus [=============> ] 486.428289 s
[racon::Polisher::polish] generating consensus [==============> ] 526.136131 s
[racon::Polisher::polish] generating consensus [===============> ] 566.841510 s
[racon::Polisher::polish] generating consensus [================> ] 590.393616 s
[racon::Polisher::polish] generating consensus [=================> ] 634.892412 s
[racon::Polisher::polish] generating consensus [==================> ] 676.335733 s
[racon::Polisher::polish] generating consensus [===================>] 716.900334 s
[racon::Polisher::polish] generating consensus [====================] 755.493350 s
[racon::Polisher::] total = 771.774844 s
[ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFull (771808 ms)
[ RUN ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull
[racon::Polisher::initialize] loaded target sequences 0.038961 s
[racon::Polisher::initialize] loaded sequences 0.039249 s
[racon::Polisher::initialize] loaded overlaps 0.033908 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.880790 s
[racon::Polisher::initialize] aligning overlaps [==> ] 1.491496 s
[racon::Polisher::initialize] aligning overlaps [===> ] 2.045950 s
[racon::Polisher::initialize] aligning overlaps [====> ] 2.821308 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 3.427991 s
[racon::Polisher::initialize] aligning overlaps [======> ] 3.952907 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 4.624565 s
[racon::Polisher::initialize] aligning overlaps [========> ] 5.465552 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 6.319136 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 7.081269 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 7.705189 s
[racon::Polisher::initialize] aligning overlaps [============> ] 8.584177 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 9.496287 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 10.282403 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 11.220027 s
[racon::Polisher::initialize] aligning overlaps [================> ] 12.133036 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 12.969551 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 13.871386 s
[racon::Polisher::initialize] aligning overlaps [===================>] 14.810027 s
[racon::Polisher::initialize] aligning overlaps [====================] 15.685027 s
[racon::Polisher::initialize] transformed data into windows 0.161113 s
[racon::Polisher::polish] generating consensus [=> ] 64.325169 s
[racon::Polisher::polish] generating consensus [==> ] 111.503393 s
[racon::Polisher::polish] generating consensus [===> ] 163.247997 s
[racon::Polisher::polish] generating consensus [====> ] 201.790413 s
[racon::Polisher::polish] generating consensus [=====> ] 249.969338 s
[racon::Polisher::polish] generating consensus [======> ] 302.992985 s
[racon::Polisher::polish] generating consensus [=======> ] 357.883758 s
[racon::Polisher::polish] generating consensus [========> ] 399.120207 s
[racon::Polisher::polish] generating consensus [=========> ] 449.496985 s
[racon::Polisher::polish] generating consensus [==========> ] 512.242736 s
[racon::Polisher::polish] generating consensus [===========> ] 565.570163 s
[racon::Polisher::polish] generating consensus [============> ] 623.023644 s
[racon::Polisher::polish] generating consensus [=============> ] 675.443139 s
[racon::Polisher::polish] generating consensus [==============> ] 731.656888 s
[racon::Polisher::polish] generating consensus [===============> ] 785.657350 s
[racon::Polisher::polish] generating consensus [================> ] 815.031462 s
[racon::Polisher::polish] generating consensus [=================> ] 883.197548 s
[racon::Polisher::polish] generating consensus [==================> ] 946.197821 s
[racon::Polisher::polish] generating consensus [===================>] 1006.212858 s
[racon::Polisher::polish] generating consensus [====================] 1061.810110 s
[racon::Polisher::] total = 1077.822431 s
[ OK ] RaconPolishingTest.FragmentCorrectionWithoutQualitiesFull (1077846 ms)
[ RUN ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap
[racon::Polisher::initialize] loaded target sequences 0.069198 s
[racon::Polisher::initialize] loaded sequences 0.068118 s
[racon::Polisher::initialize] loaded overlaps 0.035011 s
[racon::Polisher::initialize] aligning overlaps [=> ] 0.927909 s
[racon::Polisher::initialize] aligning overlaps [==> ] 1.541514 s
[racon::Polisher::initialize] aligning overlaps [===> ] 2.098238 s
[racon::Polisher::initialize] aligning overlaps [====> ] 2.876065 s
[racon::Polisher::initialize] aligning overlaps [=====> ] 3.487072 s
[racon::Polisher::initialize] aligning overlaps [======> ] 4.014985 s
[racon::Polisher::initialize] aligning overlaps [=======> ] 4.686794 s
[racon::Polisher::initialize] aligning overlaps [========> ] 5.529623 s
[racon::Polisher::initialize] aligning overlaps [=========> ] 6.385301 s
[racon::Polisher::initialize] aligning overlaps [==========> ] 7.150846 s
[racon::Polisher::initialize] aligning overlaps [===========> ] 7.775933 s
[racon::Polisher::initialize] aligning overlaps [============> ] 8.660120 s
[racon::Polisher::initialize] aligning overlaps [=============> ] 9.576381 s
[racon::Polisher::initialize] aligning overlaps [==============> ] 10.369020 s
[racon::Polisher::initialize] aligning overlaps [===============> ] 11.312679 s
[racon::Polisher::initialize] aligning overlaps [================> ] 12.229258 s
[racon::Polisher::initialize] aligning overlaps [=================> ] 13.072249 s
[racon::Polisher::initialize] aligning overlaps [==================> ] 13.977477 s
[racon::Polisher::initialize] aligning overlaps [===================>] 14.918640 s
[racon::Polisher::initialize] aligning overlaps [====================] 15.800849 s
[racon::Polisher::initialize] transformed data into windows 0.349424 s
[racon::Polisher::polish] generating consensus [=> ] 47.529593 s
[racon::Polisher::polish] generating consensus [==> ] 81.261441 s
[racon::Polisher::polish] generating consensus [===> ] 120.379332 s
[racon::Polisher::polish] generating consensus [====> ] 151.190734 s
[racon::Polisher::polish] generating consensus [=====> ] 187.112581 s
[racon::Polisher::polish] generating consensus [======> ] 228.607072 s
[racon::Polisher::polish] generating consensus [=======> ] 268.932810 s
[racon::Polisher::polish] generating consensus [========> ] 299.084653 s
[racon::Polisher::polish] generating consensus [=========> ] 336.431085 s
[racon::Polisher::polish] generating consensus [==========> ] 381.780005 s
[racon::Polisher::polish] generating consensus [===========> ] 420.097164 s
[racon::Polisher::polish] generating consensus [============> ] 463.213506 s
[racon::Polisher::polish] generating consensus [=============> ] 499.404995 s
[racon::Polisher::polish] generating consensus [==============> ] 540.366919 s
[racon::Polisher::polish] generating consensus [===============> ] 581.957014 s
[racon::Polisher::polish] generating consensus [================> ] 606.201083 s
[racon::Polisher::polish] generating consensus [=================> ] 651.890253 s
[racon::Polisher::polish] generating consensus [==================> ] 694.757220 s
[racon::Polisher::polish] generating consensus [===================>] 736.774201 s
[racon::Polisher::polish] generating consensus [====================] 776.640072 s
[racon::Polisher::] total = 793.021305 s
[ OK ] RaconPolishingTest.FragmentCorrectionWithQualitiesFullMhap (793050 ms)
[----------] 10 tests from RaconPolishingTest (2874286 ms total)
[----------] Global test environment tear-down
[==========] 15 tests from 2 test suites ran. (2874327 ms total)
[ PASSED ] 15 tests.
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-- Installing: /<<PKGBUILDDIR>>/debian/racon/usr/bin/racon
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dpkg-shlibdeps: warning: debian/racon/usr/bin/racon contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/racon/usr/lib/racon/racon_test contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/racon/usr/bin/racon debian/racon/usr/lib/racon/racon_test were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a -O--buildsystem=cmake
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dpkg-deb: building package 'racon' in '../racon_1.4.13-1_armhf.deb'.
dpkg-deb: building package 'racon-dbgsym' in '../racon-dbgsym_1.4.13-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../racon_1.4.13-1_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 2020-04-20T09:04:34Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
racon_1.4.13-1_armhf.changes:
-----------------------------
Format: 1.8
Date: Mon, 13 Apr 2020 19:16:39 +0200
Source: racon
Binary: racon racon-dbgsym
Architecture: armhf
Version: 1.4.13-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Michael R. Crusoe <michael.crusoe@gmail.com>
Description:
racon - consensus module for raw de novo DNA assembly of long uncorrected
Changes:
racon (1.4.13-1) unstable; urgency=medium
.
* Team upload.
* New upstream version
* Standards-Version: 4.5.0 (routine-update)
* Add salsa-ci file (routine-update)
* Rules-Requires-Root: no (routine-update)
* Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
Repository-Browse.
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Files:
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ad71a464fd93c3bba0d8dab7dcdbdfd3 5926 science optional racon_1.4.13-1_armhf.buildinfo
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+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
racon-dbgsym_1.4.13-1_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 1820520 bytes: control archive=640 bytes.
406 bytes, 12 lines control
297 bytes, 3 lines md5sums
Package: racon-dbgsym
Source: racon
Version: 1.4.13-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2038
Depends: racon (= 1.4.13-1)
Section: debug
Priority: optional
Description: debug symbols for racon
Build-Ids: 6cbf0486bba0c02263058ffa309b07e77264edbd e2f64ef35725feba20d5323f237995054d0d8235
drwxr-xr-x root/root 0 2020-04-13 17:16 ./
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/debug/.build-id/6c/
-rw-r--r-- root/root 1122056 2020-04-13 17:16 ./usr/lib/debug/.build-id/6c/bf0486bba0c02263058ffa309b07e77264edbd.debug
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/debug/.build-id/e2/
-rw-r--r-- root/root 679684 2020-04-13 17:16 ./usr/lib/debug/.build-id/e2/f64ef35725feba20d5323f237995054d0d8235.debug
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 271324 2020-04-13 17:16 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/racon.debug
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-04-13 17:16 ./usr/share/doc/racon-dbgsym -> racon
racon_1.4.13-1_armhf.deb
------------------------
new Debian package, version 2.0.
size 3231032 bytes: control archive=1796 bytes.
2143 bytes, 41 lines control
1106 bytes, 14 lines md5sums
Package: racon
Version: 1.4.13-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3679
Depends: libc6 (>= 2.28), libedlib0 (>= 1.2.3), libgcc-s1 (>= 3.5), libspoa3 (>= 3.0.2), libstdc++6 (>= 9), libthread-pool0 (>= 2.0.1), zlib1g (>= 1:1.2.11.dfsg)
Recommends: python3, rampler
Section: science
Priority: optional
Homepage: https://github.com/lbcb-sci/racon
Description: consensus module for raw de novo DNA assembly of long uncorrected reads
Racon is intended as a standalone consensus module to correct raw
contigs generated by rapid assembly methods which do not include a
consensus step. The goal of Racon is to generate genomic consensus which
is of similar or better quality compared to the output generated by
assembly methods which employ both error correction and consensus steps,
while providing a speedup of several times compared to those methods. It
supports data produced by both Pacific Biosciences and Oxford Nanopore
Technologies.
.
Racon can be used as a polishing tool after the assembly with either
Illumina data or data produced by third generation of sequencing. The
type of data inputed is automatically detected.
.
Racon takes as input only three files: contigs in FASTA/FASTQ format,
reads in FASTA/FASTQ format and overlaps/alignments between the reads
and the contigs in MHAP/PAF/SAM format. Output is a set of polished
contigs in FASTA format printed to stdout. All input files can be
compressed with gzip.
.
Racon can also be used as a read error-correction tool. In this
scenario, the MHAP/PAF/SAM file needs to contain pairwise overlaps
between reads including dual overlaps.
.
A wrapper script is also available to enable easier usage to the end-
user for large datasets. It has the same interface as racon but adds
two additional features from the outside. Sequences can be subsampled
to decrease the total execution time (accuracy might be lower) while
target sequences can be split into smaller chunks and run sequentially
to decrease memory consumption. Both features can be run at the same
time as well.
drwxr-xr-x root/root 0 2020-04-13 17:16 ./
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/bin/
-rwxr-xr-x root/root 145244 2020-04-13 17:16 ./usr/bin/racon
-rwxr-xr-x root/root 9842 2020-04-13 17:16 ./usr/bin/racon_wrapper.py
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/lib/racon/
-rwxr-xr-x root/root 542348 2020-04-13 17:16 ./usr/lib/racon/racon_test
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/doc/racon/
-rw-r--r-- root/root 615 2020-04-13 17:16 ./usr/share/doc/racon/changelog.Debian.gz
-rw-r--r-- root/root 1481 2020-04-13 16:39 ./usr/share/doc/racon/copyright
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/doc/racon/examples/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/
-rw-r--r-- root/root 146882 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_ava_overlaps.mhap.gz
-rw-r--r-- root/root 151632 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_ava_overlaps.paf.gz
-rw-r--r-- root/root 14197 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_layout.fasta.gz
-rw-r--r-- root/root 5111 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_overlaps.paf.gz
-rw-r--r-- root/root 698977 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_overlaps.sam.gz
-rw-r--r-- root/root 488701 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_reads.fasta.gz
-rw-r--r-- root/root 1526281 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_reads.fastq.gz
-rw-r--r-- root/root 15195 2020-04-13 17:16 ./usr/share/doc/racon/examples/data/sample_reference.fasta.gz
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/man/
drwxr-xr-x root/root 0 2020-04-13 17:16 ./usr/share/man/man1/
-rw-r--r-- root/root 1472 2020-04-13 17:16 ./usr/share/man/man1/racon.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 35404
Build-Time: 2924
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 329
Job: racon_1.4.13-1
Machine Architecture: armhf
Package: racon
Package-Time: 3273
Source-Version: 1.4.13-1
Space: 35404
Status: successful
Version: 1.4.13-1
--------------------------------------------------------------------------------
Finished at 2020-04-20T09:04:34Z
Build needed 00:54:33, 35404k disk space