DC-Build-Header: tvc 5.0.3+git20151221.80e144e+dfsg-2 / 2020-02-25 15:34:28 +0000
DC-Task: type:rebuild-binarch-only source:tvc version:5.0.3+git20151221.80e144e+dfsg-2 chroot:unstable esttime:219 logfile:/tmp/tvc_5.0.3+git20151221.80e144e+dfsg-2_unstable_clang9.log modes:clang9:binarch-only
DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --no-run-lintian --chroot-setup-commands=/tmp/clang9 tvc_5.0.3+git20151221.80e144e+dfsg-2'
sbuild (Debian sbuild) 0.78.1 (09 February 2019) on ip-172-31-9-197.eu-central-1.compute.internal

+==============================================================================+
| tvc 5.0.3+git20151221.80e144e+dfsg-2 (amd64) Tue, 25 Feb 2020 15:34:28 +0000 |
+==============================================================================+

Package: tvc
Version: 5.0.3+git20151221.80e144e+dfsg-2
Source Version: 5.0.3+git20151221.80e144e+dfsg-2
Distribution: unstable
Machine Architecture: amd64
Host Architecture: amd64
Build Architecture: amd64
Build Type: binary

I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-c9221752-c3cc-4b4a-9723-26750caeb0fa' with '<<CHROOT>>'

+------------------------------------------------------------------------------+
| Chroot Setup Commands                                                        |
+------------------------------------------------------------------------------+


/tmp/clang9
-----------

+ echo 'Entering customization script...'
Entering customization script...
+ CLANG_VERSION=9
+ echo 'Install of clang-9'
Install of clang-9
+ apt-get update
Get:1 http://127.0.0.1:12990/debian sid InRelease [142 kB]
Get:2 http://127.0.0.1:12990/debian sid/main Sources.diff/Index [27.9 kB]
Get:3 http://127.0.0.1:12990/debian sid/main amd64 Packages.diff/Index [27.9 kB]
Get:4 http://127.0.0.1:12990/debian sid/main Sources 2020-02-24-0823.32.pdiff [11.0 kB]
Get:5 http://127.0.0.1:12990/debian sid/main Sources 2020-02-24-1420.34.pdiff [30.2 kB]
Get:6 http://127.0.0.1:12990/debian sid/main Sources 2020-02-24-2014.03.pdiff [16.9 kB]
Get:7 http://127.0.0.1:12990/debian sid/main Sources 2020-02-25-0213.11.pdiff [23.2 kB]
Get:8 http://127.0.0.1:12990/debian sid/main Sources 2020-02-25-0815.22.pdiff [9222 B]
Get:9 http://127.0.0.1:12990/debian sid/main Sources 2020-02-25-1413.15.pdiff [16.3 kB]
Get:10 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-24-0823.32.pdiff [15.5 kB]
Get:11 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-24-1420.34.pdiff [27.5 kB]
Get:12 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-24-2014.03.pdiff [21.6 kB]
Get:13 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-25-0213.11.pdiff [35.0 kB]
Get:14 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-25-0815.22.pdiff [20.1 kB]
Get:15 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-25-1413.15.pdiff [18.4 kB]
Get:9 http://127.0.0.1:12990/debian sid/main Sources 2020-02-25-1413.15.pdiff [16.3 kB]
Get:15 http://127.0.0.1:12990/debian sid/main amd64 Packages 2020-02-25-1413.15.pdiff [18.4 kB]
Get:16 http://127.0.0.1:12990/debian sid/main Translation-en [6195 kB]
Fetched 6638 kB in 2s (3730 kB/s)
Reading package lists...
+ apt-get install --yes --no-install-recommends --force-yes clang-9 libomp-9-dev libobjc-9-dev
Reading package lists...
Building dependency tree...
The following additional packages will be installed:
  cpp-9 g++-9 gcc-8-base gcc-9 gcc-9-base lib32gcc-s1 lib32gcc1 lib32stdc++6
  libasan5 libbsd0 libc6-i386 libclang-common-9-dev libclang-cpp9 libedit2
  libgc1c2 libgcc-8-dev libgcc-9-dev libllvm9 libmpx2 libobjc-8-dev libobjc4
  libomp5-9 libstdc++-8-dev libstdc++-9-dev libz3-4
Suggested packages:
  clang-9-doc gcc-9-locales g++-9-multilib gcc-9-doc gcc-9-multilib
  libomp-9-doc libstdc++-8-doc libstdc++-9-doc
Recommended packages:
  llvm-9-dev python3
The following NEW packages will be installed:
  clang-9 gcc-8-base lib32gcc-s1 lib32gcc1 lib32stdc++6 libbsd0 libc6-i386
  libclang-common-9-dev libclang-cpp9 libedit2 libgc1c2 libgcc-8-dev libllvm9
  libmpx2 libobjc-8-dev libobjc-9-dev libobjc4 libomp-9-dev libomp5-9
  libstdc++-8-dev libz3-4
The following packages will be upgraded:
  cpp-9 g++-9 gcc-9 gcc-9-base libasan5 libgcc-9-dev libstdc++-9-dev
7 upgraded, 21 newly installed, 0 to remove and 3 not upgraded.
Need to get 78.9 MB of archives.
After this operation, 237 MB of additional disk space will be used.
Get:1 http://127.0.0.1:12990/debian sid/main amd64 libasan5 amd64 9.2.1-30 [389 kB]
Get:2 http://127.0.0.1:12990/debian sid/main amd64 g++-9 amd64 9.2.1-30 [10.7 MB]
Get:3 http://127.0.0.1:12990/debian sid/main amd64 gcc-9 amd64 9.2.1-30 [10.0 MB]
Get:4 http://127.0.0.1:12990/debian sid/main amd64 libstdc++-9-dev amd64 9.2.1-30 [1697 kB]
Get:5 http://127.0.0.1:12990/debian sid/main amd64 libgcc-9-dev amd64 9.2.1-30 [2349 kB]
Get:6 http://127.0.0.1:12990/debian sid/main amd64 cpp-9 amd64 9.2.1-30 [9711 kB]
Get:7 http://127.0.0.1:12990/debian sid/main amd64 gcc-9-base amd64 9.2.1-30 [196 kB]
Get:8 http://127.0.0.1:12990/debian sid/main amd64 libbsd0 amd64 0.10.0-1 [107 kB]
Get:9 http://127.0.0.1:12990/debian sid/main amd64 libedit2 amd64 3.1-20191231-1 [95.4 kB]
Get:10 http://127.0.0.1:12990/debian sid/main amd64 libz3-4 amd64 4.8.7-4 [6790 kB]
Get:11 http://127.0.0.1:12990/debian sid/main amd64 libllvm9 amd64 1:9.0.1-8 [15.0 MB]
Get:12 http://127.0.0.1:12990/debian sid/main amd64 libclang-cpp9 amd64 1:9.0.1-8 [8429 kB]
Get:13 http://127.0.0.1:12990/debian sid/main amd64 gcc-8-base amd64 8.3.0-29 [194 kB]
Get:14 http://127.0.0.1:12990/debian sid/main amd64 libmpx2 amd64 8.3.0-29 [11.4 kB]
Get:15 http://127.0.0.1:12990/debian sid/main amd64 libgcc-8-dev amd64 8.3.0-29 [2297 kB]
Get:16 http://127.0.0.1:12990/debian sid/main amd64 libstdc++-8-dev amd64 8.3.0-29 [1543 kB]
Get:17 http://127.0.0.1:12990/debian sid/main amd64 libgc1c2 amd64 1:7.6.4-0.4 [224 kB]
Get:18 http://127.0.0.1:12990/debian sid/main amd64 libobjc4 amd64 10-20200222-1 [41.6 kB]
Get:19 http://127.0.0.1:12990/debian sid/main amd64 libobjc-8-dev amd64 8.3.0-29 [227 kB]
Get:20 http://127.0.0.1:12990/debian sid/main amd64 libc6-i386 amd64 2.29-10 [2918 kB]
Get:21 http://127.0.0.1:12990/debian sid/main amd64 lib32gcc-s1 amd64 10-20200222-1 [49.4 kB]
Get:22 http://127.0.0.1:12990/debian sid/main amd64 lib32gcc1 amd64 1:10-20200222-1 [1104 B]
Get:23 http://127.0.0.1:12990/debian sid/main amd64 lib32stdc++6 amd64 10-20200222-1 [510 kB]
Get:24 http://127.0.0.1:12990/debian sid/main amd64 libclang-common-9-dev amd64 1:9.0.1-8 [3727 kB]
Get:25 http://127.0.0.1:12990/debian sid/main amd64 clang-9 amd64 1:9.0.1-8 [1156 kB]
Get:26 http://127.0.0.1:12990/debian sid/main amd64 libobjc-9-dev amd64 9.2.1-30 [219 kB]
Get:27 http://127.0.0.1:12990/debian sid/main amd64 libomp5-9 amd64 1:9.0.1-8 [333 kB]
Get:28 http://127.0.0.1:12990/debian sid/main amd64 libomp-9-dev amd64 1:9.0.1-8 [66.2 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 78.9 MB in 1s (95.7 MB/s)
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(Reading database ... 12119 files and directories currently installed.)
Preparing to unpack .../00-libasan5_9.2.1-30_amd64.deb ...
Unpacking libasan5:amd64 (9.2.1-30) over (9.2.1-29) ...
Preparing to unpack .../01-g++-9_9.2.1-30_amd64.deb ...
Unpacking g++-9 (9.2.1-30) over (9.2.1-29) ...
Preparing to unpack .../02-gcc-9_9.2.1-30_amd64.deb ...
Unpacking gcc-9 (9.2.1-30) over (9.2.1-29) ...
Preparing to unpack .../03-libstdc++-9-dev_9.2.1-30_amd64.deb ...
Unpacking libstdc++-9-dev:amd64 (9.2.1-30) over (9.2.1-29) ...
Preparing to unpack .../04-libgcc-9-dev_9.2.1-30_amd64.deb ...
Unpacking libgcc-9-dev:amd64 (9.2.1-30) over (9.2.1-29) ...
Preparing to unpack .../05-cpp-9_9.2.1-30_amd64.deb ...
Unpacking cpp-9 (9.2.1-30) over (9.2.1-29) ...
Preparing to unpack .../06-gcc-9-base_9.2.1-30_amd64.deb ...
Unpacking gcc-9-base:amd64 (9.2.1-30) over (9.2.1-29) ...
Selecting previously unselected package libbsd0:amd64.
Preparing to unpack .../07-libbsd0_0.10.0-1_amd64.deb ...
Unpacking libbsd0:amd64 (0.10.0-1) ...
Selecting previously unselected package libedit2:amd64.
Preparing to unpack .../08-libedit2_3.1-20191231-1_amd64.deb ...
Unpacking libedit2:amd64 (3.1-20191231-1) ...
Selecting previously unselected package libz3-4:amd64.
Preparing to unpack .../09-libz3-4_4.8.7-4_amd64.deb ...
Unpacking libz3-4:amd64 (4.8.7-4) ...
Selecting previously unselected package libllvm9:amd64.
Preparing to unpack .../10-libllvm9_1%3a9.0.1-8_amd64.deb ...
Unpacking libllvm9:amd64 (1:9.0.1-8) ...
Selecting previously unselected package libclang-cpp9.
Preparing to unpack .../11-libclang-cpp9_1%3a9.0.1-8_amd64.deb ...
Unpacking libclang-cpp9 (1:9.0.1-8) ...
Selecting previously unselected package gcc-8-base:amd64.
Preparing to unpack .../12-gcc-8-base_8.3.0-29_amd64.deb ...
Unpacking gcc-8-base:amd64 (8.3.0-29) ...
Selecting previously unselected package libmpx2:amd64.
Preparing to unpack .../13-libmpx2_8.3.0-29_amd64.deb ...
Unpacking libmpx2:amd64 (8.3.0-29) ...
Selecting previously unselected package libgcc-8-dev:amd64.
Preparing to unpack .../14-libgcc-8-dev_8.3.0-29_amd64.deb ...
Unpacking libgcc-8-dev:amd64 (8.3.0-29) ...
Selecting previously unselected package libstdc++-8-dev:amd64.
Preparing to unpack .../15-libstdc++-8-dev_8.3.0-29_amd64.deb ...
Unpacking libstdc++-8-dev:amd64 (8.3.0-29) ...
Selecting previously unselected package libgc1c2:amd64.
Preparing to unpack .../16-libgc1c2_1%3a7.6.4-0.4_amd64.deb ...
Unpacking libgc1c2:amd64 (1:7.6.4-0.4) ...
Selecting previously unselected package libobjc4:amd64.
Preparing to unpack .../17-libobjc4_10-20200222-1_amd64.deb ...
Unpacking libobjc4:amd64 (10-20200222-1) ...
Selecting previously unselected package libobjc-8-dev:amd64.
Preparing to unpack .../18-libobjc-8-dev_8.3.0-29_amd64.deb ...
Unpacking libobjc-8-dev:amd64 (8.3.0-29) ...
Selecting previously unselected package libc6-i386.
Preparing to unpack .../19-libc6-i386_2.29-10_amd64.deb ...
Unpacking libc6-i386 (2.29-10) ...
Selecting previously unselected package lib32gcc-s1.
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Unpacking lib32gcc-s1 (10-20200222-1) ...
Selecting previously unselected package lib32gcc1.
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Unpacking lib32gcc1 (1:10-20200222-1) ...
Selecting previously unselected package lib32stdc++6.
Preparing to unpack .../22-lib32stdc++6_10-20200222-1_amd64.deb ...
Unpacking lib32stdc++6 (10-20200222-1) ...
Selecting previously unselected package libclang-common-9-dev.
Preparing to unpack .../23-libclang-common-9-dev_1%3a9.0.1-8_amd64.deb ...
Unpacking libclang-common-9-dev (1:9.0.1-8) ...
Selecting previously unselected package clang-9.
Preparing to unpack .../24-clang-9_1%3a9.0.1-8_amd64.deb ...
Unpacking clang-9 (1:9.0.1-8) ...
Selecting previously unselected package libobjc-9-dev:amd64.
Preparing to unpack .../25-libobjc-9-dev_9.2.1-30_amd64.deb ...
Unpacking libobjc-9-dev:amd64 (9.2.1-30) ...
Selecting previously unselected package libomp5-9:amd64.
Preparing to unpack .../26-libomp5-9_1%3a9.0.1-8_amd64.deb ...
Unpacking libomp5-9:amd64 (1:9.0.1-8) ...
Selecting previously unselected package libomp-9-dev.
Preparing to unpack .../27-libomp-9-dev_1%3a9.0.1-8_amd64.deb ...
Unpacking libomp-9-dev (1:9.0.1-8) ...
Setting up libgc1c2:amd64 (1:7.6.4-0.4) ...
Setting up libobjc4:amd64 (10-20200222-1) ...
Setting up libz3-4:amd64 (4.8.7-4) ...
Setting up gcc-8-base:amd64 (8.3.0-29) ...
Setting up libmpx2:amd64 (8.3.0-29) ...
Setting up libc6-i386 (2.29-10) ...
Setting up libbsd0:amd64 (0.10.0-1) ...
Setting up gcc-9-base:amd64 (9.2.1-30) ...
Setting up libomp5-9:amd64 (1:9.0.1-8) ...
Setting up libedit2:amd64 (3.1-20191231-1) ...
Setting up libasan5:amd64 (9.2.1-30) ...
Setting up lib32gcc-s1 (10-20200222-1) ...
Setting up libgcc-8-dev:amd64 (8.3.0-29) ...
Setting up libomp-9-dev (1:9.0.1-8) ...
Setting up cpp-9 (9.2.1-30) ...
Setting up libllvm9:amd64 (1:9.0.1-8) ...
Setting up libstdc++-8-dev:amd64 (8.3.0-29) ...
Setting up libclang-cpp9 (1:9.0.1-8) ...
Setting up lib32gcc1 (1:10-20200222-1) ...
Setting up libgcc-9-dev:amd64 (9.2.1-30) ...
Setting up libobjc-8-dev:amd64 (8.3.0-29) ...
Setting up lib32stdc++6 (10-20200222-1) ...
Setting up libobjc-9-dev:amd64 (9.2.1-30) ...
Setting up libclang-common-9-dev (1:9.0.1-8) ...
Setting up gcc-9 (9.2.1-30) ...
Setting up libstdc++-9-dev:amd64 (9.2.1-30) ...
Setting up clang-9 (1:9.0.1-8) ...
Setting up g++-9 (9.2.1-30) ...
Processing triggers for libc-bin (2.29-10) ...
W: --force-yes is deprecated, use one of the options starting with --allow instead.
+ echo 'Replace gcc, g++ & cpp by clang'
Replace gcc, g++ & cpp by clang
+ VERSIONS='4.6 4.7 4.8 4.9 5 6 7 8 9 10'
+ cd /usr/bin
+ for VERSION in $VERSIONS
+ rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc
+ ln -s clang++-9 g++-4.6
+ ln -s clang-9 gcc-4.6
+ ln -s clang-9 cpp-4.6
+ ln -s clang-9 gcc
+ echo 'gcc-4.6 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-4.6
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-4.6 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-4.6
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-4.7 gcc-4.7 cpp-4.7 gcc
+ ln -s clang++-9 g++-4.7
+ ln -s clang-9 gcc-4.7
+ ln -s clang-9 cpp-4.7
+ ln -s clang-9 gcc
+ echo 'gcc-4.7 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-4.7
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-4.7 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-4.7
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-4.8 gcc-4.8 cpp-4.8 gcc
+ ln -s clang++-9 g++-4.8
+ ln -s clang-9 gcc-4.8
+ ln -s clang-9 cpp-4.8
+ ln -s clang-9 gcc
+ echo 'gcc-4.8 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-4.8
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-4.8 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-4.8
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-4.9 gcc-4.9 cpp-4.9 gcc
+ ln -s clang++-9 g++-4.9
+ ln -s clang-9 gcc-4.9
+ ln -s clang-9 cpp-4.9
+ ln -s clang-9 gcc
+ echo 'gcc-4.9 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-4.9
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-4.9 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-4.9
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-5 gcc-5 cpp-5 gcc
+ ln -s clang++-9 g++-5
+ ln -s clang-9 gcc-5
+ ln -s clang-9 cpp-5
+ ln -s clang-9 gcc
+ echo 'gcc-5 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-5
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-5 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-5
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-6 gcc-6 cpp-6 gcc
+ ln -s clang++-9 g++-6
+ ln -s clang-9 gcc-6
+ ln -s clang-9 cpp-6
+ ln -s clang-9 gcc
+ echo 'gcc-6 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-6
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-6 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-6
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-7 gcc-7 cpp-7 gcc
+ ln -s clang++-9 g++-7
+ ln -s clang-9 gcc-7
+ ln -s clang-9 cpp-7
+ ln -s clang-9 gcc
+ echo 'gcc-7 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-7
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-7 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-7
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-8 gcc-8 cpp-8 gcc
+ ln -s clang++-9 g++-8
+ ln -s clang-9 gcc-8
+ ln -s clang-9 cpp-8
+ ln -s clang-9 gcc
+ echo 'gcc-8 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-8
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-8 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-8
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ for VERSION in $VERSIONS
+ rm -f g++-9 gcc-9 cpp-9 gcc
+ ln -s clang++-9 g++-9
+ ln -s clang-9 gcc-9
+ ln -s clang-9 cpp-9
+ ln -s clang-9 gcc
+ echo 'gcc-9 hold'
+ dpkg --set-selections
+ echo 'g++-9 hold'
+ dpkg --set-selections
+ for VERSION in $VERSIONS
+ rm -f g++-10 gcc-10 cpp-10 gcc
+ ln -s clang++-9 g++-10
+ ln -s clang-9 gcc-10
+ ln -s clang-9 cpp-10
+ ln -s clang-9 gcc
+ echo 'gcc-10 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: gcc-10
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ echo 'g++-10 hold'
+ dpkg --set-selections
dpkg: warning: package not in status nor available database at line 1: g++-10
dpkg: warning: found unknown packages; this might mean the available database
is outdated, and needs to be updated through a frontend method;
please see the FAQ <https://wiki.debian.org/Teams/Dpkg/FAQ>
+ cd -
/build/tvc-R0yupQ
+ echo 'Check if gcc, g++ & cpp are actually clang'
Check if gcc, g++ & cpp are actually clang
+ gcc --version
+ grep clang
+ cpp --version
+ grep clang
+ g++ --version
+ grep clang

I: Finished running '/tmp/clang9'.

Finished processing commands.
--------------------------------------------------------------------------------
I: NOTICE: Log filtering will replace 'build/tvc-R0yupQ/resolver-33Ms1K' with '<<RESOLVERDIR>>'

+------------------------------------------------------------------------------+
| Update chroot                                                                |
+------------------------------------------------------------------------------+

Hit:1 http://127.0.0.1:12990/debian sid InRelease
Reading package lists...
Reading package lists...
Building dependency tree...
Reading state information...
Calculating upgrade...
The following packages will be upgraded:
  bash libgmp10 zlib1g
3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Need to get 1722 kB of archives.
After this operation, 4096 B of additional disk space will be used.
Get:1 http://127.0.0.1:12990/debian sid/main amd64 bash amd64 5.0-6 [1379 kB]
Get:2 http://127.0.0.1:12990/debian sid/main amd64 libgmp10 amd64 2:6.2.0+dfsg-4 [253 kB]
Get:3 http://127.0.0.1:12990/debian sid/main amd64 zlib1g amd64 1:1.2.11.dfsg-2 [90.4 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 1722 kB in 0s (73.4 MB/s)
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(Reading database ... 13921 files and directories currently installed.)
Preparing to unpack .../archives/bash_5.0-6_amd64.deb ...
Unpacking bash (5.0-6) over (5.0-5) ...
Setting up bash (5.0-6) ...
update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode
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(Reading database ... 13921 files and directories currently installed.)
Preparing to unpack .../libgmp10_2%3a6.2.0+dfsg-4_amd64.deb ...
Unpacking libgmp10:amd64 (2:6.2.0+dfsg-4) over (2:6.2.0+dfsg-3) ...
Setting up libgmp10:amd64 (2:6.2.0+dfsg-4) ...
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(Reading database ... 13921 files and directories currently installed.)
Preparing to unpack .../zlib1g_1%3a1.2.11.dfsg-2_amd64.deb ...
Unpacking zlib1g:amd64 (1:1.2.11.dfsg-2) over (1:1.2.11.dfsg-1.2) ...
Setting up zlib1g:amd64 (1:1.2.11.dfsg-2) ...
Processing triggers for libc-bin (2.29-10) ...

+------------------------------------------------------------------------------+
| Fetch source files                                                           |
+------------------------------------------------------------------------------+


Check APT
---------

Checking available source versions...

Download source files with APT
------------------------------

Reading package lists...
NOTICE: 'tvc' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/tvc.git
Please use:
git clone https://salsa.debian.org/med-team/tvc.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 755 kB of source archives.
Get:1 http://127.0.0.1:12990/debian sid/main tvc 5.0.3+git20151221.80e144e+dfsg-2 (dsc) [2195 B]
Get:2 http://127.0.0.1:12990/debian sid/main tvc 5.0.3+git20151221.80e144e+dfsg-2 (tar) [745 kB]
Get:3 http://127.0.0.1:12990/debian sid/main tvc 5.0.3+git20151221.80e144e+dfsg-2 (diff) [8384 B]
Fetched 755 kB in 0s (9481 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/tvc-R0yupQ/tvc-5.0.3+git20151221.80e144e+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/tvc-R0yupQ' with '<<BUILDDIR>>'

+------------------------------------------------------------------------------+
| Install package build dependencies                                           |
+------------------------------------------------------------------------------+


Setup apt archive
-----------------

Merged Build-Depends: debhelper (>= 11~), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev, build-essential, fakeroot
Filtered Build-Depends: debhelper (>= 11~), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev, build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [957 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [415 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [496 B]
Fetched 1868 B in 0s (0 B/s)
Reading package lists...
Reading package lists...

Install main build dependencies (apt-based resolver)
----------------------------------------------------

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data
  debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext
  gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0
  libarchive-zip-perl libarchive13 libarmadillo-dev libarmadillo9 libarpack2
  libarpack2-dev libbamtools-dev libbamtools2.5.1 libblas-dev libblas3
  libboost-math-dev libboost-math1.67-dev libboost-math1.67.0 libboost1.67-dev
  libbrotli1 libcroco3 libcurl4 libdebhelper-perl libdisorder-dev libdisorder0
  libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0
  libgssapi-krb5-2 libhdf5-103 libhdf5-cpp-103 libhdf5-dev libicu63
  libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjsoncpp-dev libjsoncpp1
  libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
  libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libncurses6
  libnghttp2-14 libpipeline1 libprocps8 libpsl5 librhash0 librtmp1 libsasl2-2
  libsasl2-modules-db libsigsegv2 libsmithwaterman-dev libsmithwaterman0
  libssh2-1 libssl1.1 libsub-override-perl libsuperlu-dev libsuperlu5 libsz2
  libtool libuchardet0 libuv1 libxml2 m4 man-db po-debconf procps
  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 libitpp-dev libbamtools-doc liblapack-doc
  libboost1.67-doc libboost-atomic1.67-dev libboost-chrono1.67-dev
  libboost-container1.67-dev libboost-context1.67-dev
  libboost-contract1.67-dev libboost-coroutine1.67-dev
  libboost-date-time1.67-dev libboost-exception1.67-dev libboost-fiber1.67-dev
  libboost-filesystem1.67-dev libboost-graph1.67-dev
  libboost-graph-parallel1.67-dev libboost-iostreams1.67-dev
  libboost-locale1.67-dev libboost-log1.67-dev libboost-mpi1.67-dev
  libboost-mpi-python1.67-dev libboost-numpy1.67-dev
  libboost-program-options1.67-dev libboost-python1.67-dev
  libboost-random1.67-dev libboost-regex1.67-dev
  libboost-serialization1.67-dev libboost-signals1.67-dev
  libboost-stacktrace1.67-dev libboost-system1.67-dev libboost-test1.67-dev
  libboost-thread1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev
  libboost-wave1.67-dev libboost1.67-tools-dev libmpfrc++-dev libntl-dev
  krb5-doc krb5-user libhdf5-doc libsuperlu-doc libtool-doc gfortran
  | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
  libmail-box-perl
Recommended packages:
  curl | wget | lynx ca-certificates libarchive-cpio-perl libglib2.0-data
  shared-mime-info xdg-user-dirs krb5-locales libgpm2 publicsuffix
  libsasl2-modules 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 groff-base hdf5-helpers intltool-debian libaec-dev libaec0
  libarchive-zip-perl libarchive13 libarmadillo-dev libarmadillo9 libarpack2
  libarpack2-dev libbamtools-dev libbamtools2.5.1 libblas-dev libblas3
  libboost-math-dev libboost-math1.67-dev libboost-math1.67.0 libboost1.67-dev
  libbrotli1 libcroco3 libcurl4 libdebhelper-perl libdisorder-dev libdisorder0
  libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0
  libgssapi-krb5-2 libhdf5-103 libhdf5-cpp-103 libhdf5-dev libicu63
  libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjsoncpp-dev libjsoncpp1
  libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev liblapack3
  libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libncurses6
  libnghttp2-14 libpipeline1 libprocps8 libpsl5 librhash0 librtmp1 libsasl2-2
  libsasl2-modules-db libsigsegv2 libsmithwaterman-dev libsmithwaterman0
  libssh2-1 libssl1.1 libsub-override-perl libsuperlu-dev libsuperlu5 libsz2
  libtool libuchardet0 libuv1 libxml2 m4 man-db po-debconf procps
  sbuild-build-depends-main-dummy sensible-utils zlib1g-dev
0 upgraded, 93 newly installed, 0 to remove and 0 not upgraded.
Need to get 52.5 MB of archives.
After this operation, 323 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [924 B]
Get:2 http://127.0.0.1:12990/debian sid/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB]
Get:3 http://127.0.0.1:12990/debian sid/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB]
Get:4 http://127.0.0.1:12990/debian sid/main amd64 groff-base amd64 1.22.4-4 [919 kB]
Get:5 http://127.0.0.1:12990/debian sid/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB]
Get:6 http://127.0.0.1:12990/debian sid/main amd64 man-db amd64 2.9.0-2 [1307 kB]
Get:7 http://127.0.0.1:12990/debian sid/main amd64 libncurses6 amd64 6.1+20191019-1 [102 kB]
Get:8 http://127.0.0.1:12990/debian sid/main amd64 libprocps8 amd64 2:3.3.16-1+b1 [62.8 kB]
Get:9 http://127.0.0.1:12990/debian sid/main amd64 procps amd64 2:3.3.16-1+b1 [263 kB]
Get:10 http://127.0.0.1:12990/debian sid/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:11 http://127.0.0.1:12990/debian sid/main amd64 libmagic-mgc amd64 1:5.38-4 [262 kB]
Get:12 http://127.0.0.1:12990/debian sid/main amd64 libmagic1 amd64 1:5.38-4 [120 kB]
Get:13 http://127.0.0.1:12990/debian sid/main amd64 file amd64 1:5.38-4 [67.9 kB]
Get:14 http://127.0.0.1:12990/debian sid/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB]
Get:15 http://127.0.0.1:12990/debian sid/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB]
Get:16 http://127.0.0.1:12990/debian sid/main amd64 m4 amd64 1.4.18-4 [203 kB]
Get:17 http://127.0.0.1:12990/debian sid/main amd64 autoconf all 2.69-11.1 [341 kB]
Get:18 http://127.0.0.1:12990/debian sid/main amd64 autotools-dev all 20180224.1 [77.0 kB]
Get:19 http://127.0.0.1:12990/debian sid/main amd64 automake all 1:1.16.1-4 [771 kB]
Get:20 http://127.0.0.1:12990/debian sid/main amd64 autopoint all 0.19.8.1-10 [435 kB]
Get:21 http://127.0.0.1:12990/debian sid/main amd64 cmake-data all 3.16.3-1 [1628 kB]
Get:22 http://127.0.0.1:12990/debian sid/main amd64 libicu63 amd64 63.2-2 [8301 kB]
Get:23 http://127.0.0.1:12990/debian sid/main amd64 libxml2 amd64 2.9.10+dfsg-3 [709 kB]
Get:24 http://127.0.0.1:12990/debian sid/main amd64 libarchive13 amd64 3.4.0-1+b1 [335 kB]
Get:25 http://127.0.0.1:12990/debian sid/main amd64 libbrotli1 amd64 1.0.7-6 [266 kB]
Get:26 http://127.0.0.1:12990/debian sid/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB]
Get:27 http://127.0.0.1:12990/debian sid/main amd64 libkrb5support0 amd64 1.17-6 [64.6 kB]
Get:28 http://127.0.0.1:12990/debian sid/main amd64 libk5crypto3 amd64 1.17-6 [116 kB]
Get:29 http://127.0.0.1:12990/debian sid/main amd64 libssl1.1 amd64 1.1.1d-2 [1540 kB]
Get:30 http://127.0.0.1:12990/debian sid/main amd64 libkrb5-3 amd64 1.17-6 [366 kB]
Get:31 http://127.0.0.1:12990/debian sid/main amd64 libgssapi-krb5-2 amd64 1.17-6 [156 kB]
Get:32 http://127.0.0.1:12990/debian sid/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2 [69.0 kB]
Get:33 http://127.0.0.1:12990/debian sid/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2 [106 kB]
Get:34 http://127.0.0.1:12990/debian sid/main amd64 libldap-common all 2.4.49+dfsg-1 [91.9 kB]
Get:35 http://127.0.0.1:12990/debian sid/main amd64 libldap-2.4-2 amd64 2.4.49+dfsg-1 [226 kB]
Get:36 http://127.0.0.1:12990/debian sid/main amd64 libnghttp2-14 amd64 1.40.0-1 [85.0 kB]
Get:37 http://127.0.0.1:12990/debian sid/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB]
Get:38 http://127.0.0.1:12990/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b1 [60.8 kB]
Get:39 http://127.0.0.1:12990/debian sid/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB]
Get:40 http://127.0.0.1:12990/debian sid/main amd64 libcurl4 amd64 7.68.0-1 [321 kB]
Get:41 http://127.0.0.1:12990/debian sid/main amd64 libexpat1 amd64 2.2.9-1 [94.3 kB]
Get:42 http://127.0.0.1:12990/debian sid/main amd64 libjsoncpp1 amd64 1.7.4-3.1 [77.6 kB]
Get:43 http://127.0.0.1:12990/debian sid/main amd64 librhash0 amd64 1.3.9-1 [123 kB]
Get:44 http://127.0.0.1:12990/debian sid/main amd64 libuv1 amd64 1.34.2-1 [127 kB]
Get:45 http://127.0.0.1:12990/debian sid/main amd64 cmake amd64 3.16.3-1 [3673 kB]
Get:46 http://127.0.0.1:12990/debian sid/main amd64 libtool all 2.4.6-13 [513 kB]
Get:47 http://127.0.0.1:12990/debian sid/main amd64 dh-autoreconf all 19 [16.9 kB]
Get:48 http://127.0.0.1:12990/debian sid/main amd64 libdebhelper-perl all 12.9 [183 kB]
Get:49 http://127.0.0.1:12990/debian sid/main amd64 libarchive-zip-perl all 1.67-1 [104 kB]
Get:50 http://127.0.0.1:12990/debian sid/main amd64 libsub-override-perl all 0.09-2 [10.2 kB]
Get:51 http://127.0.0.1:12990/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.6.3-2 [23.7 kB]
Get:52 http://127.0.0.1:12990/debian sid/main amd64 dh-strip-nondeterminism all 1.6.3-2 [14.7 kB]
Get:53 http://127.0.0.1:12990/debian sid/main amd64 libelf1 amd64 0.176-1.1 [161 kB]
Get:54 http://127.0.0.1:12990/debian sid/main amd64 dwz amd64 0.13-5 [151 kB]
Get:55 http://127.0.0.1:12990/debian sid/main amd64 libglib2.0-0 amd64 2.62.4-2 [1319 kB]
Get:56 http://127.0.0.1:12990/debian sid/main amd64 libcroco3 amd64 0.6.13-1 [146 kB]
Get:57 http://127.0.0.1:12990/debian sid/main amd64 gettext amd64 0.19.8.1-10 [1303 kB]
Get:58 http://127.0.0.1:12990/debian sid/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:59 http://127.0.0.1:12990/debian sid/main amd64 po-debconf all 1.0.21 [248 kB]
Get:60 http://127.0.0.1:12990/debian sid/main amd64 debhelper all 12.9 [994 kB]
Get:61 http://127.0.0.1:12990/debian sid/main amd64 hdf5-helpers amd64 1.10.4+repack-11 [35.2 kB]
Get:62 http://127.0.0.1:12990/debian sid/main amd64 libaec0 amd64 1.0.4-1 [20.3 kB]
Get:63 http://127.0.0.1:12990/debian sid/main amd64 libsz2 amd64 1.0.4-1 [6760 B]
Get:64 http://127.0.0.1:12990/debian sid/main amd64 libaec-dev amd64 1.0.4-1 [18.7 kB]
Get:65 http://127.0.0.1:12990/debian sid/main amd64 libblas3 amd64 3.9.0-1 [153 kB]
Get:66 http://127.0.0.1:12990/debian sid/main amd64 libgfortran5 amd64 10-20200222-1 [721 kB]
Get:67 http://127.0.0.1:12990/debian sid/main amd64 liblapack3 amd64 3.9.0-1 [2168 kB]
Get:68 http://127.0.0.1:12990/debian sid/main amd64 libarpack2 amd64 3.7.0-3 [103 kB]
Get:69 http://127.0.0.1:12990/debian sid/main amd64 libsuperlu5 amd64 5.2.1+dfsg1-4 [161 kB]
Get:70 http://127.0.0.1:12990/debian sid/main amd64 libarmadillo9 amd64 1:9.800.4+dfsg-1 [96.1 kB]
Get:71 http://127.0.0.1:12990/debian sid/main amd64 libblas-dev amd64 3.9.0-1 [160 kB]
Get:72 http://127.0.0.1:12990/debian sid/main amd64 liblapack-dev amd64 3.9.0-1 [4256 kB]
Get:73 http://127.0.0.1:12990/debian sid/main amd64 libarpack2-dev amd64 3.7.0-3 [116 kB]
Get:74 http://127.0.0.1:12990/debian sid/main amd64 libhdf5-103 amd64 1.10.4+repack-11 [1339 kB]
Get:75 http://127.0.0.1:12990/debian sid/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB]
Get:76 http://127.0.0.1:12990/debian sid/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+b1 [134 kB]
Get:77 http://127.0.0.1:12990/debian sid/main amd64 libjpeg62-turbo-dev amd64 1:1.5.2-2+b1 [208 kB]
Get:78 http://127.0.0.1:12990/debian sid/main amd64 libjpeg-dev all 1:1.5.2-2 [57.5 kB]
Get:79 http://127.0.0.1:12990/debian sid/main amd64 libhdf5-cpp-103 amd64 1.10.4+repack-11 [143 kB]
Get:80 http://127.0.0.1:12990/debian sid/main amd64 libhdf5-dev amd64 1.10.4+repack-11 [2608 kB]
Get:81 http://127.0.0.1:12990/debian sid/main amd64 libsuperlu-dev amd64 5.2.1+dfsg1-4 [18.4 kB]
Get:82 http://127.0.0.1:12990/debian sid/main amd64 libarmadillo-dev amd64 1:9.800.4+dfsg-1 [379 kB]
Get:83 http://127.0.0.1:12990/debian sid/main amd64 libbamtools2.5.1 amd64 2.5.1+dfsg-5 [161 kB]
Get:84 http://127.0.0.1:12990/debian sid/main amd64 libbamtools-dev amd64 2.5.1+dfsg-5 [22.1 kB]
Get:85 http://127.0.0.1:12990/debian sid/main amd64 libboost1.67-dev amd64 1.67.0-17 [8389 kB]
Get:86 http://127.0.0.1:12990/debian sid/main amd64 libboost-math1.67.0 amd64 1.67.0-17 [515 kB]
Get:87 http://127.0.0.1:12990/debian sid/main amd64 libboost-math1.67-dev amd64 1.67.0-17 [764 kB]
Get:88 http://127.0.0.1:12990/debian sid/main amd64 libboost-math-dev amd64 1.67.0.2+b1 [4480 B]
Get:89 http://127.0.0.1:12990/debian sid/main amd64 libdisorder0 amd64 0.0.2+git20130809.8062ee1-1 [4264 B]
Get:90 http://127.0.0.1:12990/debian sid/main amd64 libdisorder-dev amd64 0.0.2+git20130809.8062ee1-1 [4212 B]
Get:91 http://127.0.0.1:12990/debian sid/main amd64 libjsoncpp-dev amd64 1.7.4-3.1 [93.0 kB]
Get:92 http://127.0.0.1:12990/debian sid/main amd64 libsmithwaterman0 amd64 0.0+git20160702.2610e25-7 [36.0 kB]
Get:93 http://127.0.0.1:12990/debian sid/main amd64 libsmithwaterman-dev amd64 0.0+git20160702.2610e25-7 [38.9 kB]
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Setting up libk5crypto3:amd64 (1.17-6) ...
Setting up libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-1) ...
Setting up libsasl2-2:amd64 (2.1.27+dfsg-2) ...
Setting up libgfortran5:amd64 (10-20200222-1) ...
Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ...
Setting up sensible-utils (0.0.12+nmu1) ...
Setting up librhash0:amd64 (1.3.9-1) ...
Setting up libuchardet0:amd64 (0.0.6-3) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:amd64 (1.8.0-2.1) ...
Setting up cmake-data (3.16.3-1) ...
Setting up libkrb5-3:amd64 (1.17-6) ...
Setting up libelf1:amd64 (0.176-1.1) ...
Setting up libxml2:amd64 (2.9.10+dfsg-3) ...
Setting up libprocps8:amd64 (2:3.3.16-1+b1) ...
Setting up libblas-dev:amd64 (3.9.0-1) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode
Setting up libsz2:amd64 (1.0.4-1) ...
Setting up libjsoncpp1:amd64 (1.7.4-3.1) ...
Setting up libfile-stripnondeterminism-perl (1.6.3-2) ...
Setting up libjsoncpp-dev:amd64 (1.7.4-3.1) ...
Setting up liblapack3:amd64 (3.9.0-1) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
Setting up libboost-math1.67-dev:amd64 (1.67.0-17) ...
Setting up libtool (2.4.6-13) ...
Setting up libarchive13:amd64 (3.4.0-1+b1) ...
Setting up libboost-math-dev:amd64 (1.67.0.2+b1) ...
Setting up libaec-dev:amd64 (1.0.4-1) ...
Setting up libarpack2:amd64 (3.7.0-3) ...
Setting up libjpeg-dev (1:1.5.2-2) ...
Setting up libsuperlu5:amd64 (5.2.1+dfsg1-4) ...
Setting up libldap-2.4-2:amd64 (2.4.49+dfsg-1) ...
Setting up m4 (1.4.18-4) ...
Setting up libbamtools-dev:amd64 (2.5.1+dfsg-5) ...
Setting up libhdf5-103:amd64 (1.10.4+repack-11) ...
Setting up liblapack-dev:amd64 (3.9.0-1) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode
Setting up libgssapi-krb5-2:amd64 (1.17-6) ...
Setting up libcroco3:amd64 (0.6.13-1) ...
Setting up libsmithwaterman-dev (0.0+git20160702.2610e25-7) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.6.3-2) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-4) ...
Setting up procps (2:3.3.16-1+b1) ...
update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode
Setting up libcurl4:amd64 (7.68.0-1) ...
Setting up libarmadillo9 (1:9.800.4+dfsg-1) ...
Setting up libsuperlu-dev:amd64 (5.2.1+dfsg1-4) ...
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 libarpack2-dev:amd64 (3.7.0-3) ...
Setting up gettext (0.19.8.1-10) ...
Setting up libhdf5-cpp-103:amd64 (1.10.4+repack-11) ...
Setting up man-db (2.9.0-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libhdf5-dev (1.10.4+repack-11) ...
update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode
Setting up cmake (3.16.3-1) ...
Setting up po-debconf (1.0.21) ...
Setting up libarmadillo-dev (1:9.800.4+dfsg-1) ...
Setting up debhelper (12.9) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-10) ...

+------------------------------------------------------------------------------+
| Check architectures                                                          |
+------------------------------------------------------------------------------+

Arch check ok (amd64 included in any)

+------------------------------------------------------------------------------+
| Build environment                                                            |
+------------------------------------------------------------------------------+

Kernel: Linux 4.19.0-6-cloud-amd64 #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) amd64 (x86_64)
Toolchain package versions: binutils_2.34-3 dpkg-dev_1.19.7 g++-9_9.2.1-30 gcc-9_9.2.1-30 libc6-dev_2.29-10 libstdc++-8-dev_8.3.0-29 libstdc++-9-dev_9.2.1-30 libstdc++6_10-20200222-1 linux-libc-dev_5.4.19-1
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11.1 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-3 binutils-common_2.34-3 binutils-x86-64-linux-gnu_2.34-3 bsdmainutils_11.1.2+b1 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 clang-9_1:9.0.1-8 cmake_3.16.3-1 cmake-data_3.16.3-1 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-9_9.2.1-30 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.9 debian-archive-keyring_2019.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-2 diffutils_1:3.7-3 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.5-2 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 g++-9_9.2.1-30 gcc_4:9.2.1-3.1 gcc-10-base_10-20200222-1 gcc-8-base_8.3.0-29 gcc-9_9.2.1-30 gcc-9-base_9.2.1-30 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.19-1 grep_3.4-1 groff-base_1.22.4-4 gzip_1.9-3+b1 hdf5-helpers_1.10.4+repack-11 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 lib32gcc-s1_10-20200222-1 lib32gcc1_1:10-20200222-1 lib32stdc++6_10-20200222-1 libacl1_2.2.53-5 libaec-dev_1.0.4-1 libaec0_1.0.4-1 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libarchive13_3.4.0-1+b1 libarmadillo-dev_1:9.800.4+dfsg-1 libarmadillo9_1:9.800.4+dfsg-1 libarpack2_3.7.0-3 libarpack2-dev_3.7.0-3 libasan5_9.2.1-30 libatomic1_10-20200222-1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbamtools-dev_2.5.1+dfsg-5 libbamtools2.5.1_2.5.1+dfsg-5 libbinutils_2.34-3 libblas-dev_3.9.0-1 libblas3_3.9.0-1 libblkid1_2.34-0.1 libboost-math-dev_1.67.0.2+b1 libboost-math1.67-dev_1.67.0-17 libboost-math1.67.0_1.67.0-17 libboost1.67-dev_1.67.0-17 libbrotli1_1.0.7-6 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-10 libc-dev-bin_2.29-10 libc6_2.29-10 libc6-dev_2.29-10 libc6-i386_2.29-10 libcap-ng0_0.7.9-2.1+b1 libcc1-0_10-20200222-1 libclang-common-9-dev_1:9.0.1-8 libclang-cpp9_1:9.0.1-8 libcom-err2_1.45.5-2 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.10-10 libcrypt1_1:4.4.10-10 libctf-nobfd0_2.34-3 libctf0_2.34-3 libcurl4_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.251 libdebhelper-perl_12.9 libdisorder-dev_0.0.2+git20130809.8062ee1-1 libdisorder0_0.0.2+git20130809.8062ee1-1 libdpkg-perl_1.19.7 libedit2_3.1-20191231-1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.5-2 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi7_3.3-3 libfile-stripnondeterminism-perl_1.6.3-2 libgc1c2_1:7.6.4-0.4 libgcc-8-dev_8.3.0-29 libgcc-9-dev_9.2.1-30 libgcc-s1_10-20200222-1 libgcc1_1:10-20200222-1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_10-20200222-1 libglib2.0-0_2.62.4-2 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.12-2 libgomp1_10-20200222-1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-6 libhdf5-103_1.10.4+repack-11 libhdf5-cpp-103_1.10.4+repack-11 libhdf5-dev_1.10.4+repack-11 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl22_0.22.1-1 libitm1_10-20200222-1 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libjsoncpp-dev_1.7.4-3.1 libjsoncpp1_1.7.4-3.1 libk5crypto3_1.17-6 libkeyutils1_1.6.1-2 libkrb5-3_1.17-6 libkrb5support0_1.17-6 liblapack-dev_3.9.0-1 liblapack3_3.9.0-1 libldap-2.4-2_2.4.49+dfsg-1 libldap-common_2.4.49+dfsg-1 libllvm9_1:9.0.1-8 liblsan0_10-20200222-1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1+b1 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 libmpx2_8.3.0-29 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libobjc-8-dev_8.3.0-29 libobjc-9-dev_9.2.1-30 libobjc4_10-20200222-1 libomp-9-dev_1:9.0.1-8 libomp5-9_1:9.0.1-8 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12+b1 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2 libprocps8_2:3.3.16-1+b1 libpsl5_0.20.2-2 libquadmath0_10-20200222-1 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_2.4.2-2 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 libsmithwaterman-dev_0.0+git20160702.2610e25-7 libsmithwaterman0_0.0+git20160702.2610e25-7 libss2_1.45.5-2 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libstdc++-8-dev_8.3.0-29 libstdc++-9-dev_9.2.1-30 libstdc++6_10-20200222-1 libsub-override-perl_0.09-2 libsuperlu-dev_5.2.1+dfsg1-4 libsuperlu5_5.2.1+dfsg1-4 libsystemd0_244.3-1 libsz2_1.0.4-1 libtasn1-6_4.16.0-2 libtinfo6_6.1+20191019-1 libtool_2.4.6-13 libtsan0_10-20200222-1 libubsan1_10-20200222-1 libuchardet0_0.0.6-3 libudev1_244.3-1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.34.2-1 libxml2_2.9.10+dfsg-3 libz3-4_4.8.7-4 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.4.19-1 login_1:4.8.1-1 logsave_1.45.5-2 lsb-base_11.1.0 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-2 mawk_1.3.4.20200120-2 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 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 po-debconf_1.0.21 procps_2:3.3.16-1+b1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-2.1 tar_1.30+dfsg-6+b1 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1+b1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2

+------------------------------------------------------------------------------+
| Build                                                                        |
+------------------------------------------------------------------------------+


Unpack source
-------------

-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Format: 3.0 (quilt)
Source: tvc
Binary: tvc
Architecture: any
Version: 5.0.3+git20151221.80e144e+dfsg-2
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Dominique Belhachemi <domibel@debian.org>, Andreas Tille <tille@debian.org>
Homepage: http://ioncommunity.thermofisher.com
Standards-Version: 4.2.1
Vcs-Browser: https://salsa.debian.org/med-team/tvc
Vcs-Git: https://salsa.debian.org/med-team/tvc.git
Build-Depends: debhelper (>= 11~), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev
Package-List:
 tvc deb science optional arch=any
Checksums-Sha1:
 cd0223b1b1c96a2cc5a25fbc64e4e36a00347788 744668 tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz
 5bf32cab110f81123fa6228760873522f91a28c7 8384 tvc_5.0.3+git20151221.80e144e+dfsg-2.debian.tar.xz
Checksums-Sha256:
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 d8b8a2ab92084d238a162f395e978ef910708576c2de79d9f574b4da689cf7c5 8384 tvc_5.0.3+git20151221.80e144e+dfsg-2.debian.tar.xz
Files:
 68b468ca5054fb3260ad9de40131b632 744668 tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz
 6c8fe33e5042e4a4f334cd3a8a5d35a8 8384 tvc_5.0.3+git20151221.80e144e+dfsg-2.debian.tar.xz

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gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Dec 13 07:20:19 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 ./tvc_5.0.3+git20151221.80e144e+dfsg-2.dsc
dpkg-source: info: extracting tvc in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz
dpkg-source: info: unpacking tvc_5.0.3+git20151221.80e144e+dfsg-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying cmake.patch
dpkg-source: info: applying bamtools.patch
dpkg-source: info: applying help.patch
dpkg-source: info: applying hurd.patch
dpkg-source: info: applying sse.patch
dpkg-source: info: applying use_debian_packaged_smithwaterman.patch

Check disk space
----------------

Sufficient free space for build

User Environment
----------------

APT_CONFIG=/var/lib/sbuild/apt.conf
HOME=/sbuild-nonexistent
LANG=C.UTF-8
LC_ALL=C.UTF-8
LOGNAME=user42
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=unstable
SCHROOT_CHROOT_NAME=sid-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1001
SCHROOT_GROUP=user42
SCHROOT_SESSION_ID=sid-amd64-sbuild-c9221752-c3cc-4b4a-9723-26750caeb0fa
SCHROOT_UID=1001
SCHROOT_USER=user42
SHELL=/bin/sh
USER=user42

dpkg-buildpackage
-----------------

Command: dpkg-buildpackage -us -uc -b -rfakeroot
dpkg-buildpackage: info: source package tvc
dpkg-buildpackage: info: source version 5.0.3+git20151221.80e144e+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
 fakeroot debian/rules clean
dh clean
   dh_clean
 debian/rules build
dh build
   dh_update_autotools_config
   dh_autoreconf
   dh_auto_configure
	cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu ..
-- The C compiler identification is Clang 9.0.1
-- The CXX compiler identification is Clang 9.0.1
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- CMAKE_CXX_FLAGS: '-g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3'
-- Configuring done
-- Generating done
CMake Warning:
  Manually-specified variables were not used by the project:

    CMAKE_EXPORT_NO_PACKAGE_REGISTRY
    CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY
    CMAKE_INSTALL_LIBDIR
    CMAKE_INSTALL_LOCALSTATEDIR
    CMAKE_INSTALL_RUNSTATEDIR
    CMAKE_INSTALL_SYSCONFDIR


-- Build files have been written to: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu
   dh_auto_build
	cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
/usr/bin/cmake -S/<<PKGBUILDDIR>> -B/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/depend
make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/depend
make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/depend
make[3]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
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Scanning dependencies of target tvcassembly
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Scanning dependencies of target tvcutils
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Scanning dependencies of target tvc
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[  9%] Building CXX object CMakeFiles/tvcassembly.dir/VariantCaller/SampleManager.cpp.o
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[ 10%] Building CXX object CMakeFiles/tvcassembly.dir/Util/OptArgs.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvcassembly.dir/Util/OptArgs.cpp.o -c /<<PKGBUILDDIR>>/Util/OptArgs.cpp
/<<PKGBUILDDIR>>/VariantCaller/VariantCaller.cpp:36:9: warning: 'set_stream_err1' is deprecated [-Wdeprecated-declarations]
  arma::set_stream_err1(null_ostream);
        ^
/usr/include/armadillo_bits/debug.hpp:88:1: note: 'set_stream_err1' has been explicitly marked deprecated here
arma_deprecated
^
/usr/include/armadillo_bits/compiler_setup.hpp:304:44: note: expanded from macro 'arma_deprecated'
    #define arma_deprecated __attribute__((__deprecated__))
                                           ^
/<<PKGBUILDDIR>>/VariantCaller/VariantCaller.cpp:37:9: warning: 'set_stream_err2' is deprecated [-Wdeprecated-declarations]
  arma::set_stream_err2(null_ostream);
        ^
/usr/include/armadillo_bits/debug.hpp:99:1: note: 'set_stream_err2' has been explicitly marked deprecated here
arma_deprecated
^
/usr/include/armadillo_bits/compiler_setup.hpp:304:44: note: expanded from macro 'arma_deprecated'
    #define arma_deprecated __attribute__((__deprecated__))
                                           ^
[ 12%] Building CXX object CMakeFiles/tvcassembly.dir/Util/Utils.cpp.o
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[ 13%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/validate_bed.cpp.o
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[ 15%] Building CXX object CMakeFiles/tvcassembly.dir/IonVersion.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvcassembly.dir/IonVersion.cpp.o -c /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/IonVersion.cpp
/<<PKGBUILDDIR>>/Util/Utils.cpp:318:16: error: variable-sized object may not be initialized
  char INSTALL[path_max] = {0};
               ^~~~~~~~
1 error generated.
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[ 16%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/unify_vcf.cpp.o
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[ 18%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/TargetsManager.cpp.o
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[ 20%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/BAMWalkerEngine.cpp.o
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[ 21%] Building CXX object CMakeFiles/tvcutils.dir/Util/OptArgs.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvcutils.dir/Util/OptArgs.cpp.o -c /<<PKGBUILDDIR>>/Util/OptArgs.cpp
[ 23%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/OrderedBAMWriter.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/VariantCaller/OrderedBAMWriter.cpp.o -c /<<PKGBUILDDIR>>/VariantCaller/OrderedBAMWriter.cpp
In file included from /<<PKGBUILDDIR>>/VariantCaller/tvcutils/unify_vcf.cpp:19:
In file included from /<<PKGBUILDDIR>>/VariantCaller/tvcutils/viterbi.h:64:
/<<PKGBUILDDIR>>/VariantCaller/tvcutils/viterbi.hpp:114:13: warning: inequality comparison result unused [-Wunused-comparison]
  for (; it != rend(), vit != values.rend(); it++, vit++) {
         ~~~^~~~~~~~~
/<<PKGBUILDDIR>>/VariantCaller/tvcutils/viterbi.hpp:64:3: note: in instantiation of member function 'markov_chain<unsigned long>::optimal_path' requested here
  optimal_path();
  ^
/<<PKGBUILDDIR>>/VariantCaller/tvcutils/viterbi.hpp:38:3: note: in instantiation of function template specialization 'markov_chain<unsigned long>::initialize<__gnu_cxx::__normal_iterator<unsigned long *, std::vector<unsigned long, std::allocator<unsigned long> > > >' requested here
  initialize(begin, end, *(m.first), *(m.second));
  ^
/<<PKGBUILDDIR>>/VariantCaller/tvcutils/unify_vcf.cpp:550:26: note: in instantiation of function template specialization 'markov_chain<unsigned long>::markov_chain<__gnu_cxx::__normal_iterator<unsigned long *, std::vector<unsigned long, std::allocator<unsigned long> > > >' requested here
    markov_chain<size_t> ch(depth_values.begin(), depth_values.end());
                         ^
/<<PKGBUILDDIR>>/VariantCaller/tvcutils/viterbi.hpp:114:13: note: use '|=' to turn this inequality comparison into an or-assignment
  for (; it != rend(), vit != values.rend(); it++, vit++) {
            ^~
            |=
[ 24%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o -c /<<PKGBUILDDIR>>/VariantCaller/SampleManager.cpp
[ 26%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/Variant.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvcutils.dir/external/vcflib/Variant.cpp.o -c /<<PKGBUILDDIR>>/external/vcflib/Variant.cpp
[ 27%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/TargetsManager.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/VariantCaller/TargetsManager.cpp.o -c /<<PKGBUILDDIR>>/VariantCaller/TargetsManager.cpp
[ 29%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/split.cpp.o
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[ 32%] Building C object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/index.c.o
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[ 33%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/HandleVariant.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/VariantCaller/HandleVariant.cpp.o -c /<<PKGBUILDDIR>>/VariantCaller/HandleVariant.cpp
[ 35%] Building C object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/bgzf.c.o
/usr/bin/cc -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2   -o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/bgzf.c.o   -c /<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c
/<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c:272:17: warning: implicit conversion from 'const int' to 'bgzf_byte_t' (aka 'signed char') changes value from 139 to -117 [-Wconstant-conversion]
    buffer[1] = GZIP_ID2;
              ~ ^~~~~~~~
/<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c:280:17: warning: implicit conversion from 'const int' to 'bgzf_byte_t' (aka 'signed char') changes value from 255 to -1 [-Wconstant-conversion]
    buffer[9] = OS_UNKNOWN;
              ~ ^~~~~~~~~~
/<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c:678:2: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result]
        fread(buf, 1, 28, fp->file);
        ^~~~~ ~~~~~~~~~~~~~~~~~~~~
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[ 36%] Building CXX object CMakeFiles/tvcutils.dir/IonVersion.cpp.o
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/usr/bin/cc -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2   -o CMakeFiles/tvc.dir/external/vcflib/tabixpp/bgzf.c.o   -c /<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c
/<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c:272:17: warning: implicit conversion from 'const int' to 'bgzf_byte_t' (aka 'signed char') changes value from 139 to -117 [-Wconstant-conversion]
    buffer[1] = GZIP_ID2;
              ~ ^~~~~~~~
/<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c:280:17: warning: implicit conversion from 'const int' to 'bgzf_byte_t' (aka 'signed char') changes value from 255 to -1 [-Wconstant-conversion]
    buffer[9] = OS_UNKNOWN;
              ~ ^~~~~~~~~~
/<<PKGBUILDDIR>>/external/vcflib/tabixpp/bgzf.c:678:2: warning: ignoring return value of function declared with 'warn_unused_result' attribute [-Wunused-result]
        fread(buf, 1, 28, fp->file);
        ^~~~~ ~~~~~~~~~~~~~~~~~~~~
3 warnings generated.
[ 81%] Building CXX object CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o -c /<<PKGBUILDDIR>>/external/freebayes/src/AlleleParser.cpp
[ 83%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o -c /<<PKGBUILDDIR>>/BaseCaller/PIDloop.cpp
[ 84%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/DPTreephaser.cpp.o
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[ 86%] Building CXX object CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o -c /<<PKGBUILDDIR>>/Calibration/LinearCalibrationModel.cpp
[ 87%] Building CXX object CMakeFiles/tvc.dir/Calibration/FlowAlignment.cpp.o
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[ 89%] Building CXX object CMakeFiles/tvc.dir/Util/OptArgs.cpp.o
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[ 90%] Building CXX object CMakeFiles/tvc.dir/realignment/Realigner.cpp.o
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[ 92%] Building C object CMakeFiles/tvc.dir/file-io/ion_util.c.o
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[ 93%] Building C object CMakeFiles/tvc.dir/file-io/ion_error.c.o
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[ 95%] Building CXX object CMakeFiles/tvc.dir/IonVersion.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/IonVersion.cpp.o -c /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/IonVersion.cpp
[ 96%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/TreephaserSSE.cpp.o
/usr/bin/c++  -DALIGNSTATS_IGNORE -I/<<PKGBUILDDIR>>/external/vcflib -I/<<PKGBUILDDIR>>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<<PKGBUILDDIR>>/VariantCaller -I/<<PKGBUILDDIR>>/VariantCaller/FlowDistEval -I/<<PKGBUILDDIR>>/VariantCaller/EnsembleEval -I/<<PKGBUILDDIR>>/VariantCaller/Bookkeeping -I/<<PKGBUILDDIR>>/VariantCaller/Reads -I/<<PKGBUILDDIR>>/VariantCaller/Splice -I/<<PKGBUILDDIR>>/VariantCaller/Filter -I/<<PKGBUILDDIR>>/realignment -I/<<PKGBUILDDIR>>/file-io -I/<<PKGBUILDDIR>>/BaseCaller -I/<<PKGBUILDDIR>>/Calibration -I/<<PKGBUILDDIR>>/Util -I/<<PKGBUILDDIR>>  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3   -o CMakeFiles/tvc.dir/BaseCaller/TreephaserSSE.cpp.o -c /<<PKGBUILDDIR>>/BaseCaller/TreephaserSSE.cpp
[ 98%] Linking CXX executable tvc
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make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
[ 98%] Built target tvc
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[1]: *** [Makefile:144: all] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_build: error: cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" returned exit code 2
make: *** [debian/rules:18: build] Error 25
dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2020-02-25T15:35:49Z

Finished
--------


+------------------------------------------------------------------------------+
| Cleanup                                                                      |
+------------------------------------------------------------------------------+

Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)

+------------------------------------------------------------------------------+
| Summary                                                                      |
+------------------------------------------------------------------------------+

Build Architecture: amd64
Build Type: binary
Build-Space: 105056
Build-Time: 53
Distribution: unstable
Fail-Stage: build
Host Architecture: amd64
Install-Time: 11
Job: tvc_5.0.3+git20151221.80e144e+dfsg-2
Machine Architecture: amd64
Package: tvc
Package-Time: 81
Source-Version: 5.0.3+git20151221.80e144e+dfsg-2
Space: 105056
Status: attempted
Version: 5.0.3+git20151221.80e144e+dfsg-2
--------------------------------------------------------------------------------
Finished at 2020-02-25T15:35:49Z
Build needed 00:01:21, 105056k disk space
E: Build failure (dpkg-buildpackage died)
DC-Status: Failed 81.862126232s
DC-Time-Estimation: 81.862126232 versus expected 219 (r/m: 1.6752298050425263 ; m: 81.862126232)