pbseqlib →
5.3.3+dfsg-4 →
armhf → 2020-02-04 11:20:43
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| pbseqlib 5.3.3+dfsg-4 (armhf) Tue, 04 Feb 2020 11:10:10 +0000 |
+==============================================================================+
Package: pbseqlib
Version: 5.3.3+dfsg-4
Source Version: 5.3.3+dfsg-4
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-c9f20e26-56b9-4b4a-93cd-0698a886538e' 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 [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.7 MB]
Fetched 24.2 MB in 10s (2399 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: 'pbseqlib' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/pbseqlib.git
Please use:
git clone https://salsa.debian.org/med-team/pbseqlib.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 982 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main pbseqlib 5.3.3+dfsg-4 (dsc) [2429 B]
Get:2 http://172.17.0.1/private bullseye-staging/main pbseqlib 5.3.3+dfsg-4 (tar) [970 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main pbseqlib 5.3.3+dfsg-4 (diff) [8976 B]
Fetched 982 kB in 0s (3270 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/pbseqlib-LfdBaM/pbseqlib-5.3.3+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/pbseqlib-LfdBaM' 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-AENXJh/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-AENXJh/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-AENXJh/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-AENXJh/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Packages [431 B]
Fetched 2107 B in 0s (9798 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 0 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12214 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), meson, pkg-config, cmake, googletest, libgtest-dev, zlib1g-dev, libhdf5-dev, libboost-dev, libpbbam-dev (>= 0.18.0+dfsg-1~), libpbcopper-dev, libhts-dev
Filtered Build-Depends: debhelper-compat (= 12), meson, pkg-config, cmake, googletest, libgtest-dev, zlib1g-dev, libhdf5-dev, libboost-dev, libpbbam-dev (>= 0.18.0+dfsg-1~), libpbcopper-dev, libhts-dev
dpkg-deb: building package 'sbuild-build-depends-pbseqlib-dummy' in '/<<BUILDDIR>>/resolver-AENXJh/apt_archive/sbuild-build-depends-pbseqlib-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-pbseqlib-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-AENXJh/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Sources [579 B]
Get:5 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ Packages [662 B]
Fetched 2574 B in 0s (11.8 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install pbseqlib 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 hdf5-helpers intltool-debian libaec-dev
libaec0 libarchive-zip-perl libarchive13 libboost-dev libboost1.67-dev
libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0
libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0
libgssapi-krb5-2 libgtest-dev libhdf5-103 libhdf5-cpp-103 libhdf5-dev
libhts-dev libhts3 libicu63 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblzma-dev
libmagic-mgc libmagic1 libmpdec2 libncurses6 libnghttp2-14 libpbbam-dev
libpbbam0.23.0 libpbcopper-dev libpipeline1 libprocps7 libpsl5
libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib librhash0
librtmp1 libsigsegv2 libssh2-1 libssl-dev libssl1.1 libsub-override-perl
libsz2 libtinfo5 libtool libuchardet0 libuv1 libxml2 m4 man-db meson
mime-support ninja-build pkg-config po-debconf procps python3
python3-minimal python3.7 python3.7-minimal sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation cmake-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev
groff lrzip libboost-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-math1.67-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 liblzma-doc libssl-doc libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl python3-doc python3-tk python3-venv python3.7-venv
python3.7-doc binfmt-support
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 hdf5-helpers intltool-debian libaec-dev
libaec0 libarchive-zip-perl libarchive13 libboost-dev libboost1.67-dev
libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0
libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0
libgssapi-krb5-2 libgtest-dev libhdf5-103 libhdf5-cpp-103 libhdf5-dev
libhts-dev libhts3 libicu63 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblzma-dev
libmagic-mgc libmagic1 libmpdec2 libncurses6 libnghttp2-14 libpbbam-dev
libpbbam0.23.0 libpbcopper-dev libpipeline1 libprocps7 libpsl5
libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib librhash0
librtmp1 libsigsegv2 libssh2-1 libssl-dev libssl1.1 libsub-override-perl
libsz2 libtinfo5 libtool libuchardet0 libuv1 libxml2 m4 man-db meson
mime-support ninja-build pkg-config po-debconf procps python3
python3-minimal python3.7 python3.7-minimal
sbuild-build-depends-pbseqlib-dummy sensible-utils zlib1g-dev
0 upgraded, 94 newly installed, 0 to remove and 0 not upgraded.
Need to get 53.0 MB of archives.
After this operation, 294 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-AENXJh/apt_archive ./ sbuild-build-depends-pbseqlib-dummy 0.invalid.0 [948 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 6.1+20191019-1 [316 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 2.9.0-2 [1261 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libpython3.7-minimal armhf 3.7.6-1+b1 [585 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf python3.7-minimal armhf 3.7.6-1+b1 [1525 kB]
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Get:14 http://172.17.0.1/private bullseye-staging/main armhf mime-support all 3.64 [37.8 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf libmpdec2 armhf 2.4.2-2 [67.2 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf libpython3.7-stdlib armhf 3.7.6-1+b1 [1669 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf python3.7 armhf 3.7.6-1+b1 [351 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.7.5-3 [20.2 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf python3 armhf 3.7.5-3 [62.1 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20191019-1 [79.5 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libprocps7 armhf 2:3.3.15-2 [58.9 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf procps armhf 2:3.3.15-2 [235 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-4 [262 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-4 [112 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-4 [66.9 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf cmake-data all 3.15.4-1+rpi1 [1580 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libarchive13 armhf 3.4.0-1+b1 [292 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.7-6 [261 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6-6 [14.0 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.17-6+b1 [61.5 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.17-6+b1 [112 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.17-6+b1 [316 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.17-6+b1 [134 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.40.0-1+b2 [74.2 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.20.2-2 [52.6 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b1 [54.3 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.67.0-2 [284 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libjsoncpp1 armhf 1.7.4-3.1 [65.8 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf librhash0 armhf 1.3.9-1 [133 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libuv1 armhf 1.33.1-3 [112 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf cmake armhf 3.15.4-1+rpi1 [2540 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.9 [183 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.3-2 [23.7 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.3-2 [14.7 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.4-1+rpi1 [1137 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.9 [994 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf googletest all 1.10.0-2 [626 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf hdf5-helpers armhf 1.10.4+repack-10 [35.2 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libaec0 armhf 1.0.4-1 [20.0 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libsz2 armhf 1.0.4-1 [6664 B]
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Get:73 http://172.17.0.1/private bullseye-staging/main armhf libboost1.67-dev armhf 1.67.0-17 [8389 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libboost-dev armhf 1.67.0.2+b11 [4464 B]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libdeflate0 armhf 1.5-1 [78.0 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 9.2.1-25+rpi1 [231 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libgtest-dev armhf 1.10.0-2 [218 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libhdf5-103 armhf 1.10.4+repack-10 [1259 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libhdf5-cpp-103 armhf 1.10.4+repack-10 [121 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:1.5.2-2+b1 [110 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo-dev armhf 1:1.5.2-2+b1 [179 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libjpeg-dev all 1:1.5.2-2 [57.5 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libhdf5-dev armhf 1.10.4+repack-10 [2221 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libhts3 armhf 1.10.2-2 [327 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf liblzma-dev armhf 5.2.4-1 [203 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libhts-dev armhf 1.10.2-2 [4784 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf libpbbam0.23.0 armhf 0.23.0+dfsg-1+rpi1+b1 [522 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf libssl-dev armhf 1.1.1d-2 [1570 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libpbbam-dev armhf 0.23.0+dfsg-1+rpi1+b1 [85.8 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf libpbcopper-dev armhf 0.4.1+dfsg-3 [299 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf ninja-build armhf 1.10.0-1 [90.4 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf meson all 0.52.1-1 [358 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf pkg-config armhf 0.29-6 [59.8 kB]
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Setting up libpython3.7-stdlib:armhf (3.7.6-1+b1) ...
Setting up libgtest-dev:armhf (1.10.0-2) ...
Setting up libtool (2.4.6-11) ...
Setting up libarchive13:armhf (3.4.0-1+b1) ...
Setting up libaec-dev:armhf (1.0.4-1) ...
Setting up libjpeg-dev (1:1.5.2-2) ...
Setting up m4 (1.4.18-4) ...
Setting up libhdf5-103:armhf (1.10.4+repack-10) ...
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 libgssapi-krb5-2:armhf (1.17-6+b1) ...
Setting up libcroco3:armhf (0.6.13-1) ...
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 libpython3-stdlib:armhf (3.7.5-3) ...
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 python3.7 (3.7.6-1+b1) ...
Setting up gettext (0.19.8.1-10) ...
Setting up libhdf5-cpp-103:armhf (1.10.4+repack-10) ...
Setting up libcurl3-gnutls:armhf (7.67.0-2) ...
Setting up python3 (3.7.5-3) ...
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-10) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5-serial.pc to provide /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5.pc (hdf5.pc) in auto mode
Setting up cmake (3.15.4-1+rpi1) ...
Setting up libhts3:armhf (1.10.2-2) ...
Setting up po-debconf (1.0.21) ...
Setting up libhts-dev:armhf (1.10.2-2) ...
Setting up meson (0.52.1-1) ...
Setting up libpbbam0.23.0:armhf (0.23.0+dfsg-1+rpi1+b1) ...
Setting up libpbbam-dev (0.23.0+dfsg-1+rpi1+b1) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (12.9) ...
Setting up sbuild-build-depends-pbseqlib-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-7+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-58-generic armhf (armv8l)
Toolchain package versions: binutils_2.33.90.20200122-2+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-25+rpi1 gcc-9_9.2.1-25+rpi1 libc6-dev_2.29-7+rpi1 libstdc++-9-dev_9.2.1-25+rpi1 libstdc++6_9.2.1-25+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
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+rpi1 base-passwd_3.5.47 bash_5.0-5 binutils_2.33.90.20200122-2+rpi1 binutils-arm-linux-gnueabihf_2.33.90.20200122-2+rpi1 binutils-common_2.33.90.20200122-2+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 cmake_3.15.4-1+rpi1 cmake-data_3.15.4-1+rpi1 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.2.1-25+rpi1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.9 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-2 diffutils_1:3.7-3 dirmngr_2.2.19-1 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+rpi1 g++-9_9.2.1-25+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-9_9.2.1-25+rpi1 gcc-9-base_9.2.1-25+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.19-1 gnupg-l10n_2.2.19-1 gnupg-utils_2.2.19-1 googletest_1.10.0-2 gpg_2.2.19-1 gpg-agent_2.2.19-1 gpg-wks-client_2.2.19-1 gpg-wks-server_2.2.19-1 gpgconf_2.2.19-1 gpgsm_2.2.19-1 gpgv_2.2.19-1 grep_3.3-1 groff-base_1.22.4-4 gzip_1.9-3 hdf5-helpers_1.10.4+repack-10 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-2 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 libasan5_9.2.1-25+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-25+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbinutils_2.33.90.20200122-2+rpi1 libblkid1_2.34-0.1 libboost-dev_1.67.0.2+b11 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_2.29-7+rpi1 libc-dev-bin_2.29-7+rpi1 libc6_2.29-7+rpi1 libc6-dev_2.29-7+rpi1 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-25+rpi1 libcom-err2_1.45.5-2 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.10-10+b5 libcrypt1_1:4.4.10-10+b5 libctf-nobfd0_2.33.90.20200122-2+rpi1 libctf0_2.33.90.20200122-2+rpi1 libcurl3-gnutls_7.67.0-2 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.9 libdeflate0_1.5-1 libdpkg-perl_1.19.7 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 libgcc-9-dev_9.2.1-25+rpi1 libgcc1_1:9.2.1-25+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_9.2.1-25+rpi1 libglib2.0-0_2.62.4-1+rpi1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.11.1-2 libgomp1_9.2.1-25+rpi1 libgpg-error0_1.36-7 libgssapi-krb5-2_1.17-6+b1 libgtest-dev_1.10.0-2 libhdf5-103_1.10.4+repack-10 libhdf5-cpp-103_1.10.4+repack-10 libhdf5-dev_1.10.4+repack-10 libhogweed5_3.5.1+really3.5.1-2 libhts-dev_1.10.2-2 libhts3_1.10.2-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl22_0.22-2 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libjsoncpp1_1.7.4-3.1 libk5crypto3_1.17-6+b1 libkeyutils1_1.6-6 libkrb5-3_1.17-6+b1 libkrb5support0_1.17-6+b1 libksba8_1.3.5-2 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1 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 libmpdec2_2.4.2-2 libmpfr6_4.0.2-1 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1+b2 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2+b1 libpam-cap_1:2.27-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpbbam-dev_0.23.0+dfsg-1+rpi1+b1 libpbbam0.23.0_0.23.0+dfsg-1+rpi1+b1 libpbcopper-dev_0.4.1+dfsg-3 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2 libprocps7_2:3.3.15-2 libpsl5_0.20.2-2 libpython3-stdlib_3.7.5-3 libpython3.7-minimal_3.7.6-1+b1 libpython3.7-stdlib_3.7.6-1+b1 libreadline7_7.0-5 libreadline8_8.0-3 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+rpi1 libselinux1_3.0-1 libsemanage-common_3.0-1 libsemanage1_3.0-1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.31.0+really3.30.1+fossil191229-1 libss2_1.45.5-2 libssh2-1_1.8.0-2.1 libssl-dev_1.1.1d-2 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-25+rpi1 libstdc++6_9.2.1-25+rpi1 libsub-override-perl_0.09-2 libsystemd0_244.1-1+rpi1 libsz2_1.0.4-1 libtasn1-6_4.15.0-2 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-25+rpi1 libuchardet0_0.0.6-3 libudev1_244.1-1+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.33.1-3 libxml2_2.9.4+dfsg1-8 libzstd1_1.4.4+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8-1 logsave_1.45.5-2 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-2 mawk_1.3.4.20200120-1 meson_0.52.1-1 mime-support_3.64 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_6.0 ninja-build_1.10.0-1 passwd_1:4.8-1 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 pkg-config_0.29-6 po-debconf_1.0.21 procps_2:3.3.15-2 python3_3.7.5-3 python3-minimal_3.7.5-3 python3.7_3.7.6-1+b1 python3.7-minimal_3.7.6-1+b1 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-pbseqlib-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 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Wed Jan 29 14:36:02 2020 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 ./pbseqlib_5.3.3+dfsg-4.dsc
dpkg-source: info: extracting pbseqlib in /<<BUILDDIR>>/pbseqlib-5.3.3+dfsg
dpkg-source: info: unpacking pbseqlib_5.3.3+dfsg.orig.tar.xz
dpkg-source: info: unpacking pbseqlib_5.3.3+dfsg-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying hdf5-1.10.1-support.patch
dpkg-source: info: applying hdf5-1.10.0-support.patch
dpkg-source: info: applying meson.patch
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-c9f20e26-56b9-4b4a-93cd-0698a886538e
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package pbseqlib
dpkg-buildpackage: info: source version 5.3.3+dfsg-4
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg'
dh_auto_clean
find -name defines.mk -delete
rm -f pbdata/libconfig.h
make[1]: Leaving directory '/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg'
dh_clean
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
cd obj-arm-linux-gnueabihf && LC_ALL=C.UTF-8 meson .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/arm-linux-gnueabihf
The Meson build system
Version: 0.52.1
Source dir: /<<BUILDDIR>>/pbseqlib-5.3.3+dfsg
Build dir: /<<BUILDDIR>>/pbseqlib-5.3.3+dfsg/obj-arm-linux-gnueabihf
Build type: native build
Project name: libblasr
Project version: 5.3.3
Appending CXXFLAGS from environment: '-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14'
Appending LDFLAGS from environment: ['-Wl,-z,relro', '-Wl,-z,now']
Appending CPPFLAGS from environment: '-Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -I/usr/include/hdf5/serial'
Appending CXXFLAGS from environment: '-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14'
Appending LDFLAGS from environment: ['-Wl,-z,relro', '-Wl,-z,now']
Appending CPPFLAGS from environment: '-Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -I/usr/include/hdf5/serial'
C++ compiler for the host machine: c++ (gcc 9.2.1 "c++ (Raspbian 9.2.1-25+rpi1) 9.2.1 20200123")
C++ linker for the host machine: GNU ld.bfd 2.33.90.20200122
Host machine cpu family: arm
Host machine cpu: armv8l
Compiler for C++ supports arguments -Wno-delete-non-virtual-dtor -Wdelete-non-virtual-dtor: YES
Compiler for C++ supports arguments -Wno-unused-variable -Wunused-variable: YES
Compiler for C++ supports arguments -Wno-non-virtual-dtor -Wnon-virtual-dtor: YES
Run-time dependency Boost found: YES 1.67
Found pkg-config: /usr/bin/pkg-config (0.29)
Run-time dependency pbbam found: YES 0.23.0
Run-time dependency zlib found: YES 1.2.11
Library rt found: YES
WARNING: Project targetting '>= 0.46.0' but tried to use feature introduced in '0.49.0': disabler arg in dependency
Run-time dependency HDF5 for cpp found: YES 1.10.4
Configuring LibBlasrConfig.h using configuration
Program tools/check-formatting found: YES (/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg/tools/check-formatting)
Run-time dependency GTest found: YES 1.10.0
Build targets in project: 2
WARNING: Project specifies a minimum meson_version '>= 0.46.0' but uses features which were added in newer versions:
* 0.49.0: {'disabler arg in dependency'}
Option buildtype is: plain [default: release]
Found ninja-1.10.0 at /usr/bin/ninja
dh_auto_build -a
cd obj-arm-linux-gnueabihf && LC_ALL=C.UTF-8 ninja -j4 -v
[1/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_BufferedHDF2DArray.cpp.o' -MF 'blasr@sha/hdf_BufferedHDF2DArray.cpp.o.d' -o 'blasr@sha/hdf_BufferedHDF2DArray.cpp.o' -c ../hdf/BufferedHDF2DArray.cpp
[2/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_DatasetCollection.cpp.o' -MF 'blasr@sha/hdf_DatasetCollection.cpp.o.d' -o 'blasr@sha/hdf_DatasetCollection.cpp.o' -c ../hdf/DatasetCollection.cpp
[3/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_BufferedHDFArray.cpp.o' -MF 'blasr@sha/hdf_BufferedHDFArray.cpp.o.d' -o 'blasr@sha/hdf_BufferedHDFArray.cpp.o' -c ../hdf/BufferedHDFArray.cpp
[4/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFAtom.cpp.o' -MF 'blasr@sha/hdf_HDFAtom.cpp.o.d' -o 'blasr@sha/hdf_HDFAtom.cpp.o' -c ../hdf/HDFAtom.cpp
[5/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFAlnGroupGroup.cpp.o' -MF 'blasr@sha/hdf_HDFAlnGroupGroup.cpp.o.d' -o 'blasr@sha/hdf_HDFAlnGroupGroup.cpp.o' -c ../hdf/HDFAlnGroupGroup.cpp
[6/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFAttributable.cpp.o' -MF 'blasr@sha/hdf_HDFAttributable.cpp.o.d' -o 'blasr@sha/hdf_HDFAttributable.cpp.o' -c ../hdf/HDFAttributable.cpp
[7/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFAlnInfoGroup.cpp.o' -MF 'blasr@sha/hdf_HDFAlnInfoGroup.cpp.o.d' -o 'blasr@sha/hdf_HDFAlnInfoGroup.cpp.o' -c ../hdf/HDFAlnInfoGroup.cpp
[8/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFCmpSupportedFields.cpp.o' -MF 'blasr@sha/hdf_HDFCmpSupportedFields.cpp.o.d' -o 'blasr@sha/hdf_HDFCmpSupportedFields.cpp.o' -c ../hdf/HDFCmpSupportedFields.cpp
[9/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFData.cpp.o' -MF 'blasr@sha/hdf_HDFData.cpp.o.d' -o 'blasr@sha/hdf_HDFData.cpp.o' -c ../hdf/HDFData.cpp
[10/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFFile.cpp.o' -MF 'blasr@sha/hdf_HDFFile.cpp.o.d' -o 'blasr@sha/hdf_HDFFile.cpp.o' -c ../hdf/HDFFile.cpp
[11/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFBaxWriter.cpp.o' -MF 'blasr@sha/hdf_HDFBaxWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFBaxWriter.cpp.o' -c ../hdf/HDFBaxWriter.cpp
[12/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFGroup.cpp.o' -MF 'blasr@sha/hdf_HDFGroup.cpp.o.d' -o 'blasr@sha/hdf_HDFGroup.cpp.o' -c ../hdf/HDFGroup.cpp
[13/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFCmpExperimentGroup.cpp.o' -MF 'blasr@sha/hdf_HDFCmpExperimentGroup.cpp.o.d' -o 'blasr@sha/hdf_HDFCmpExperimentGroup.cpp.o' -c ../hdf/HDFCmpExperimentGroup.cpp
[14/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFBaseCallsWriter.cpp.o' -MF 'blasr@sha/hdf_HDFBaseCallsWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFBaseCallsWriter.cpp.o' -c ../hdf/HDFBaseCallsWriter.cpp
[15/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFPulseH5Writer.cpp.o' -MF 'blasr@sha/hdf_HDFPulseH5Writer.cpp.o.d' -o 'blasr@sha/hdf_HDFPulseH5Writer.cpp.o' -c ../hdf/HDFPulseH5Writer.cpp
[16/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFNewBasReader.cpp.o' -MF 'blasr@sha/hdf_HDFNewBasReader.cpp.o.d' -o 'blasr@sha/hdf_HDFNewBasReader.cpp.o' -c ../hdf/HDFNewBasReader.cpp
[17/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFPulseDataFile.cpp.o' -MF 'blasr@sha/hdf_HDFPulseDataFile.cpp.o.d' -o 'blasr@sha/hdf_HDFPulseDataFile.cpp.o' -c ../hdf/HDFPulseDataFile.cpp
[18/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFRegionsWriter.cpp.o' -MF 'blasr@sha/hdf_HDFRegionsWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFRegionsWriter.cpp.o' -c ../hdf/HDFRegionsWriter.cpp
[19/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFPulseWriter.cpp.o' -MF 'blasr@sha/hdf_HDFPulseWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFPulseWriter.cpp.o' -c ../hdf/HDFPulseWriter.cpp
[20/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFScanDataReader.cpp.o' -MF 'blasr@sha/hdf_HDFScanDataReader.cpp.o.d' -o 'blasr@sha/hdf_HDFScanDataReader.cpp.o' -c ../hdf/HDFScanDataReader.cpp
[21/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFPulseCallsWriter.cpp.o' -MF 'blasr@sha/hdf_HDFPulseCallsWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFPulseCallsWriter.cpp.o' -c ../hdf/HDFPulseCallsWriter.cpp
[22/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFRegionTableReader.cpp.o' -MF 'blasr@sha/hdf_HDFRegionTableReader.cpp.o.d' -o 'blasr@sha/hdf_HDFRegionTableReader.cpp.o' -c ../hdf/HDFRegionTableReader.cpp
[23/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFScanDataWriter.cpp.o' -MF 'blasr@sha/hdf_HDFScanDataWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFScanDataWriter.cpp.o' -c ../hdf/HDFScanDataWriter.cpp
[24/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFWriterBase.cpp.o' -MF 'blasr@sha/hdf_HDFWriterBase.cpp.o.d' -o 'blasr@sha/hdf_HDFWriterBase.cpp.o' -c ../hdf/HDFWriterBase.cpp
[25/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFZMWReader.cpp.o' -MF 'blasr@sha/hdf_HDFZMWReader.cpp.o.d' -o 'blasr@sha/hdf_HDFZMWReader.cpp.o' -c ../hdf/HDFZMWReader.cpp
[26/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_sdp_SDPFragment.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_sdp_SDPFragment.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_sdp_SDPFragment.cpp.o' -c ../alignment/algorithms/alignment/sdp/SDPFragment.cpp
[27/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFZMWMetricsWriter.cpp.o' -MF 'blasr@sha/hdf_HDFZMWMetricsWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFZMWMetricsWriter.cpp.o' -c ../hdf/HDFZMWMetricsWriter.cpp
[28/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_sdp_SparseDynamicProgramming.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_sdp_SparseDynamicProgramming.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_sdp_SparseDynamicProgramming.cpp.o' -c ../alignment/algorithms/alignment/sdp/SparseDynamicProgramming.cpp
[29/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_BaseScoreFunction.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_BaseScoreFunction.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_BaseScoreFunction.cpp.o' -c ../alignment/algorithms/alignment/BaseScoreFunction.cpp
[30/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_AlignmentUtils.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_AlignmentUtils.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_AlignmentUtils.cpp.o' -c ../alignment/algorithms/alignment/AlignmentUtils.cpp
[31/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFUtils.cpp.o' -MF 'blasr@sha/hdf_HDFUtils.cpp.o.d' -o 'blasr@sha/hdf_HDFUtils.cpp.o' -c ../hdf/HDFUtils.cpp
[32/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/hdf_HDFZMWWriter.cpp.o' -MF 'blasr@sha/hdf_HDFZMWWriter.cpp.o.d' -o 'blasr@sha/hdf_HDFZMWWriter.cpp.o' -c ../hdf/HDFZMWWriter.cpp
[33/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_ExtendAlign.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_ExtendAlign.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_ExtendAlign.cpp.o' -c ../alignment/algorithms/alignment/ExtendAlign.cpp
[34/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_GuidedAlign.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_GuidedAlign.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_GuidedAlign.cpp.o' -c ../alignment/algorithms/alignment/GuidedAlign.cpp
[35/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_ScoreMatrices.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_ScoreMatrices.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_ScoreMatrices.cpp.o' -c ../alignment/algorithms/alignment/ScoreMatrices.cpp
[36/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_StringToScoreMatrix.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_StringToScoreMatrix.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_StringToScoreMatrix.cpp.o' -c ../alignment/algorithms/alignment/StringToScoreMatrix.cpp
[37/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_IDSScoreFunction.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_IDSScoreFunction.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_IDSScoreFunction.cpp.o' -c ../alignment/algorithms/alignment/IDSScoreFunction.cpp
[38/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_anchoring_ClusterProbability.cpp.o' -MF 'blasr@sha/alignment_algorithms_anchoring_ClusterProbability.cpp.o.d' -o 'blasr@sha/alignment_algorithms_anchoring_ClusterProbability.cpp.o' -c ../alignment/algorithms/anchoring/ClusterProbability.cpp
[39/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_anchoring_Coordinate.cpp.o' -MF 'blasr@sha/alignment_algorithms_anchoring_Coordinate.cpp.o.d' -o 'blasr@sha/alignment_algorithms_anchoring_Coordinate.cpp.o' -c ../alignment/algorithms/anchoring/Coordinate.cpp
[40/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_KBandAlign.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_KBandAlign.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_KBandAlign.cpp.o' -c ../alignment/algorithms/alignment/KBandAlign.cpp
[41/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_alignment_QualityValueScoreFunction.cpp.o' -MF 'blasr@sha/alignment_algorithms_alignment_QualityValueScoreFunction.cpp.o.d' -o 'blasr@sha/alignment_algorithms_alignment_QualityValueScoreFunction.cpp.o' -c ../alignment/algorithms/alignment/QualityValueScoreFunction.cpp
[42/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_sorting_DifferenceCovers.cpp.o' -MF 'blasr@sha/alignment_algorithms_sorting_DifferenceCovers.cpp.o.d' -o 'blasr@sha/alignment_algorithms_sorting_DifferenceCovers.cpp.o' -c ../alignment/algorithms/sorting/DifferenceCovers.cpp
[43/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o' -MF 'blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o.d' -o 'blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o' -c ../alignment/algorithms/anchoring/BWTSearch.cpp
FAILED: blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o
c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o' -MF 'blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o.d' -o 'blasr@sha/alignment_algorithms_anchoring_BWTSearch.cpp.o' -c ../alignment/algorithms/anchoring/BWTSearch.cpp
In file included from ../alignment/bwt/BWT.hpp:9,
from ../alignment/algorithms/anchoring/BWTSearch.hpp:6,
from ../alignment/algorithms/anchoring/BWTSearch.cpp:1:
../alignment/suffixarray/SuffixArray.hpp: In member function ‘void SuffixArray<T, Sigma, Compare, Tuple>::LarssonBuildSuffixArray(T*, SAIndexLength, Sigma&)’:
../alignment/suffixarray/SuffixArray.hpp:288:44: error: narrowing conversion of ‘4294967295’ from ‘unsigned int’ to ‘long int’ [-Wnarrowing]
288 | LarssonSuffixSort<SAIndex, UINT_MAX> sorter;
| ^
../alignment/suffixarray/SuffixArray.hpp:289:84: error: ‘sorter’ cannot be used as a function
289 | sorter(index, p, ((SAIndex)targetLength), ((SAIndex)maxVal + 1), (SAIndex)1);
| ^
[44/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_anchoring_FindMaxInterval.cpp.o' -MF 'blasr@sha/alignment_algorithms_anchoring_FindMaxInterval.cpp.o.d' -o 'blasr@sha/alignment_algorithms_anchoring_FindMaxInterval.cpp.o' -c ../alignment/algorithms/anchoring/FindMaxInterval.cpp
[45/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_sorting_MultikeyQuicksort.cpp.o' -MF 'blasr@sha/alignment_algorithms_sorting_MultikeyQuicksort.cpp.o.d' -o 'blasr@sha/alignment_algorithms_sorting_MultikeyQuicksort.cpp.o' -c ../alignment/algorithms/sorting/MultikeyQuicksort.cpp
[46/186] c++ -Iblasr@sha -I. -I.. -I../ -I/usr/include/hdf5/serial -fdiagnostics-color=always -pipe -D_FILE_OFFSET_BITS=64 -std=c++11 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbseqlib-5.3.3+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++14 -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_HDF5_1_10_1 -O3 -fPIC -Wno-delete-non-virtual-dtor -Wno-unused-variable -Wno-non-virtual-dtor -MD -MQ 'blasr@sha/alignment_algorithms_sorting_LightweightSuffixArray.cpp.o' -MF 'blasr@sha/alignment_algorithms_sorting_LightweightSuffixArray.cpp.o.d' -o 'blasr@sha/alignment_algorithms_sorting_LightweightSuffixArray.cpp.o' -c ../alignment/algorithms/sorting/LightweightSuffixArray.cpp
ninja: build stopped: subcommand failed.
dh_auto_build: error: cd obj-arm-linux-gnueabihf && LC_ALL=C.UTF-8 ninja -j4 -v returned exit code 1
make: *** [debian/rules:25: build-arch] Error 25
dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2020-02-04T11:20:40Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 30028
Build-Time: 69
Distribution: bullseye-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 540
Job: pbseqlib_5.3.3+dfsg-4
Machine Architecture: armhf
Package: pbseqlib
Package-Time: 630
Source-Version: 5.3.3+dfsg-4
Space: 30028
Status: attempted
Version: 5.3.3+dfsg-4
--------------------------------------------------------------------------------
Finished at 2020-02-04T11:20:40Z
Build needed 00:10:30, 30028k disk space