sbuild (Debian sbuild) 0.85.0 (04 January 2023) on debian-ci-siliconvalley

+==============================================================================+
| lumpy-sv 0.3.1+dfsg-8 (armel)                Sat, 01 Nov 2025 17:30:49 +0000 |
+==============================================================================+

Package: lumpy-sv
Version: 0.3.1+dfsg-8
Source Version: 0.3.1+dfsg-8
Distribution: unstable
Machine Architecture: amd64
Host Architecture: armel
Build Architecture: amd64
Build Profiles: cross nocheck
Build Type: any

I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-a2f6fd91-a149-41c9-b3bf-95fee609dcdf' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/lumpy-sv-RCC1L1/resolver-LkwEex' with '<<RESOLVERDIR>>'

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

Get:1 http://localhost:3142/debian unstable InRelease [207 kB]
Get:2 http://localhost:3142/debian unstable/contrib Sources.diff/Index [63.3 kB]
Get:3 http://localhost:3142/debian unstable/non-free Sources.diff/Index [63.3 kB]
Get:4 http://localhost:3142/debian unstable/main Sources.diff/Index [63.6 kB]
Get:5 http://localhost:3142/debian unstable/main amd64 Packages.diff/Index [63.6 kB]
Get:6 http://localhost:3142/debian unstable/contrib Sources T-2025-11-01-1407.59-F-2025-11-01-0804.43.pdiff [312 B]
Get:7 http://localhost:3142/debian unstable/non-free Sources T-2025-11-01-1407.59-F-2025-11-01-1407.59.pdiff [31 B]
Get:8 http://localhost:3142/debian unstable/main Sources T-2025-11-01-1407.59-F-2025-11-01-0206.13.pdiff [44.9 kB]
Get:6 http://localhost:3142/debian unstable/contrib Sources T-2025-11-01-1407.59-F-2025-11-01-0804.43.pdiff [312 B]
Get:8 http://localhost:3142/debian unstable/main Sources T-2025-11-01-1407.59-F-2025-11-01-0206.13.pdiff [44.9 kB]
Get:7 http://localhost:3142/debian unstable/non-free Sources T-2025-11-01-1407.59-F-2025-11-01-1407.59.pdiff [31 B]
Get:9 http://localhost:3142/debian unstable/main amd64 Packages T-2025-11-01-1407.59-F-2025-11-01-0206.13.pdiff [33.1 kB]
Get:9 http://localhost:3142/debian unstable/main amd64 Packages T-2025-11-01-1407.59-F-2025-11-01-0206.13.pdiff [33.1 kB]
Get:10 http://localhost:3142/debian unstable/main armel Packages [9626 kB]
Fetched 10.2 MB in 3s (3760 kB/s)
Reading package lists...
Reading package lists...
Building dependency tree...
Reading state information...
Calculating upgrade...
The following packages will be upgraded:
  linux-libc-dev
1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Need to get 2533 kB of archives.
After this operation, 29.7 kB of additional disk space will be used.
Get:1 http://localhost:3142/debian unstable/main amd64 linux-libc-dev all 6.17.6-1 [2533 kB]
Fetched 2533 kB in 0s (133 MB/s)
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(Reading database ... 12906 files and directories currently installed.)
Preparing to unpack .../linux-libc-dev_6.17.6-1_all.deb ...
Unpacking linux-libc-dev (6.17.6-1) over (6.16.12-2) ...
Setting up linux-libc-dev (6.17.6-1) ...

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


Check APT
---------

Checking available source versions...

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

Reading package lists...
NOTICE: 'lumpy-sv' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/lumpy-sv.git
Please use:
git clone https://salsa.debian.org/med-team/lumpy-sv.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 39.4 MB of source archives.
Get:1 http://localhost:3142/debian unstable/main lumpy-sv 0.3.1+dfsg-8 (dsc) [1594 B]
Get:2 http://localhost:3142/debian unstable/main lumpy-sv 0.3.1+dfsg-8 (tar) [112 kB]
Get:3 http://localhost:3142/debian unstable/main lumpy-sv 0.3.1+dfsg-8 (diff) [39.3 MB]
Fetched 39.4 MB in 4s (10.7 MB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/lumpy-sv-RCC1L1/lumpy-sv-0.3.1+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/lumpy-sv-RCC1L1' with '<<BUILDDIR>>'

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


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

Merged Build-Depends: debhelper-compat (= 13), libbamtools-dev, libfastahack-dev, libgzstream-dev, libsqlite3-dev, libhts-dev, libssl-dev, libcurl4-gnutls-dev, samtools, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64, libc-dev:armel, libstdc++-dev:armel
Filtered Build-Depends: debhelper-compat (= 13), libbamtools-dev, libfastahack-dev, libgzstream-dev, libsqlite3-dev, libhts-dev, libssl-dev, libcurl4-gnutls-dev, samtools, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armel:amd64, libc-dev:armel, libstdc++-dev:armel
dpkg-deb: warning: root directory /<<RESOLVERDIR>>/sbuild-build-depends-main-dummy has unusual owner or group 1000:119
dpkg-deb: hint: you might need to pass --root-owner-group, see <https://wiki.debian.org/Teams/Dpkg/RootlessBuilds> for further details
dpkg-deb: warning: ignoring 1 warning about the control file(s)
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 [609 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [837 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [880 B]
Fetched 2326 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...
Execute external solver...
The following additional packages will be installed:
  autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabi
  bsdextrautils comerr-dev:armel cpp-15-arm-linux-gnueabi
  cpp-arm-linux-gnueabi crossbuild-essential-armel debhelper dh-autoreconf
  dh-strip-nondeterminism dwz fakeroot file g++-15-arm-linux-gnueabi
  g++-arm-linux-gnueabi gcc-15-arm-linux-gnueabi gcc-15-arm-linux-gnueabi-base
  gcc-15-base:armel gcc-15-cross-base-ports gcc-arm-linux-gnueabi gettext
  gettext-base groff-base intltool-debian krb5-multidev:armel
  libarchive-zip-perl libasan8:armel libasan8-armel-cross libatomic1:armel
  libatomic1-armel-cross libbamtools-dev:armel libbamtools2.5.3:armel
  libbrotli-dev:armel libbrotli1:armel libbz2-1.0:armel libbz2-dev:armel
  libc6:armel libc6-armel-cross libc6-dev:armel libc6-dev-armel-cross
  libcom-err2:armel libcrypt-dev:armel libcrypt1:armel
  libcurl3t64-gnutls:armel libcurl4-gnutls-dev:armel libdb5.3t64:armel
  libdebhelper-perl libdeflate-dev:armel libdeflate0:armel libelf1t64
  libevent-2.1-7t64:armel libfakeroot libfastahack-dev:armel
  libfastahack0:armel libffi8:armel libfile-stripnondeterminism-perl
  libgcc-15-dev:armel libgcc-15-dev-armel-cross libgcc-s1:armel
  libgcc-s1-armel-cross libgmp-dev:armel libgmp10:armel libgmpxx4ldbl:armel
  libgnutls-dane0t64:armel libgnutls-openssl27t64:armel libgnutls28-dev:armel
  libgnutls30t64:armel libgomp1:armel libgomp1-armel-cross
  libgssapi-krb5-2:armel libgssrpc4t64:armel libgzstream-dev:armel
  libgzstream0:armel libhogweed6t64:armel libhts-dev:armel libhts3t64:armel
  libhtscodecs2:armel libidn2-0:armel libidn2-dev:armel libk5crypto3:armel
  libkadm5clnt-mit12:armel libkadm5srv-mit12:armel libkdb5-10t64:armel
  libkeyutils1:armel libkrb5-3:armel libkrb5-dev:armel libkrb5support0:armel
  libldap-dev:armel libldap2:armel liblzma-dev:armel liblzma5:armel
  libmagic-mgc libmagic1t64 libncurses6:armel libnettle8t64:armel
  libnghttp2-14:armel libnghttp2-dev:armel libnghttp3-9:armel
  libnghttp3-dev:armel libngtcp2-16:armel libngtcp2-crypto-gnutls-dev:armel
  libngtcp2-crypto-gnutls8:armel libngtcp2-dev:armel libp11-kit-dev:armel
  libp11-kit0:armel libpipeline1 libpkgconf3 libpsl-dev:armel libpsl5t64:armel
  librtmp-dev:armel librtmp1:armel libsasl2-2:armel libsasl2-modules-db:armel
  libsqlite3-0:armel libsqlite3-dev:armel libssh2-1-dev:armel
  libssh2-1t64:armel libssl-dev:armel libssl3t64:armel libstdc++-15-dev:armel
  libstdc++-15-dev-armel-cross libstdc++6:armel libstdc++6-armel-cross
  libtasn1-6:armel libtasn1-6-dev:armel libtinfo6:armel libtool
  libubsan1:armel libubsan1-armel-cross libuchardet0 libunbound8:armel
  libunistring5 libunistring5:armel libxml2-16 libzstd-dev:armel
  libzstd1:armel linux-libc-dev-armel-cross m4 man-db nettle-dev:armel
  pkgconf:armel pkgconf-bin po-debconf samtools:armel sensible-utils
  zlib1g:armel zlib1g-dev:armel
Suggested packages:
  autoconf-archive gnu-standards autoconf-doc binutils-doc doc-base:armel
  gcc-15-locales cpp-15-doc cpp-doc dh-make gcc-15-doc manpages-dev flex bison
  gdb-arm-linux-gnueabi gcc-doc gettext-doc libasprintf-dev libgettextpo-dev
  gnulib-l10n groff krb5-doc:armel libbamtools-doc:armel glibc-doc:armel
  libc-l10n:armel locales:armel libnss-nis:armel libnss-nisplus:armel
  manpages-dev:armel libcurl4-doc:armel libidn-dev:armel gmp-doc:armel
  libgmp10-doc:armel libmpfr-dev:armel dns-root-data:armel gnutls-bin:armel
  gnutls-doc:armel krb5-user:armel liblzma-doc:armel libnghttp2-doc:armel
  p11-kit-doc:armel sqlite3-doc:armel libssl-doc:armel libstdc++-15-doc:armel
  libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser
  libmail-box-perl cwltool:armel
Recommended packages:
  curl | wget | lynx bzip2-doc:armel ca-certificates:armel
  libarchive-cpio-perl krb5-locales:armel libldap-common:armel libgpm2:armel
  publicsuffix:armel libsasl2-modules:armel libtasn1-doc:armel libltdl-dev
  libmail-sendmail-perl
The following NEW packages will be installed:
  autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabi
  bsdextrautils comerr-dev:armel cpp-15-arm-linux-gnueabi
  cpp-arm-linux-gnueabi crossbuild-essential-armel debhelper dh-autoreconf
  dh-strip-nondeterminism dwz fakeroot file g++-15-arm-linux-gnueabi
  g++-arm-linux-gnueabi gcc-15-arm-linux-gnueabi gcc-15-arm-linux-gnueabi-base
  gcc-15-base:armel gcc-15-cross-base-ports gcc-arm-linux-gnueabi gettext
  gettext-base groff-base intltool-debian krb5-multidev:armel
  libarchive-zip-perl libasan8:armel libasan8-armel-cross libatomic1:armel
  libatomic1-armel-cross libbamtools-dev:armel libbamtools2.5.3:armel
  libbrotli-dev:armel libbrotli1:armel libbz2-1.0:armel libbz2-dev:armel
  libc6:armel libc6-armel-cross libc6-dev:armel libc6-dev-armel-cross
  libcom-err2:armel libcrypt-dev:armel libcrypt1:armel
  libcurl3t64-gnutls:armel libcurl4-gnutls-dev:armel libdb5.3t64:armel
  libdebhelper-perl libdeflate-dev:armel libdeflate0:armel libelf1t64
  libevent-2.1-7t64:armel libfakeroot libfastahack-dev:armel
  libfastahack0:armel libffi8:armel libfile-stripnondeterminism-perl
  libgcc-15-dev:armel libgcc-15-dev-armel-cross libgcc-s1:armel
  libgcc-s1-armel-cross libgmp-dev:armel libgmp10:armel libgmpxx4ldbl:armel
  libgnutls-dane0t64:armel libgnutls-openssl27t64:armel libgnutls28-dev:armel
  libgnutls30t64:armel libgomp1:armel libgomp1-armel-cross
  libgssapi-krb5-2:armel libgssrpc4t64:armel libgzstream-dev:armel
  libgzstream0:armel libhogweed6t64:armel libhts-dev:armel libhts3t64:armel
  libhtscodecs2:armel libidn2-0:armel libidn2-dev:armel libk5crypto3:armel
  libkadm5clnt-mit12:armel libkadm5srv-mit12:armel libkdb5-10t64:armel
  libkeyutils1:armel libkrb5-3:armel libkrb5-dev:armel libkrb5support0:armel
  libldap-dev:armel libldap2:armel liblzma-dev:armel liblzma5:armel
  libmagic-mgc libmagic1t64 libncurses6:armel libnettle8t64:armel
  libnghttp2-14:armel libnghttp2-dev:armel libnghttp3-9:armel
  libnghttp3-dev:armel libngtcp2-16:armel libngtcp2-crypto-gnutls-dev:armel
  libngtcp2-crypto-gnutls8:armel libngtcp2-dev:armel libp11-kit-dev:armel
  libp11-kit0:armel libpipeline1 libpkgconf3 libpsl-dev:armel libpsl5t64:armel
  librtmp-dev:armel librtmp1:armel libsasl2-2:armel libsasl2-modules-db:armel
  libsqlite3-0:armel libsqlite3-dev:armel libssh2-1-dev:armel
  libssh2-1t64:armel libssl-dev:armel libssl3t64:armel libstdc++-15-dev:armel
  libstdc++-15-dev-armel-cross libstdc++6:armel libstdc++6-armel-cross
  libtasn1-6:armel libtasn1-6-dev:armel libtinfo6:armel libtool
  libubsan1:armel libubsan1-armel-cross libuchardet0 libunbound8:armel
  libunistring5 libunistring5:armel libxml2-16 libzstd-dev:armel
  libzstd1:armel linux-libc-dev-armel-cross m4 man-db nettle-dev:armel
  pkgconf:armel pkgconf-bin po-debconf samtools:armel
  sbuild-build-depends-main-dummy:armel sensible-utils zlib1g:armel
  zlib1g-dev:armel
0 upgraded, 151 newly installed, 0 to remove and 0 not upgraded.
Need to get 108 MB of archives.
After this operation, 407 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [964 B]
Get:2 http://localhost:3142/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB]
Get:3 http://localhost:3142/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB]
Get:4 http://localhost:3142/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB]
Get:5 http://localhost:3142/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB]
Get:6 http://localhost:3142/debian unstable/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB]
Get:7 http://localhost:3142/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB]
Get:8 http://localhost:3142/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB]
Get:9 http://localhost:3142/debian unstable/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB]
Get:10 http://localhost:3142/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB]
Get:11 http://localhost:3142/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB]
Get:12 http://localhost:3142/debian unstable/main amd64 m4 amd64 1.4.20-2 [325 kB]
Get:13 http://localhost:3142/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB]
Get:14 http://localhost:3142/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB]
Get:15 http://localhost:3142/debian unstable/main amd64 automake all 1:1.18.1-2 [877 kB]
Get:16 http://localhost:3142/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB]
Get:17 http://localhost:3142/debian unstable/main amd64 binutils-arm-linux-gnueabi amd64 2.45-8 [1540 kB]
Get:18 http://localhost:3142/debian unstable/main armel gcc-15-base armel 15.2.0-7 [53.3 kB]
Get:19 http://localhost:3142/debian unstable/main armel libgcc-s1 armel 15.2.0-7 [39.0 kB]
Get:20 http://localhost:3142/debian unstable/main armel libc6 armel 2.41-12 [2262 kB]
Get:21 http://localhost:3142/debian unstable/main armel libcrypt1 armel 1:4.4.38-1 [97.4 kB]
Get:22 http://localhost:3142/debian unstable/main armel libcrypt-dev armel 1:4.4.38-1 [127 kB]
Get:23 http://localhost:3142/debian unstable/main armel libc6-dev armel 2.41-12 [1362 kB]
Get:24 http://localhost:3142/debian unstable/main armel libcom-err2 armel 1.47.2-3+b3 [24.4 kB]
Get:25 http://localhost:3142/debian unstable/main armel comerr-dev armel 2.1-1.47.2-3+b3 [56.4 kB]
Get:26 http://localhost:3142/debian unstable/main amd64 gcc-15-arm-linux-gnueabi-base amd64 15.2.0-7cross1 [53.5 kB]
Get:27 http://localhost:3142/debian unstable/main amd64 cpp-15-arm-linux-gnueabi amd64 15.2.0-7cross1 [11.2 MB]
Get:28 http://localhost:3142/debian unstable/main amd64 cpp-arm-linux-gnueabi amd64 4:15.2.0-4 [4448 B]
Get:29 http://localhost:3142/debian unstable/main amd64 gcc-15-cross-base-ports all 15.2.0-7cross1 [48.9 kB]
Get:30 http://localhost:3142/debian unstable/main amd64 libc6-armel-cross all 2.41-11cross1 [942 kB]
Get:31 http://localhost:3142/debian unstable/main amd64 libgcc-s1-armel-cross all 15.2.0-7cross1 [38.9 kB]
Get:32 http://localhost:3142/debian unstable/main amd64 libgomp1-armel-cross all 15.2.0-7cross1 [114 kB]
Get:33 http://localhost:3142/debian unstable/main amd64 libatomic1-armel-cross all 15.2.0-7cross1 [9368 B]
Get:34 http://localhost:3142/debian unstable/main amd64 libasan8-armel-cross all 15.2.0-7cross1 [2590 kB]
Get:35 http://localhost:3142/debian unstable/main amd64 libstdc++6-armel-cross all 15.2.0-7cross1 [560 kB]
Get:36 http://localhost:3142/debian unstable/main amd64 libubsan1-armel-cross all 15.2.0-7cross1 [1072 kB]
Get:37 http://localhost:3142/debian unstable/main amd64 libgcc-15-dev-armel-cross all 15.2.0-7cross1 [754 kB]
Get:38 http://localhost:3142/debian unstable/main amd64 gcc-15-arm-linux-gnueabi amd64 15.2.0-7cross1 [21.2 MB]
Get:39 http://localhost:3142/debian unstable/main amd64 gcc-arm-linux-gnueabi amd64 4:15.2.0-4 [1456 B]
Get:40 http://localhost:3142/debian unstable/main amd64 linux-libc-dev-armel-cross all 6.12.38-1cross1 [2430 kB]
Get:41 http://localhost:3142/debian unstable/main amd64 libc6-dev-armel-cross all 2.41-11cross1 [1358 kB]
Get:42 http://localhost:3142/debian unstable/main amd64 libstdc++-15-dev-armel-cross all 15.2.0-7cross1 [2408 kB]
Get:43 http://localhost:3142/debian unstable/main amd64 g++-15-arm-linux-gnueabi amd64 15.2.0-7cross1 [12.2 MB]
Get:44 http://localhost:3142/debian unstable/main amd64 g++-arm-linux-gnueabi amd64 4:15.2.0-4 [1204 B]
Get:45 http://localhost:3142/debian unstable/main amd64 crossbuild-essential-armel all 12.12 [3552 B]
Get:46 http://localhost:3142/debian unstable/main amd64 libdebhelper-perl all 13.28 [92.4 kB]
Get:47 http://localhost:3142/debian unstable/main amd64 libtool all 2.5.4-7 [540 kB]
Get:48 http://localhost:3142/debian unstable/main amd64 dh-autoreconf all 21 [12.2 kB]
Get:49 http://localhost:3142/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get:50 http://localhost:3142/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB]
Get:51 http://localhost:3142/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B]
Get:52 http://localhost:3142/debian unstable/main amd64 libelf1t64 amd64 0.194-1 [185 kB]
Get:53 http://localhost:3142/debian unstable/main amd64 dwz amd64 0.16-2 [108 kB]
Get:54 http://localhost:3142/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB]
Get:55 http://localhost:3142/debian unstable/main amd64 libxml2-16 amd64 2.15.1+dfsg-0.3 [640 kB]
Get:56 http://localhost:3142/debian unstable/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB]
Get:57 http://localhost:3142/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:58 http://localhost:3142/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get:59 http://localhost:3142/debian unstable/main amd64 debhelper all 13.28 [941 kB]
Get:60 http://localhost:3142/debian unstable/main amd64 libfakeroot amd64 1.37.1.2-1 [29.7 kB]
Get:61 http://localhost:3142/debian unstable/main amd64 fakeroot amd64 1.37.1.2-1 [76.0 kB]
Get:62 http://localhost:3142/debian unstable/main armel libkrb5support0 armel 1.21.3-5 [30.4 kB]
Get:63 http://localhost:3142/debian unstable/main armel libk5crypto3 armel 1.21.3-5 [75.3 kB]
Get:64 http://localhost:3142/debian unstable/main armel libkeyutils1 armel 1.6.3-6 [8568 B]
Get:65 http://localhost:3142/debian unstable/main armel libatomic1 armel 15.2.0-7 [9712 B]
Get:66 http://localhost:3142/debian unstable/main armel libzstd1 armel 1.5.7+dfsg-2 [274 kB]
Get:67 http://localhost:3142/debian unstable/main armel zlib1g armel 1:1.3.dfsg+really1.3.1-1+b1 [75.3 kB]
Get:68 http://localhost:3142/debian unstable/main armel libssl3t64 armel 3.5.4-1 [1952 kB]
Get:69 http://localhost:3142/debian unstable/main armel libkrb5-3 armel 1.21.3-5 [282 kB]
Get:70 http://localhost:3142/debian unstable/main armel libgssapi-krb5-2 armel 1.21.3-5 [114 kB]
Get:71 http://localhost:3142/debian unstable/main armel libgssrpc4t64 armel 1.21.3-5 [52.5 kB]
Get:72 http://localhost:3142/debian unstable/main armel libkadm5clnt-mit12 armel 1.21.3-5 [37.6 kB]
Get:73 http://localhost:3142/debian unstable/main armel libkdb5-10t64 armel 1.21.3-5 [37.6 kB]
Get:74 http://localhost:3142/debian unstable/main armel libkadm5srv-mit12 armel 1.21.3-5 [47.4 kB]
Get:75 http://localhost:3142/debian unstable/main armel krb5-multidev armel 1.21.3-5 [126 kB]
Get:76 http://localhost:3142/debian unstable/main armel libasan8 armel 15.2.0-7 [2602 kB]
Get:77 http://localhost:3142/debian unstable/main armel libstdc++6 armel 15.2.0-7 [608 kB]
Get:78 http://localhost:3142/debian unstable/main armel libbamtools2.5.3 armel 2.5.3+dfsg-1 [128 kB]
Get:79 http://localhost:3142/debian unstable/main armel zlib1g-dev armel 1:1.3.dfsg+really1.3.1-1+b1 [905 kB]
Get:80 http://localhost:3142/debian unstable/main armel libbamtools-dev armel 2.5.3+dfsg-1 [194 kB]
Get:81 http://localhost:3142/debian unstable/main armel libbrotli1 armel 1.1.0-2+b7 [302 kB]
Get:82 http://localhost:3142/debian unstable/main armel libbrotli-dev armel 1.1.0-2+b7 [301 kB]
Get:83 http://localhost:3142/debian unstable/main armel libbz2-1.0 armel 1.0.8-6 [36.3 kB]
Get:84 http://localhost:3142/debian unstable/main armel libbz2-dev armel 1.0.8-6 [28.4 kB]
Get:85 http://localhost:3142/debian unstable/main armel libnghttp3-9 armel 1.12.0-1 [60.2 kB]
Get:86 http://localhost:3142/debian unstable/main armel libngtcp2-16 armel 1.16.0-1 [129 kB]
Get:87 http://localhost:3142/debian unstable/main armel libgmp10 armel 2:6.3.0+dfsg-5 [508 kB]
Get:88 http://localhost:3142/debian unstable/main armel libnettle8t64 armel 3.10.2-1 [311 kB]
Get:89 http://localhost:3142/debian unstable/main armel libhogweed6t64 armel 3.10.2-1 [322 kB]
Get:90 http://localhost:3142/debian unstable/main armel libunistring5 armel 1.3-2 [429 kB]
Get:91 http://localhost:3142/debian unstable/main armel libidn2-0 armel 2.3.8-4 [105 kB]
Get:92 http://localhost:3142/debian unstable/main armel libffi8 armel 3.5.2-2 [20.4 kB]
Get:93 http://localhost:3142/debian unstable/main armel libp11-kit0 armel 0.25.9-2 [420 kB]
Get:94 http://localhost:3142/debian unstable/main armel libtasn1-6 armel 4.20.0-2 [43.8 kB]
Get:95 http://localhost:3142/debian unstable/main armel libgnutls30t64 armel 3.8.10-3 [1392 kB]
Get:96 http://localhost:3142/debian unstable/main armel libdb5.3t64 armel 5.3.28+dfsg2-10 [589 kB]
Get:97 http://localhost:3142/debian unstable/main armel libsasl2-modules-db armel 2.1.28+dfsg1-10 [18.4 kB]
Get:98 http://localhost:3142/debian unstable/main armel libsasl2-2 armel 2.1.28+dfsg1-10 [50.5 kB]
Get:99 http://localhost:3142/debian unstable/main armel libldap2 armel 2.6.10+dfsg-1 [167 kB]
Get:100 http://localhost:3142/debian unstable/main armel libnghttp2-14 armel 1.64.0-1.1+b1 [63.3 kB]
Get:101 http://localhost:3142/debian unstable/main armel libngtcp2-crypto-gnutls8 armel 1.16.0-1 [22.0 kB]
Get:102 http://localhost:3142/debian unstable/main armel libpsl5t64 armel 0.21.2-1.1+b1 [55.9 kB]
Get:103 http://localhost:3142/debian unstable/main armel librtmp1 armel 2.4+20151223.gitfa8646d.1-3 [53.4 kB]
Get:104 http://localhost:3142/debian unstable/main armel libssh2-1t64 armel 1.11.1-1 [226 kB]
Get:105 http://localhost:3142/debian unstable/main armel libcurl3t64-gnutls armel 8.17.0~rc3-1 [341 kB]
Get:106 http://localhost:3142/debian unstable/main armel libevent-2.1-7t64 armel 2.1.12-stable-10+b1 [165 kB]
Get:107 http://localhost:3142/debian unstable/main armel libunbound8 armel 1.24.1-2 [546 kB]
Get:108 http://localhost:3142/debian unstable/main armel libgnutls-dane0t64 armel 3.8.10-3 [450 kB]
Get:109 http://localhost:3142/debian unstable/main armel libgnutls-openssl27t64 armel 3.8.10-3 [449 kB]
Get:110 http://localhost:3142/debian unstable/main armel libidn2-dev armel 2.3.8-4 [98.6 kB]
Get:111 http://localhost:3142/debian unstable/main armel libp11-kit-dev armel 0.25.9-2 [220 kB]
Get:112 http://localhost:3142/debian unstable/main armel libtasn1-6-dev armel 4.20.0-2 [93.4 kB]
Get:113 http://localhost:3142/debian unstable/main armel libgmpxx4ldbl armel 2:6.3.0+dfsg-5 [328 kB]
Get:114 http://localhost:3142/debian unstable/main armel libgmp-dev armel 2:6.3.0+dfsg-5 [590 kB]
Get:115 http://localhost:3142/debian unstable/main armel nettle-dev armel 3.10.2-1 [1316 kB]
Get:116 http://localhost:3142/debian unstable/main armel libgnutls28-dev armel 3.8.10-3 [1358 kB]
Get:117 http://localhost:3142/debian unstable/main armel libkrb5-dev armel 1.21.3-5 [16.1 kB]
Get:118 http://localhost:3142/debian unstable/main armel libldap-dev armel 2.6.10+dfsg-1 [286 kB]
Get:119 http://localhost:3142/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB]
Get:120 http://localhost:3142/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB]
Get:121 http://localhost:3142/debian unstable/main armel pkgconf armel 1.8.1-4 [26.1 kB]
Get:122 http://localhost:3142/debian unstable/main armel libnghttp2-dev armel 1.64.0-1.1+b1 [103 kB]
Get:123 http://localhost:3142/debian unstable/main armel libnghttp3-dev armel 1.12.0-1 [87.4 kB]
Get:124 http://localhost:3142/debian unstable/main armel libngtcp2-crypto-gnutls-dev armel 1.16.0-1 [22.9 kB]
Get:125 http://localhost:3142/debian unstable/main armel libngtcp2-dev armel 1.16.0-1 [187 kB]
Get:126 http://localhost:3142/debian unstable/main armel libpsl-dev armel 0.21.2-1.1+b1 [77.0 kB]
Get:127 http://localhost:3142/debian unstable/main armel librtmp-dev armel 2.4+20151223.gitfa8646d.1-3 [63.4 kB]
Get:128 http://localhost:3142/debian unstable/main armel libssl-dev armel 3.5.4-1 [2556 kB]
Get:129 http://localhost:3142/debian unstable/main armel libssh2-1-dev armel 1.11.1-1 [377 kB]
Get:130 http://localhost:3142/debian unstable/main armel libzstd-dev armel 1.5.7+dfsg-2 [341 kB]
Get:131 http://localhost:3142/debian unstable/main armel libcurl4-gnutls-dev armel 8.17.0~rc3-1 [471 kB]
Get:132 http://localhost:3142/debian unstable/main armel libdeflate0 armel 1.23-2 [33.8 kB]
Get:133 http://localhost:3142/debian unstable/main armel libdeflate-dev armel 1.23-2 [42.0 kB]
Get:134 http://localhost:3142/debian unstable/main armel libfastahack0 armel 1.0.0+dfsg-11+b2 [24.2 kB]
Get:135 http://localhost:3142/debian unstable/main armel libfastahack-dev armel 1.0.0+dfsg-11+b2 [27.3 kB]
Get:136 http://localhost:3142/debian unstable/main armel libgomp1 armel 15.2.0-7 [116 kB]
Get:137 http://localhost:3142/debian unstable/main armel libubsan1 armel 15.2.0-7 [1072 kB]
Get:138 http://localhost:3142/debian unstable/main armel libgcc-15-dev armel 15.2.0-7 [760 kB]
Get:139 http://localhost:3142/debian unstable/main armel libgzstream0 armel 1.5+git20171107.9a20658-3 [6540 B]
Get:140 http://localhost:3142/debian unstable/main armel libgzstream-dev armel 1.5+git20171107.9a20658-3 [6996 B]
Get:141 http://localhost:3142/debian unstable/main armel libhtscodecs2 armel 1.6.1-2 [64.0 kB]
Get:142 http://localhost:3142/debian unstable/main armel liblzma5 armel 5.8.1-2 [297 kB]
Get:143 http://localhost:3142/debian unstable/main armel libhts3t64 armel 1.22.1+ds2-1 [411 kB]
Get:144 http://localhost:3142/debian unstable/main armel liblzma-dev armel 5.8.1-2 [338 kB]
Get:145 http://localhost:3142/debian unstable/main armel libhts-dev armel 1.22.1+ds2-1 [1677 kB]
Get:146 http://localhost:3142/debian unstable/main armel libtinfo6 armel 6.5+20250216-2 [332 kB]
Get:147 http://localhost:3142/debian unstable/main armel libncurses6 armel 6.5+20250216-2 [83.4 kB]
Get:148 http://localhost:3142/debian unstable/main armel libsqlite3-0 armel 3.46.1-8 [801 kB]
Get:149 http://localhost:3142/debian unstable/main armel libsqlite3-dev armel 3.46.1-8 [1005 kB]
Get:150 http://localhost:3142/debian unstable/main armel libstdc++-15-dev armel 15.2.0-7 [2440 kB]
Get:151 http://localhost:3142/debian unstable/main armel samtools armel 1.22.1-1 [656 kB]
Preconfiguring packages ...
Fetched 108 MB in 1s (93.6 MB/s)
Selecting previously unselected package sensible-utils.
(Reading database ... 12910 files and directories currently installed.)
Preparing to unpack .../000-sensible-utils_0.0.26_all.deb ...
Unpacking sensible-utils (0.0.26) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../001-libmagic-mgc_1%3a5.46-5_amd64.deb ...
Unpacking libmagic-mgc (1:5.46-5) ...
Selecting previously unselected package libmagic1t64:amd64.
Preparing to unpack .../002-libmagic1t64_1%3a5.46-5_amd64.deb ...
Unpacking libmagic1t64:amd64 (1:5.46-5) ...
Selecting previously unselected package file.
Preparing to unpack .../003-file_1%3a5.46-5_amd64.deb ...
Unpacking file (1:5.46-5) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../004-gettext-base_0.23.1-2+b1_amd64.deb ...
Unpacking gettext-base (0.23.1-2+b1) ...
Selecting previously unselected package libuchardet0:amd64.
Preparing to unpack .../005-libuchardet0_0.0.8-2_amd64.deb ...
Unpacking libuchardet0:amd64 (0.0.8-2) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../006-groff-base_1.23.0-9_amd64.deb ...
Unpacking groff-base (1.23.0-9) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../007-bsdextrautils_2.41.2-4_amd64.deb ...
Unpacking bsdextrautils (2.41.2-4) ...
Selecting previously unselected package libpipeline1:amd64.
Preparing to unpack .../008-libpipeline1_1.5.8-1_amd64.deb ...
Unpacking libpipeline1:amd64 (1.5.8-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../009-man-db_2.13.1-1_amd64.deb ...
Unpacking man-db (2.13.1-1) ...
Selecting previously unselected package m4.
Preparing to unpack .../010-m4_1.4.20-2_amd64.deb ...
Unpacking m4 (1.4.20-2) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../011-autoconf_2.72-3.1_all.deb ...
Unpacking autoconf (2.72-3.1) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../012-autotools-dev_20240727.1_all.deb ...
Unpacking autotools-dev (20240727.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../013-automake_1%3a1.18.1-2_all.deb ...
Unpacking automake (1:1.18.1-2) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../014-autopoint_0.23.1-2_all.deb ...
Unpacking autopoint (0.23.1-2) ...
Selecting previously unselected package binutils-arm-linux-gnueabi.
Preparing to unpack .../015-binutils-arm-linux-gnueabi_2.45-8_amd64.deb ...
Unpacking binutils-arm-linux-gnueabi (2.45-8) ...
Selecting previously unselected package gcc-15-base:armel.
Preparing to unpack .../016-gcc-15-base_15.2.0-7_armel.deb ...
Unpacking gcc-15-base:armel (15.2.0-7) ...
Selecting previously unselected package libgcc-s1:armel.
Preparing to unpack .../017-libgcc-s1_15.2.0-7_armel.deb ...
Unpacking libgcc-s1:armel (15.2.0-7) ...
Selecting previously unselected package libc6:armel.
Preparing to unpack .../018-libc6_2.41-12_armel.deb ...
Unpacking libc6:armel (2.41-12) ...
Selecting previously unselected package libcrypt1:armel.
Preparing to unpack .../019-libcrypt1_1%3a4.4.38-1_armel.deb ...
Unpacking libcrypt1:armel (1:4.4.38-1) ...
Selecting previously unselected package libcrypt-dev:armel.
Preparing to unpack .../020-libcrypt-dev_1%3a4.4.38-1_armel.deb ...
Unpacking libcrypt-dev:armel (1:4.4.38-1) ...
Selecting previously unselected package libc6-dev:armel.
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Unpacking libc6-dev:armel (2.41-12) ...
Selecting previously unselected package libcom-err2:armel.
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Unpacking libcom-err2:armel (1.47.2-3+b3) ...
Selecting previously unselected package comerr-dev:armel.
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Unpacking comerr-dev:armel (2.1-1.47.2-3+b3) ...
Selecting previously unselected package gcc-15-arm-linux-gnueabi-base:amd64.
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Unpacking gcc-15-arm-linux-gnueabi-base:amd64 (15.2.0-7cross1) ...
Selecting previously unselected package cpp-15-arm-linux-gnueabi.
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Unpacking cpp-15-arm-linux-gnueabi (15.2.0-7cross1) ...
Selecting previously unselected package cpp-arm-linux-gnueabi.
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Unpacking cpp-arm-linux-gnueabi (4:15.2.0-4) ...
Selecting previously unselected package gcc-15-cross-base-ports.
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Unpacking gcc-15-cross-base-ports (15.2.0-7cross1) ...
Selecting previously unselected package libc6-armel-cross.
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Unpacking libc6-armel-cross (2.41-11cross1) ...
Selecting previously unselected package libgcc-s1-armel-cross.
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Unpacking libgcc-s1-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package libgomp1-armel-cross.
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Unpacking libgomp1-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package libatomic1-armel-cross.
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Unpacking libatomic1-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package libasan8-armel-cross.
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Unpacking libasan8-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package libstdc++6-armel-cross.
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Unpacking libstdc++6-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package libubsan1-armel-cross.
Preparing to unpack .../034-libubsan1-armel-cross_15.2.0-7cross1_all.deb ...
Unpacking libubsan1-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package libgcc-15-dev-armel-cross.
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Unpacking libgcc-15-dev-armel-cross (15.2.0-7cross1) ...
Selecting previously unselected package gcc-15-arm-linux-gnueabi.
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Unpacking gcc-15-arm-linux-gnueabi (15.2.0-7cross1) ...
Selecting previously unselected package gcc-arm-linux-gnueabi.
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Unpacking gcc-arm-linux-gnueabi (4:15.2.0-4) ...
Selecting previously unselected package linux-libc-dev-armel-cross.
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Unpacking linux-libc-dev-armel-cross (6.12.38-1cross1) ...
Selecting previously unselected package libc6-dev-armel-cross.
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Selecting previously unselected package g++-15-arm-linux-gnueabi.
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Unpacking g++-arm-linux-gnueabi (4:15.2.0-4) ...
Selecting previously unselected package crossbuild-essential-armel.
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Unpacking crossbuild-essential-armel (12.12) ...
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Unpacking libtool (2.5.4-7) ...
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Unpacking dh-autoreconf (21) ...
Selecting previously unselected package libarchive-zip-perl.
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Unpacking libarchive-zip-perl (1.68-1) ...
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Unpacking dh-strip-nondeterminism (1.15.0-1) ...
Selecting previously unselected package libelf1t64:amd64.
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Unpacking libelf1t64:amd64 (0.194-1) ...
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Unpacking dwz (0.16-2) ...
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Unpacking libunistring5:amd64 (1.3-2) ...
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Unpacking libxml2-16:amd64 (2.15.1+dfsg-0.3) ...
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Unpacking gettext (0.23.1-2+b1) ...
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Unpacking intltool-debian (0.35.0+20060710.6) ...
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Unpacking po-debconf (1.0.21+nmu1) ...
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Unpacking debhelper (13.28) ...
Selecting previously unselected package libfakeroot:amd64.
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Unpacking libfakeroot:amd64 (1.37.1.2-1) ...
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Unpacking fakeroot (1.37.1.2-1) ...
Selecting previously unselected package libkrb5support0:armel.
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Unpacking libkrb5support0:armel (1.21.3-5) ...
Selecting previously unselected package libk5crypto3:armel.
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Unpacking libk5crypto3:armel (1.21.3-5) ...
Selecting previously unselected package libkeyutils1:armel.
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Unpacking libkeyutils1:armel (1.6.3-6) ...
Selecting previously unselected package libatomic1:armel.
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Unpacking libatomic1:armel (15.2.0-7) ...
Selecting previously unselected package libzstd1:armel.
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Unpacking libzstd1:armel (1.5.7+dfsg-2) ...
Selecting previously unselected package zlib1g:armel.
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Setting up libtinfo6:armel (6.5+20250216-2) ...
Setting up libhtscodecs2:armel (1.6.1-2) ...
Setting up libzstd1:armel (1.5.7+dfsg-2) ...
Setting up libkeyutils1:armel (1.6.3-6) ...
Setting up libzstd-dev:armel (1.5.7+dfsg-2) ...
Setting up liblzma5:armel (5.8.1-2) ...
Setting up libbrotli1:armel (1.1.0-2+b7) ...
Setting up libsqlite3-0:armel (3.46.1-8) ...
Setting up libnghttp2-14:armel (1.64.0-1.1+b1) ...
Setting up libdeflate0:armel (1.23-2) ...
Setting up libevent-2.1-7t64:armel (2.1.12-stable-10+b1) ...
Setting up zlib1g:armel (1:1.3.dfsg+really1.3.1-1+b1) ...
Setting up libcrypt1:armel (1:4.4.38-1) ...
Setting up libcom-err2:armel (1.47.2-3+b3) ...
Setting up libngtcp2-dev:armel (1.16.0-1) ...
Setting up libgomp1:armel (15.2.0-7) ...
Setting up libfastahack0:armel (1.0.0+dfsg-11+b2) ...
Setting up libkrb5support0:armel (1.21.3-5) ...
Setting up libsasl2-modules-db:armel (2.1.28+dfsg1-10) ...
Setting up libfastahack-dev:armel (1.0.0+dfsg-11+b2) ...
Setting up libnettle8t64:armel (3.10.2-1) ...
Setting up libgmp10:armel (2:6.3.0+dfsg-5) ...
Setting up libncurses6:armel (6.5+20250216-2) ...
Setting up libp11-kit0:armel (0.25.9-2) ...
Setting up libunistring5:armel (1.3-2) ...
Setting up libatomic1:armel (15.2.0-7) ...
Setting up libk5crypto3:armel (1.21.3-5) ...
Setting up libgzstream0:armel (1.5+git20171107.9a20658-3) ...
Setting up liblzma-dev:armel (5.8.1-2) ...
Setting up libubsan1:armel (15.2.0-7) ...
Setting up libbamtools2.5.3:armel (2.5.3+dfsg-1) ...
Setting up libhogweed6t64:armel (3.10.2-1) ...
Setting up libcrypt-dev:armel (1:4.4.38-1) ...
Setting up libc6-dev:armel (2.41-12) ...
Setting up libdeflate-dev:armel (1.23-2) ...
Setting up libbrotli-dev:armel (1.1.0-2+b7) ...
Setting up libp11-kit-dev:armel (0.25.9-2) ...
Setting up libbz2-dev:armel (1.0.8-6) ...
Setting up libnghttp2-dev:armel (1.64.0-1.1+b1) ...
Setting up libgcc-15-dev:armel (15.2.0-7) ...
Setting up libssl3t64:armel (3.5.4-1) ...
Setting up libidn2-0:armel (2.3.8-4) ...
Setting up libgzstream-dev:armel (1.5+git20171107.9a20658-3) ...
Setting up libunbound8:armel (1.24.1-2) ...
Setting up libgmpxx4ldbl:armel (2:6.3.0+dfsg-5) ...
Setting up libstdc++-15-dev:armel (15.2.0-7) ...
Setting up libsqlite3-dev:armel (3.46.1-8) ...
Setting up comerr-dev:armel (2.1-1.47.2-3+b3) ...
Setting up libssl-dev:armel (3.5.4-1) ...
Setting up libidn2-dev:armel (2.3.8-4) ...
Setting up libsasl2-2:armel (2.1.28+dfsg1-10) ...
Setting up zlib1g-dev:armel (1:1.3.dfsg+really1.3.1-1+b1) ...
Setting up libkrb5-3:armel (1.21.3-5) ...
Setting up libssh2-1t64:armel (1.11.1-1) ...
Setting up libldap2:armel (2.6.10+dfsg-1) ...
Setting up libgnutls30t64:armel (3.8.10-3) ...
Setting up libgnutls-openssl27t64:armel (3.8.10-3) ...
Setting up libgmp-dev:armel (2:6.3.0+dfsg-5) ...
Setting up nettle-dev:armel (3.10.2-1) ...
Setting up libpsl5t64:armel (0.21.2-1.1+b1) ...
Setting up libpsl-dev:armel (0.21.2-1.1+b1) ...
Setting up libgnutls-dane0t64:armel (3.8.10-3) ...
Setting up librtmp1:armel (2.4+20151223.gitfa8646d.1-3) ...
Setting up libldap-dev:armel (2.6.10+dfsg-1) ...
Setting up libbamtools-dev:armel (2.5.3+dfsg-1) ...
Setting up libgssapi-krb5-2:armel (1.21.3-5) ...
Setting up libssh2-1-dev:armel (1.11.1-1) ...
Setting up libngtcp2-crypto-gnutls8:armel (1.16.0-1) ...
Setting up libgnutls28-dev:armel (3.8.10-3) ...
Setting up libcurl3t64-gnutls:armel (8.17.0~rc3-1) ...
Setting up libngtcp2-crypto-gnutls-dev:armel (1.16.0-1) ...
Setting up libgssrpc4t64:armel (1.21.3-5) ...
Setting up librtmp-dev:armel (2.4+20151223.gitfa8646d.1-3) ...
Setting up libhts3t64:armel (1.22.1+ds2-1) ...
Setting up libkadm5clnt-mit12:armel (1.21.3-5) ...
Setting up libkdb5-10t64:armel (1.21.3-5) ...
Setting up samtools:armel (1.22.1-1) ...
Setting up libkadm5srv-mit12:armel (1.21.3-5) ...
Setting up krb5-multidev:armel (1.21.3-5) ...
Setting up libkrb5-dev:armel (1.21.3-5) ...
Setting up libcurl4-gnutls-dev:armel (8.17.0~rc3-1) ...
Setting up libhts-dev:armel (1.22.1+ds2-1) ...
Setting up sbuild-build-depends-main-dummy:armel (0.invalid.0) ...
Processing triggers for libc-bin (2.41-12) ...

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

Arch check ok (armel included in any all)

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

Kernel: Linux 6.1.0-32-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.129-1 (2025-03-06) amd64 (x86_64)
Toolchain package versions: binutils_2.45-8 dpkg-dev_1.22.21 g++-15_15.2.0-7 gcc-15_15.2.0-7 libc6-dev_2.41-12 libstdc++-15-dev_15.2.0-7 libstdc++-15-dev-armel-cross_15.2.0-7cross1 libstdc++6_15.2.0-7 libstdc++6-armel-cross_15.2.0-7cross1 linux-libc-dev_6.17.6-1
Package versions: apt_3.1.11 apt-utils_3.1.11 autoconf_2.72-3.1 automake_1:1.18.1-2 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.7 bash_5.3-1 binutils_2.45-8 binutils-arm-linux-gnueabi_2.45-8 binutils-common_2.45-8 binutils-x86-64-linux-gnu_2.45-8 bsdextrautils_2.41.2-4 bsdutils_1:2.41.2-4 build-essential_12.12 bzip2_1.0.8-6 comerr-dev_2.1-1.47.2-3+b3 coreutils_9.7-3 cpp_4:15.2.0-4 cpp-15_15.2.0-7 cpp-15-arm-linux-gnueabi_15.2.0-7cross1 cpp-15-x86-64-linux-gnu_15.2.0-7 cpp-arm-linux-gnueabi_4:15.2.0-4 cpp-x86-64-linux-gnu_4:15.2.0-4 crossbuild-essential-armel_12.12 dash_0.5.12-12 debconf_1.5.91 debhelper_13.28 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_21 dh-strip-nondeterminism_1.15.0-1 diffutils_1:3.12-1 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.16-2 fakeroot_1.37.1.2-1 file_1:5.46-5 findutils_4.10.0-3 g++_4:15.2.0-4 g++-15_15.2.0-7 g++-15-arm-linux-gnueabi_15.2.0-7cross1 g++-15-x86-64-linux-gnu_15.2.0-7 g++-arm-linux-gnueabi_4:15.2.0-4 g++-x86-64-linux-gnu_4:15.2.0-4 gcc_4:15.2.0-4 gcc-15_15.2.0-7 gcc-15-arm-linux-gnueabi_15.2.0-7cross1 gcc-15-arm-linux-gnueabi-base_15.2.0-7cross1 gcc-15-base_15.2.0-7 gcc-15-cross-base-ports_15.2.0-7cross1 gcc-15-x86-64-linux-gnu_15.2.0-7 gcc-arm-linux-gnueabi_4:15.2.0-4 gcc-x86-64-linux-gnu_4:15.2.0-4 gettext_0.23.1-2+b1 gettext-base_0.23.1-2+b1 grep_3.12-1 groff-base_1.23.0-9 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 krb5-multidev_1.21.3-5 libacl1_2.3.2-2+b1 libapt-pkg7.0_3.1.11 libarchive-zip-perl_1.68-1 libasan8_15.2.0-7 libasan8-armel-cross_15.2.0-7cross1 libatomic1_15.2.0-7 libatomic1-armel-cross_15.2.0-7cross1 libattr1_1:2.5.2-3 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1 libbamtools-dev_2.5.3+dfsg-1 libbamtools2.5.3_2.5.3+dfsg-1 libbinutils_2.45-8 libblkid1_2.41.2-4 libbrotli-dev_1.1.0-2+b7 libbrotli1_1.1.0-2+b7 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libbz2-dev_1.0.8-6 libc-bin_2.41-12 libc-dev-bin_2.41-12 libc6_2.41-12 libc6-armel-cross_2.41-11cross1 libc6-dev_2.41-12 libc6-dev-armel-cross_2.41-11cross1 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-10+b1 libcc1-0_15.2.0-7 libcom-err2_1.47.2-3+b3 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.45-8 libctf0_2.45-8 libcurl3t64-gnutls_8.17.0~rc3-1 libcurl4-gnutls-dev_8.17.0~rc3-1 libdb5.3t64_5.3.28+dfsg2-10 libdebconfclient0_0.280 libdebhelper-perl_13.28 libdeflate-dev_1.23-2 libdeflate0_1.23-2 libdpkg-perl_1.22.21 libelf1t64_0.194-1 libevent-2.1-7t64_2.1.12-stable-10+b1 libfakeroot_1.37.1.2-1 libfastahack-dev_1.0.0+dfsg-11+b2 libfastahack0_1.0.0+dfsg-11+b2 libffi8_3.5.2-2 libfile-stripnondeterminism-perl_1.15.0-1 libgcc-15-dev_15.2.0-7 libgcc-15-dev-armel-cross_15.2.0-7cross1 libgcc-s1_15.2.0-7 libgcc-s1-armel-cross_15.2.0-7cross1 libgdbm-compat4t64_1.26-1 libgdbm6t64_1.26-1 libgmp-dev_2:6.3.0+dfsg-5 libgmp10_2:6.3.0+dfsg-5 libgmpxx4ldbl_2:6.3.0+dfsg-5 libgnutls-dane0t64_3.8.10-3 libgnutls-openssl27t64_3.8.10-3 libgnutls28-dev_3.8.10-3 libgnutls30t64_3.8.10-3 libgomp1_15.2.0-7 libgomp1-armel-cross_15.2.0-7cross1 libgprofng0_2.45-8 libgssapi-krb5-2_1.21.3-5 libgssrpc4t64_1.21.3-5 libgzstream-dev_1.5+git20171107.9a20658-3 libgzstream0_1.5+git20171107.9a20658-3 libhogweed6t64_3.10.2-1 libhts-dev_1.22.1+ds2-1 libhts3t64_1.22.1+ds2-1 libhtscodecs2_1.6.1-2 libhwasan0_15.2.0-7 libidn2-0_2.3.8-4 libidn2-dev_2.3.8-4 libisl23_0.27-1 libitm1_15.2.0-7 libjansson4_2.14-2+b3 libk5crypto3_1.21.3-5 libkadm5clnt-mit12_1.21.3-5 libkadm5srv-mit12_1.21.3-5 libkdb5-10t64_1.21.3-5 libkeyutils1_1.6.3-6 libkrb5-3_1.21.3-5 libkrb5-dev_1.21.3-5 libkrb5support0_1.21.3-5 libldap-dev_2.6.10+dfsg-1 libldap2_2.6.10+dfsg-1 liblsan0_15.2.0-7 liblz4-1_1.10.0-6 liblzma-dev_5.8.1-2 liblzma5_5.8.1-2 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41.2-4 libmpc3_1.3.1-2 libmpfr6_4.2.2-2 libncurses6_6.5+20250216-2 libnettle8t64_3.10.2-1 libnghttp2-14_1.64.0-1.1+b1 libnghttp2-dev_1.64.0-1.1+b1 libnghttp3-9_1.12.0-1 libnghttp3-dev_1.12.0-1 libngtcp2-16_1.16.0-1 libngtcp2-crypto-gnutls-dev_1.16.0-1 libngtcp2-crypto-gnutls8_1.16.0-1 libngtcp2-dev_1.16.0-1 libp11-kit-dev_0.25.9-2 libp11-kit0_0.25.9-2 libpam-modules_1.7.0-5 libpam-modules-bin_1.7.0-5 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5 libpcre2-8-0_10.46-1 libperl5.40_5.40.1-6 libpipeline1_1.5.8-1 libpkgconf3_1.8.1-4 libpsl-dev_0.21.2-1.1+b1 libpsl5t64_0.21.2-1.1+b1 libquadmath0_15.2.0-7 librtmp-dev_2.4+20151223.gitfa8646d.1-3 librtmp1_2.4+20151223.gitfa8646d.1-3 libsasl2-2_2.1.28+dfsg1-10 libsasl2-modules-db_2.1.28+dfsg1-10 libseccomp2_2.6.0-2 libselinux1_3.9-2 libsemanage-common_3.9-1 libsemanage2_3.9-1 libsepol2_3.9-2 libsframe2_2.45-8 libsmartcols1_2.41.2-4 libsqlite3-0_3.46.1-8 libsqlite3-dev_3.46.1-8 libssh2-1-dev_1.11.1-1 libssh2-1t64_1.11.1-1 libssl-dev_3.5.4-1 libssl3t64_3.5.4-1 libstdc++-15-dev_15.2.0-7 libstdc++-15-dev-armel-cross_15.2.0-7cross1 libstdc++6_15.2.0-7 libstdc++6-armel-cross_15.2.0-7cross1 libsystemd0_258.1-2 libtasn1-6_4.20.0-2 libtasn1-6-dev_4.20.0-2 libtinfo6_6.5+20250216-2 libtool_2.5.4-7 libtsan2_15.2.0-7 libubsan1_15.2.0-7 libubsan1-armel-cross_15.2.0-7cross1 libuchardet0_0.0.8-2 libudev1_258.1-2 libunbound8_1.24.1-2 libunistring5_1.3-2 libuuid1_2.41.2-4 libxml2-16_2.15.1+dfsg-0.3 libxxhash0_0.8.3-2 libzstd-dev_1.5.7+dfsg-2 libzstd1_1.5.7+dfsg-2 linux-libc-dev_6.17.6-1 linux-libc-dev-armel-cross_6.12.38-1cross1 login_1:4.16.0-2+really2.41.2-4 login.defs_1:4.18.0-2 m4_1.4.20-2 make_4.4.1-2 man-db_2.13.1-1 mawk_1.3.4.20250131-1 mount_2.41.2-4 ncurses-base_6.5+20250216-2 ncurses-bin_6.5+20250216-2 nettle-dev_3.10.2-1 openssl-provider-legacy_3.5.4-1 passwd_1:4.18.0-2 patch_2.8-2 perl_5.40.1-6 perl-base_5.40.1-6 perl-modules-5.40_5.40.1-6 pkgconf_1.8.1-4 pkgconf-bin_1.8.1-4 po-debconf_1.0.21+nmu1 rpcsvc-proto_1.4.3-1 samtools_1.22.1-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.26 sqv_1.3.0-3 sysvinit-utils_3.15-5 tar_1.35+dfsg-3.1 tzdata_2025b-5 util-linux_2.41.2-4 xz-utils_5.8.1-2 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1

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


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

-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512

Format: 3.0 (quilt)
Source: lumpy-sv
Binary: lumpy-sv, lumpy-sv-examples
Architecture: any all
Version: 0.3.1+dfsg-8
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Homepage: https://github.com/arq5x/lumpy-sv
Standards-Version: 4.7.2
Vcs-Browser: https://salsa.debian.org/med-team/lumpy-sv
Vcs-Git: https://salsa.debian.org/med-team/lumpy-sv.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), libbamtools-dev, libfastahack-dev, libgzstream-dev, libsqlite3-dev, libhts-dev, libssl-dev, libcurl4-gnutls-dev, samtools
Package-List:
 lumpy-sv deb science optional arch=any
 lumpy-sv-examples deb science optional arch=all
Checksums-Sha1:
 b75a3ba46fb5197a96d8d5dccda356384c06bb77 111836 lumpy-sv_0.3.1+dfsg.orig.tar.xz
 4237faac649ff49f71fa9edac73689768ab3ad27 39265332 lumpy-sv_0.3.1+dfsg-8.debian.tar.xz
Checksums-Sha256:
 78a6fe414739286d1f799bbdf3e34b9a1d6ed03b4c6dd17bfef1fcbba84bd35a 111836 lumpy-sv_0.3.1+dfsg.orig.tar.xz
 10a8ee20f04d1255322f09643940238685468d0f10e21cae7a046e834f2a4798 39265332 lumpy-sv_0.3.1+dfsg-8.debian.tar.xz
Files:
 1167e4a94bceb29ac5b83cb170058e25 111836 lumpy-sv_0.3.1+dfsg.orig.tar.xz
 5876c8eaebf4fc93883197da876153eb 39265332 lumpy-sv_0.3.1+dfsg-8.debian.tar.xz

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dpkg-source: warning: cannot verify inline signature for ./lumpy-sv_0.3.1+dfsg-8.dsc: no acceptable signature found
dpkg-source: info: extracting lumpy-sv in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking lumpy-sv_0.3.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking lumpy-sv_0.3.1+dfsg-8.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_debian_packaged_libs.patch
dpkg-source: info: applying lumpyexpress.config.patch
dpkg-source: info: applying fix_shebang.patch
dpkg-source: info: applying do-not-override-dpkg-flags.patch
dpkg-source: info: applying cleanup-bin.patch

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

Sufficient free space for build

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

APT_CONFIG=/var/lib/sbuild/apt.conf
CONFIG_SITE=/etc/dpkg-cross/cross-config.armel
DEB_BUILD_OPTIONS=nocheck
HOME=/sbuild-nonexistent
LANG=en_US.UTF-8
LC_ALL=C.UTF-8
LOGNAME=crossqa
OLDPWD=/home/crossqa
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SBUILD_CONFIG=/tmp/tmp.jpILQq3xJy/sbuild.conf
SCHROOT_ALIAS_NAME=unstable-amd64-sbuild
SCHROOT_CHROOT_NAME=sid-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1000
SCHROOT_GROUP=crossqa
SCHROOT_SESSION_ID=sid-amd64-sbuild-a2f6fd91-a149-41c9-b3bf-95fee609dcdf
SCHROOT_UID=1000
SCHROOT_USER=crossqa
SHELL=/bin/sh
USER=crossqa
XDG_SESSION_CLASS=user

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

Command: dpkg-buildpackage --sanitize-env -aarmel -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1
dpkg-buildpackage: info: source package lumpy-sv
dpkg-buildpackage: info: source version 0.3.1+dfsg-8
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Nilesh Patra <nilesh@debian.org>
dpkg-architecture: warning: specified GNU system type arm-linux-gnueabi does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armel
 debian/rules clean
dh clean
   dh_auto_clean
	make -j1 clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Cleaning up.
make --no-print-directory -C src/filter/ clean
rm -vf lumpy_filter
#rm -Rf /lib
#rm -f /src/api/*.o
#rm -f /src/api/internal/*.o
#rm -Rf /include
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_clean
 debian/rules binary-arch
dh binary-arch
   dh_update_autotools_config -a
   dh_autoreconf -a
   dh_auto_configure -a
   dh_auto_build -a
	make -j1 INSTALL="install --strip-program=true" PKG_CONFIG=arm-linux-gnueabi-pkg-config CXX=arm-linux-gnueabi-g\+\+ CC=arm-linux-gnueabi-gcc
make[1]: Entering directory '/<<PKGBUILDDIR>>'
[ -d bin ] || mkdir -p bin
make --no-print-directory -C src/filter/
arm-linux-gnueabi-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -I/usr/include/htslib -o lumpy_filter filter.c -lhts -lcrypto -lcurl -lpthread -lz -Wl,-z,relro -Wl,-z,now
cp src/filter/lumpy_filter bin
[ -d bin ] || mkdir -p bin
cp scripts/lumpyexpress bin/lumpyexpress
> bin/lumpyexpress.config
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building lumpy:
=========================================================
#make --no-print-directory --directory= api
for dir in src/utils/bedFile src/utils/version src/utils/fileType src/utils/bedFilePE src/utils/genomeFile src/utils/BamTools-Ancillary src/utils/sequenceUtilities ; do \
	echo "- Building in $dir"; \
	make --no-print-directory -C $dir; \
	echo ""; \
done
- Building in src/utils/bedFile
  * compiling bedFile.cpp
In file included from bedFile.cpp:12:
bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^

- Building in src/utils/version
  * compiling version.cpp

- Building in src/utils/fileType
  * compiling fileType.cpp

- Building in src/utils/bedFilePE
  * compiling bedFilePE.cpp
In file included from bedFilePE.h:12,
                 from bedFilePE.cpp:15:
../../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^

- Building in src/utils/genomeFile
  * compiling genomeFile.cpp
genomeFile.cpp: In member function ‘void GenomeFile::loadGenomeFileIntoMap()’:
genomeFile.cpp:61:26: warning: variable ‘c2’ set but not used [-Wunused-but-set-variable]
   61 |                     long c2;
      |                          ^~

- Building in src/utils/BamTools-Ancillary
  * compiling BamAncillary.cpp
In file included from BamAncillary.h:12,
                 from BamAncillary.cpp:12:
..//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
..//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
  * compiling BamAncillary.cpp
In file included from BamAncillary.h:12,
                 from BamAncillary.cpp:12:
..//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
..//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^

- Building in src/utils/sequenceUtilities
  * compiling sequenceUtils.cpp

- Building in src/lumpy
  * compiling lumpy.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack lumpy.cpp -o ../../obj//lumpy.o
In file included from ../utils//BamTools-Ancillary/BamAncillary.h:12,
                 from lumpy.cpp:20:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
In file included from SV_BreakPoint.h:19,
                 from SV_Evidence.h:22,
                 from lumpy.cpp:24:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from SV_Evidence.h:24:
SV_EvidenceReader.h: At global scope:
SV_EvidenceReader.h:53:18: warning: ‘virtual void SV_EvidenceReader::process_input(BamTools::BamAlignment&, BamTools::RefVector&, BamTools::BamWriter&, UCSCBins<SV_BreakPoint*>&)’ was hidden [-Woverloaded-virtual=]
   53 |     virtual void process_input( BamAlignment &_bam,
      |                  ^~~~~~~~~~~~~
In file included from SV_Bedpe.h:19,
                 from lumpy.cpp:27:
SV_BedpeReader.h:72:14: note:   by ‘void SV_BedpeReader::process_input(UCSCBins<SV_BreakPoint*>&)’
   72 |         void process_input( UCSCBins<SV_BreakPoint*> &r_bin);
      |              ^~~~~~~~~~~~~
SV_EvidenceReader.h:57:18: warning: ‘virtual void SV_EvidenceReader::process_input(BamTools::BamAlignment&, BamTools::RefVector&, UCSCBins<SV_BreakPoint*>&)’ was hidden [-Woverloaded-virtual=]
   57 |     virtual void process_input( BamAlignment &_bam,
      |                  ^~~~~~~~~~~~~
SV_BedpeReader.h:72:14: note:   by ‘void SV_BedpeReader::process_input(UCSCBins<SV_BreakPoint*>&)’
   72 |         void process_input( UCSCBins<SV_BreakPoint*> &r_bin);
      |              ^~~~~~~~~~~~~
In file included from /usr/arm-linux-gnueabi/include/c++/15/vector:67,
                 from /usr/include/bamtools/api/BamAlignment.h:17,
                 from /usr/include/bamtools/api/BamReader.h:14,
                 from lumpy.cpp:17:
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _Sentinel, _ForwardIterator) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _Sentinel = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*]’:
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:140:5: note: parameter passing for argument of type ‘std::move_iterator<UCSCElement<SV_BreakPoint*>*>’ changed in GCC 7.1
  140 |     __do_uninit_copy(_InputIterator __first, _Sentinel __last,
      |     ^~~~~~~~~~~~~~~~
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:140:5: note: parameter passing for argument of type ‘std::move_iterator<UCSCElement<SV_BreakPoint*>*>’ changed in GCC 7.1
In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*]’,
    inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _Sentinel, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _Sentinel = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Tp = UCSCElement<SV_BreakPoint*>]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:637:37,
    inlined from ‘_ForwardIterator std::__uninitialized_move_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = UCSCElement<SV_BreakPoint*>*; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Allocator = allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:649:41,
    inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<UCSCElement<SV_BreakPoint*>*, std::vector<UCSCElement<SV_BreakPoint*>, std::allocator<UCSCElement<SV_BreakPoint*> > > >; _Tp = UCSCElement<SV_BreakPoint*>; _Alloc = std::allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/vector.tcc:900:34:
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:266:37: note: parameter passing for argument of type ‘std::move_iterator<UCSCElement<SV_BreakPoint*>*>’ changed in GCC 7.1
  266 |         return std::__do_uninit_copy(__first, __last, __result);
      |                ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*]’,
    inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _Sentinel, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _Sentinel = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Tp = UCSCElement<SV_BreakPoint*>]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:637:37,
    inlined from ‘_ForwardIterator std::__uninitialized_move_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = UCSCElement<SV_BreakPoint*>*; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Allocator = allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:649:41,
    inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<UCSCElement<SV_BreakPoint*>*, std::vector<UCSCElement<SV_BreakPoint*>, std::allocator<UCSCElement<SV_BreakPoint*> > > >; _Tp = UCSCElement<SV_BreakPoint*>; _Alloc = std::allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/vector.tcc:920:34:
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:266:37: note: parameter passing for argument of type ‘std::move_iterator<UCSCElement<SV_BreakPoint*>*>’ changed in GCC 7.1
  266 |         return std::__do_uninit_copy(__first, __last, __result);
      |                ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*]’,
    inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _Sentinel, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _Sentinel = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Tp = UCSCElement<SV_BreakPoint*>]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:637:37,
    inlined from ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = UCSCElement<SV_BreakPoint*>*; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Allocator = allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:664:2,
    inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<UCSCElement<SV_BreakPoint*>*, std::vector<UCSCElement<SV_BreakPoint*>, std::allocator<UCSCElement<SV_BreakPoint*> > > >; _Tp = UCSCElement<SV_BreakPoint*>; _Alloc = std::allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/vector.tcc:950:9:
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:266:37: note: parameter passing for argument of type ‘std::move_iterator<UCSCElement<SV_BreakPoint*>*>’ changed in GCC 7.1
  266 |         return std::__do_uninit_copy(__first, __last, __result);
      |                ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*]’,
    inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _Sentinel, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator<UCSCElement<SV_BreakPoint*>*>; _Sentinel = move_iterator<UCSCElement<SV_BreakPoint*>*>; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Tp = UCSCElement<SV_BreakPoint*>]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:637:37,
    inlined from ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = UCSCElement<SV_BreakPoint*>*; _ForwardIterator = UCSCElement<SV_BreakPoint*>*; _Allocator = allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:664:2,
    inlined from ‘void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = __gnu_cxx::__normal_iterator<UCSCElement<SV_BreakPoint*>*, std::vector<UCSCElement<SV_BreakPoint*>, std::allocator<UCSCElement<SV_BreakPoint*> > > >; _Tp = UCSCElement<SV_BreakPoint*>; _Alloc = std::allocator<UCSCElement<SV_BreakPoint*> >]’ at /usr/arm-linux-gnueabi/include/c++/15/bits/vector.tcc:958:9:
/usr/arm-linux-gnueabi/include/c++/15/bits/stl_uninitialized.h:266:37: note: parameter passing for argument of type ‘std::move_iterator<UCSCElement<SV_BreakPoint*>*>’ changed in GCC 7.1
  266 |         return std::__do_uninit_copy(__first, __last, __result);
      |                ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
  * compiling SV_Pair.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_Pair.cpp -o ../../obj//SV_Pair.o
In file included from ../utils//BamTools-Ancillary/BamAncillary.h:12,
                 from SV_Pair.cpp:15:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
In file included from SV_BreakPoint.h:19,
                 from SV_PairReader.h:22,
                 from SV_Pair.cpp:19:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
  * compiling SV_Evidence.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_Evidence.cpp -o ../../obj//SV_Evidence.o
In file included from SV_BreakPoint.h:19,
                 from SV_Evidence.h:22,
                 from SV_Evidence.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
SV_Evidence.cpp: In member function ‘virtual void SV_Evidence::set_bp_interval_probability(breakpoint_interval*)’:
SV_Evidence.cpp:81:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
   81 |     for (j = 0; j < size; ++j) {
      |                 ~~^~~~~~
  * compiling SV_BreakPoint.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_BreakPoint.cpp -o ../../obj//SV_BreakPoint.o
In file included from SV_BreakPoint.h:19,
                 from SV_BreakPoint.cpp:16:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
SV_BreakPoint.cpp: In member function ‘bool SV_BreakPoint::merge(SV_BreakPoint*)’:
SV_BreakPoint.cpp:266:33: warning: variable ‘a_overlap_intr’ set but not used [-Wunused-but-set-variable]
  266 |     struct breakpoint_interval *a_overlap_intr, *b_overlap_intr;
      |                                 ^~~~~~~~~~~~~~
SV_BreakPoint.cpp:266:50: warning: variable ‘b_overlap_intr’ set but not used [-Wunused-but-set-variable]
  266 |     struct breakpoint_interval *a_overlap_intr, *b_overlap_intr;
      |                                                  ^~~~~~~~~~~~~~
../utils//UCSCBins/ucsc_bins.hpp: In instantiation of ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS) [with T = SV_BreakPoint*; BIN = unsigned int; CHR_POS = long long unsigned int]’:
../utils//UCSCBins/ucsc_bins.hpp:238:18:   required from ‘void UCSCBins<T>::add(std::string, CHR_POS, CHR_POS, char, T) [with T = SV_BreakPoint*; std::string = std::__cxx11::basic_string<char>; CHR_POS = long long unsigned int]’
  238 |         BIN bin = getBin(start, end);
      |                   ~~~~~~^~~~~~~~~~~~
SV_BreakPoint.cpp:1286:14:   required from here
 1286 |     r_bin.add(interval_r.i.chr,
      |     ~~~~~~~~~^~~~~~~~~~~~~~~~~~
 1287 |               interval_r.i.start,
      |               ~~~~~~~~~~~~~~~~~~~
 1288 |               interval_r.i.end,
      |               ~~~~~~~~~~~~~~~~~
 1289 |               interval_r.i.strand,
      |               ~~~~~~~~~~~~~~~~~~~~
 1290 |               this);
      |               ~~~~~
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
SV_BreakPoint.cpp: In static member function ‘static void SV_BreakPoint::trim_interval(log_space*, unsigned int, int*, int*)’:
SV_BreakPoint.cpp:704:24: warning: ‘max_i’ may be used uninitialized [-Wmaybe-uninitialized]
  704 |     if ((l == r) && (l == max_i))
      |                     ~~~^~~~~~~~~
SV_BreakPoint.cpp:667:21: note: ‘max_i’ was declared here
  667 |     unsigned int i, max_i;
      |                     ^~~~~
SV_BreakPoint.cpp: In static member function ‘static int SV_BreakPoint::get_product(std::vector<SV_BreakPoint*>&, CHR_POS*, CHR_POS*, CHR_POS*, CHR_POS*, log_space**, log_space**)’:
SV_BreakPoint.cpp:1650:41: warning: ‘l_max_i’ may be used uninitialized [-Wmaybe-uninitialized]
 1650 |         CHR_POS abs_max_l = m_start_l + l_max_i;
      |                                         ^~~~~~~
SV_BreakPoint.cpp:1643:25: note: ‘l_max_i’ was declared here
 1643 |         unsigned int i, l_max_i, r_max_i;
      |                         ^~~~~~~
SV_BreakPoint.cpp:1662:41: warning: ‘r_max_i’ may be used uninitialized [-Wmaybe-uninitialized]
 1662 |         CHR_POS abs_max_r = m_start_r + r_max_i;
      |                                         ^~~~~~~
SV_BreakPoint.cpp:1643:34: note: ‘r_max_i’ was declared here
 1643 |         unsigned int i, l_max_i, r_max_i;
      |                                  ^~~~~~~
  * compiling SV_Bedpe.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_Bedpe.cpp -o ../../obj//SV_Bedpe.o
In file included from ../utils//BamTools-Ancillary/BamAncillary.h:12,
                 from SV_Bedpe.cpp:14:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
In file included from SV_BedpeReader.h:21,
                 from SV_Bedpe.cpp:17:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from SV_BedpeReader.h:22:
SV_EvidenceReader.h: At global scope:
SV_EvidenceReader.h:53:18: warning: ‘virtual void SV_EvidenceReader::process_input(BamTools::BamAlignment&, BamTools::RefVector&, BamTools::BamWriter&, UCSCBins<SV_BreakPoint*>&)’ was hidden [-Woverloaded-virtual=]
   53 |     virtual void process_input( BamAlignment &_bam,
      |                  ^~~~~~~~~~~~~
SV_BedpeReader.h:72:14: note:   by ‘void SV_BedpeReader::process_input(UCSCBins<SV_BreakPoint*>&)’
   72 |         void process_input( UCSCBins<SV_BreakPoint*> &r_bin);
      |              ^~~~~~~~~~~~~
SV_EvidenceReader.h:57:18: warning: ‘virtual void SV_EvidenceReader::process_input(BamTools::BamAlignment&, BamTools::RefVector&, UCSCBins<SV_BreakPoint*>&)’ was hidden [-Woverloaded-virtual=]
   57 |     virtual void process_input( BamAlignment &_bam,
      |                  ^~~~~~~~~~~~~
SV_BedpeReader.h:72:14: note:   by ‘void SV_BedpeReader::process_input(UCSCBins<SV_BreakPoint*>&)’
   72 |         void process_input( UCSCBins<SV_BreakPoint*> &r_bin);
      |              ^~~~~~~~~~~~~
  * compiling SV_SplitRead.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_SplitRead.cpp -o ../../obj//SV_SplitRead.o
In file included from ../utils//BamTools-Ancillary/BamAncillary.h:12,
                 from SV_SplitRead.cpp:15:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
In file included from SV_BreakPoint.h:19,
                 from SV_SplitReadReader.h:22,
                 from SV_SplitRead.cpp:19:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
SV_SplitRead.cpp: In member function ‘bool SV_SplitRead::is_sane()’:
SV_SplitRead.cpp:538:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
  538 |     if ( min_mapping_quality < reader->min_mapping_threshold )
      |          ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
SV_SplitRead.cpp: In static member function ‘static void SV_SplitRead::process_split(const BamTools::BamAlignment&, BamTools::RefVector, std::map<std::__cxx11::basic_string<char>, BamTools::BamAlignment>&, UCSCBins<SV_BreakPoint*>&, int, int, SV_SplitReadReader*)’:
SV_SplitRead.cpp:653:25: warning: ‘void free(void*)’ called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  653 |                     free(new_split_read);
      |                     ~~~~^~~~~~~~~~~~~~~~
SV_SplitRead.cpp:641:41: note: returned from ‘void* operator new(std::size_t)’
  641 |                                  _reader);
      |                                         ^
  * compiling SV_SplitReadReader.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_SplitReadReader.cpp -o ../../obj//SV_SplitReadReader.o
In file included from SV_BreakPoint.h:19,
                 from SV_SplitReadReader.h:22,
                 from SV_SplitReadReader.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from ../utils//bedFilePE/bedFilePE.h:12,
                 from SV_SplitRead.h:27,
                 from SV_SplitReadReader.cpp:16:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
  * compiling SV_PairReader.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_PairReader.cpp -o ../../obj//SV_PairReader.o
In file included from SV_BreakPoint.h:19,
                 from SV_PairReader.h:22,
                 from SV_PairReader.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
  * compiling SV_BedpeReader.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_BedpeReader.cpp -o ../../obj//SV_BedpeReader.o
In file included from SV_BreakPoint.h:19,
                 from SV_Evidence.h:22,
                 from SV_Bedpe.h:18,
                 from SV_BedpeReader.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from ../utils//bedFilePE/bedFilePE.h:12,
                 from SV_BedpeReader.h:23,
                 from SV_Bedpe.h:19:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
In file included from SV_Evidence.h:24:
SV_EvidenceReader.h: At global scope:
SV_EvidenceReader.h:57:18: warning: ‘virtual void SV_EvidenceReader::process_input(BamTools::BamAlignment&, BamTools::RefVector&, UCSCBins<SV_BreakPoint*>&)’ was hidden [-Woverloaded-virtual=]
   57 |     virtual void process_input( BamAlignment &_bam,
      |                  ^~~~~~~~~~~~~
SV_BedpeReader.h:72:14: note:   by ‘void SV_BedpeReader::process_input(UCSCBins<SV_BreakPoint*>&)’
   72 |         void process_input( UCSCBins<SV_BreakPoint*> &r_bin);
      |              ^~~~~~~~~~~~~
SV_EvidenceReader.h:53:18: warning: ‘virtual void SV_EvidenceReader::process_input(BamTools::BamAlignment&, BamTools::RefVector&, BamTools::BamWriter&, UCSCBins<SV_BreakPoint*>&)’ was hidden [-Woverloaded-virtual=]
   53 |     virtual void process_input( BamAlignment &_bam,
      |                  ^~~~~~~~~~~~~
SV_BedpeReader.h:72:14: note:   by ‘void SV_BedpeReader::process_input(UCSCBins<SV_BreakPoint*>&)’
   72 |         void process_input( UCSCBins<SV_BreakPoint*> &r_bin);
      |              ^~~~~~~~~~~~~
  * compiling SV_BamReader.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_BamReader.cpp -o ../../obj//SV_BamReader.o
In file included from SV_BreakPoint.h:19,
                 from SV_PairReader.h:22,
                 from SV_BamReader.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from ../utils//bedFilePE/bedFilePE.h:12,
                 from SV_SplitRead.h:27,
                 from SV_BamReader.cpp:19:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
SV_BamReader.cpp: In member function ‘virtual void SV_BamReader::process_input_chr_pos(std::string, CHR_POS, UCSCBins<SV_BreakPoint*>&)’:
SV_BamReader.cpp:208:28: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘CHR_POS’ {aka ‘long long unsigned int’} [-Wsign-compare]
  208 |             ( bam.Position < pos ) ) {
      |               ~~~~~~~~~~~~~^~~~~
  * compiling SV_InterChromBamReader.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_InterChromBamReader.cpp -o ../../obj//SV_InterChromBamReader.o
In file included from SV_BreakPoint.h:19,
                 from SV_PairReader.h:22,
                 from SV_InterChromBamReader.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from ../utils//bedFilePE/bedFilePE.h:12,
                 from SV_SplitRead.h:27,
                 from SV_InterChromBamReader.cpp:19:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
  * compiling SV_EvidenceReader.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_EvidenceReader.cpp -o ../../obj//SV_EvidenceReader.o
In file included from SV_EvidenceReader.h:20,
                 from SV_EvidenceReader.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
  * compiling SV_Tools.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_Tools.cpp -o ../../obj//SV_Tools.o
In file included from SV_Tools.h:19,
                 from SV_Tools.cpp:24:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
In file included from SV_Tools.cpp:27:
../utils//bedFile/bedFile.h: In function ‘BIN getBin(CHRPOS, CHRPOS)’:
../utils//bedFile/bedFile.h:321:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  321 |     for (register short i = 0; i < _binLevels; ++i) {
      |                         ^
../utils//UCSCBins/ucsc_bins.hpp: In instantiation of ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS) [with T = int; BIN = unsigned int; CHR_POS = long long unsigned int]’:
../utils//UCSCBins/ucsc_bins.hpp:238:18:   required from ‘void UCSCBins<T>::add(std::string, CHR_POS, CHR_POS, char, T) [with T = int; std::string = std::__cxx11::basic_string<char>; CHR_POS = long long unsigned int]’
  238 |         BIN bin = getBin(start, end);
      |                   ~~~~~~^~~~~~~~~~~~
SV_Tools.cpp:541:32:   required from here
  541 |             exclude_regions.add(bed.chrom,
      |             ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~
  542 |                                 bed.start,
      |                                 ~~~~~~~~~~
  543 |                                 bed.end,
      |                                 ~~~~~~~~
  544 |                                 '+',
      |                                 ~~~~
  545 |                                 1);
      |                                 ~~
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
SV_Tools.cpp: In function ‘int read_distro_file(std::string, double**, int*, int*)’:
SV_Tools.cpp:156:14: warning: ‘last’ may be used uninitialized [-Wmaybe-uninitialized]
  156 |         *end = last;
      |         ~~~~~^~~~~~
SV_Tools.cpp:143:13: note: ‘last’ was declared here
  143 |         int last;
      |             ^~~~
  * compiling SV_VcfVariant.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack SV_VcfVariant.cpp -o ../../obj//SV_VcfVariant.o
In file included from SV_BreakPoint.h:19,
                 from SV_VcfVariant.h:18,
                 from SV_VcfVariant.cpp:15:
../utils//UCSCBins/ucsc_bins.hpp: In static member function ‘static BIN UCSCBins<T>::getBin(CHR_POS, CHR_POS)’:
../utils//UCSCBins/ucsc_bins.hpp:253:29: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister]
  253 |         for (register short i = 0; i < kBinLevels; ++i) {
      |                             ^
  * compiling log_space.cpp
arm-linux-gnueabi-g++ -g  -c -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -I../utils//bedFile/ -I../utils//bedFilePE/ -I../utils//genomeFile/ -I../utils//version/ -I../utils//lineFileUtilities/ -I../utils//fileType/ -I/usr/include/bamtools -I../utils//BamTools-Ancillary -I../utils//sequenceUtilities -I../utils//UCSCBins -I/usr/include/fastahack log_space.cpp -o ../../obj//log_space.o
  * linking lumpy
arm-linux-gnueabi-g++ -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wall -O2 -D_FILE_OFFSET_BITS=64 -fPIC -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -o ../../bin//lumpy ../../obj//lumpy.o ../../obj//SV_Pair.o ../../obj//SV_Evidence.o ../../obj//SV_BreakPoint.o ../../obj//SV_Bedpe.o ../../obj//SV_SplitRead.o ../../obj//SV_SplitReadReader.o ../../obj//SV_PairReader.o ../../obj//SV_BedpeReader.o ../../obj//SV_BamReader.o ../../obj//SV_InterChromBamReader.o ../../obj//SV_EvidenceReader.o ../../obj//SV_Tools.o ../../obj//SV_VcfVariant.o ../../obj//log_space.o ../../obj//BamAncillary.o ../../obj//sequenceUtils.o ../../obj//bedFilePE.o ../../obj//bedFile.o ../../obj//genomeFile.o ../../obj//fileType.o \
	-L../utils//BamTools/lib/ -lbamtools \
	-lz -L /<<PKGBUILDDIR>>/debian/.debhelper/generated/_source/home/src/zlib-1.2.8 \
	-lgzstream -lz -lm -ldl -lpthread

make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck"
   create-stamp debian/debhelper-build-stamp
   dh_prep -a
   dh_auto_install -a
   debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
cat debian/missing-sources/pe.pos_sorted.sam |samtools view -Sb - > data/pe.pos_sorted.bam
/bin/sh: 1: samtools: Exec format error
make[1]: *** [debian/rules:20: override_dh_install] Error 126
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:11: binary-arch] Error 2
dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2025-11-01T17:32:02Z

+------------------------------------------------------------------------------+
| Finished Timed Build Commands                                                |
+------------------------------------------------------------------------------+


rm -Rf /<<PKGBUILDDIR>>/
--------------------------------------------------


I: Finished running 'rm -Rf /<<PKGBUILDDIR>>/'.

Finished processing commands.
--------------------------------------------------------------------------------

Finished
--------


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

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

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

Build Architecture: amd64
Build Profiles: cross nocheck
Build Type: any
Build-Space: n/a
Build-Time: 47
Distribution: unstable
Fail-Stage: build
Foreign Architectures: armel
Host Architecture: armel
Install-Time: 11
Job: lumpy-sv_0.3.1+dfsg-8
Machine Architecture: amd64
Package: lumpy-sv
Package-Time: 73
Source-Version: 0.3.1+dfsg-8
Space: n/a
Status: attempted
Version: 0.3.1+dfsg-8
--------------------------------------------------------------------------------
Finished at 2025-11-01T17:32:02Z
Build needed 00:01:13, no disk space