jellyfish →
2.3.0-8 →
armhf → 2020-12-10 15:56:50
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| jellyfish 2.3.0-8 (armhf) Thu, 10 Dec 2020 15:21:37 +0000 |
+==============================================================================+
Package: jellyfish
Version: 2.3.0-8
Source Version: 2.3.0-8
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-d42ba30d-8c10-4fd7-80b1-2ec19f68b683' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [12.0 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [13.0 MB]
Fetched 24.9 MB in 10s (2574 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'jellyfish' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/jellyfish.git
Please use:
git clone https://salsa.debian.org/med-team/jellyfish.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 696 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main jellyfish 2.3.0-8 (dsc) [2575 B]
Get:2 http://172.17.0.1/private bullseye-staging/main jellyfish 2.3.0-8 (tar) [679 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main jellyfish 2.3.0-8 (diff) [13.9 kB]
Fetched 696 kB in 0s (2749 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/jellyfish-Lb9bcz/jellyfish-2.3.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/jellyfish-Lb9bcz' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-BEq4sK/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-BEq4sK/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-BEq4sK/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Packages [433 B]
Fetched 2109 B in 0s (7725 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
bsdextrautils libpam-cap netbase sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 59 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 848 B in 0s (61.8 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12594 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), d-shlibs, yaggo, pkg-config, bc, time, procps, swig, python3-all-dev, dh-python, perl, chrpath, libhts-dev, dos2unix, samtools
Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, yaggo, pkg-config, bc, time, procps, swig, python3-all-dev, dh-python, perl, chrpath, libhts-dev, dos2unix, samtools
dpkg-deb: building package 'sbuild-build-depends-jellyfish-dummy' in '/<<BUILDDIR>>/resolver-BEq4sK/apt_archive/sbuild-build-depends-jellyfish-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-jellyfish-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Sources [576 B]
Get:5 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ Packages [655 B]
Fetched 2564 B in 0s (9602 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install jellyfish build dependencies (apt-based resolver)
---------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bc ca-certificates chrpath
d-shlibs debhelper dh-autoreconf dh-python dh-strip-nondeterminism dos2unix
dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl
libbrotli1 libcroco3 libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl
libdeflate-dev libdeflate0 libelf1 libexpat1 libexpat1-dev
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev
libhts3 libicu67 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
liblzma-dev libmagic-mgc libmagic1 libncurses6 libncursesw6 libnghttp2-14
libnsl2 libpipeline1 libprocps8 libpsl5 libpython3-all-dev libpython3-dev
libpython3-stdlib libpython3.9 libpython3.9-dev libpython3.9-minimal
libpython3.9-stdlib librtmp1 libruby2.7 libsigsegv2 libssh2-1 libssl1.1
libsub-override-perl libtinfo6 libtirpc-common libtirpc3 libtool
libuchardet0 libxml2 libyaml-0-2 m4 mailcap man-db media-types mime-support
openssl pkg-config po-debconf procps python3 python3-all python3-all-dev
python3-dev python3-distutils python3-lib2to3 python3-minimal python3.9
python3.9-dev python3.9-minimal rake ruby ruby-minitest ruby-net-telnet
ruby-power-assert ruby-test-unit ruby-xmlrpc ruby2.7 rubygems-integration
samtools swig swig4.0 time yaggo zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff libcurl4-doc libgnutls28-dev
libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev krb5-doc
krb5-user liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk
m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk
python3-venv python3.9-venv python3.9-doc binfmt-support ri ruby-dev bundler
cwltool swig-doc swig-examples swig4.0-examples swig4.0-doc
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs krb5-locales libgpm2 publicsuffix libltdl-dev
libmail-sendmail-perl psmisc zip fonts-lato libjs-jquery
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bc ca-certificates chrpath
d-shlibs debhelper dh-autoreconf dh-python dh-strip-nondeterminism dos2unix
dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl
libbrotli1 libcroco3 libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl
libdeflate-dev libdeflate0 libelf1 libexpat1 libexpat1-dev
libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libhts-dev
libhts3 libicu67 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0
liblzma-dev libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libnsl2
libpipeline1 libprocps8 libpsl5 libpython3-all-dev libpython3-dev
libpython3-stdlib libpython3.9 libpython3.9-dev libpython3.9-minimal
libpython3.9-stdlib librtmp1 libruby2.7 libsigsegv2 libssh2-1 libssl1.1
libsub-override-perl libtirpc-common libtirpc3 libtool libuchardet0 libxml2
libyaml-0-2 m4 mailcap man-db media-types mime-support openssl pkg-config
po-debconf procps python3 python3-all python3-all-dev python3-dev
python3-distutils python3-lib2to3 python3-minimal python3.9 python3.9-dev
python3.9-minimal rake ruby ruby-minitest ruby-net-telnet ruby-power-assert
ruby-test-unit ruby-xmlrpc ruby2.7 rubygems-integration samtools
sbuild-build-depends-jellyfish-dummy swig swig4.0 time yaggo zlib1g-dev
The following packages will be upgraded:
libncursesw6 libtinfo6
2 upgraded, 103 newly installed, 0 to remove and 57 not upgraded.
Need to get 46.5 MB of archives.
After this operation, 155 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-BEq4sK/apt_archive ./ sbuild-build-depends-jellyfish-dummy 0.invalid.0 [940 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.3-2 [1269 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1h-1 [1271 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9-minimal armhf 3.9.1~rc1-2+rpi1 [789 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.10-1 [73.3 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf python3.9-minimal armhf 3.9.1~rc1-2+rpi1 [1624 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf python3-minimal armhf 3.9.0-4 [37.8 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf media-types all 1.0.1 [18.2 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf mailcap all 3.67 [31.3 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf mime-support all 3.66 [10.9 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libtinfo6 armhf 6.2+20201114-1 [328 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf libncursesw6 armhf 6.2+20201114-1 [105 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf libkrb5support0 armhf 1.18.3-4 [62.3 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libk5crypto3 armhf 1.18.3-4 [108 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libkeyutils1 armhf 1.6.1-2 [14.5 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf libkrb5-3 armhf 1.18.3-4 [315 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libgssapi-krb5-2 armhf 1.18.3-4 [142 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libtirpc-common all 1.2.6-3 [13.3 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libtirpc3 armhf 1.2.6-3 [71.2 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libnsl2 armhf 1.3.0-2 [33.2 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9-stdlib armhf 3.9.1~rc1-2+rpi1 [1653 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf python3.9 armhf 3.9.1~rc1-2+rpi1 [460 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.9.0-4 [21.0 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf python3 armhf 3.9.0-4 [64.1 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.2+20201114-1 [79.5 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libprocps8 armhf 2:3.3.16-5 [59.8 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf procps armhf 2:3.3.16-5 [238 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf bc armhf 1.07.1-2+b1 [101 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf time armhf 1.7-25.1 [30.8 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-4 [801 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf openssl armhf 1.1.1h-1 [812 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf ca-certificates all 20200601 [158 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf chrpath armhf 0.16-2 [15.4 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf d-shlibs all 0.96 [17.8 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.2.1 [188 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.9.0-1 [25.5 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.9.0-1 [15.2 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.182-1 [162 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.66.3-2 [1178 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-4 [8289 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.3 [580 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.2.1 [1007 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf python3-lib2to3 all 3.8.6-1 [78.4 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf python3-distutils all 3.8.6-1 [145 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf dh-python all 4.20201102 [99.3 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf dos2unix armhf 7.4.1-1 [387 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.42.0-1 [66.7 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.21.0-1.1 [54.2 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.8.0-2.1 [126 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.72.0-1 [297 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libcurl4-gnutls-dev armhf 7.72.0-1 [371 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libdeflate0 armhf 1.6-1 [47.4 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libdeflate-dev armhf 1.6-1 [40.8 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libexpat1-dev armhf 2.2.10-1 [121 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libhts3 armhf 1.11-2 [318 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf liblzma-dev armhf 5.2.4-1 [203 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libhts-dev armhf 1.11-2 [4495 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9 armhf 3.9.1~rc1-2+rpi1 [1412 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libpython3.9-dev armhf 3.9.1~rc1-2+rpi1 [3057 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libpython3-dev armhf 3.9.0-4 [21.2 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libpython3-all-dev armhf 3.9.0-4 [1068 B]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf rubygems-integration all 1.17.3 [6448 B]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf ruby2.7 armhf 2.7.2-3 [683 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf ruby armhf 1:2.7+1 [11.5 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf rake all 13.0.1-4 [84.7 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf ruby-minitest all 5.13.0-1 [57.3 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf ruby-net-telnet all 0.1.1-2 [12.5 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf ruby-power-assert all 1.1.7-1 [11.4 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf ruby-test-unit all 3.3.5-1 [85.3 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf ruby-xmlrpc all 0.3.0-2 [23.7 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf libyaml-0-2 armhf 0.2.2-1 [40.0 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf libruby2.7 armhf 2.7.2-3 [3837 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf python3-all armhf 3.9.0-4 [1056 B]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf python3.9-dev armhf 3.9.1~rc1-2+rpi1 [501 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf python3-dev armhf 3.9.0-4 [1164 B]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf python3-all-dev armhf 3.9.0-4 [1060 B]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf samtools armhf 1.11-1 [502 kB]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf swig4.0 armhf 4.0.2-1 [1221 kB]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf swig all 4.0.2-1 [330 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf yaggo all 1.5.10-2 [18.9 kB]
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Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ...
Setting up libncurses6:armhf (6.2+20201114-1) ...
Setting up ruby-net-telnet (0.1.1-2) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up pkg-config (0.29.2-1) ...
Setting up d-shlibs (0.96) ...
Setting up libk5crypto3:armhf (1.18.3-4) ...
Setting up liblzma-dev:armhf (5.2.4-1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.8.0-2.1) ...
Setting up libkrb5-3:armhf (1.18.3-4) ...
Setting up dos2unix (7.4.1-1) ...
Setting up swig4.0 (4.0.2-1) ...
Setting up openssl (1.1.1h-1) ...
Setting up libdeflate-dev:armhf (1.6-1) ...
Setting up mailcap (3.67) ...
Setting up libelf1:armhf (0.182-1) ...
Setting up ruby-xmlrpc (0.3.0-2) ...
Setting up libxml2:armhf (2.9.10+dfsg-6.3) ...
Setting up chrpath (0.16-2) ...
Setting up libprocps8:armhf (2:3.3.16-5) ...
Setting up libfile-stripnondeterminism-perl (1.9.0-1) ...
Setting up swig (4.0.2-1) ...
Setting up mime-support (3.66) ...
Setting up libtool (2.4.6-14) ...
Setting up bc (1.07.1-2+b1) ...
Setting up m4 (1.4.18-4) ...
Setting up ca-certificates (20200601) ...
Updating certificates in /etc/ssl/certs...
126 added, 0 removed; done.
Setting up libgssapi-krb5-2:armhf (1.18.3-4) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.9.0-1) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-5) ...
Setting up procps (2:3.3.16-5) ...
update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode
Setting up automake (1:1.16.2-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libtirpc3:armhf (1.2.6-3) ...
Setting up gettext (0.19.8.1-10) ...
Setting up libcurl3-gnutls:armhf (7.72.0-1) ...
Setting up rubygems-integration (1.17.3) ...
Setting up libcurl4-gnutls-dev:armhf (7.72.0-1) ...
Setting up man-db (2.9.3-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libnsl2:armhf (1.3.0-2) ...
Setting up libpython3.9-stdlib:armhf (3.9.1~rc1-2+rpi1) ...
Setting up libpython3-stdlib:armhf (3.9.0-4) ...
Setting up libhts3:armhf (1.11-2) ...
Setting up po-debconf (1.0.21) ...
Setting up libhts-dev:armhf (1.11-2) ...
Setting up samtools (1.11-1) ...
Setting up libpython3.9:armhf (3.9.1~rc1-2+rpi1) ...
Setting up python3.9 (3.9.1~rc1-2+rpi1) ...
Setting up libpython3.9-dev:armhf (3.9.1~rc1-2+rpi1) ...
Setting up python3 (3.9.0-4) ...
Setting up python3.9-dev (3.9.1~rc1-2+rpi1) ...
Setting up python3-lib2to3 (3.8.6-1) ...
Setting up python3-distutils (3.8.6-1) ...
Setting up dh-python (4.20201102) ...
Setting up libpython3-dev:armhf (3.9.0-4) ...
Setting up python3-all (3.9.0-4) ...
Setting up libpython3-all-dev:armhf (3.9.0-4) ...
Setting up python3-dev (3.9.0-4) ...
Setting up python3-all-dev (3.9.0-4) ...
Setting up dh-autoreconf (19) ...
Setting up ruby2.7 (2.7.2-3) ...
Setting up debhelper (13.2.1) ...
Setting up ruby (1:2.7+1) ...
Setting up rake (13.0.1-4) ...
Setting up yaggo (1.5.10-2) ...
Setting up sbuild-build-depends-jellyfish-dummy (0.invalid.0) ...
Setting up libruby2.7:armhf (2.7.2-3) ...
Processing triggers for libc-bin (2.31-4+rpi1) ...
Processing triggers for ca-certificates (20200601) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-76-generic armhf (armv8l)
Toolchain package versions: binutils_2.35.1-2+rpi1 dpkg-dev_1.20.5+rpi1 g++-10_10.2.0-16+rpi1 gcc-10_10.2.0-16+rpi1 libc6-dev_2.31-3+rpi1 libstdc++-10-dev_10.2.0-16+rpi1 libstdc++6_10.2.0-16+rpi1 linux-libc-dev_5.7.10-1+rpi1
Package versions: adduser_3.118 apt_2.1.11 aptitude_0.8.13-2 aptitude-common_0.8.13-2 autoconf_2.69-11.1 automake_1:1.16.2-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.48 bash_5.1~rc2-1 bc_1.07.1-2+b1 binutils_2.35.1-2+rpi1 binutils-arm-linux-gnueabihf_2.35.1-2+rpi1 binutils-common_2.35.1-2+rpi1 bsdextrautils_2.36-3 bsdutils_1:2.36-3 build-essential_12.8 bzip2_1.0.8-4 ca-certificates_20200601 chrpath_0.16-2 coreutils_8.32-4 cpp_4:10.2.0-1+rpi1 cpp-10_10.2.0-16+rpi1 d-shlibs_0.96 dash_0.5.11+git20200708+dd9ef66-2 debconf_1.5.74 debhelper_13.2.1 debianutils_4.11.2 dh-autoreconf_19 dh-python_4.20201102 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dos2unix_7.4.1-1 dpkg_1.20.5+rpi1 dpkg-dev_1.20.5+rpi1 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.25.3-1 fdisk_2.36-3 file_1:5.38-5 findutils_4.7.0+git20201010-2 g++_4:10.2.0-1+rpi1 g++-10_10.2.0-16+rpi1 gcc_4:10.2.0-1+rpi1 gcc-10_10.2.0-16+rpi1 gcc-10-base_10.2.0-16+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.58 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20200821-2 libacl1_2.2.53-8 libapt-pkg6.0_2.1.11 libarchive-zip-perl_1.68-1 libasan6_10.2.0-16+rpi1 libassuan0_2.5.3-7.1 libatomic1_10.2.0-16+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3.1 libaudit1_1:2.8.5-3.1 libbinutils_2.35.1-2+rpi1 libblkid1_2.36-3 libboost-iostreams1.71.0_1.71.0-7 libbrotli1_1.0.9-2+b1 libbz2-1.0_1.0.8-4 libc-bin_2.31-4+rpi1 libc-dev-bin_2.31-3+rpi1 libc6_2.31-3+rpi1 libc6-dev_2.31-3+rpi1 libcap-ng0_0.7.9-2.2 libcap2_1:2.44-1 libcap2-bin_1:2.44-1 libcc1-0_10.2.0-16+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1 libcrypt1_1:4.4.17-1 libctf-nobfd0_2.35.1-2+rpi1 libctf0_2.35.1-2+rpi1 libcurl3-gnutls_7.72.0-1 libcurl4-gnutls-dev_7.72.0-1 libcwidget4_0.5.18-5 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.255 libdebhelper-perl_13.2.1 libdeflate-dev_1.6-1 libdeflate0_1.6-1 libdpkg-perl_1.20.5+rpi1 libelf1_0.182-1 libexpat1_2.2.10-1 libexpat1-dev_2.2.10-1 libext2fs2_1.45.6-1 libfakeroot_1.25.3-1 libfdisk1_2.36-3 libffi7_3.3-5 libfile-stripnondeterminism-perl_1.9.0-1 libgcc-10-dev_10.2.0-16+rpi1 libgcc-s1_10.2.0-16+rpi1 libgcrypt20_1.8.7-2 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libglib2.0-0_2.66.3-2 libgmp10_2:6.2.0+dfsg-6 libgnutls30_3.6.15-4 libgomp1_10.2.0-16+rpi1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.18.3-4 libhogweed6_3.6-2 libhts-dev_1.11-2 libhts3_1.11-2 libicu67_67.1-4 libidn2-0_2.3.0-3 libisl22_0.22.1-1 libk5crypto3_1.18.3-4 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-4 libkrb5support0_1.18.3-4 libksba8_1.4.0-2 libldap-2.4-2_2.4.56+dfsg-1 libldap-common_2.4.56+dfsg-1 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.36-3 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncurses6_6.2+20201114-1 libncursesw6_6.2+20201114-1 libnettle8_3.6-2 libnghttp2-14_1.42.0-1 libnpth0_1.6-3 libnsl2_1.3.0-2 libp11-kit0_0.23.21-2 libpam-cap_1:2.44-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libperl5.32_5.32.0-5 libpipeline1_1.5.3-1 libprocps8_2:3.3.16-5 libpsl5_0.21.0-1.1 libpython3-all-dev_3.9.0-4 libpython3-dev_3.9.0-4 libpython3-stdlib_3.9.0-4 libpython3.9_3.9.1~rc1-2+rpi1 libpython3.9-dev_3.9.1~rc1-2+rpi1 libpython3.9-minimal_3.9.1~rc1-2+rpi1 libpython3.9-stdlib_3.9.1~rc1-2+rpi1 libreadline8_8.1~rc2-2 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libruby2.7_2.7.2-3 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.5.0-3+rpi1 libselinux1_3.1-2 libsemanage-common_3.1-1 libsemanage1_3.1-1 libsepol1_3.1-1 libsigc++-2.0-0v5_2.10.4-2 libsigsegv2_2.12-2 libsmartcols1_2.36-3 libsqlite3-0_3.33.0-1 libss2_1.45.6-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1h-1 libstdc++-10-dev_10.2.0-16+rpi1 libstdc++6_10.2.0-16+rpi1 libsub-override-perl_0.09-2 libsystemd0_246.6-2+rpi1 libtasn1-6_4.16.0-2 libtinfo6_6.2+20201114-1 libtirpc-common_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libubsan1_10.2.0-16+rpi1 libuchardet0_0.0.7-1 libudev1_246.6-2+rpi1 libunistring2_0.9.10-4 libuuid1_2.36-3 libxapian30_1.4.17-1 libxml2_2.9.10+dfsg-6.3 libyaml-0-2_0.2.2-1 libzstd1_1.4.5+dfsg-4+rpi1 linux-libc-dev_5.7.10-1+rpi1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 mailcap_3.67 make_4.3-4 man-db_2.9.3-2 mawk_1.3.4.20200120-2 media-types_1.0.1 mime-support_3.66 mount_2.36-3 ncurses-base_6.2+20200918-1 ncurses-bin_6.2+20200918-1 netbase_6.2 openssl_1.1.1h-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.32_5.32.0-5 pinentry-curses_1.1.0-4 pkg-config_0.29.2-1 po-debconf_1.0.21 procps_2:3.3.16-5 python3_3.9.0-4 python3-all_3.9.0-4 python3-all-dev_3.9.0-4 python3-dev_3.9.0-4 python3-distutils_3.8.6-1 python3-lib2to3_3.8.6-1 python3-minimal_3.9.0-4 python3.9_3.9.1~rc1-2+rpi1 python3.9-dev_3.9.1~rc1-2+rpi1 python3.9-minimal_3.9.1~rc1-2+rpi1 rake_13.0.1-4 raspbian-archive-keyring_20120528.2 readline-common_8.1~rc2-2 ruby_1:2.7+1 ruby-minitest_5.13.0-1 ruby-net-telnet_0.1.1-2 ruby-power-assert_1.1.7-1 ruby-test-unit_3.3.5-1 ruby-xmlrpc_0.3.0-2 ruby2.7_2.7.2-3 rubygems-integration_1.17.3 samtools_1.11-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-jellyfish-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 swig_4.0.2-1 swig4.0_4.0.2-1 sysvinit-utils_2.96-5 tar_1.30+dfsg-7 time_1.7-25.1 tzdata_2020d-1 util-linux_2.36-3 xz-utils_5.2.4-1 yaggo_1.5.10-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.Z8Y_8U0V/trustedkeys.kbx': General error
gpgv: Signature made Sat Dec 5 09:56:02 2020 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./jellyfish_2.3.0-8.dsc
dpkg-source: info: extracting jellyfish in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking jellyfish_2.3.0.orig.tar.gz
dpkg-source: info: unpacking jellyfish_2.3.0-8.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying manpage_whatis_entry.patch
dpkg-source: info: applying reproducible.patch
dpkg-source: info: applying portability.patch
dpkg-source: info: applying fix_replacement_of_-L_option.patch
dpkg-source: info: applying test_needs_bash
dpkg-source: info: applying python3
dpkg-source: info: applying fix-32-bit.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-d42ba30d-8c10-4fd7-80b1-2ec19f68b683
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package jellyfish
dpkg-buildpackage: info: source version 2.3.0-8
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with python3
debian/rules override_dh_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_clean
if [ -d debian/tmp_save_tests ] ; then \
mv debian/tmp_save_tests/* tests ; \
rmdir debian/tmp_save_tests ; \
fi
rm -f tests/compat.sh
rm -f swig/python/jellyfish* # swig/python/dna_jellyfish.py
rm -f swig/perl5/blib/arch/auto/jellyfish/jellyfish.so
rm -f swig/perl5/blib/bin/.exists
rm -f swig/perl5/blib/lib/.exists
rm -f swig/perl5/blib/lib/auto/jellyfish/.exists
rm -f swig/perl5/blib/man1/.exists
rm -f swig/perl5/blib/man3/.exists
rm -f swig/perl5/blib/script/.exists
rm -f swig/perl5/jellyfish.bs
rm -f swig/perl5/pm_to_blib
rm -rf swig/perl5/MYMETA.json swig/perl5/MYMETA.yml swig/perl5/Makefile swig/perl5/blib/
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules binary-arch
dh binary-arch --with python3
dh_update_autotools_config -a
dh_autoreconf -a
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'.
libtoolize: copying file 'm4/libtool.m4'
libtoolize: copying file 'm4/ltoptions.m4'
libtoolize: copying file 'm4/ltsugar.m4'
libtoolize: copying file 'm4/ltversion.m4'
libtoolize: copying file 'm4/lt~obsolete.m4'
configure.ac:8: installing './compile'
configure.ac:2: installing './config.guess'
configure.ac:2: installing './config.sub'
configure.ac:4: installing './install-sh'
configure.ac:4: installing './missing'
Makefile.am: installing './depcomp'
parallel-tests: installing './test-driver'
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_configure -- --enable-swig --enable-perl-binding --enable-htslib --enable-python-binding PYTHON=/usr/bin/python3
./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-swig --enable-perl-binding --enable-htslib --enable-python-binding PYTHON=/usr/bin/python3
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking whether make supports nested variables... (cached) yes
checking how to print strings... printf
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
checking for mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for shared library run path origin... done
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for htslib... yes
checking for samtools... /usr/bin/samtools
checking for unix2dos... /usr/bin/unix2dos
checking for md5sum... md5sum
checking for yaggo... /usr/bin/yaggo
checking for x86 cpuid output... unknown
checking for x86-AVX xgetbv output... unknown
checking for __int128... no
checking for std::numeric_limits<__int128>... no
checking for _NSGetExecutablePath... no
checking for execinfo.h... yes
checking for ext/stdio_filebuf.h... yes
checking for sys/syscall.h... yes
checking for siginfo_t.si_int... yes
checking for swig... /usr/bin/swig
checking SWIG version... 4.0.2
checking for SWIG library... /usr/share/swig4.0
checking for python... /usr/bin/python3
checking for a version of Python >= '2.1.0'... yes
checking for the distutils Python package... yes
checking for Python include path... -I/usr/include/python3.9
checking for Python library path... -L/usr/lib -lpython3.9
checking for Python site-packages path... /usr/lib/python3/dist-packages
checking python extra libraries... -lcrypt -lpthread -ldl -lutil -lm -lm
checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions
checking consistency of all components of python development environment... yes
checking for perl... /usr/bin/perl
checking for Perl prefix... /usr
checking for Perl extension include path... /usr/lib/arm-linux-gnueabihf/perl/5.32/CORE
checking for Perl extension target directory... /usr/lib/perl/5.32.0
checking for Perl extensions C preprocessor flags... -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include
checking for Perl extensions linker flags... -shared -L/usr/local/lib -fstack-protector-strong
checking for posix_memalign... yes
checking for aligned_alloc... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating compat.sh
config.status: creating jellyfish-2.0.pc
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
dh_auto_configure --sourcedirectory=swig/perl5
cd swig/perl5 && perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "LD=arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -lpthread"
-I/<<PKGBUILDDIR>>/debian/tmp//usr/include/jellyfish-2.3.0
-L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -lpthread
-L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
Warning (mostly harmless): No library found for -ljellyfish-2.0
Generating a Unix-style Makefile
Writing Makefile for jellyfish
Writing MYMETA.yml and MYMETA.json
dh_auto_configure --sourcedirectory=swig/python --buildsystem=pybuild
I: pybuild base:232: python3.9 setup.py config
running config
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
mkdir -p debian/tmp_save_tests
cp -a tests/* debian/tmp_save_tests
dh_auto_build --no-parallel -- all bin/generate_sequence bin/test_all bin/fastq2sam
make -j1 all bin/generate_sequence bin/test_all bin/fastq2sam
make[2]: Entering directory '/<<PKGBUILDDIR>>'
/usr/bin/yaggo --license ./header-license -o sub_commands/count_main_cmdline.hpp sub_commands/count_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/info_main_cmdline.hpp sub_commands/info_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/dump_main_cmdline.hpp sub_commands/dump_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/histo_main_cmdline.hpp sub_commands/histo_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/stats_main_cmdline.hpp sub_commands/stats_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/merge_main_cmdline.hpp sub_commands/merge_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/bc_main_cmdline.hpp sub_commands/bc_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/query_main_cmdline.hpp sub_commands/query_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/cite_main_cmdline.hpp sub_commands/cite_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o sub_commands/mem_main_cmdline.hpp sub_commands/mem_main_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o jellyfish/generate_sequence_cmdline.hpp jellyfish/generate_sequence_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o jellyfish/fastq2sam_cmdline.hpp jellyfish/fastq2sam_cmdline.yaggo
/usr/bin/yaggo --license ./header-license -o unit_tests/test_main_cmdline.hpp unit_tests/test_main_cmdline.yaggo
/usr/bin/swig -c++ -python -I./../include -o swig/python/swig_wrap.cpp swig/jellyfish.i
/usr/bin/swig -c++ -perl5 -I./../include -o swig/perl5/swig_wrap.cpp swig/jellyfish.i
make all-am
make[3]: Entering directory '/<<PKGBUILDDIR>>'
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/jellyfish.o sub_commands/jellyfish.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/count_main.o sub_commands/count_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/info_main.o sub_commands/info_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/dump_main.o sub_commands/dump_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/histo_main.o sub_commands/histo_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/stats_main.o sub_commands/stats_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/merge_main.o sub_commands/merge_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/bc_main.o sub_commands/bc_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/query_main.o sub_commands/query_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/cite_main.o sub_commands/cite_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o sub_commands/mem_main.o sub_commands/mem_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/merge_files.o jellyfish/merge_files.cc
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/rectangular_binary_matrix.lo lib/rectangular_binary_matrix.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/rectangular_binary_matrix.cc -fPIC -DPIC -o lib/.libs/rectangular_binary_matrix.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/rectangular_binary_matrix.cc -o lib/rectangular_binary_matrix.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/mer_dna.lo lib/mer_dna.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/mer_dna.cc -fPIC -DPIC -o lib/.libs/mer_dna.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/mer_dna.cc -o lib/mer_dna.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/storage.lo lib/storage.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/storage.cc -fPIC -DPIC -o lib/.libs/storage.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/storage.cc -o lib/storage.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/allocators_mmap.lo lib/allocators_mmap.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/allocators_mmap.cc -fPIC -DPIC -o lib/.libs/allocators_mmap.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/allocators_mmap.cc -o lib/allocators_mmap.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/misc.lo lib/misc.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/misc.cc -fPIC -DPIC -o lib/.libs/misc.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/misc.cc -o lib/misc.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/int128.lo lib/int128.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/int128.cc -fPIC -DPIC -o lib/.libs/int128.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/int128.cc -o lib/int128.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/thread_exec.lo lib/thread_exec.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/thread_exec.cc -fPIC -DPIC -o lib/.libs/thread_exec.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/thread_exec.cc -o lib/thread_exec.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/jsoncpp.lo lib/jsoncpp.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/jsoncpp.cpp -fPIC -DPIC -o lib/.libs/jsoncpp.o
In file included from /usr/include/c++/10/map:60,
from ./include/jellyfish/json.h:331,
from lib/jsoncpp.cpp:76:
/usr/include/c++/10/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {std::pair<const Json::Value::CZString, Json::Value>&}; _Key = Json::Value::CZString; _Val = std::pair<const Json::Value::CZString, Json::Value>; _KeyOfValue = std::_Select1st<std::pair<const Json::Value::CZString, Json::Value> >; _Compare = std::less<Json::Value::CZString>; _Alloc = std::allocator<std::pair<const Json::Value::CZString, Json::Value> >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<Json::Value::CZString, std::pair<const Json::Value::CZString, Json::Value>, std::_Select1st<std::pair<const Json::Value::CZString, Json::Value> >, std::less<Json::Value::CZString>, std::allocator<std::pair<const Json::Value::CZString, Json::Value> > >::const_iterator' changed in GCC 7.1
2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from ./include/jellyfish/json.h:331,
from lib/jsoncpp.cpp:76:
/usr/include/c++/10/bits/stl_map.h: In member function 'Json::Value& Json::Value::operator[](Json::Value::ArrayIndex)':
/usr/include/c++/10/bits/stl_map.h:877:38: note: parameter passing for argument of type 'std::map<Json::Value::CZString, Json::Value>::const_iterator' {aka 'std::_Rb_tree<Json::Value::CZString, std::pair<const Json::Value::CZString, Json::Value>, std::_Select1st<std::pair<const Json::Value::CZString, Json::Value> >, std::less<Json::Value::CZString>, std::allocator<std::pair<const Json::Value::CZString, Json::Value> > >::const_iterator'} changed in GCC 7.1
877 | return _M_t._M_emplace_hint_unique(__position,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
878 | std::forward<_Pair>(__x));
| ~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h: In member function 'Json::Value& Json::Value::resolveReference(const char*, bool)':
/usr/include/c++/10/bits/stl_map.h:877:38: note: parameter passing for argument of type 'std::map<Json::Value::CZString, Json::Value>::const_iterator' {aka 'std::_Rb_tree<Json::Value::CZString, std::pair<const Json::Value::CZString, Json::Value>, std::_Select1st<std::pair<const Json::Value::CZString, Json::Value> >, std::less<Json::Value::CZString>, std::allocator<std::pair<const Json::Value::CZString, Json::Value> > >::const_iterator'} changed in GCC 7.1
877 | return _M_t._M_emplace_hint_unique(__position,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
878 | std::forward<_Pair>(__x));
| ~~~~~~~~~~~~~~~~~~~~~~~~~
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/jsoncpp.cpp -o lib/jsoncpp.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/time.lo lib/time.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/time.cc -fPIC -DPIC -o lib/.libs/time.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/time.cc -o lib/time.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o lib/generator_manager.lo lib/generator_manager.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/generator_manager.cc -fPIC -DPIC -o lib/.libs/generator_manager.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c lib/generator_manager.cc -o lib/generator_manager.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -version-info 2:0:0 -Wl,-z,relro -Wl,-z,now -lpthread -o libjellyfish-2.0.la -rpath /usr/lib/arm-linux-gnueabihf lib/rectangular_binary_matrix.lo lib/mer_dna.lo lib/storage.lo lib/allocators_mmap.lo lib/misc.lo lib/int128.lo lib/thread_exec.lo lib/jsoncpp.lo lib/time.lo lib/generator_manager.lo
libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o lib/.libs/rectangular_binary_matrix.o lib/.libs/mer_dna.o lib/.libs/storage.o lib/.libs/allocators_mmap.o lib/.libs/misc.o lib/.libs/int128.o lib/.libs/thread_exec.o lib/.libs/jsoncpp.o lib/.libs/time.o lib/.libs/generator_manager.o -lpthread -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,libjellyfish-2.0.so.2 -o .libs/libjellyfish-2.0.so.2.0.0
libtool: link: (cd ".libs" && rm -f "libjellyfish-2.0.so.2" && ln -s "libjellyfish-2.0.so.2.0.0" "libjellyfish-2.0.so.2")
libtool: link: (cd ".libs" && rm -f "libjellyfish-2.0.so" && ln -s "libjellyfish-2.0.so.2.0.0" "libjellyfish-2.0.so")
libtool: link: ar cr .libs/libjellyfish-2.0.a lib/rectangular_binary_matrix.o lib/mer_dna.o lib/storage.o lib/allocators_mmap.o lib/misc.o lib/int128.o lib/thread_exec.o lib/jsoncpp.o lib/time.o lib/generator_manager.o
libtool: link: ranlib .libs/libjellyfish-2.0.a
libtool: link: ( cd ".libs" && rm -f "libjellyfish-2.0.la" && ln -s "../libjellyfish-2.0.la" "libjellyfish-2.0.la" )
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -R/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -Wl,-z,relro -Wl,-z,now -lpthread -o bin/jellyfish sub_commands/jellyfish.o sub_commands/count_main.o sub_commands/info_main.o sub_commands/dump_main.o sub_commands/histo_main.o sub_commands/stats_main.o sub_commands/merge_main.o sub_commands/bc_main.o sub_commands/query_main.o sub_commands/cite_main.o sub_commands/mem_main.o jellyfish/merge_files.o libjellyfish-2.0.la
libtool: link: g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/jellyfish sub_commands/jellyfish.o sub_commands/count_main.o sub_commands/info_main.o sub_commands/dump_main.o sub_commands/histo_main.o sub_commands/stats_main.o sub_commands/merge_main.o sub_commands/bc_main.o sub_commands/query_main.o sub_commands/cite_main.o sub_commands/mem_main.o jellyfish/merge_files.o -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/lib/arm-linux-gnueabihf/perl/5.32/CORE -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo `test -f 'swig/perl5/swig_wrap.cpp' || echo './'`swig/perl5/swig_wrap.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/lib/arm-linux-gnueabihf/perl/5.32/CORE -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c swig/perl5/swig_wrap.cpp -fPIC -DPIC -o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/lib/arm-linux-gnueabihf/perl/5.32/CORE -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c swig/perl5/swig_wrap.cpp -o swig/perl5/swig_perl5_jellyfish_la-swig_wrap.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.32.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la
libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -Wl,-rpath -Wl,/<<PKGBUILDDIR>>/.libs -lpthread ./.libs/libjellyfish-2.0.so -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0
libtool: link: (cd "swig/perl5/.libs" && rm -f "jellyfish.so.0" && ln -s "jellyfish.so.0.0.0" "jellyfish.so.0")
libtool: link: (cd "swig/perl5/.libs" && rm -f "jellyfish.so" && ln -s "jellyfish.so.0.0.0" "jellyfish.so")
libtool: link: ar cr swig/perl5/.libs/jellyfish.a swig/perl5/swig_perl5_jellyfish_la-swig_wrap.o
libtool: link: ranlib swig/perl5/.libs/jellyfish.a
libtool: link: ( cd "swig/perl5/.libs" && rm -f "jellyfish.la" && ln -s "../jellyfish.la" "jellyfish.la" )
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I/usr/include/python3.9 -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo `test -f 'swig/python/swig_wrap.cpp' || echo './'`swig/python/swig_wrap.cpp
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/python3.9 -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c swig/python/swig_wrap.cpp -fPIC -DPIC -o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -I/usr/include/python3.9 -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c swig/python/swig_wrap.cpp -o swig/python/swig_python__dna_jellyfish_la-swig_wrap.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3/dist-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la
libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -Wl,-rpath -Wl,/<<PKGBUILDDIR>>/.libs -lpthread ./.libs/libjellyfish-2.0.so -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0
libtool: link: (cd "swig/python/.libs" && rm -f "_dna_jellyfish.so.0" && ln -s "_dna_jellyfish.so.0.0.0" "_dna_jellyfish.so.0")
libtool: link: (cd "swig/python/.libs" && rm -f "_dna_jellyfish.so" && ln -s "_dna_jellyfish.so.0.0.0" "_dna_jellyfish.so")
libtool: link: ar cr swig/python/.libs/_dna_jellyfish.a swig/python/swig_python__dna_jellyfish_la-swig_wrap.o
libtool: link: ranlib swig/python/.libs/_dna_jellyfish.a
libtool: link: ( cd "swig/python/.libs" && rm -f "_dna_jellyfish.la" && ln -s "../_dna_jellyfish.la" "_dna_jellyfish.la" )
/usr/bin/python3 -c 'import py_compile, sys; py_compile.compile(sys.argv[1], sys.argv[2])' swig/python/dna_jellyfish.py swig/python/__init__.pyc
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/generate_sequence.o jellyfish/generate_sequence.cc
In file included from /usr/include/c++/10/vector:72,
from jellyfish/generate_sequence.cc:10:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator<long long unsigned int>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<long long unsigned int>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'void generate_sequence_args::parse(int, char**)':
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<long long unsigned int*, std::vector<long long unsigned int> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/mersenne.o jellyfish/mersenne.cpp
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/backtrace.o jellyfish/backtrace.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/dbg.o jellyfish/dbg.cc
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -R/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -Wl,-z,relro -Wl,-z,now -lpthread -o bin/generate_sequence jellyfish/generate_sequence.o jellyfish/mersenne.o jellyfish/backtrace.o jellyfish/dbg.o libjellyfish-2.0.la
libtool: link: g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/generate_sequence jellyfish/generate_sequence.o jellyfish/mersenne.o jellyfish/backtrace.o jellyfish/dbg.o -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_main.o `test -f 'unit_tests/test_main.cc' || echo './'`unit_tests/test_main.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_misc.o `test -f 'unit_tests/test_misc.cc' || echo './'`unit_tests/test_misc.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_offsets_key_value.o `test -f 'unit_tests/test_offsets_key_value.cc' || echo './'`unit_tests/test_offsets_key_value.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_simple_circular_buffer.o `test -f 'unit_tests/test_simple_circular_buffer.cc' || echo './'`unit_tests/test_simple_circular_buffer.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_rectangular_binary_matrix.o `test -f 'unit_tests/test_rectangular_binary_matrix.cc' || echo './'`unit_tests/test_rectangular_binary_matrix.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_mer_dna.o `test -f 'unit_tests/test_mer_dna.cc' || echo './'`unit_tests/test_mer_dna.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_large_hash_array.o `test -f 'unit_tests/test_large_hash_array.cc' || echo './'`unit_tests/test_large_hash_array.cc
In file included from /usr/include/c++/10/map:60,
from unit_tests/test_large_hash_array.cc:5:
/usr/include/c++/10/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>&>, std::tuple<>}; _Key = jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>; _Val = std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>; _KeyOfValue = std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >; _Compare = std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >; _Alloc = std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from unit_tests/test_large_hash_array.cc:5:
/usr/include/c++/10/bits/stl_map.h: In function '{anonymous}::arrays_ptr {anonymous}::fill_array(size_t, size_t, int, int, int)':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h: In member function 'virtual void {anonymous}::HashArray_Collisions_Test::TestBody()':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h: In member function 'virtual void {anonymous}::Hash_Update_Test::TestBody()':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_mer_overlap_sequence_parser.o `test -f 'unit_tests/test_mer_overlap_sequence_parser.cc' || echo './'`unit_tests/test_mer_overlap_sequence_parser.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_file_header.o `test -f 'unit_tests/test_file_header.cc' || echo './'`unit_tests/test_file_header.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_mer_iterator.o `test -f 'unit_tests/test_mer_iterator.cc' || echo './'`unit_tests/test_mer_iterator.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_hash_counter.o `test -f 'unit_tests/test_hash_counter.cc' || echo './'`unit_tests/test_hash_counter.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_mer_heap.o `test -f 'unit_tests/test_mer_heap.cc' || echo './'`unit_tests/test_mer_heap.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_stream_iterator.o `test -f 'unit_tests/test_stream_iterator.cc' || echo './'`unit_tests/test_stream_iterator.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_token_ring.o `test -f 'unit_tests/test_token_ring.cc' || echo './'`unit_tests/test_token_ring.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_text_dumper.o `test -f 'unit_tests/test_text_dumper.cc' || echo './'`unit_tests/test_text_dumper.cc
In file included from /usr/include/c++/10/map:60,
from unit_tests/test_text_dumper.cc:1:
/usr/include/c++/10/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>&>, std::tuple<>}; _Key = jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>; _Val = std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>; _KeyOfValue = std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >; _Compare = std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >; _Alloc = std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from unit_tests/test_text_dumper.cc:1:
/usr/include/c++/10/bits/stl_map.h: In member function 'virtual void {anonymous}::hash_adder::start(int)':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h: In member function 'virtual void {anonymous}::TextDumper_Random_Test::TestBody()':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int>, std::_Select1st<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> >, std::less<jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0> >, std::allocator<std::pair<const jellyfish::mer_dna_ns::mer_base_static<long long unsigned int, 0>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_dumpers.o `test -f 'unit_tests/test_dumpers.cc' || echo './'`unit_tests/test_dumpers.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_mapped_file.o `test -f 'unit_tests/test_mapped_file.cc' || echo './'`unit_tests/test_mapped_file.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_int128.o `test -f 'unit_tests/test_int128.cc' || echo './'`unit_tests/test_int128.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_mer_dna_bloom_counter.o `test -f 'unit_tests/test_mer_dna_bloom_counter.cc' || echo './'`unit_tests/test_mer_dna_bloom_counter.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_whole_sequence_parser.o `test -f 'unit_tests/test_whole_sequence_parser.cc' || echo './'`unit_tests/test_whole_sequence_parser.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_allocators_mmap.o `test -f 'unit_tests/test_allocators_mmap.cc' || echo './'`unit_tests/test_allocators_mmap.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_cooperative_pool2.o `test -f 'unit_tests/test_cooperative_pool2.cc' || echo './'`unit_tests/test_cooperative_pool2.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_generator_manager.o `test -f 'unit_tests/test_generator_manager.cc' || echo './'`unit_tests/test_generator_manager.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_atomic_bits_array.o `test -f 'unit_tests/test_atomic_bits_array.cc' || echo './'`unit_tests/test_atomic_bits_array.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/bin_test_all-test_stdio_filebuf.o `test -f 'unit_tests/test_stdio_filebuf.cc' || echo './'`unit_tests/test_stdio_filebuf.cc
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/bin_test_all-backtrace.o `test -f 'jellyfish/backtrace.cc' || echo './'`jellyfish/backtrace.cc
/bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -I./unit_tests/gtest -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o unit_tests/gtest/src/libgtest_la-gtest-all.lo `test -f 'unit_tests/gtest/src/gtest-all.cc' || echo './'`unit_tests/gtest/src/gtest-all.cc
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -I./unit_tests/gtest -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c unit_tests/gtest/src/gtest-all.cc -fPIC -DPIC -o unit_tests/gtest/src/.libs/libgtest_la-gtest-all.o
libtool: compile: g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -I./unit_tests/gtest -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c unit_tests/gtest/src/gtest-all.cc -o unit_tests/gtest/src/libgtest_la-gtest-all.o >/dev/null 2>&1
/bin/bash ./libtool --tag=CXX --mode=link g++ -I./unit_tests -I./unit_tests/gtest -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -R/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -Wl,-z,relro -Wl,-z,now -lpthread -o libgtest.la unit_tests/gtest/src/libgtest_la-gtest-all.lo
libtool: link: ar cr .libs/libgtest.a unit_tests/gtest/src/.libs/libgtest_la-gtest-all.o
libtool: link: ranlib .libs/libgtest.a
libtool: link: ( cd ".libs" && rm -f "libgtest.la" && ln -s "../libgtest.la" "libgtest.la" )
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -R/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -Wl,-z,relro -Wl,-z,now -lpthread -o bin/test_all unit_tests/bin_test_all-test_main.o unit_tests/bin_test_all-test_misc.o unit_tests/bin_test_all-test_offsets_key_value.o unit_tests/bin_test_all-test_simple_circular_buffer.o unit_tests/bin_test_all-test_rectangular_binary_matrix.o unit_tests/bin_test_all-test_mer_dna.o unit_tests/bin_test_all-test_large_hash_array.o unit_tests/bin_test_all-test_mer_overlap_sequence_parser.o unit_tests/bin_test_all-test_file_header.o unit_tests/bin_test_all-test_mer_iterator.o unit_tests/bin_test_all-test_hash_counter.o unit_tests/bin_test_all-test_mer_heap.o unit_tests/bin_test_all-test_stream_iterator.o unit_tests/bin_test_all-test_token_ring.o unit_tests/bin_test_all-test_text_dumper.o unit_tests/bin_test_all-test_dumpers.o unit_tests/bin_test_all-test_mapped_file.o unit_tests/bin_test_all-test_int128.o unit_tests/bin_test_all-test_mer_dna_bloom_counter.o unit_tests/bin_test_all-test_whole_sequence_parser.o unit_tests/bin_test_all-test_allocators_mmap.o unit_tests/bin_test_all-test_cooperative_pool2.o unit_tests/bin_test_all-test_generator_manager.o unit_tests/bin_test_all-test_atomic_bits_array.o unit_tests/bin_test_all-test_stdio_filebuf.o jellyfish/bin_test_all-backtrace.o libgtest.la libjellyfish-2.0.la
libtool: link: g++ -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/test_all unit_tests/bin_test_all-test_main.o unit_tests/bin_test_all-test_misc.o unit_tests/bin_test_all-test_offsets_key_value.o unit_tests/bin_test_all-test_simple_circular_buffer.o unit_tests/bin_test_all-test_rectangular_binary_matrix.o unit_tests/bin_test_all-test_mer_dna.o unit_tests/bin_test_all-test_large_hash_array.o unit_tests/bin_test_all-test_mer_overlap_sequence_parser.o unit_tests/bin_test_all-test_file_header.o unit_tests/bin_test_all-test_mer_iterator.o unit_tests/bin_test_all-test_hash_counter.o unit_tests/bin_test_all-test_mer_heap.o unit_tests/bin_test_all-test_stream_iterator.o unit_tests/bin_test_all-test_token_ring.o unit_tests/bin_test_all-test_text_dumper.o unit_tests/bin_test_all-test_dumpers.o unit_tests/bin_test_all-test_mapped_file.o unit_tests/bin_test_all-test_int128.o unit_tests/bin_test_all-test_mer_dna_bloom_counter.o unit_tests/bin_test_all-test_whole_sequence_parser.o unit_tests/bin_test_all-test_allocators_mmap.o unit_tests/bin_test_all-test_cooperative_pool2.o unit_tests/bin_test_all-test_generator_manager.o unit_tests/bin_test_all-test_atomic_bits_array.o unit_tests/bin_test_all-test_stdio_filebuf.o jellyfish/bin_test_all-backtrace.o -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf ./.libs/libgtest.a -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o jellyfish/fastq2sam.o jellyfish/fastq2sam.cc
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -R/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -Wl,-z,relro -Wl,-z,now -lpthread -o bin/fastq2sam jellyfish/fastq2sam.o libjellyfish-2.0.la
libtool: link: g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -pthread -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/fastq2sam jellyfish/fastq2sam.o -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_install -- install-data
make -j1 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no install-data
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make install-am
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[4]: Entering directory '/<<PKGBUILDDIR>>'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
/bin/bash ./libtool --mode=install /usr/bin/install -c libjellyfish-2.0.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.so.2.0.0 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2 || { rm -f libjellyfish-2.0.so.2 && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so || { rm -f libjellyfish-2.0.so && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so; }; })
libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.la
libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/bin/bash ./libtool --mode=install /usr/bin/install -c bin/jellyfish '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
libtool: warning: 'libjellyfish-2.0.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c bin/.libs/jellyfish /<<PKGBUILDDIR>>/debian/tmp/usr/bin/jellyfish
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
/usr/bin/install -c -m 644 'doc/jellyfish.man' '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1/jellyfish.1'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
libtool: warning: relinking 'swig/perl5/jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.32.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/usr/bin/install -c -m 644 jellyfish-2.0.pc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
libtool: warning: relinking 'swig/python/_dna_jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3/dist-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.la
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/python3/dist-packages/dna_jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/usr/bin/install -c swig/python/__init__.pyc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
make[4]: Leaving directory '/<<PKGBUILDDIR>>'
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
/usr/bin/install -c -m 644 'doc/jellyfish.man' '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1/jellyfish.1'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
libtool: warning: relinking 'swig/perl5/jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.32.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/usr/bin/install -c -m 644 jellyfish-2.0.pc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
libtool: warning: relinking 'swig/python/_dna_jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3/dist-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.la
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/python3/dist-packages/dna_jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/usr/bin/install -c swig/python/__init__.pyc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build --sourcedirectory=swig/perl5
cd swig/perl5 && make -j4
make[2]: Entering directory '/<<PKGBUILDDIR>>/swig/perl5'
Running Mkbootstrap for jellyfish ()
g++ -c -std=c++0x -I/<<PKGBUILDDIR>>/debian/tmp//usr/include/jellyfish-2.3.0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.0.1\" -DXS_VERSION=\"0.0.1\" -fPIC "-I/usr/lib/arm-linux-gnueabihf/perl/5.32/CORE" swig_wrap.cpp
chmod 644 "jellyfish.bs"
"/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- jellyfish.bs blib/arch/auto/jellyfish/jellyfish.bs 644
rm -f blib/arch/auto/jellyfish/jellyfish.so
arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -lpthread -shared -L/usr/local/lib -fstack-protector-strong swig_wrap.o -o blib/arch/auto/jellyfish/jellyfish.so \
-lpthread \
chmod 755 blib/arch/auto/jellyfish/jellyfish.so
make[2]: Leaving directory '/<<PKGBUILDDIR>>/swig/perl5'
dh_auto_build --sourcedirectory=swig/python --buildsystem=pybuild
I: pybuild base:232: /usr/bin/python3 setup.py build build_ext -L/<<PKGBUILDDIR>>/.libs
running build
running build_py
copying dna_jellyfish.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9_dna_jellyfish/build
running build_ext
building '_dna_jellyfish' extension
creating build
creating build/temp.linux-armhf-3.9
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/<<PKGBUILDDIR>>/debian/tmp//usr/include/jellyfish-2.3.0 -I/usr/include/python3.9 -c swig_wrap.cpp -o build/temp.linux-armhf-3.9/swig_wrap.o -std=c++0x
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -lpthread -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/swig_wrap.o -L-L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -L/<<PKGBUILDDIR>>/.libs -ljellyfish-2.0 -lpthread -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9_dna_jellyfish/build/_dna_jellyfish.cpython-39-arm-linux-gnueabihf.so -Wl,-rpath,-L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
echo "Test data are to big for 32bit architectures thus no testing is done"
Test data are to big for 32bit architectures thus no testing is done
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_testroot -a
dh_prep -a
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
chrpath --delete bin/.libs/*
dh_auto_install -- install-data
make -j1 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no install-data
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make install-am
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[4]: Entering directory '/<<PKGBUILDDIR>>'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
/bin/bash ./libtool --mode=install /usr/bin/install -c libjellyfish-2.0.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.so.2.0.0 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2 || { rm -f libjellyfish-2.0.so.2 && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so || { rm -f libjellyfish-2.0.so && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so; }; })
libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.la
libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/bin/bash ./libtool --mode=install /usr/bin/install -c bin/jellyfish '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
libtool: warning: 'libjellyfish-2.0.la' has not been installed in '/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c bin/.libs/jellyfish /<<PKGBUILDDIR>>/debian/tmp/usr/bin/jellyfish
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
/usr/bin/install -c -m 644 'doc/jellyfish.man' '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1/jellyfish.1'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
libtool: warning: relinking 'swig/perl5/jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.32.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/usr/bin/install -c -m 644 jellyfish-2.0.pc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
libtool: warning: relinking 'swig/python/_dna_jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3/dist-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.la
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/python3/dist-packages/dna_jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/usr/bin/install -c swig/python/__init__.pyc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
make[4]: Leaving directory '/<<PKGBUILDDIR>>'
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/<<PKGBUILDDIR>>/debian/tmp/usr/include/jellyfish-2.3.0/jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
/usr/bin/install -c -m 644 'doc/jellyfish.man' '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1/jellyfish.1'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
libtool: warning: relinking 'swig/perl5/jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -Wno-error -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.32.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.32.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/usr/bin/install -c -m 644 jellyfish-2.0.pc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
libtool: warning: relinking 'swig/python/_dna_jellyfish.la'
libtool: install: (cd /<<PKGBUILDDIR>>; /bin/bash "/<<PKGBUILDDIR>>/libtool" --tag CXX --mode=relink g++ -Werror -std=c++11 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3/dist-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /<<PKGBUILDDIR>>/debian/tmp)
libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/10/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -ljellyfish-2.0 -L/usr/lib/gcc/arm-linux-gnueabihf/10 -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/10/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/10/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/10/../../../arm-linux-gnueabihf/crtn.o -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; })
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; })
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.la
libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish/_dna_jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/python3/dist-packages/dna_jellyfish'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
/usr/bin/install -c swig/python/__init__.pyc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3/dist-packages/dna_jellyfish'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_install --sourcedirectory=swig/python --buildsystem=pybuild
I: pybuild base:232: /usr/bin/python3 setup.py install --root /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish
running install
running build
running build_py
running build_ext
running install_lib
creating /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish
creating /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr
creating /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib
creating /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.9
creating /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.9/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9_dna_jellyfish/build/dna_jellyfish.py -> /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.9/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9_dna_jellyfish/build/_dna_jellyfish.cpython-39-arm-linux-gnueabihf.so -> /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.9/dist-packages
byte-compiling /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.9/dist-packages/dna_jellyfish.py to dna_jellyfish.cpython-39.pyc
running install_egg_info
Writing /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.9/dist-packages/dna_jellyfish-0.0.1.egg-info
dh_auto_install --sourcedirectory=swig/perl5
cd swig/perl5 && make -j4 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr
make[2]: Entering directory '/<<PKGBUILDDIR>>/swig/perl5'
"/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- jellyfish.bs blib/arch/auto/jellyfish/jellyfish.bs 644
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/perl5/5.32/auto/jellyfish/jellyfish.so
make[2]: Leaving directory '/<<PKGBUILDDIR>>/swig/perl5'
ls -l debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so
-r-xr-xr-x 1 buildd buildd 1139348 Dec 10 15:55 debian/tmp/usr/lib/arm-linux-gnueabihf/perl5/5.32/auto/jellyfish/jellyfish.so
if [ ! -e debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so ] ; then sleep 1; fi
chmod +w debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so
chrpath --delete debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so
dh_install
d-shlibmove --commit \
--multiarch \
--devunversioned \
--movedev "debian/tmp/usr/include/jellyfish*/jellyfish/*.hpp" usr/include/jellyfish \
--movedev "debian/tmp/usr/include/jellyfish*/jellyfish/*.h" usr/include/jellyfish \
--movedev config.h usr/include/jellyfish \
debian/tmp/usr/lib/*/libjellyfish-*.so
Library package automatic movement utility
set -e
install -d -m 755 debian/libjellyfish-2.0-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libjellyfish-2.0-2/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a debian/libjellyfish-2.0-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.la debian/libjellyfish-2.0-dev/usr/lib/arm-linux-gnueabihf || true
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so debian/libjellyfish-2.0-dev/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2 debian/libjellyfish-2.0-2/usr/lib/arm-linux-gnueabihf
mv /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2.0.0 debian/libjellyfish-2.0-2/usr/lib/arm-linux-gnueabihf
PKGDEV=libjellyfish-2.0-dev
PKGSHL=libjellyfish-2.0-2
install -d -m 755 debian/libjellyfish-2.0-dev/usr/include/jellyfish
mv debian/tmp/usr/include/jellyfish*/jellyfish/*.hpp debian/libjellyfish-2.0-dev/usr/include/jellyfish
install -d -m 755 debian/libjellyfish-2.0-dev/usr/include/jellyfish
mv debian/tmp/usr/include/jellyfish*/jellyfish/*.h debian/libjellyfish-2.0-dev/usr/include/jellyfish
install -d -m 755 debian/libjellyfish-2.0-dev/usr/include/jellyfish
mv config.h debian/libjellyfish-2.0-dev/usr/include/jellyfish
sed -i "/dependency_libs/ s/'.*'/''/" ./debian/libjellyfish-2.0-dev/usr/lib/arm-linux-gnueabihf/*.la
chrpath --delete debian/*/usr/lib/python*/dist-packages/_dna_jellyfish*.so
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
dh_installexamples -a
dh_installman -a
dh_python3 -a
dh_lintian -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
debian/rules override_dh_missing
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# Python files are just installed
rm -rf debian/tmp/usr/lib/python3/dist-packages
# Necessary Perl files are just installed
rm -rf debian/tmp/usr/lib/perl/5.32.0
dh_missing
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_dwz -a -a
dh_strip -a -a
dh_makeshlibs -a -a
dh_shlibdeps -a -a
dpkg-shlibdeps: warning: debian/jellyfish/usr/lib/jellyfish/bin/generate_sequence contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/jellyfish/usr/bin/jellyfish contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/jellyfish/usr/lib/jellyfish/bin/test_all contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/jellyfish/usr/lib/jellyfish/bin/fastq2sam contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/jellyfish/usr/lib/jellyfish/bin/generate_sequence debian/jellyfish/usr/bin/jellyfish debian/jellyfish/usr/lib/jellyfish/bin/test_all debian/jellyfish/usr/lib/jellyfish/bin/fastq2sam were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dpkg-shlibdeps: warning: symbol __aeabi_atexit@CXXABI_ARM_1.3.3 used by debian/libjellyfish-2.0-2/usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2.0.0 found in none of the libraries
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: package python3-dna-jellyfish: substitution variable ${python3:Provides} unused, but is defined
dpkg-gencontrol: warning: package python3-dna-jellyfish: substitution variable ${python3:Versions} unused, but is defined
dpkg-gencontrol: warning: package python3-dna-jellyfish: substitution variable ${python3:Provides} unused, but is defined
dpkg-gencontrol: warning: package python3-dna-jellyfish: substitution variable ${python3:Versions} unused, but is defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'jellyfish' in '../jellyfish_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'libjellyfish-2.0-2-dbgsym' in '../libjellyfish-2.0-2-dbgsym_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'python3-dna-jellyfish-dbgsym' in '../python3-dna-jellyfish-dbgsym_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'libjellyfish-perl' in '../libjellyfish-perl_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'libjellyfish-2.0-dev' in '../libjellyfish-2.0-dev_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'libjellyfish-perl-dbgsym' in '../libjellyfish-perl-dbgsym_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'python3-dna-jellyfish' in '../python3-dna-jellyfish_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'jellyfish-dbgsym' in '../jellyfish-dbgsym_2.3.0-8_armhf.deb'.
dpkg-deb: building package 'libjellyfish-2.0-2' in '../libjellyfish-2.0-2_2.3.0-8_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../jellyfish_2.3.0-8_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-12-10T15:56:41Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
jellyfish_2.3.0-8_armhf.changes:
--------------------------------
Format: 1.8
Date: Sat, 05 Dec 2020 09:54:41 +0100
Source: jellyfish
Binary: jellyfish jellyfish-dbgsym libjellyfish-2.0-2 libjellyfish-2.0-2-dbgsym libjellyfish-2.0-dev libjellyfish-perl libjellyfish-perl-dbgsym python3-dna-jellyfish python3-dna-jellyfish-dbgsym
Architecture: armhf
Version: 2.3.0-8
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
jellyfish - count k-mers in DNA sequences
libjellyfish-2.0-2 - count k-mers in DNA sequences (dynamic library of jellyfish)
libjellyfish-2.0-dev - count k-mers in DNA sequences (development files of jellyfish)
libjellyfish-perl - count k-mers in DNA sequences (Perl bindings of jellyfish)
python3-dna-jellyfish - count k-mers in DNA sequences (Python bindings of jellyfish)
Closes: 976429
Changes:
jellyfish (2.3.0-8) unstable; urgency=medium
.
* Add Breaks+Replaces: jellyfish-examples (<< 2.3.0-7)
Closes: #976429
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7695bb5fddb56e4d7c1fb2076e0627d32918d8d3fd250bdbc64bd8bde613e004 343984 libjellyfish-perl-dbgsym_2.3.0-8_armhf.deb
158ea19b05b7cec769c66e536ebbe2755c5930af72aaa1b420617612797abfd1 56584 libjellyfish-perl_2.3.0-8_armhf.deb
3bb19cb18d2ca464f47725d83f08203495cfcc3bd42050f86b7fa0701c7093d9 325348 python3-dna-jellyfish-dbgsym_2.3.0-8_armhf.deb
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Files:
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cc93364e2d0072cd3520d2b7972260c8 621112 science optional jellyfish_2.3.0-8_armhf.deb
215d77cea8d4872d94787fa67c165119 530012 debug optional libjellyfish-2.0-2-dbgsym_2.3.0-8_armhf.deb
6b1c4caddf7db4a2354cb9e6945ae28a 56056 libs optional libjellyfish-2.0-2_2.3.0-8_armhf.deb
89a30bf065f529867657cac249b76011 128584 libdevel optional libjellyfish-2.0-dev_2.3.0-8_armhf.deb
20dd37f95401d15cf099d047e61de769 343984 debug optional libjellyfish-perl-dbgsym_2.3.0-8_armhf.deb
9b88f433d9c6cc30734cd215ef57c739 56584 perl optional libjellyfish-perl_2.3.0-8_armhf.deb
088bcf2f6c8f98559c52d1de890f3333 325348 debug optional python3-dna-jellyfish-dbgsym_2.3.0-8_armhf.deb
9b4c24ab7d5fef89f7d743855202605a 53880 python optional python3-dna-jellyfish_2.3.0-8_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
jellyfish-dbgsym_2.3.0-8_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 6770108 bytes: control archive=748 bytes.
502 bytes, 12 lines control
513 bytes, 5 lines md5sums
Package: jellyfish-dbgsym
Source: jellyfish
Version: 2.3.0-8
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 7335
Depends: jellyfish (= 2.3.0-8)
Section: debug
Priority: optional
Description: debug symbols for jellyfish
Build-Ids: 29b6a6f1de776cf0eef9f4aed1b8611f0eed8ef9 b792bbf67bfc282a0a1a0e25108a930c1bb6c7e0 dc734bbe823d37bd14bde93fef547365e43855fd f13f46f85a60fa5ad3fa775326cffb286487b1ac
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/
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drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/f1/
-rw-r--r-- root/root 1332692 2020-12-05 08:54 ./usr/lib/debug/.build-id/f1/3f46f85a60fa5ad3fa775326cffb286487b1ac.debug
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 101652 2020-12-05 08:54 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/jellyfish.debug
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-12-05 08:54 ./usr/share/doc/jellyfish-dbgsym -> jellyfish
jellyfish_2.3.0-8_armhf.deb
---------------------------
new Debian package, version 2.0.
size 621112 bytes: control archive=1312 bytes.
1230 bytes, 25 lines control
822 bytes, 12 lines md5sums
Package: jellyfish
Version: 2.3.0-8
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1706
Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.5), libhts3 (>= 1.10), libjellyfish-2.0-2 (= 2.3.0-8), libstdc++6 (>= 9)
Breaks: jellyfish-examples (<< 2.3.0-7)
Replaces: jellyfish-examples (<< 2.3.0-7)
Section: science
Priority: optional
Homepage: https://www.cbcb.umd.edu/software/jellyfish/
Description: count k-mers in DNA sequences
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in
DNA. A k-mer is a substring of length k, and counting the occurrences
of all such substrings is a central step in many analyses of DNA
sequence. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/bin/
-rwxr-xr-x root/root 282716 2020-12-05 08:54 ./usr/bin/jellyfish
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/jellyfish/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/jellyfish/bin/
-rwxr-xr-x root/root 22228 2020-12-05 08:54 ./usr/lib/jellyfish/bin/fastq2sam
-rwxr-xr-x root/root 26420 2020-12-05 08:54 ./usr/lib/jellyfish/bin/generate_sequence
-rwxr-xr-x root/root 1156888 2020-12-05 08:54 ./usr/lib/jellyfish/bin/test_all
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc-base/
-rw-r--r-- root/root 987 2020-12-05 08:54 ./usr/share/doc-base/jellyfish
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/jellyfish/
-rw-r--r-- root/root 321 2020-12-05 08:54 ./usr/share/doc/jellyfish/README.test
-rw-r--r-- root/root 3968 2020-12-05 08:54 ./usr/share/doc/jellyfish/changelog.Debian.gz
-rw-r--r-- root/root 284 2019-07-13 12:16 ./usr/share/doc/jellyfish/changelog.gz
-rw-r--r-- root/root 6321 2020-12-05 08:54 ./usr/share/doc/jellyfish/copyright
-rw-r--r-- root/root 221453 2019-07-13 12:16 ./usr/share/doc/jellyfish/jellyfish.pdf.gz
-rw-r--r-- root/root 1665 2020-12-05 08:54 ./usr/share/doc/jellyfish/run-unit-test
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/man/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/man/man1/
-rw-r--r-- root/root 4554 2020-12-05 08:54 ./usr/share/man/man1/jellyfish.1.gz
libjellyfish-2.0-2-dbgsym_2.3.0-8_armhf.deb
-------------------------------------------
new Debian package, version 2.0.
size 530012 bytes: control archive=560 bytes.
422 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libjellyfish-2.0-2-dbgsym
Source: jellyfish
Version: 2.3.0-8
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 563
Depends: libjellyfish-2.0-2 (= 2.3.0-8)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libjellyfish-2.0-2
Build-Ids: be9dd21c85190eb1194dae307cd68f40a43b6710
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/be/
-rw-r--r-- root/root 565392 2020-12-05 08:54 ./usr/lib/debug/.build-id/be/9dd21c85190eb1194dae307cd68f40a43b6710.debug
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-12-05 08:54 ./usr/share/doc/libjellyfish-2.0-2-dbgsym -> libjellyfish-2.0-2
libjellyfish-2.0-2_2.3.0-8_armhf.deb
------------------------------------
new Debian package, version 2.0.
size 56056 bytes: control archive=1260 bytes.
1263 bytes, 28 lines control
413 bytes, 5 lines md5sums
49 bytes, 1 lines shlibs
67 bytes, 2 lines triggers
Package: libjellyfish-2.0-2
Source: jellyfish
Version: 2.3.0-8
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 160
Depends: libc6 (>= 2.7), libgcc-s1 (>= 3.5), libstdc++6 (>= 5.2)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: https://www.cbcb.umd.edu/software/jellyfish/
Description: count k-mers in DNA sequences (dynamic library of jellyfish)
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in
DNA. A k-mer is a substring of length k, and counting the occurrences
of all such substrings is a central step in many analyses of DNA
sequence. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
.
This package contains the dynamic library the main executable of
jellyfish is linked to.
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2 -> libjellyfish-2.0.so.2.0.0
-rw-r--r-- root/root 136612 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2.0.0
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
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-rw-r--r-- root/root 3968 2020-12-05 08:54 ./usr/share/doc/libjellyfish-2.0-2/changelog.Debian.gz
-rw-r--r-- root/root 284 2019-07-13 12:16 ./usr/share/doc/libjellyfish-2.0-2/changelog.gz
-rw-r--r-- root/root 6321 2020-12-05 08:54 ./usr/share/doc/libjellyfish-2.0-2/copyright
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/lintian/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 230 2020-12-05 08:54 ./usr/share/lintian/overrides/libjellyfish-2.0-2
libjellyfish-2.0-dev_2.3.0-8_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 128584 bytes: control archive=2552 bytes.
1235 bytes, 28 lines control
4257 bytes, 57 lines md5sums
Package: libjellyfish-2.0-dev
Source: jellyfish
Version: 2.3.0-8
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 608
Depends: libjellyfish-2.0-2 (= 2.3.0-8)
Section: libdevel
Priority: optional
Multi-Arch: same
Homepage: https://www.cbcb.umd.edu/software/jellyfish/
Description: count k-mers in DNA sequences (development files of jellyfish)
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in
DNA. A k-mer is a substring of length k, and counting the occurrences
of all such substrings is a central step in many analyses of DNA
sequence. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
.
This package contains the development files (static library and
header files)
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/include/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/include/jellyfish/
-rw-r--r-- root/root 1596 2020-12-05 08:54 ./usr/include/jellyfish/allocators_mmap.hpp
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-rw-r--r-- root/root 4770 2020-12-05 08:54 ./usr/include/jellyfish/atomic_field.hpp
-rw-r--r-- root/root 1392 2020-12-05 08:54 ./usr/include/jellyfish/atomic_gcc.hpp
-rw-r--r-- root/root 272 2020-12-05 08:54 ./usr/include/jellyfish/backtrace.hpp
-rw-r--r-- root/root 6829 2020-12-05 08:54 ./usr/include/jellyfish/binary_dumper.hpp
-rw-r--r-- root/root 3480 2020-12-05 08:54 ./usr/include/jellyfish/bloom_common.hpp
-rw-r--r-- root/root 6778 2020-12-05 08:54 ./usr/include/jellyfish/bloom_counter2.hpp
-rw-r--r-- root/root 5447 2020-12-05 08:54 ./usr/include/jellyfish/bloom_filter.hpp
-rw-r--r-- root/root 5211 2020-12-05 08:54 ./usr/include/jellyfish/circular_buffer.hpp
-rw-r--r-- root/root 2408 2020-12-05 08:54 ./usr/include/jellyfish/compare_and_swap.hpp
-rw-r--r-- root/root 5716 2020-12-05 08:54 ./usr/include/jellyfish/config.h
-rw-r--r-- root/root 7472 2020-12-05 08:54 ./usr/include/jellyfish/cooperative_pool.hpp
-rw-r--r-- root/root 8494 2020-12-05 08:54 ./usr/include/jellyfish/cooperative_pool2.hpp
-rw-r--r-- root/root 4125 2020-12-05 08:54 ./usr/include/jellyfish/cpp_array.hpp
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-rw-r--r-- root/root 2710 2020-12-05 08:54 ./usr/include/jellyfish/dumper.hpp
-rw-r--r-- root/root 2257 2020-12-05 08:54 ./usr/include/jellyfish/err.hpp
-rw-r--r-- root/root 4033 2020-12-05 08:54 ./usr/include/jellyfish/file_header.hpp
-rw-r--r-- root/root 4637 2020-12-05 08:54 ./usr/include/jellyfish/generator_manager.hpp
-rw-r--r-- root/root 6814 2020-12-05 08:54 ./usr/include/jellyfish/generic_file_header.hpp
-rw-r--r-- root/root 8326 2020-12-05 08:54 ./usr/include/jellyfish/hash_counter.hpp
-rw-r--r-- root/root 7025 2020-12-05 08:54 ./usr/include/jellyfish/int128.hpp
-rw-r--r-- root/root 1118 2020-12-05 08:54 ./usr/include/jellyfish/jellyfish.hpp
-rw-r--r-- root/root 61697 2020-12-05 08:54 ./usr/include/jellyfish/json.h
-rw-r--r-- root/root 40578 2020-12-05 08:54 ./usr/include/jellyfish/large_hash_array.hpp
-rw-r--r-- root/root 7564 2020-12-05 08:54 ./usr/include/jellyfish/large_hash_iterator.hpp
-rw-r--r-- root/root 4328 2020-12-05 08:54 ./usr/include/jellyfish/locks_pthread.hpp
-rw-r--r-- root/root 5181 2020-12-05 08:54 ./usr/include/jellyfish/mapped_file.hpp
-rw-r--r-- root/root 23866 2020-12-05 08:54 ./usr/include/jellyfish/mer_dna.hpp
-rw-r--r-- root/root 1296 2020-12-05 08:54 ./usr/include/jellyfish/mer_dna_bloom_counter.hpp
-rw-r--r-- root/root 3076 2020-12-05 08:54 ./usr/include/jellyfish/mer_heap.hpp
-rw-r--r-- root/root 2588 2020-12-05 08:54 ./usr/include/jellyfish/mer_iterator.hpp
-rw-r--r-- root/root 9371 2020-12-05 08:54 ./usr/include/jellyfish/mer_overlap_sequence_parser.hpp
-rw-r--r-- root/root 3247 2020-12-05 08:54 ./usr/include/jellyfish/mer_qual_iterator.hpp
-rw-r--r-- root/root 8066 2020-12-05 08:54 ./usr/include/jellyfish/misc.hpp
-rw-r--r-- root/root 10025 2020-12-05 08:54 ./usr/include/jellyfish/offsets_key_value.hpp
-rw-r--r-- root/root 960 2020-12-05 08:54 ./usr/include/jellyfish/parser_common.hpp
-rw-r--r-- root/root 12884 2020-12-05 08:54 ./usr/include/jellyfish/rectangular_binary_matrix.hpp
-rw-r--r-- root/root 2311 2020-12-05 08:54 ./usr/include/jellyfish/sam_format.hpp
-rw-r--r-- root/root 3504 2020-12-05 08:54 ./usr/include/jellyfish/simple_circular_buffer.hpp
-rw-r--r-- root/root 3407 2020-12-05 08:54 ./usr/include/jellyfish/sorted_dumper.hpp
-rw-r--r-- root/root 5069 2020-12-05 08:54 ./usr/include/jellyfish/stdio_filebuf.hpp
-rw-r--r-- root/root 602 2020-12-05 08:54 ./usr/include/jellyfish/storage.hpp
-rw-r--r-- root/root 2036 2020-12-05 08:54 ./usr/include/jellyfish/stream_iterator.hpp
-rw-r--r-- root/root 6318 2020-12-05 08:54 ./usr/include/jellyfish/stream_manager.hpp
-rw-r--r-- root/root 2063 2020-12-05 08:54 ./usr/include/jellyfish/text_dumper.hpp
-rw-r--r-- root/root 994 2020-12-05 08:54 ./usr/include/jellyfish/thread_exec.hpp
-rw-r--r-- root/root 1884 2020-12-05 08:54 ./usr/include/jellyfish/time.hpp
-rw-r--r-- root/root 1599 2020-12-05 08:54 ./usr/include/jellyfish/token_ring.hpp
-rw-r--r-- root/root 6761 2020-12-05 08:54 ./usr/include/jellyfish/whole_sequence_parser.hpp
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 227120 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.a
-rw-r--r-- root/root 1009 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.la
lrwxrwxrwx root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so -> libjellyfish-2.0.so.2.0.0
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 276 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/pkgconfig/jellyfish-2.0.pc
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/libjellyfish-2.0-dev/
-rw-r--r-- root/root 3968 2020-12-05 08:54 ./usr/share/doc/libjellyfish-2.0-dev/changelog.Debian.gz
-rw-r--r-- root/root 284 2019-07-13 12:16 ./usr/share/doc/libjellyfish-2.0-dev/changelog.gz
-rw-r--r-- root/root 6321 2020-12-05 08:54 ./usr/share/doc/libjellyfish-2.0-dev/copyright
libjellyfish-perl-dbgsym_2.3.0-8_armhf.deb
------------------------------------------
new Debian package, version 2.0.
size 343984 bytes: control archive=560 bytes.
419 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libjellyfish-perl-dbgsym
Source: jellyfish
Version: 2.3.0-8
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 370
Depends: libjellyfish-perl (= 2.3.0-8)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libjellyfish-perl
Build-Ids: 8ee35a0ad9e3729a9bf008234ee8fe80e92468ec
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/8e/
-rw-r--r-- root/root 368240 2020-12-05 08:54 ./usr/lib/debug/.build-id/8e/e35a0ad9e3729a9bf008234ee8fe80e92468ec.debug
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-12-05 08:54 ./usr/share/doc/libjellyfish-perl-dbgsym -> libjellyfish-perl
libjellyfish-perl_2.3.0-8_armhf.deb
-----------------------------------
new Debian package, version 2.0.
size 56584 bytes: control archive=1136 bytes.
1239 bytes, 27 lines control
405 bytes, 5 lines md5sums
Package: libjellyfish-perl
Source: jellyfish
Version: 2.3.0-8
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 171
Depends: perl (>= 5.32.0-5), perlapi-5.32.0, libc6 (>= 2.4), libgcc-s1 (>= 3.5)
Section: perl
Priority: optional
Multi-Arch: same
Homepage: https://www.cbcb.umd.edu/software/jellyfish/
Description: count k-mers in DNA sequences (Perl bindings of jellyfish)
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in
DNA. A k-mer is a substring of length k, and counting the occurrences
of all such substrings is a central step in many analyses of DNA
sequence. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
.
This package contains the Perl bindings of jellyfish.
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/perl5/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/perl5/5.32/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/perl5/5.32/auto/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/perl5/5.32/auto/jellyfish/
-rw-r--r-- root/root 141252 2020-12-05 08:54 ./usr/lib/arm-linux-gnueabihf/perl5/5.32/auto/jellyfish/jellyfish.so
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/libjellyfish-perl/
-rw-r--r-- root/root 3968 2020-12-05 08:54 ./usr/share/doc/libjellyfish-perl/changelog.Debian.gz
-rw-r--r-- root/root 284 2019-07-13 12:16 ./usr/share/doc/libjellyfish-perl/changelog.gz
-rw-r--r-- root/root 6321 2020-12-05 08:54 ./usr/share/doc/libjellyfish-perl/copyright
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/perl5/
-rw-r--r-- root/root 7412 2020-12-05 08:54 ./usr/share/perl5/jellyfish.pm
python3-dna-jellyfish-dbgsym_2.3.0-8_armhf.deb
----------------------------------------------
new Debian package, version 2.0.
size 325348 bytes: control archive=548 bytes.
414 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: python3-dna-jellyfish-dbgsym
Source: jellyfish
Version: 2.3.0-8
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 355
Depends: python3-dna-jellyfish (= 2.3.0-8)
Section: debug
Priority: optional
Description: debug symbols for python3-dna-jellyfish
Build-Ids: 37045d489727631dad007c52a719af7344642f66
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/debug/.build-id/37/
-rw-r--r-- root/root 352868 2020-12-05 08:54 ./usr/lib/debug/.build-id/37/045d489727631dad007c52a719af7344642f66.debug
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-12-05 08:54 ./usr/share/doc/python3-dna-jellyfish-dbgsym -> python3-dna-jellyfish
python3-dna-jellyfish_2.3.0-8_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 53880 bytes: control archive=1504 bytes.
1299 bytes, 26 lines control
540 bytes, 6 lines md5sums
267 bytes, 12 lines * postinst #!/bin/sh
416 bytes, 12 lines * prerm #!/bin/sh
Package: python3-dna-jellyfish
Source: jellyfish
Version: 2.3.0-8
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 165
Depends: python3 (<< 3.10), python3 (>= 3.9~), python3:any, libc6 (>= 2.4), libgcc-s1 (>= 3.5), libjellyfish-2.0-2 (>= 2.3.0), libstdc++6 (>= 5.2)
Section: python
Priority: optional
Homepage: https://www.cbcb.umd.edu/software/jellyfish/
Description: count k-mers in DNA sequences (Python bindings of jellyfish)
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in
DNA. A k-mer is a substring of length k, and counting the occurrences
of all such substrings is a central step in many analyses of DNA
sequence. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
.
This package contains the Python bindings of jellyfish.
drwxr-xr-x root/root 0 2020-12-05 08:54 ./
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/python3/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/lib/python3/dist-packages/
-rw-r--r-- root/root 130536 2020-12-05 08:54 ./usr/lib/python3/dist-packages/_dna_jellyfish.cpython-39-arm-linux-gnueabihf.so
-rw-r--r-- root/root 224 2020-12-05 08:54 ./usr/lib/python3/dist-packages/dna_jellyfish-0.0.1.egg-info
-rw-r--r-- root/root 12878 2020-12-05 08:54 ./usr/lib/python3/dist-packages/dna_jellyfish.py
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-12-05 08:54 ./usr/share/doc/python3-dna-jellyfish/
-rw-r--r-- root/root 3968 2020-12-05 08:54 ./usr/share/doc/python3-dna-jellyfish/changelog.Debian.gz
-rw-r--r-- root/root 284 2019-07-13 12:16 ./usr/share/doc/python3-dna-jellyfish/changelog.gz
-rw-r--r-- root/root 6321 2020-12-05 08:54 ./usr/share/doc/python3-dna-jellyfish/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 148936
Build-Time: 1500
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 584
Job: jellyfish_2.3.0-8
Machine Architecture: armhf
Package: jellyfish
Package-Time: 2104
Source-Version: 2.3.0-8
Space: 148936
Status: successful
Version: 2.3.0-8
--------------------------------------------------------------------------------
Finished at 2020-12-10T15:56:41Z
Build needed 00:35:04, 148936k disk space