jellyfish →
2.3.0-13 →
armhf → 2022-04-15 07:44:00
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-04
+==============================================================================+
| jellyfish 2.3.0-13 (armhf) Fri, 15 Apr 2022 06:52:43 +0000 |
+==============================================================================+
Package: jellyfish
Version: 2.3.0-13
Source Version: 2.3.0-13
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bookworm-staging-armhf-sbuild-e782155b-3966-4d4a-a38e-dd7968c41a4b' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [12.9 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.9 MB]
Fetched 26.8 MB in 28s (967 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: http://172.17.4.1/private/dists/bookworm-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| 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 697 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main jellyfish 2.3.0-13 (dsc) [3224 B]
Get:2 http://172.17.4.1/private bookworm-staging/main jellyfish 2.3.0-13 (tar) [679 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main jellyfish 2.3.0-13 (diff) [14.9 kB]
Fetched 697 kB in 0s (4318 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/jellyfish-Oy1FXY/jellyfish-2.3.0' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/jellyfish-Oy1FXY' 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-WktK4B/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-WktK4B/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-WktK4B/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: 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 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: 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-WktK4B/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (2815 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:
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 32 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-WktK4B/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 (22.1 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12608 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 amd64 arm64 armel armhf i386 mips64el ppc64el hppa hurd-i386 ia64 kfreebsd-amd64 kfreebsd-i386 riscv64 all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), d-shlibs, autoconf-archive, 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, autoconf-archive, 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-WktK4B/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-WktK4B/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Sources [588 B]
Get:5 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ Packages [662 B]
Fetched 2583 B in 1s (3396 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 package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf autoconf-archive automake autopoint autotools-dev bc bsdextrautils
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 libbsd0 libcurl3-gnutls
libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libedit2
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libglib2.0-0 libhts-dev libhts3 libhtscodecs2 libicu67 libjs-jquery
libjs-sphinxdoc libjs-underscore liblzma-dev libmagic-mgc libmagic1 libmd0
libmpdec3 libncurses6 libnghttp2-14 libpipeline1 libprocps8 libpsl5
libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10
libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.9
libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib librtmp1
libruby3.0 libsigsegv2 libssh2-1 libsub-override-perl libtool libuchardet0
libxml2 libyaml-0-2 m4 man-db media-types openssl pkg-config po-debconf
procps python3 python3-all python3-all-dev python3-dev python3-distutils
python3-lib2to3 python3-minimal python3.10 python3.10-dev python3.10-minimal
python3.9 python3.9-dev python3.9-minimal rake ruby ruby-net-telnet
ruby-rubygems ruby-xmlrpc ruby3.0 rubygems-integration samtools swig swig4.0
time yaggo zlib1g zlib1g-dev
Suggested packages:
gnu-standards autoconf-doc dh-make flit python3-build python3-tomli
python3-installer gettext-doc libasprintf-dev libgettextpo-dev groff
libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev
librtmp-dev libssh2-1-dev liblzma-doc libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl python3-doc python3-tk python3-venv python3.10-venv
python3.10-doc binfmt-support python3.9-venv python3.9-doc 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 javascript-common libgpm2 publicsuffix libltdl-dev
libmail-sendmail-perl psmisc zip fonts-lato
The following NEW packages will be installed:
autoconf autoconf-archive automake autopoint autotools-dev bc bsdextrautils
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 libbsd0 libcurl3-gnutls
libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libedit2
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libglib2.0-0 libhts-dev libhts3 libhtscodecs2 libicu67 libjs-jquery
libjs-sphinxdoc libjs-underscore liblzma-dev libmagic-mgc libmagic1 libmd0
libmpdec3 libncurses6 libnghttp2-14 libpipeline1 libprocps8 libpsl5
libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10
libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.9
libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib librtmp1
libruby3.0 libsigsegv2 libssh2-1 libsub-override-perl libtool libuchardet0
libxml2 libyaml-0-2 m4 man-db media-types openssl pkg-config po-debconf
procps python3 python3-all python3-all-dev python3-dev python3-distutils
python3-lib2to3 python3-minimal python3.10 python3.10-dev python3.10-minimal
python3.9 python3.9-dev python3.9-minimal rake ruby ruby-net-telnet
ruby-rubygems ruby-xmlrpc ruby3.0 rubygems-integration samtools
sbuild-build-depends-jellyfish-dummy swig swig4.0 time yaggo zlib1g-dev
The following packages will be upgraded:
zlib1g
1 upgraded, 106 newly installed, 0 to remove and 31 not upgraded.
Need to get 57.0 MB of archives.
After this operation, 204 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-WktK4B/apt_archive ./ sbuild-build-depends-jellyfish-dummy 0.invalid.0 [956 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf autoconf-archive all 20210219-2.1 [767 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-minimal armhf 3.9.12-1+rpi1 [794 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.8-1 [84.1 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf zlib1g armhf 1:1.2.11.dfsg-4 [84.2 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf python3.9-minimal armhf 3.9.12-1+rpi1 [1595 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf python3-minimal armhf 3.9.8-1 [38.5 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf media-types all 7.1.0 [33.2 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libmpdec3 armhf 2.5.1-2+rpi1 [73.5 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-stdlib armhf 3.9.12-1+rpi1 [1611 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf python3.9 armhf 3.9.12-1+rpi1 [492 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf libpython3-stdlib armhf 3.9.8-1 [21.6 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf python3 armhf 3.9.8-1 [38.1 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-minimal armhf 3.10.4-1 [811 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf python3.10-minimal armhf 3.10.4-1 [1633 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-8 [793 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.3-1 [136 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.5-1 [32.9 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.10.2-1 [1362 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf libncurses6 armhf 6.3-2 [79.6 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf libprocps8 armhf 2:3.3.17-7 [60.7 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf procps armhf 2:3.3.17-7 [475 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf bc armhf 1.07.1-3 [101 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf openssl armhf 1.1.1n-1 [816 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf ca-certificates all 20211016 [156 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-6 [171 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf time armhf 1.9-0.1 [50.5 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.14-1 [36.6 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-6 [510 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf chrpath armhf 0.16-2 [15.4 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf d-shlibs all 0.104 [18.6 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.6 [193 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.7-3 [526 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-1 [15.8 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.13+dfsg-1 [593 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-6 [1214 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.6 [1054 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf python3-lib2to3 all 3.9.12-1 [79.9 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf python3-distutils all 3.9.12-1 [146 kB]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf dh-python all 5.20220403 [113 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf dos2unix armhf 7.4.2-2 [391 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-1 [28.9 kB]
Get:61 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.6-1 [109 kB]
Get:62 http://172.17.4.1/private bookworm-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libssh2-1 armhf 1.10.0-3 [161 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf libcurl3-gnutls armhf 7.82.0-2 [313 kB]
Get:67 http://172.17.4.1/private bookworm-staging/main armhf libcurl4-gnutls-dev armhf 7.82.0-2 [389 kB]
Get:68 http://172.17.4.1/private bookworm-staging/main armhf libdeflate0 armhf 1.10-2 [55.4 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libdeflate-dev armhf 1.10-2 [47.8 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf libedit2 armhf 3.1-20210910-1 [81.2 kB]
Get:71 http://172.17.4.1/private bookworm-staging/main armhf libexpat1-dev armhf 2.4.8-1 [137 kB]
Get:72 http://172.17.4.1/private bookworm-staging/main armhf libglib2.0-0 armhf 2.72.0-1 [1229 kB]
Get:73 http://172.17.4.1/private bookworm-staging/main armhf libhtscodecs2 armhf 1.2.1-1 [52.7 kB]
Get:74 http://172.17.4.1/private bookworm-staging/main armhf libhts3 armhf 1.13+ds-2 [339 kB]
Get:75 http://172.17.4.1/private bookworm-staging/main armhf liblzma-dev armhf 5.2.5-2 [219 kB]
Get:76 http://172.17.4.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-4 [183 kB]
Get:77 http://172.17.4.1/private bookworm-staging/main armhf libhts-dev armhf 1.13+ds-2 [4049 kB]
Get:78 http://172.17.4.1/private bookworm-staging/main armhf libjs-jquery all 3.6.0+dfsg+~3.5.13-1 [316 kB]
Get:79 http://172.17.4.1/private bookworm-staging/main armhf libjs-underscore all 1.13.2~dfsg-2 [116 kB]
Get:80 http://172.17.4.1/private bookworm-staging/main armhf libjs-sphinxdoc all 4.5.0-1 [142 kB]
Get:81 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9 armhf 3.9.12-1+rpi1 [1419 kB]
Get:82 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-dev armhf 3.9.12-1+rpi1 [3013 kB]
Get:83 http://172.17.4.1/private bookworm-staging/main armhf libpython3-dev armhf 3.9.8-1 [21.9 kB]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-stdlib armhf 3.10.4-1 [1625 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10 armhf 3.10.4-1 [1454 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-dev armhf 3.10.4-1 [2984 kB]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf libpython3-all-dev armhf 3.9.8-1 [1072 B]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf rubygems-integration all 1.18 [6704 B]
Get:89 http://172.17.4.1/private bookworm-staging/main armhf ruby3.0 armhf 3.0.3-1 [670 kB]
Get:90 http://172.17.4.1/private bookworm-staging/main armhf ruby-rubygems all 3.3.5-2 [289 kB]
Get:91 http://172.17.4.1/private bookworm-staging/main armhf ruby armhf 1:3.0+1 [12.1 kB]
Get:92 http://172.17.4.1/private bookworm-staging/main armhf rake all 13.0.6-3 [83.9 kB]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf ruby-net-telnet all 0.1.1-2 [12.5 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf ruby-xmlrpc all 0.3.2-1 [24.3 kB]
Get:95 http://172.17.4.1/private bookworm-staging/main armhf libyaml-0-2 armhf 0.2.2-1 [40.0 kB]
Get:96 http://172.17.4.1/private bookworm-staging/main armhf libruby3.0 armhf 3.0.3-1 [5073 kB]
Get:97 http://172.17.4.1/private bookworm-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:98 http://172.17.4.1/private bookworm-staging/main armhf python3.10 armhf 3.10.4-1 [536 kB]
Get:99 http://172.17.4.1/private bookworm-staging/main armhf python3-all armhf 3.9.8-1 [1060 B]
Get:100 http://172.17.4.1/private bookworm-staging/main armhf python3.9-dev armhf 3.9.12-1+rpi1 [501 kB]
Get:101 http://172.17.4.1/private bookworm-staging/main armhf python3-dev armhf 3.9.8-1 [25.3 kB]
Get:102 http://172.17.4.1/private bookworm-staging/main armhf python3.10-dev armhf 3.10.4-1 [508 kB]
Get:103 http://172.17.4.1/private bookworm-staging/main armhf python3-all-dev armhf 3.9.8-1 [1076 B]
Get:104 http://172.17.4.1/private bookworm-staging/main armhf samtools armhf 1.13-4 [525 kB]
Get:105 http://172.17.4.1/private bookworm-staging/main armhf swig4.0 armhf 4.0.2-2 [1221 kB]
Get:106 http://172.17.4.1/private bookworm-staging/main armhf swig all 4.0.2-2 [330 kB]
Get:107 http://172.17.4.1/private bookworm-staging/main armhf yaggo all 1.5.10-5 [21.4 kB]
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Setting up gettext-base (0.21-6) ...
Setting up autoconf-archive (20210219-2.1) ...
Setting up file (1:5.41-2) ...
Setting up autotools-dev (20220109.1) ...
Setting up libexpat1-dev:armhf (2.4.8-1) ...
Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ...
Setting up libncurses6:armhf (6.3-2) ...
Setting up ruby-net-telnet (0.1.1-2) ...
Setting up libsigsegv2:armhf (2.14-1) ...
Setting up libpython3.10-minimal:armhf (3.10.4-1) ...
Setting up autopoint (0.21-6) ...
Setting up pkg-config (0.29.2-1) ...
Setting up d-shlibs (0.104) ...
Setting up liblzma-dev:armhf (5.2.5-2) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-4) ...
Setting up libmd0:armhf (1.0.4-1) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libmpdec3:armhf (2.5.1-2+rpi1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libssh2-1:armhf (1.10.0-3) ...
Setting up dos2unix (7.4.2-2) ...
Setting up libjs-jquery (3.6.0+dfsg+~3.5.13-1) ...
Setting up swig4.0 (4.0.2-2) ...
Setting up openssl (1.1.1n-1) ...
Setting up libbsd0:armhf (0.11.6-1) ...
Setting up libdeflate-dev:armhf (1.10-2) ...
Setting up libelf1:armhf (0.186-1) ...
Setting up ruby-xmlrpc (0.3.2-1) ...
Setting up libxml2:armhf (2.9.13+dfsg-1) ...
Setting up chrpath (0.16-2) ...
Setting up libprocps8:armhf (2:3.3.17-7) ...
Setting up libpython3.9-stdlib:armhf (3.9.12-1+rpi1) ...
Setting up libpython3-stdlib:armhf (3.9.8-1) ...
Setting up libjs-underscore (1.13.2~dfsg-2) ...
Setting up libfile-stripnondeterminism-perl (1.13.0-1) ...
Setting up gettext (0.21-6) ...
Setting up swig (4.0.2-2) ...
Setting up libtool (2.4.7-3) ...
Setting up libedit2:armhf (3.1-20210910-1) ...
Setting up m4 (1.4.18-5) ...
Setting up libcurl3-gnutls:armhf (7.82.0-2) ...
Setting up libcurl4-gnutls-dev:armhf (7.82.0-2) ...
Setting up python3.10-minimal (3.10.4-1) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libpython3.10-stdlib:armhf (3.10.4-1) ...
Setting up ca-certificates (20211016) ...
Updating certificates in /etc/ssl/certs...
127 added, 0 removed; done.
Setting up libpython3.9:armhf (3.9.12-1+rpi1) ...
Setting up libjs-sphinxdoc (4.5.0-1) ...
Setting up autoconf (2.71-2) ...
Setting up dh-strip-nondeterminism (1.13.0-1) ...
Setting up dwz (0.14-1) ...
Setting up groff-base (1.22.4-8) ...
Setting up procps (2:3.3.17-7) ...
Setting up python3.9 (3.9.12-1+rpi1) ...
Setting up automake (1:1.16.5-1.3) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libpython3.10:armhf (3.10.4-1) ...
Setting up libhts3:armhf (1.13+ds-2) ...
Setting up python3.10 (3.10.4-1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libhts-dev:armhf (1.13+ds-2) ...
Setting up libpython3.9-dev:armhf (3.9.12-1+rpi1) ...
Setting up python3 (3.9.8-1) ...
Setting up rubygems-integration (1.18) ...
Setting up man-db (2.10.2-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up samtools (1.13-4) ...
Setting up dh-autoreconf (20) ...
Setting up libpython3.10-dev:armhf (3.10.4-1) ...
Setting up python3.10-dev (3.10.4-1) ...
Setting up python3.9-dev (3.9.12-1+rpi1) ...
Setting up python3-lib2to3 (3.9.12-1) ...
Setting up python3-distutils (3.9.12-1) ...
Setting up dh-python (5.20220403) ...
Setting up libpython3-dev:armhf (3.9.8-1) ...
Setting up python3-all (3.9.8-1) ...
Setting up debhelper (13.6) ...
Setting up libpython3-all-dev:armhf (3.9.8-1) ...
Setting up python3-dev (3.9.8-1) ...
Setting up python3-all-dev (3.9.8-1) ...
Setting up ruby3.0 (3.0.3-1) ...
Setting up ruby (1:3.0+1) ...
Setting up rake (13.0.6-3) ...
Setting up yaggo (1.5.10-5) ...
Setting up sbuild-build-depends-jellyfish-dummy (0.invalid.0) ...
Setting up libruby3.0:armhf (3.0.3-1) ...
Setting up ruby-rubygems (3.3.5-2) ...
Processing triggers for libc-bin (2.33-7+rpi1) ...
Processing triggers for ca-certificates (20211016) ...
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 4.9.0-0.bpo.4-armmp armhf (armv7l)
Toolchain package versions: binutils_2.38-3+rpi1 dpkg-dev_1.21.2+rpi1 g++-11_11.2.0-16+rpi1 gcc-11_11.2.0-16+rpi1 libc6-dev_2.33-7+rpi1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 linux-libc-dev_5.16.14-1+rpi1
Package versions: adduser_3.120 apt_2.4.3 autoconf_2.71-2 autoconf-archive_20210219-2.1 automake_1:1.16.5-1.3 autopoint_0.21-6 autotools-dev_20220109.1 base-files_12.2+rpi1 base-passwd_3.5.52 bash_5.1-6 bc_1.07.1-3 binutils_2.38-3+rpi1 binutils-arm-linux-gnueabihf_2.38-3+rpi1 binutils-common_2.38-3+rpi1 bsdextrautils_2.37.3-1 bsdutils_1:2.37.3-1 build-essential_12.9 bzip2_1.0.8-5 ca-certificates_20211016 chrpath_0.16-2 coreutils_8.32-4.1 cpp_4:11.2.0-2+rpi1 cpp-11_11.2.0-16+rpi1 d-shlibs_0.104 dash_0.5.11+git20210903+057cd650a4ed-8 debconf_1.5.79 debhelper_13.6 debianutils_5.7-0.1 dh-autoreconf_20 dh-python_5.20220403 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-3+b1 dos2unix_7.4.2-2 dpkg_1.21.2+rpi1 dpkg-dev_1.21.2+rpi1 dwz_0.14-1 e2fsprogs_1.46.5-2 fakeroot_1.28-1 file_1:5.41-2 findutils_4.9.0-2 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-16+rpi1 gcc_4:11.2.0-2+rpi1 gcc-11_11.2.0-16+rpi1 gcc-11-base_11.2.0-16+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-6 gettext-base_0.21-6 gnupg_2.2.27-3 gnupg-l10n_2.2.27-3 gnupg-utils_2.2.27-3+b1 gpg_2.2.27-3+b1 gpg-agent_2.2.27-3+b1 gpg-wks-client_2.2.27-3+b1 gpg-wks-server_2.2.27-3+b1 gpgconf_2.2.27-3+b1 gpgsm_2.2.27-3+b1 gpgv_2.2.27-3+b1 grep_3.7-1 groff-base_1.22.4-8 gzip_1.10-4 hostname_3.23 init-system-helpers_1.62 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapt-pkg6.0_2.4.3 libarchive-zip-perl_1.68-1 libasan6_11.2.0-16+rpi1 libassuan0_2.5.5-1 libatomic1_11.2.0-16+rpi1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1 libaudit1_1:3.0.7-1+b1 libbinutils_2.38-3+rpi1 libblkid1_2.37.3-1 libbrotli1_1.0.9-2+b1 libbsd0_0.11.6-1 libbz2-1.0_1.0.8-5 libc-bin_2.33-7+rpi1 libc-dev-bin_2.33-7+rpi1 libc6_2.33-7+rpi1 libc6-dev_2.33-7+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-16+rpi1 libcom-err2_1.46.5-2 libcrypt-dev_1:4.4.27-1.1 libcrypt1_1:4.4.27-1.1 libctf-nobfd0_2.38-3+rpi1 libctf0_2.38-3+rpi1 libcurl3-gnutls_7.82.0-2 libcurl4-gnutls-dev_7.82.0-2 libdb5.3_5.3.28+dfsg1-0.8 libdebconfclient0_0.261 libdebhelper-perl_13.6 libdeflate-dev_1.10-2 libdeflate0_1.10-2 libdpkg-perl_1.21.2+rpi1 libedit2_3.1-20210910-1 libelf1_0.186-1 libexpat1_2.4.8-1 libexpat1-dev_2.4.8-1 libext2fs2_1.46.5-2 libfakeroot_1.28-1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libgcc-11-dev_11.2.0-16+rpi1 libgcc-s1_11.2.0-16+rpi1 libgcrypt20_1.9.4-5 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libglib2.0-0_2.72.0-1 libgmp10_2:6.2.1+dfsg-3 libgnutls30_3.7.3-4 libgomp1_11.2.0-16+rpi1 libgpg-error0_1.43-3 libgssapi-krb5-2_1.19.2-2+b1 libhogweed6_3.7.3-1 libhts-dev_1.13+ds-2 libhts3_1.13+ds-2 libhtscodecs2_1.2.1-1 libicu67_67.1-7 libidn2-0_2.3.2-2 libisl23_0.24-2 libjs-jquery_3.6.0+dfsg+~3.5.13-1 libjs-sphinxdoc_4.5.0-1 libjs-underscore_1.13.2~dfsg-2 libk5crypto3_1.19.2-2+b1 libkeyutils1_1.6.1-3+rpi1 libkrb5-3_1.19.2-2+b1 libkrb5support0_1.19.2-2+b1 libksba8_1.6.0-2 libldap-2.5-0_2.5.11+dfsg-1+rpi1 liblz4-1_1.9.3-2 liblzma-dev_5.2.5-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmd0_1.0.4-1 libmount1_2.37.3-1 libmpc3_1.2.1-1 libmpdec3_2.5.1-2+rpi1 libmpfr6_4.1.0-3 libncurses6_6.3-2 libncursesw6_6.3-2 libnettle8_3.7.3-1 libnghttp2-14_1.43.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.24.0-6 libpam-modules_1.4.0-11 libpam-modules-bin_1.4.0-11 libpam-runtime_1.4.0-11 libpam0g_1.4.0-11 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13 libperl5.34_5.34.0-3 libpipeline1_1.5.5-1 libprocps8_2:3.3.17-7 libpsl5_0.21.0-1.2 libpython3-all-dev_3.9.8-1 libpython3-dev_3.9.8-1 libpython3-stdlib_3.9.8-1 libpython3.10_3.10.4-1 libpython3.10-dev_3.10.4-1 libpython3.10-minimal_3.10.4-1 libpython3.10-stdlib_3.10.4-1 libpython3.9_3.9.12-1+rpi1 libpython3.9-dev_3.9.12-1+rpi1 libpython3.9-minimal_3.9.12-1+rpi1 libpython3.9-stdlib_3.9.12-1+rpi1 libreadline8_8.1.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libruby3.0_3.0.3-1 libsasl2-2_2.1.28+dfsg-2+b1 libsasl2-modules-db_2.1.28+dfsg-2+b1 libseccomp2_2.5.3-2+rpi1 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsepol1_3.1-1 libsepol2_3.3-1 libsigsegv2_2.14-1 libsmartcols1_2.37.3-1 libsqlite3-0_3.38.1-1 libss2_1.46.5-2 libssh2-1_1.10.0-3 libssl1.1_1.1.1n-1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 libsub-override-perl_0.09-2 libsystemd0_250.4-1+rpi1 libtasn1-6_4.18.0-4 libtinfo6_6.3-2 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.7-3 libubsan1_11.2.0-16+rpi1 libuchardet0_0.0.7-1 libudev1_250.4-1+rpi1 libunistring2_1.0-1 libuuid1_2.37.3-1 libxml2_2.9.13+dfsg-1 libxxhash0_0.8.1-1 libyaml-0-2_0.2.2-1 libzstd1_1.4.9+dfsg-1+rpi1 linux-libc-dev_5.16.14-1+rpi1 login_1:4.11.1+dfsg1-2 logsave_1.46.5-2 lsb-base_11.1.0+rpi1 m4_1.4.18-5 make_4.3-4.1 man-db_2.10.2-1 mawk_1.3.4.20200120-3 media-types_7.1.0 mount_2.37.3-1 ncurses-base_6.3-2 ncurses-bin_6.3-2 netbase_6.3 openssl_1.1.1n-1 passwd_1:4.11.1+dfsg1-2 patch_2.7.6-7 perl_5.34.0-3 perl-base_5.34.0-3 perl-modules-5.34_5.34.0-3 pinentry-curses_1.1.0-4 pkg-config_0.29.2-1 po-debconf_1.0.21+nmu1 procps_2:3.3.17-7 python3_3.9.8-1 python3-all_3.9.8-1 python3-all-dev_3.9.8-1 python3-dev_3.9.8-1 python3-distutils_3.9.12-1 python3-lib2to3_3.9.12-1 python3-minimal_3.9.8-1 python3.10_3.10.4-1 python3.10-dev_3.10.4-1 python3.10-minimal_3.10.4-1 python3.9_3.9.12-1+rpi1 python3.9-dev_3.9.12-1+rpi1 python3.9-minimal_3.9.12-1+rpi1 rake_13.0.6-3 raspbian-archive-keyring_20120528.2 readline-common_8.1.2-1 rpcsvc-proto_1.4.2-4 ruby_1:3.0+1 ruby-net-telnet_0.1.1-2 ruby-rubygems_3.3.5-2 ruby-xmlrpc_0.3.2-1 ruby3.0_3.0.3-1 rubygems-integration_1.18 samtools_1.13-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-jellyfish-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 swig_4.0.2-2 swig4.0_4.0.2-2 sysvinit-utils_3.01-1 tar_1.34+dfsg-1 time_1.9-0.1 tzdata_2021e-1 util-linux_2.37.3-1 xz-utils_5.2.5-2 yaggo_1.5.10-5 zlib1g_1:1.2.11.dfsg-4 zlib1g-dev_1:1.2.11.dfsg-4
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.No4EVnO_/trustedkeys.kbx': General error
gpgv: Signature made Wed Apr 13 07:37:39 2022 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify signature ./jellyfish_2.3.0-13.dsc
dpkg-source: info: extracting jellyfish in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking jellyfish_2.3.0.orig.tar.gz
dpkg-source: info: unpacking jellyfish_2.3.0-13.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
dpkg-source: info: applying fix-autoreconf.patch
Check disc 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=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-e782155b-3966-4d4a-a38e-dd7968c41a4b
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package jellyfish
dpkg-buildpackage: info: source version 2.3.0-13
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
debian/rules override_dh_update_autotools_config
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# use python configuration from autoconf-archive
mv m4/m4-ax_python_devel.m4 /tmp
dh_update_autotools_config
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
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: warning: The macro `AC_PROG_LIBTOOL' is obsolete.
configure.ac:8: You should run autoupdate.
m4/libtool.m4:100: AC_PROG_LIBTOOL is expanded from...
configure.ac:8: the top level
configure.ac:65: warning: The macro `AC_TRY_RUN' is obsolete.
configure.ac:65: You should run autoupdate.
./lib/autoconf/general.m4:2997: AC_TRY_RUN is expanded from...
lib/m4sugar/m4sh.m4:692: _AS_IF_ELSE is expanded from...
lib/m4sugar/m4sh.m4:699: AS_IF is expanded from...
./lib/autoconf/general.m4:2249: AC_CACHE_VAL is expanded from...
m4/m4-ax_ext.m4:49: AX_EXT is expanded from...
lib/m4sugar/m4sh.m4:699: AS_IF is expanded from...
configure.ac:65: the top level
configure.ac:107: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:107: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:107: the top level
configure.ac:118: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:118: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:118: the top level
configure.ac:121: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:121: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:121: the top level
configure.ac:124: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:124: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:124: the top level
configure.ac:127: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:127: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:127: the top level
configure.ac:131: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:131: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:131: the top level
configure.ac:135: warning: The macro `SWIG_ENABLE_CXX' is obsolete.
configure.ac:135: You should run autoupdate.
m4/m4-ax_swig_enable_cxx.m4:48: SWIG_ENABLE_CXX is expanded from...
lib/m4sugar/m4sh.m4:699: AS_IF is expanded from...
configure.ac:135: the top level
configure.ac:145: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:145: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1534: AC_ARG_ENABLE is expanded from...
configure.ac:145: the top level
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 race-free 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 the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... 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 file... file
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 for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.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... /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 the compiler supports GNU C++... yes
checking whether g++ accepts -g... yes
checking for g++ option to enable C++11 features... none needed
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 32-bit host C ABI... yes
checking for ELF binary format... yes
checking for the common suffixes of directories in the library search path... lib,lib,lib
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/arm-linux-gnueabihf -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/5.34/CORE
checking for Perl extension target directory... /usr/lib/perl/5.34.0
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 && /usr/bin/perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "LD=arm-linux-gnueabihf-gcc -g -O2 -ffile-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:239: python3.10 setup.py config
/<<PKGBUILDDIR>>/swig/python/setup.py:12: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
from distutils.core import setup, Extension
running config
I: pybuild base:239: python3.9 setup.py config
running config
mv /tmp/m4-ax_python_devel.m4 m4
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -c lib/thread_exec.cc -fPIC -DPIC -o lib/.libs/thread_exec.o
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/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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -c lib/jsoncpp.cpp -fPIC -DPIC -o lib/.libs/jsoncpp.o
In file included from /usr/include/c++/11/map:60,
from ./include/jellyfish/json.h:331,
from lib/jsoncpp.cpp:76:
/usr/include/c++/11/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++/11/bits/stl_tree.h:2428:7: 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
2428 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/map:61,
from ./include/jellyfish/json.h:331,
from lib/jsoncpp.cpp:76:
/usr/include/c++/11/bits/stl_map.h: In member function 'Json::Value& Json::Value::operator[](Json::Value::ArrayIndex)':
/usr/include/c++/11/bits/stl_map.h:877:45: 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++/11/bits/stl_map.h: In member function 'Json::Value& Json::Value::resolveReference(const char*, bool)':
/usr/include/c++/11/bits/stl_map.h:877:45: 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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/5.34/CORE -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/5.34/CORE -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/5.34/CORE -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.34.0 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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -L/usr/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -c -o jellyfish/generate_sequence.o jellyfish/generate_sequence.cc
In file included from /usr/include/c++/11/vector:72,
from jellyfish/generate_sequence.cc:10:
/usr/include/c++/11/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++/11/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++/11/bits/vector.tcc: In member function 'void generate_sequence_args::parse(int, char**)':
/usr/include/c++/11/bits/vector.tcc:121:28: 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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -c -o jellyfish/dbg.o jellyfish/dbg.cc
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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++/11/map:60,
from unit_tests/test_large_hash_array.cc:5:
/usr/include/c++/11/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++/11/bits/stl_tree.h:2428:7: 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
2428 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/map:61,
from unit_tests/test_large_hash_array.cc:5:
/usr/include/c++/11/bits/stl_map.h: In function '{anonymous}::arrays_ptr {anonymous}::fill_array(size_t, size_t, int, int, int)':
/usr/include/c++/11/bits/stl_map.h:501:44: 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++/11/bits/stl_map.h: In member function 'virtual void {anonymous}::HashArray_Collisions_Test::TestBody()':
/usr/include/c++/11/bits/stl_map.h:501:44: 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++/11/bits/stl_map.h:501:44: 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++/11/bits/stl_map.h: In member function 'virtual void {anonymous}::Hash_Update_Test::TestBody()':
/usr/include/c++/11/bits/stl_map.h:501:44: 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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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++/11/map:60,
from unit_tests/test_text_dumper.cc:1:
/usr/include/c++/11/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++/11/bits/stl_tree.h:2428:7: 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
2428 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/11/map:61,
from unit_tests/test_text_dumper.cc:1:
/usr/include/c++/11/bits/stl_map.h: In member function 'virtual void {anonymous}::hash_adder::start(int)':
/usr/include/c++/11/bits/stl_map.h:501:44: 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++/11/bits/stl_map.h: In member function 'virtual void {anonymous}::TextDumper_Random_Test::TestBody()':
/usr/include/c++/11/bits/stl_map.h:501:44: 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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -c unit_tests/gtest/src/gtest-all.cc -fPIC -DPIC -o unit_tests/gtest/src/.libs/libgtest_la-gtest-all.o
unit_tests/gtest/src/gtest-all.cc: In function 'bool testing::internal::StackGrowsDown()':
unit_tests/gtest/src/gtest-all.cc:7485:24: warning: 'dummy' may be used uninitialized [-Wmaybe-uninitialized]
7485 | StackLowerThanAddress(&dummy, &result);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
unit_tests/gtest/src/gtest-all.cc:7477:6: note: by argument 1 of type 'const void*' to 'void testing::internal::StackLowerThanAddress(const void*, bool*)' declared here
7477 | void StackLowerThanAddress(const void* ptr, bool* result) {
| ^~~~~~~~~~~~~~~~~~~~~
unit_tests/gtest/src/gtest-all.cc:7483:7: note: 'dummy' declared here
7483 | int dummy;
| ^~~~~
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -c -o jellyfish/fastq2sam.o jellyfish/fastq2sam.cc
/bin/bash ./libtool --tag=CXX --mode=link g++ -Werror -std=c++11 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/5.34.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.34.0 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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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/5.34.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0 && { 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/5.34.0 && { 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/5.34.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.34.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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/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/lib/perl/5.34.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.34.0 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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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/5.34.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0 && { 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/5.34.0 && { 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/5.34.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.34.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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 -ffile-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/5.34/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 -ffile-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:239: /usr/bin/python3.10 setup.py build build_ext -L/<<PKGBUILDDIR>>/.libs
/<<PKGBUILDDIR>>/swig/python/setup.py:12: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
from distutils.core import setup, Extension
running build
running build_py
copying dna_jellyfish.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.10_dna_jellyfish/build
running build_ext
building '_dna_jellyfish' extension
creating build
creating build/temp.linux-armhf-3.10
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 -ffile-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/python3.10 -c swig_wrap.cpp -o build/temp.linux-armhf-3.10/swig_wrap.o -std=c++0x
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -lpthread -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.10/swig_wrap.o -L/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf -L/<<PKGBUILDDIR>>/.libs -ljellyfish-2.0 -lpthread -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.10_dna_jellyfish/build/_dna_jellyfish.cpython-310-arm-linux-gnueabihf.so -Wl,-rpath,/<<PKGBUILDDIR>>/debian/tmp//usr/lib/arm-linux-gnueabihf
I: pybuild base:239: /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/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 -ffile-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 -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -lpthread -g -O2 -ffile-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/<<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,/<<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_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/5.34.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.34.0 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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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/5.34.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0 && { 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/5.34.0 && { 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/5.34.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.34.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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/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/lib/perl/5.34.0'
/bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.34.0 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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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/5.34.0/jellyfish.so.0.0.0
libtool: install: (cd /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0 && { 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/5.34.0 && { 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/5.34.0/jellyfish.la
libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0/jellyfish.a
libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.34.0'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/usr/bin/install -c swig/perl5/jellyfish.pm '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl/5.34.0'
/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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wno-nonnull -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/11/../../../arm-linux-gnueabihf/crti.o /usr/lib/gcc/arm-linux-gnueabihf/11/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/11 -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../../arm-linux-gnueabihf -L/usr/lib/gcc/arm-linux-gnueabihf/11/../../.. -L/lib/arm-linux-gnueabihf -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/arm-linux-gnueabihf/11/crtendS.o /usr/lib/gcc/arm-linux-gnueabihf/11/../../../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:239: /usr/bin/python3.10 setup.py install --root /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish
/<<PKGBUILDDIR>>/swig/python/setup.py:12: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
from distutils.core import setup, Extension
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/python3.10
creating /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.10/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.10_dna_jellyfish/build/dna_jellyfish.py -> /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.10/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.10_dna_jellyfish/build/_dna_jellyfish.cpython-310-arm-linux-gnueabihf.so -> /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.10/dist-packages
byte-compiling /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.10/dist-packages/dna_jellyfish.py to dna_jellyfish.cpython-310.pyc
running install_egg_info
Writing /<<PKGBUILDDIR>>/debian/python3-dna-jellyfish/usr/lib/python3.10/dist-packages/dna_jellyfish-0.0.1.egg-info
I: pybuild base:239: /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/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/perl5/5.34/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 1069780 Apr 15 07:39 debian/tmp/usr/lib/arm-linux-gnueabihf/perl5/5.34/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.*
dh_missing
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
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/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/fastq2sam 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/generate_sequence 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/test_all debian/jellyfish/usr/bin/jellyfish debian/jellyfish/usr/lib/jellyfish/bin/fastq2sam debian/jellyfish/usr/lib/jellyfish/bin/generate_sequence 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_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'libjellyfish-2.0-2-dbgsym' in '../libjellyfish-2.0-2-dbgsym_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'python3-dna-jellyfish-dbgsym' in '../python3-dna-jellyfish-dbgsym_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'libjellyfish-2.0-dev' in '../libjellyfish-2.0-dev_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'libjellyfish-perl' in '../libjellyfish-perl_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'libjellyfish-perl-dbgsym' in '../libjellyfish-perl-dbgsym_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'python3-dna-jellyfish' in '../python3-dna-jellyfish_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'jellyfish-dbgsym' in '../jellyfish-dbgsym_2.3.0-13_armhf.deb'.
dpkg-deb: building package 'libjellyfish-2.0-2' in '../libjellyfish-2.0-2_2.3.0-13_armhf.deb'.
dpkg-genbuildinfo --build=any -O../jellyfish_2.3.0-13_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> -O../jellyfish_2.3.0-13_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 2022-04-15T07:43:46Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
jellyfish_2.3.0-13_armhf.changes:
---------------------------------
Format: 1.8
Date: Wed, 13 Apr 2022 09:28:09 +0200
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: 2.3.0-13
Distribution: bookworm-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <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: 1009451
Changes:
jellyfish (2.3.0-13) unstable; urgency=medium
.
* Disable reprotest
* Use python configuration from autoconf-archive
Closes: #1009451
Checksums-Sha1:
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Files:
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5dc8f9be4eaf40095dd076e671c969e7 10232 science optional jellyfish_2.3.0-13_armhf.buildinfo
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95f1511515f43a14c3dcbc749240d999 344492 debug optional libjellyfish-perl-dbgsym_2.3.0-13_armhf.deb
6c4010395aeed52c38c82b8c13c26b0f 57052 perl optional libjellyfish-perl_2.3.0-13_armhf.deb
f74c7de80f990ba62772c6884b31a4a5 504780 debug optional python3-dna-jellyfish-dbgsym_2.3.0-13_armhf.deb
6b3aae724a5a732b23bff27dd2075a1b 58144 python optional python3-dna-jellyfish_2.3.0-13_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
jellyfish-dbgsym_2.3.0-13_armhf.deb
-----------------------------------
new Debian package, version 2.0.
size 7067904 bytes: control archive=744 bytes.
504 bytes, 12 lines control
513 bytes, 5 lines md5sums
Package: jellyfish-dbgsym
Source: jellyfish
Version: 2.3.0-13
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 7572
Depends: jellyfish (= 2.3.0-13)
Section: debug
Priority: optional
Description: debug symbols for jellyfish
Build-Ids: 0a8504d43b9fa4e367c88ba519bcd8b7b6ec01f8 2acb34d65066ce1a86407e86dcf10faa61c0d194 a00e66cab519f3f1fa748988af7dae20049c3a79 cfe17c8a404fcdf4d8db722ca5c8f03f6db0ae10
drwxr-xr-x root/root 0 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.build-id/0a/
-rw-r--r-- root/root 6057172 2022-04-13 07:28 ./usr/lib/debug/.build-id/0a/8504d43b9fa4e367c88ba519bcd8b7b6ec01f8.debug
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.build-id/2a/
-rw-r--r-- root/root 81100 2022-04-13 07:28 ./usr/lib/debug/.build-id/2a/cb34d65066ce1a86407e86dcf10faa61c0d194.debug
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.build-id/a0/
-rw-r--r-- root/root 1435264 2022-04-13 07:28 ./usr/lib/debug/.build-id/a0/0e66cab519f3f1fa748988af7dae20049c3a79.debug
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.build-id/cf/
-rw-r--r-- root/root 78216 2022-04-13 07:28 ./usr/lib/debug/.build-id/cf/e17c8a404fcdf4d8db722ca5c8f03f6db0ae10.debug
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 83920 2022-04-13 07:28 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/jellyfish.debug
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-04-13 07:28 ./usr/share/doc/jellyfish-dbgsym -> jellyfish
jellyfish_2.3.0-13_armhf.deb
----------------------------
new Debian package, version 2.0.
size 622876 bytes: control archive=1316 bytes.
1226 bytes, 25 lines control
832 bytes, 12 lines md5sums
Package: jellyfish
Version: 2.3.0-13
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1715
Depends: libc6 (>= 2.33), libgcc-s1 (>= 3.5), libhts3 (>= 1.10), libjellyfish-2.0-2 (= 2.3.0-13), libstdc++6 (>= 11)
Breaks: jellyfish-examples (<< 2.3.0-7)
Replaces: jellyfish-examples (<< 2.3.0-7)
Section: science
Priority: optional
Homepage: https://github.com/gmarcais/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 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/bin/
-rwxr-xr-x root/root 282716 2022-04-13 07:28 ./usr/bin/jellyfish
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/jellyfish/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/jellyfish/bin/
-rwxr-xr-x root/root 22228 2022-04-13 07:28 ./usr/lib/jellyfish/bin/fastq2sam
-rwxr-xr-x root/root 26420 2022-04-13 07:28 ./usr/lib/jellyfish/bin/generate_sequence
-rwxr-xr-x root/root 1165080 2022-04-13 07:28 ./usr/lib/jellyfish/bin/test_all
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc-base/
-rw-r--r-- root/root 987 2022-04-13 07:28 ./usr/share/doc-base/jellyfish.jellyfish
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/jellyfish/
-rw-r--r-- root/root 321 2022-04-13 07:28 ./usr/share/doc/jellyfish/README.test
-rw-r--r-- root/root 4401 2022-04-13 07:28 ./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 2022-04-13 07:28 ./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 2022-04-13 07:28 ./usr/share/doc/jellyfish/run-unit-test
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/man/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/man/man1/
-rw-r--r-- root/root 4554 2022-04-13 07:28 ./usr/share/man/man1/jellyfish.1.gz
libjellyfish-2.0-2-dbgsym_2.3.0-13_armhf.deb
--------------------------------------------
new Debian package, version 2.0.
size 537384 bytes: control archive=560 bytes.
424 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libjellyfish-2.0-2-dbgsym
Source: jellyfish
Version: 2.3.0-13
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 567
Depends: libjellyfish-2.0-2 (= 2.3.0-13)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libjellyfish-2.0-2
Build-Ids: 108af638d3e7c4f659be7b830a1f616dc636c721
drwxr-xr-x root/root 0 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
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lrwxrwxrwx root/root 0 2022-04-13 07:28 ./usr/share/doc/libjellyfish-2.0-2-dbgsym -> libjellyfish-2.0-2
libjellyfish-2.0-2_2.3.0-13_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 56640 bytes: control archive=1252 bytes.
1256 bytes, 28 lines control
413 bytes, 5 lines md5sums
49 bytes, 1 lines shlibs
65 bytes, 2 lines triggers
Package: libjellyfish-2.0-2
Source: jellyfish
Version: 2.3.0-13
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 161
Depends: libc6 (>= 2.7), libgcc-s1 (>= 3.5), libstdc++6 (>= 11)
Section: libs
Priority: optional
Multi-Arch: same
Homepage: https://github.com/gmarcais/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 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/
lrwxrwxrwx root/root 0 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2 -> libjellyfish-2.0.so.2.0.0
-rw-r--r-- root/root 136612 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so.2.0.0
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/libjellyfish-2.0-2/
-rw-r--r-- root/root 4401 2022-04-13 07:28 ./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 2022-04-13 07:28 ./usr/share/doc/libjellyfish-2.0-2/copyright
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/lintian/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 230 2022-04-13 07:28 ./usr/share/lintian/overrides/libjellyfish-2.0-2
libjellyfish-2.0-dev_2.3.0-13_armhf.deb
---------------------------------------
new Debian package, version 2.0.
size 128472 bytes: control archive=2540 bytes.
1213 bytes, 27 lines control
4257 bytes, 57 lines md5sums
Package: libjellyfish-2.0-dev
Source: jellyfish
Version: 2.3.0-13
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 603
Depends: libjellyfish-2.0-2 (= 2.3.0-13)
Section: libdevel
Priority: optional
Homepage: https://github.com/gmarcais/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 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
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-rw-r--r-- root/root 6778 2022-04-13 07:28 ./usr/include/jellyfish/bloom_counter2.hpp
-rw-r--r-- root/root 5447 2022-04-13 07:28 ./usr/include/jellyfish/bloom_filter.hpp
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-rw-r--r-- root/root 4033 2022-04-13 07:28 ./usr/include/jellyfish/file_header.hpp
-rw-r--r-- root/root 4637 2022-04-13 07:28 ./usr/include/jellyfish/generator_manager.hpp
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-rw-r--r-- root/root 8326 2022-04-13 07:28 ./usr/include/jellyfish/hash_counter.hpp
-rw-r--r-- root/root 7025 2022-04-13 07:28 ./usr/include/jellyfish/int128.hpp
-rw-r--r-- root/root 1118 2022-04-13 07:28 ./usr/include/jellyfish/jellyfish.hpp
-rw-r--r-- root/root 61697 2022-04-13 07:28 ./usr/include/jellyfish/json.h
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-rw-r--r-- root/root 4328 2022-04-13 07:28 ./usr/include/jellyfish/locks_pthread.hpp
-rw-r--r-- root/root 5181 2022-04-13 07:28 ./usr/include/jellyfish/mapped_file.hpp
-rw-r--r-- root/root 23866 2022-04-13 07:28 ./usr/include/jellyfish/mer_dna.hpp
-rw-r--r-- root/root 1296 2022-04-13 07:28 ./usr/include/jellyfish/mer_dna_bloom_counter.hpp
-rw-r--r-- root/root 3076 2022-04-13 07:28 ./usr/include/jellyfish/mer_heap.hpp
-rw-r--r-- root/root 2588 2022-04-13 07:28 ./usr/include/jellyfish/mer_iterator.hpp
-rw-r--r-- root/root 9371 2022-04-13 07:28 ./usr/include/jellyfish/mer_overlap_sequence_parser.hpp
-rw-r--r-- root/root 3247 2022-04-13 07:28 ./usr/include/jellyfish/mer_qual_iterator.hpp
-rw-r--r-- root/root 8066 2022-04-13 07:28 ./usr/include/jellyfish/misc.hpp
-rw-r--r-- root/root 10025 2022-04-13 07:28 ./usr/include/jellyfish/offsets_key_value.hpp
-rw-r--r-- root/root 960 2022-04-13 07:28 ./usr/include/jellyfish/parser_common.hpp
-rw-r--r-- root/root 12884 2022-04-13 07:28 ./usr/include/jellyfish/rectangular_binary_matrix.hpp
-rw-r--r-- root/root 2311 2022-04-13 07:28 ./usr/include/jellyfish/sam_format.hpp
-rw-r--r-- root/root 3504 2022-04-13 07:28 ./usr/include/jellyfish/simple_circular_buffer.hpp
-rw-r--r-- root/root 3407 2022-04-13 07:28 ./usr/include/jellyfish/sorted_dumper.hpp
-rw-r--r-- root/root 5069 2022-04-13 07:28 ./usr/include/jellyfish/stdio_filebuf.hpp
-rw-r--r-- root/root 602 2022-04-13 07:28 ./usr/include/jellyfish/storage.hpp
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drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/
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lrwxrwxrwx root/root 0 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/libjellyfish-2.0.so -> libjellyfish-2.0.so.2.0.0
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 276 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/pkgconfig/jellyfish-2.0.pc
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-rw-r--r-- root/root 4401 2022-04-13 07:28 ./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 2022-04-13 07:28 ./usr/share/doc/libjellyfish-2.0-dev/copyright
libjellyfish-perl-dbgsym_2.3.0-13_armhf.deb
-------------------------------------------
new Debian package, version 2.0.
size 344492 bytes: control archive=560 bytes.
421 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: libjellyfish-perl-dbgsym
Source: jellyfish
Version: 2.3.0-13
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 (= 2.3.0-13)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for libjellyfish-perl
Build-Ids: e762470d49f478afe150966db46f1ea23907a192
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lrwxrwxrwx root/root 0 2022-04-13 07:28 ./usr/share/doc/libjellyfish-perl-dbgsym -> libjellyfish-perl
libjellyfish-perl_2.3.0-13_armhf.deb
------------------------------------
new Debian package, version 2.0.
size 57052 bytes: control archive=1128 bytes.
1220 bytes, 27 lines control
405 bytes, 5 lines md5sums
Package: libjellyfish-perl
Source: jellyfish
Version: 2.3.0-13
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 172
Depends: perl, perlapi-5.34.0, libc6 (>= 2.33), libgcc-s1 (>= 3.5)
Section: perl
Priority: optional
Multi-Arch: same
Homepage: https://github.com/gmarcais/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 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/arm-linux-gnueabihf/
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-rw-r--r-- root/root 4401 2022-04-13 07:28 ./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 2022-04-13 07:28 ./usr/share/doc/libjellyfish-perl/copyright
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-rw-r--r-- root/root 7412 2022-04-13 07:28 ./usr/share/perl5/jellyfish.pm
python3-dna-jellyfish-dbgsym_2.3.0-13_armhf.deb
-----------------------------------------------
new Debian package, version 2.0.
size 504780 bytes: control archive=656 bytes.
457 bytes, 12 lines control
313 bytes, 3 lines md5sums
Package: python3-dna-jellyfish-dbgsym
Source: jellyfish
Version: 2.3.0-13
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 573
Depends: python3-dna-jellyfish (= 2.3.0-13)
Section: debug
Priority: optional
Description: debug symbols for python3-dna-jellyfish
Build-Ids: 1ad51f26ebe429a1e15c3aee4a395094b47972e4 9f24ed3601da0eb49c784e8e96c0468b44147d33
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drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-04-13 07:28 ./usr/share/doc/python3-dna-jellyfish-dbgsym -> python3-dna-jellyfish
python3-dna-jellyfish_2.3.0-13_armhf.deb
----------------------------------------
new Debian package, version 2.0.
size 58144 bytes: control archive=1528 bytes.
1294 bytes, 26 lines control
654 bytes, 7 lines md5sums
289 bytes, 12 lines * postinst #!/bin/sh
433 bytes, 12 lines * prerm #!/bin/sh
Package: python3-dna-jellyfish
Source: jellyfish
Version: 2.3.0-13
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 294
Depends: python3 (<< 3.11), python3 (>= 3.9~), python3:any, libc6 (>= 2.33), libgcc-s1 (>= 3.5), libjellyfish-2.0-2 (>= 2.3.0), libstdc++6 (>= 5.2)
Section: python
Priority: optional
Homepage: https://github.com/gmarcais/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 2022-04-13 07:28 ./
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/lib/
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-rw-r--r-- root/root 12878 2022-04-13 07:28 ./usr/lib/python3/dist-packages/dna_jellyfish.py
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-04-13 07:28 ./usr/share/doc/python3-dna-jellyfish/
-rw-r--r-- root/root 4401 2022-04-13 07:28 ./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 2022-04-13 07:28 ./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: 137168
Build-Time: 2141
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 869
Job: jellyfish_2.3.0-13
Machine Architecture: armhf
Package: jellyfish
Package-Time: 3063
Source-Version: 2.3.0-13
Space: 137168
Status: successful
Version: 2.3.0-13
--------------------------------------------------------------------------------
Finished at 2022-04-15T07:43:46Z
Build needed 00:51:03, 137168k disc space