fast5 →
0.6.5-4 →
armhf → 2019-11-23 05:15:35
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| fast5 0.6.5-4 (armhf) Sat, 23 Nov 2019 05:05:17 +0000 |
+==============================================================================+
Package: fast5
Version: 0.6.5-4
Source Version: 0.6.5-4
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-ab4b0bc8-1bc0-4110-b12f-9fa5b4db2cec' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.9 MB]
Fetched 24.4 MB in 10s (2557 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'fast5' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/fast5.git
Please use:
git clone https://salsa.debian.org/med-team/fast5.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 100 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main fast5 0.6.5-4 (dsc) [2173 B]
Get:2 http://172.17.0.1/private bullseye-staging/main fast5 0.6.5-4 (tar) [93.6 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main fast5 0.6.5-4 (diff) [4608 B]
Fetched 100 kB in 0s (343 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/fast5-ufmAxM/fast5-0.6.5' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/fast5-ufmAxM' 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-JlBocm/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-JlBocm/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-JlBocm/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Packages [431 B]
Fetched 2107 B in 0s (9711 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 23 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12227 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), dh-python, libhdf5-dev, libboost-python-dev, python3-all-dev, python3-setuptools, cython3
Filtered Build-Depends: debhelper-compat (= 12), dh-python, libhdf5-dev, libboost-python-dev, python3-all-dev, python3-setuptools, cython3
dpkg-deb: building package 'sbuild-build-depends-fast5-dummy' in '/<<BUILDDIR>>/resolver-JlBocm/apt_archive/sbuild-build-depends-fast5-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-fast5-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-JlBocm/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Sources [531 B]
Get:5 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ Packages [613 B]
Fetched 2477 B in 0s (11.3 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install fast5 build dependencies (apt-based resolver)
-----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cpp-9 cython3
debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file g++-9
gcc-9 gcc-9-base gettext gettext-base groff-base hdf5-helpers
intltool-debian libaec-dev libaec0 libarchive-zip-perl libasan5 libatomic1
libboost-python-dev libboost-python1.67-dev libboost-python1.67.0
libboost1.67-dev libbsd0 libcc1-0 libcroco3 libdebhelper-perl libelf1
libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgcc-9-dev
libgcc1 libgfortran5 libglib2.0-0 libgomp1 libhdf5-103 libhdf5-cpp-103
libhdf5-dev libicu63 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev
libmagic-mgc libmagic1 libmpdec2 libncurses6 libpipeline1 libpython-dev
libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7
libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev
libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev
libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libssl1.1
libstdc++-9-dev libstdc++6 libsub-override-perl libsz2 libtinfo5 libtool
libubsan1 libuchardet0 libxml2 m4 man-db mime-support po-debconf python
python-dev python-minimal python2 python2-dev python2-minimal python2.7
python2.7-dev python2.7-minimal python3 python3-all python3-all-dev
python3-dev python3-distutils python3-lib2to3 python3-minimal
python3-pkg-resources python3-setuptools python3.7 python3.7-dev
python3.7-minimal sensible-utils zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation gcc-9-locales cython-doc dh-make gcc-9-doc libstdc++6-9-dbg
libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan5-dbg
liblsan0-dbg libtsan0-dbg libubsan1-dbg libquadmath0-dbg gettext-doc
libasprintf-dev libgettextpo-dev groff libboost1.67-doc gccxml
libboost-atomic1.67-dev libboost-chrono1.67-dev libboost-container1.67-dev
libboost-context1.67-dev libboost-coroutine1.67-dev
libboost-date-time1.67-dev libboost-exception1.67-dev libboost-fiber1.67-dev
libboost-filesystem1.67-dev libboost-graph1.67-dev
libboost-graph-parallel1.67-dev libboost-iostreams1.67-dev
libboost-locale1.67-dev libboost-log1.67-dev libboost-math1.67-dev
libboost-mpi1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev
libboost-program-options1.67-dev libboost-random1.67-dev
libboost-regex1.67-dev libboost-serialization1.67-dev
libboost-signals1.67-dev libboost-stacktrace1.67-dev libboost-system1.67-dev
libboost-test1.67-dev libboost-thread1.67-dev libboost-timer1.67-dev
libboost-type-erasure1.67-dev libboost-wave1.67-dev libboost1.67-tools-dev
libmpfrc++-dev libntl-dev libhdf5-doc libstdc++-9-doc libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl python-doc python-tk python2-doc python2.7-doc
binfmt-support python3-doc python3-tk python3-venv python-setuptools-doc
python3.7-venv python3.7-doc
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs libgpm2 libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils cython3 debhelper
dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext
gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0
libarchive-zip-perl libboost-python-dev libboost-python1.67-dev
libboost-python1.67.0 libboost1.67-dev libbsd0 libcroco3 libdebhelper-perl
libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl
libgfortran5 libglib2.0-0 libhdf5-103 libhdf5-cpp-103 libhdf5-dev libicu63
libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libmagic-mgc libmagic1
libmpdec2 libncurses6 libpipeline1 libpython-dev libpython-stdlib
libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev
libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev libpython3-dev
libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal
libpython3.7-stdlib libsigsegv2 libssl1.1 libsub-override-perl libsz2
libtinfo5 libtool libuchardet0 libxml2 m4 man-db mime-support po-debconf
python python-dev python-minimal python2 python2-dev python2-minimal
python2.7 python2.7-dev python2.7-minimal python3 python3-all
python3-all-dev python3-dev python3-distutils python3-lib2to3
python3-minimal python3-pkg-resources python3-setuptools python3.7
python3.7-dev python3.7-minimal sbuild-build-depends-fast5-dummy
sensible-utils zlib1g-dev
The following packages will be upgraded:
cpp-9 g++-9 gcc-9 gcc-9-base libasan5 libatomic1 libcc1-0 libgcc-9-dev
libgcc1 libgomp1 libstdc++-9-dev libstdc++6 libubsan1
13 upgraded, 96 newly installed, 0 to remove and 10 not upgraded.
Need to get 139 MB of archives.
After this operation, 386 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-JlBocm/apt_archive ./ sbuild-build-depends-fast5-dummy 0.invalid.0 [896 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20191019-1 [316 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libcc1-0 armhf 9.2.1-19+rpi1 [38.1 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf gcc-9-base armhf 9.2.1-19+rpi1 [194 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libgcc1 armhf 1:9.2.1-19+rpi1 [36.9 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf libgomp1 armhf 9.2.1-19+rpi1 [73.7 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libatomic1 armhf 9.2.1-19+rpi1 [8160 B]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libasan5 armhf 9.2.1-19+rpi1 [348 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libubsan1 armhf 9.2.1-19+rpi1 [112 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf g++-9 armhf 9.2.1-19+rpi1 [7627 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libstdc++-9-dev armhf 9.2.1-19+rpi1 [1707 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf libgcc-9-dev armhf 9.2.1-19+rpi1 [640 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf gcc-9 armhf 9.2.1-19+rpi1 [7284 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf cpp-9 armhf 9.2.1-19+rpi1 [6913 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf libstdc++6 armhf 9.2.1-19+rpi1 [415 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.1-2 [26.6 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.0-1 [1261 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libpython2.7-minimal armhf 2.7.17-1 [395 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf python2.7-minimal armhf 2.7.17-1 [1107 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf python2-minimal armhf 2.7.17-1 [41.4 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf python-minimal armhf 2.7.17-1 [21.0 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-2 [1268 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf mime-support all 3.64 [37.8 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libpython2.7-stdlib armhf 2.7.17-1 [1823 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf python2.7 armhf 2.7.17-1 [309 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libpython2-stdlib armhf 2.7.17-1 [20.9 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libpython-stdlib armhf 2.7.17-1 [20.9 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf python2 armhf 2.7.17-1 [41.7 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf python armhf 2.7.17-1 [22.9 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libpython3.7-minimal armhf 3.7.5-2 [584 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf python3.7-minimal armhf 3.7.5-2 [1527 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf python3-minimal armhf 3.7.5-1 [36.6 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libmpdec2 armhf 2.4.2-2 [67.2 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libpython3.7-stdlib armhf 3.7.5-2 [1668 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf python3.7 armhf 3.7.5-2 [347 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libpython3-stdlib armhf 3.7.5-1 [20.1 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf python3 armhf 3.7.5-1 [61.5 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12 [15.8 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.37-6 [253 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.37-6 [111 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.37-6 [66.2 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-9 [117 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-9 [434 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf cython3 armhf 0.29.14-0.1 [1375 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-11 [547 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.67-1 [104 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.1-1 [23.5 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.6.1-1 [14.4 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-2 [136 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.7.1 [173 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.62.2-3 [1137 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-2 [7974 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.4+dfsg1-8 [593 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20191019-1 [79.5 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-9 [1219 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.7.1 [997 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf python3-lib2to3 all 3.8.0-1 [78.3 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf python3-distutils all 3.8.0-1 [145 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf dh-python all 4.20191017 [94.4 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf hdf5-helpers armhf 1.10.4+repack-10 [35.2 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libaec0 armhf 1.0.4-1 [20.0 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libsz2 armhf 1.0.4-1 [6664 B]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libaec-dev armhf 1.0.4-1 [17.8 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf libboost1.67-dev armhf 1.67.0-13 [8386 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libboost-python1.67.0 armhf 1.67.0-13 [306 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libpython2.7 armhf 2.7.17-1 [883 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libexpat1-dev armhf 2.2.9-1 [119 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libpython2.7-dev armhf 2.7.17-1 [26.5 MB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libpython2-dev armhf 2.7.17-1 [20.9 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libpython-dev armhf 2.7.17-1 [20.9 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf python2.7-dev armhf 2.7.17-1 [284 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf python2-dev armhf 2.7.17-1 [1220 B]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf python-dev armhf 2.7.17-1 [1196 B]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libpython3.7 armhf 3.7.5-2 [1252 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf libpython3.7-dev armhf 3.7.5-2 [40.2 MB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libpython3-dev armhf 3.7.5-1 [20.1 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1 [206 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf python3.7-dev armhf 3.7.5-2 [513 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf python3-dev armhf 3.7.5-1 [1272 B]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf libboost-python1.67-dev armhf 1.67.0-13 [318 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf libboost-python-dev armhf 1.67.0.2+b3 [4548 B]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 9.2.1-19+rpi1 [230 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf libhdf5-103 armhf 1.10.4+repack-10 [1259 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf libhdf5-cpp-103 armhf 1.10.4+repack-10 [121 kB]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:1.5.2-2+b1 [110 kB]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo-dev armhf 1:1.5.2-2+b1 [179 kB]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf libjpeg-dev all 1:1.5.2-2 [57.5 kB]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf libhdf5-dev armhf 1.10.4+repack-10 [2221 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf libpython3-all-dev armhf 3.7.5-1 [1068 B]
Get:106 http://172.17.0.1/private bullseye-staging/main armhf python3-all armhf 3.7.5-1 [1064 B]
Get:107 http://172.17.0.1/private bullseye-staging/main armhf python3-all-dev armhf 3.7.5-1 [1064 B]
Get:108 http://172.17.0.1/private bullseye-staging/main armhf python3-pkg-resources all 41.2.0-1 [154 kB]
Get:109 http://172.17.0.1/private bullseye-staging/main armhf python3-setuptools all 41.2.0-1 [307 kB]
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Setting up libpipeline1:armhf (1.5.1-2) ...
Setting up mime-support (3.64) ...
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No schema files found: doing nothing.
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Setting up file (1:5.37-6) ...
Setting up libgomp1:armhf (9.2.1-19+rpi1) ...
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Setting up libsigsegv2:armhf (2.12-2) ...
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Setting up libgcc-9-dev:armhf (9.2.1-19+rpi1) ...
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Setting up libhdf5-103:armhf (1.10.4+repack-10) ...
Setting up bsdmainutils (11.1.2) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11) ...
Setting up dwz (0.13-2) ...
Setting up groff-base (1.22.4-3) ...
Setting up libpython2-dev:armhf (2.7.17-1) ...
Setting up python (2.7.17-1) ...
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Setting up automake (1:1.16.1-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gcc-9 (9.2.1-19+rpi1) ...
Setting up python3.7 (3.7.5-2) ...
Setting up gettext (0.19.8.1-9) ...
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Setting up libhdf5-cpp-103:armhf (1.10.4+repack-10) ...
Setting up python3 (3.7.5-1) ...
Setting up man-db (2.9.0-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up python3.7-dev (3.7.5-2) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libpython-dev:armhf (2.7.17-1) ...
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Setting up libhdf5-dev (1.10.4+repack-10) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5-serial.pc to provide /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5.pc (hdf5.pc) in auto mode
Setting up cython3 (0.29.14-0.1) ...
Setting up g++-9 (9.2.1-19+rpi1) ...
Setting up python3-lib2to3 (3.8.0-1) ...
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Setting up python3-distutils (3.8.0-1) ...
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Setting up libboost1.67-dev:armhf (1.67.0-13) ...
Setting up python3-setuptools (41.2.0-1) ...
Setting up po-debconf (1.0.21) ...
Setting up python3-all (3.7.5-1) ...
Setting up python3-dev (3.7.5-1) ...
Setting up libboost-python1.67-dev (1.67.0-13) ...
Setting up python3-all-dev (3.7.5-1) ...
Setting up libboost-python-dev (1.67.0.2+b3) ...
Setting up dh-autoreconf (19) ...
Setting up dh-strip-nondeterminism (1.6.1-1) ...
Setting up debhelper (12.7.1) ...
Setting up sbuild-build-depends-fast5-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.29-2+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-58-generic armhf (armv8l)
Toolchain package versions: binutils_2.33.1-2+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-19+rpi1 gcc-9_9.2.1-19+rpi1 libc6-dev_2.29-2+rpi1 libstdc++-9-dev_9.2.1-19+rpi1 libstdc++6_9.2.1-19+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.46 bash_5.0-5 binutils_2.33.1-2+rpi1 binutils-arm-linux-gnueabihf_2.33.1-2+rpi1 binutils-common_2.33.1-2+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3+rpi1 cpp-9_9.2.1-19+rpi1 cython3_0.29.14-0.1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.1 debianutils_4.9 dh-autoreconf_19 dh-python_4.20191017 dh-strip-nondeterminism_1.6.1-1 diffutils_1:3.7-3 dirmngr_2.2.17-3+b1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-2 e2fsprogs_1.45.4-1 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-6 findutils_4.7.0-1 g++_4:9.2.1-3+rpi1 g++-9_9.2.1-19+rpi1 gcc_4:9.2.1-3+rpi1 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-6-base_6.5.0-1+rpi1+b3 gcc-9_9.2.1-19+rpi1 gcc-9-base_9.2.1-19+rpi1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gnupg_2.2.17-3 gnupg-l10n_2.2.17-3 gnupg-utils_2.2.17-3+b1 gpg_2.2.17-3+b1 gpg-agent_2.2.17-3+b1 gpg-wks-client_2.2.17-3+b1 gpg-wks-server_2.2.17-3+b1 gpgconf_2.2.17-3+b1 gpgsm_2.2.17-3+b1 gpgv_2.2.17-3+b1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hdf5-helpers_1.10.4+repack-10 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20190709-2 libacl1_2.2.53-5 libaec-dev_1.0.4-1 libaec0_1.0.4-1 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-1 libasan5_9.2.1-19+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-19+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2 libbinutils_2.33.1-2+rpi1 libblkid1_2.34-0.1 libboost-python-dev_1.67.0.2+b3 libboost-python1.67-dev_1.67.0-13 libboost-python1.67.0_1.67.0-13 libboost1.67-dev_1.67.0-13 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-2+rpi1 libc-dev-bin_2.29-2+rpi1 libc6_2.29-2+rpi1 libc6-dev_2.29-2+rpi1 libcap-ng0_0.7.9-2.1 libcap2_1:2.27-1 libcap2-bin_1:2.27-1 libcc1-0_9.2.1-19+rpi1 libcom-err2_1.45.4-1 libcroco3_0.6.13-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.250 libdebhelper-perl_12.7.1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libexpat1_2.2.9-1 libexpat1-dev_2.2.9-1 libext2fs2_1.45.4-1 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.1-1 libgcc-9-dev_9.2.1-19+rpi1 libgcc1_1:9.2.1-19+rpi1 libgcrypt20_1.8.5-3 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_9.2.1-19+rpi1 libglib2.0-0_2.62.2-3 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.10-4 libgomp1_9.2.1-19+rpi1 libgpg-error0_1.36-7 libhdf5-103_1.10.4+repack-10 libhdf5-cpp-103_1.10.4+repack-10 libhdf5-dev_1.10.4+repack-10 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl19_0.20-2 libisl21_0.21-2 libjpeg-dev_1:1.5.2-2 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libksba8_1.3.5-2 libldap-2.4-2_2.4.48+dfsg-1+b2 libldap-common_2.4.48+dfsg-1 liblz4-1_1.9.2-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.2-1 libncurses6_6.1+20191019-1 libncursesw6_6.1+20191019-1 libnettle7_3.5.1+really3.5.1-2 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2 libpam-cap_1:2.27-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.32-5 libpcre3_2:8.39-12 libperl5.30_5.30.0-9 libpipeline1_1.5.1-2 libpython-dev_2.7.17-1 libpython-stdlib_2.7.17-1 libpython2-dev_2.7.17-1 libpython2-stdlib_2.7.17-1 libpython2.7_2.7.17-1 libpython2.7-dev_2.7.17-1 libpython2.7-minimal_2.7.17-1 libpython2.7-stdlib_2.7.17-1 libpython3-all-dev_3.7.5-1 libpython3-dev_3.7.5-1 libpython3-stdlib_3.7.5-1 libpython3.7_3.7.5-2 libpython3.7-dev_3.7.5-2 libpython3.7-minimal_3.7.5-2 libpython3.7-stdlib_3.7.5-2 libreadline7_7.0-5 libreadline8_8.0-3 libsasl2-2_2.1.27+dfsg-1+b1 libsasl2-modules-db_2.1.27+dfsg-1+b1 libseccomp2_2.4.1-2+rpi1 libselinux1_2.9-2 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.30.1-1 libss2_1.45.4-1 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-19+rpi1 libstdc++6_9.2.1-19+rpi1 libsub-override-perl_0.09-2 libsystemd0_242-7+rpi1 libsz2_1.0.4-1 libtasn1-6_4.14-3 libtinfo5_6.1+20191019-1 libtinfo6_6.1+20191019-1 libtool_2.4.6-11 libubsan1_9.2.1-19+rpi1 libuchardet0_0.0.6-3 libudev1_242-7+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libxml2_2.9.4+dfsg1-8 libzstd1_1.4.3+dfsg-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.7-2 logsave_1.45.4-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-1 mawk_1.3.3-17 mime-support_3.64 mount_2.34-0.1 ncurses-base_6.1+20191019-1 ncurses-bin_6.1+20191019-1 netbase_5.6 passwd_1:4.7-2 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 po-debconf_1.0.21 python_2.7.17-1 python-dev_2.7.17-1 python-minimal_2.7.17-1 python2_2.7.17-1 python2-dev_2.7.17-1 python2-minimal_2.7.17-1 python2.7_2.7.17-1 python2.7-dev_2.7.17-1 python2.7-minimal_2.7.17-1 python3_3.7.5-1 python3-all_3.7.5-1 python3-all-dev_3.7.5-1 python3-dev_3.7.5-1 python3-distutils_3.8.0-1 python3-lib2to3_3.8.0-1 python3-minimal_3.7.5-1 python3-pkg-resources_41.2.0-1 python3-setuptools_41.2.0-1 python3.7_3.7.5-2 python3.7-dev_3.7.5-2 python3.7-minimal_3.7.5-2 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-fast5-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.96-1 tar_1.30+dfsg-6 tzdata_2019c-3 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Thu Nov 21 08:48:41 2019 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./fast5_0.6.5-4.dsc
dpkg-source: info: extracting fast5 in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking fast5_0.6.5.orig.tar.gz
dpkg-source: info: unpacking fast5_0.6.5-4.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying rpath.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-ab4b0bc8-1bc0-4110-b12f-9fa5b4db2cec
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package fast5
dpkg-buildpackage: info: source version 0.6.5-4
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp
fakeroot debian/rules clean
dh clean --with python3 --buildsystem=pybuild \
--sourcedirectory=python
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
cd src && /usr/bin/make clean
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
dh_auto_clean
I: pybuild base:217: python3.7 setup.py clean
Compiling fast5/fast5.pyx because it changed.
[1/1] Cythonizing fast5/fast5.pyx
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_fast5/build' (and everything under it)
/usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /<<PKGBUILDDIR>>/python/fast5/fast5.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
'build/bdist.linux-armhf' does not exist -- can't clean it
'build/scripts-3.7' does not exist -- can't clean it
rm -rf python/fast5/fast5.cpp
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_autoreconf_clean -O--buildsystem=pybuild -O--sourcedirectory=python
dh_clean -O--buildsystem=pybuild -O--sourcedirectory=python
debian/rules build-arch
dh build-arch --with python3 --buildsystem=pybuild \
--sourcedirectory=python
dh_update_autotools_config -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_autoreconf -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_auto_configure -a -O--buildsystem=pybuild -O--sourcedirectory=python
I: pybuild base:217: python3.7 setup.py config
Compiling fast5/fast5.pyx because it changed.
[1/1] Cythonizing fast5/fast5.pyx
running config
/usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /<<PKGBUILDDIR>>/python/fast5/fast5.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
dh_auto_build -a -O--buildsystem=pybuild -O--sourcedirectory=python
I: pybuild base:217: /usr/bin/python3 setup.py build
running build
running build_ext
building 'fast5' extension
creating build
creating build/temp.linux-armhf-3.7
creating build/temp.linux-armhf-3.7/fast5
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I../include -I../src -I/usr/include/python3.7m -c fast5/fast5.cpp -o build/temp.linux-armhf-3.7/fast5/fast5.o -std=c++11 -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial
In file included from /usr/include/c++/9/vector:72,
from fast5/fast5.cpp:655:
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from fast5/fast5.cpp:655:
/usr/include/c++/9/bits/stl_vector.h: In member function ‘std::vector<_Tp> fast5::Huffman_Packer::decode(const Code_Type&, const Code_Params_Type&) const [with Int_Type = long long int]’:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In static member function ‘static fast5::Basecall_Events_Pack fast5::File::pack_ev(const Basecall_Events_Dataset&, const fast5::Basecall_Group_Description&, const string&, const std::vector<fast5::EventDetection_Event>&, const string&, const fast5::Channel_Id_Params&, double, unsigned int)’:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_vector.h: In static member function ‘static fast5::EventDetection_Events_Pack fast5::File::pack_ed(const EventDetection_Events_Dataset&)’:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.7/fast5/fast5.o -L/usr/lib/arm-linux-gnueabihf/hdf5/serial -lhdf5 -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_fast5/build/fast5.cpython-37m-arm-linux-gnueabihf.so
running build_scripts
creating build/scripts-3.7
copying and adjusting bin/f5ls -> build/scripts-3.7
copying and adjusting bin/f5pack -> build/scripts-3.7
changing mode of build/scripts-3.7/f5ls from 664 to 775
changing mode of build/scripts-3.7/f5pack from 664 to 775
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
cd src && /usr/bin/make
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<<PKGBUILDDIR>>/src/../include -o f5ls f5ls.cpp -L/usr/lib/arm-linux-gnueabihf/hdf5/serial -Wl,--rpath=/usr/lib/arm-linux-gnueabihf/hdf5/serial -lhdf5 -lpthread -lz -ldl
In file included from /usr/include/c++/9/cassert:44,
from /<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:11,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:27,
from f5ls.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp: In member function ‘void hdf5_tools::detail::Writer_Helper<3, std::__cxx11::basic_string<char> >::operator()(hid_t, const string&, bool, hid_t, size_t, const string*, hid_t) const’:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:1633:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare]
1633 | assert(slen <= std::numeric_limits<long>::max());
| ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from f5ls.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5.hpp: In static member function ‘static fast5::Basecall_Alignment_Pack fast5::File::pack_al(const std::vector<fast5::Basecall_Alignment_Entry>&, const string&)’:
/<<PKGBUILDDIR>>/src/../include/fast5.hpp:2317:32: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘signed char’ [-Wsign-compare]
2317 | if (next_pos - pos > std::numeric_limits< int8_t >::max())
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls.cpp:12:
/usr/include/c++/9/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls.cpp:12:
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
In file included from /usr/include/c++/9/vector:66,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls.cpp:12:
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = long long int*; _ForwardIterator = long long int*; _Allocator = std::allocator<long long int>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::EventDetection_Event*; _ForwardIterator = fast5::EventDetection_Event*; _Allocator = std::allocator<fast5::EventDetection_Event>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::Basecall_Event*; _ForwardIterator = fast5::Basecall_Event*; _Allocator = std::allocator<fast5::Basecall_Event>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::Basecall_Alignment_Entry*; _ForwardIterator = fast5::Basecall_Alignment_Entry*; _Allocator = std::allocator<fast5::Basecall_Alignment_Entry>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = hdf5_tools::detail::Compound_Member_Description*; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Allocator = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<long long int*>; _ForwardIterator = long long int*; _Tp = long long int]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::EventDetection_Event*>; _ForwardIterator = fast5::EventDetection_Event*; _Tp = fast5::EventDetection_Event]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::Basecall_Event*>; _ForwardIterator = fast5::Basecall_Event*; _Tp = fast5::Basecall_Event]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _ForwardIterator = fast5::Basecall_Alignment_Entry*; _Tp = fast5::Basecall_Alignment_Entry]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Tp = hdf5_tools::detail::Compound_Member_Description]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::Basecall_Model_State*; _ForwardIterator = fast5::Basecall_Model_State*; _Allocator = std::allocator<fast5::Basecall_Model_State>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<long long int*>; _ForwardIterator = long long int*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::EventDetection_Event*>; _ForwardIterator = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Event*>; _ForwardIterator = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _ForwardIterator = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::Basecall_Model_State*>; _ForwardIterator = fast5::Basecall_Model_State*; _Tp = fast5::Basecall_Model_State]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<long long int*>; _ForwardIterator = long long int*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::EventDetection_Event*>; _ForwardIterator = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Event*>; _ForwardIterator = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _ForwardIterator = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; bool _TrivialValueTypes = false]’:
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
76 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Model_State*>; _ForwardIterator = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls.cpp:9:
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<long long int*>; _OI = long long int*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
465 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::EventDetection_Event*>; _OI = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::Basecall_Event*>; _OI = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _OI = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
In file included from /usr/include/c++/9/vector:66,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls.cpp:12:
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Model_State*>; _ForwardIterator = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algobase.h:67,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls.cpp:9:
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = long long int*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
1262 | __miter_base(move_iterator<_Iterator> __it)
| ^~~~~~~~~~~~
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
In file included from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls.cpp:9:
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::Basecall_Model_State*>; _OI = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
465 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algobase.h:67,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls.cpp:9:
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
1262 | __miter_base(move_iterator<_Iterator> __it)
| ^~~~~~~~~~~~
g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<<PKGBUILDDIR>>/src/../include -o f5ls-full f5ls-full.cpp -L/usr/lib/arm-linux-gnueabihf/hdf5/serial -Wl,--rpath=/usr/lib/arm-linux-gnueabihf/hdf5/serial -lhdf5 -lpthread -lz -ldl
In file included from /usr/include/c++/9/cassert:44,
from /<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:11,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:27,
from f5ls-full.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp: In member function ‘void hdf5_tools::detail::Writer_Helper<3, std::__cxx11::basic_string<char> >::operator()(hid_t, const string&, bool, hid_t, size_t, const string*, hid_t) const’:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:1633:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare]
1633 | assert(slen <= std::numeric_limits<long>::max());
| ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from f5ls-full.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5.hpp: In static member function ‘static fast5::Basecall_Alignment_Pack fast5::File::pack_al(const std::vector<fast5::Basecall_Alignment_Entry>&, const string&)’:
/<<PKGBUILDDIR>>/src/../include/fast5.hpp:2317:32: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘signed char’ [-Wsign-compare]
2317 | if (next_pos - pos > std::numeric_limits< int8_t >::max())
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls-full.cpp:12:
/usr/include/c++/9/bits/stl_vector.h: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’ changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls-full.cpp:12:
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator<long long int>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<long long int>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<long long int*, std::vector<long long int> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
In file included from /usr/include/c++/9/vector:66,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls-full.cpp:12:
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = long long int*; _ForwardIterator = long long int*; _Allocator = std::allocator<long long int>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::EventDetection_Event*; _ForwardIterator = fast5::EventDetection_Event*; _Allocator = std::allocator<fast5::EventDetection_Event>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::Basecall_Event*; _ForwardIterator = fast5::Basecall_Event*; _Allocator = std::allocator<fast5::Basecall_Event>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::Basecall_Alignment_Entry*; _ForwardIterator = fast5::Basecall_Alignment_Entry*; _Allocator = std::allocator<fast5::Basecall_Alignment_Entry>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = hdf5_tools::detail::Compound_Member_Description*; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Allocator = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<long long int*>; _ForwardIterator = long long int*; _Tp = long long int]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::EventDetection_Event*>; _ForwardIterator = fast5::EventDetection_Event*; _Tp = fast5::EventDetection_Event]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::Basecall_Event*>; _ForwardIterator = fast5::Basecall_Event*; _Tp = fast5::Basecall_Event]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _ForwardIterator = fast5::Basecall_Alignment_Entry*; _Tp = fast5::Basecall_Alignment_Entry]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Tp = hdf5_tools::detail::Compound_Member_Description]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = fast5::Basecall_Model_State*; _ForwardIterator = fast5::Basecall_Model_State*; _Allocator = std::allocator<fast5::Basecall_Model_State>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<long long int*>; _ForwardIterator = long long int*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::EventDetection_Event*>; _ForwardIterator = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Event*>; _ForwardIterator = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _ForwardIterator = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<fast5::Basecall_Model_State*>; _ForwardIterator = fast5::Basecall_Model_State*; _Tp = fast5::Basecall_Model_State]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<long long int*>; _ForwardIterator = long long int*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::EventDetection_Event*>; _ForwardIterator = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Event*>; _ForwardIterator = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _ForwardIterator = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; bool _TrivialValueTypes = false]’:
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
76 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Model_State*>; _ForwardIterator = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls-full.cpp:9:
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<long long int*>; _OI = long long int*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
465 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::EventDetection_Event*>; _OI = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::Basecall_Event*>; _OI = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::Basecall_Alignment_Entry*>; _OI = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
In file included from /usr/include/c++/9/vector:66,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5ls-full.cpp:12:
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<true>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<fast5::Basecall_Model_State*>; _ForwardIterator = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
99 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:99:9: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:101:27: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
101 | { return std::copy(__first, __last, __result); }
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/bits/stl_algobase.h:67,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls-full.cpp:9:
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = long long int*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<long long int*>’ changed in GCC 7.1
1262 | __miter_base(move_iterator<_Iterator> __it)
| ^~~~~~~~~~~~
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::EventDetection_Event*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::EventDetection_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::Basecall_Event*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Event*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::Basecall_Alignment_Entry*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Alignment_Entry*>’ changed in GCC 7.1
In file included from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls-full.cpp:9:
/usr/include/c++/9/bits/stl_algobase.h: In function ‘_OI std::copy(_II, _II, _OI) [with _II = std::move_iterator<fast5::Basecall_Model_State*>; _OI = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
465 | copy(_II __first, _II __last, _OI __result)
| ^~~~
/usr/include/c++/9/bits/stl_algobase.h:465:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algobase.h:67,
from /usr/include/c++/9/bits/char_traits.h:39,
from /usr/include/c++/9/ios:40,
from /usr/include/c++/9/ostream:38,
from /usr/include/c++/9/iostream:39,
from f5ls-full.cpp:9:
/usr/include/c++/9/bits/stl_iterator.h: In function ‘decltype (std::__miter_base(__it.base())) std::__miter_base(std::move_iterator<_IteratorL>) [with _Iterator = fast5::Basecall_Model_State*]’:
/usr/include/c++/9/bits/stl_iterator.h:1262:5: note: parameter passing for argument of type ‘std::move_iterator<fast5::Basecall_Model_State*>’ changed in GCC 7.1
1262 | __miter_base(move_iterator<_Iterator> __it)
| ^~~~~~~~~~~~
g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<<PKGBUILDDIR>>/src/../include -o hdf5-mod hdf5-mod.cpp -L/usr/lib/arm-linux-gnueabihf/hdf5/serial -Wl,--rpath=/usr/lib/arm-linux-gnueabihf/hdf5/serial -lhdf5 -lpthread -lz -ldl
In file included from /usr/include/c++/9/cassert:44,
from /<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:11,
from hdf5-mod.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp: In member function ‘void hdf5_tools::detail::Writer_Helper<3, std::__cxx11::basic_string<char> >::operator()(hid_t, const string&, bool, hid_t, size_t, const string*, hid_t) const’:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:1633:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare]
1633 | assert(slen <= std::numeric_limits<long>::max());
| ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:20,
from hdf5-mod.cpp:12:
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, const hdf5_tools::Compound_Map*&, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, const hdf5_tools::Compound_Map*&, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
In file included from /usr/include/c++/9/vector:66,
from /<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:20,
from hdf5-mod.cpp:12:
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = hdf5_tools::detail::Compound_Member_Description*; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Allocator = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Tp = hdf5_tools::detail::Compound_Member_Description]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; bool _TrivialValueTypes = false]’:
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
76 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<<PKGBUILDDIR>>/src/../include -o f5-mod f5-mod.cpp -L/usr/lib/arm-linux-gnueabihf/hdf5/serial -Wl,--rpath=/usr/lib/arm-linux-gnueabihf/hdf5/serial -lhdf5 -lpthread -lz -ldl
In file included from /usr/include/c++/9/cassert:44,
from /<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:11,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:27,
from f5-mod.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp: In member function ‘void hdf5_tools::detail::Writer_Helper<3, std::__cxx11::basic_string<char> >::operator()(hid_t, const string&, bool, hid_t, size_t, const string*, hid_t) const’:
/<<PKGBUILDDIR>>/src/../include/fast5/hdf5_tools.hpp:1633:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare]
1633 | assert(slen <= std::numeric_limits<long>::max());
| ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from f5-mod.cpp:12:
/<<PKGBUILDDIR>>/src/../include/fast5.hpp: In static member function ‘static fast5::Basecall_Alignment_Pack fast5::File::pack_al(const std::vector<fast5::Basecall_Alignment_Entry>&, const string&)’:
/<<PKGBUILDDIR>>/src/../include/fast5.hpp:2317:32: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘signed char’ [-Wsign-compare]
2317 | if (next_pos - pos > std::numeric_limits< int8_t >::max())
| ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:72,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5-mod.cpp:12:
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’ changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ^~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, long long int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&, unsigned int, unsigned int}; _Tp = hdf5_tools::detail::Compound_Member_Description; _Alloc = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector<hdf5_tools::detail::Compound_Member_Description>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<hdf5_tools::detail::Compound_Member_Description*, std::vector<hdf5_tools::detail::Compound_Member_Description> >’} changed in GCC 7.1
In file included from /usr/include/c++/9/vector:66,
from /<<PKGBUILDDIR>>/src/../include/fast5.hpp:19,
from f5-mod.cpp:12:
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_move_if_noexcept_a(_InputIterator, _InputIterator, _ForwardIterator, _Allocator&) [with _InputIterator = hdf5_tools::detail::Compound_Member_Description*; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Allocator = std::allocator<hdf5_tools::detail::Compound_Member_Description>]’:
/usr/include/c++/9/bits/stl_uninitialized.h:329:2: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
328 | return std::__uninitialized_copy_a
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
329 | (_GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__first),
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
330 | _GLIBCXX_MAKE_MOVE_IF_NOEXCEPT_ITERATOR(__last), __result, __alloc);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, std::allocator<_Tp>&) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; _Tp = hdf5_tools::detail::Compound_Member_Description]’:
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
305 | __uninitialized_copy_a(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:305:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:307:37: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
307 | { return std::uninitialized_copy(__first, __last, __result); }
| ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*]’:
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
115 | uninitialized_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:115:5: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
/usr/include/c++/9/bits/stl_uninitialized.h:140:15: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
137 | return std::__uninitialized_copy<__is_trivial(_ValueType1)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
138 | && __is_trivial(_ValueType2)
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
139 | && __assignable>::
| ~~~~~~~~~~~~~~~~~~
140 | __uninit_copy(__first, __last, __result);
| ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h: In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>; _ForwardIterator = hdf5_tools::detail::Compound_Member_Description*; bool _TrivialValueTypes = false]’:
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
76 | __uninit_copy(_InputIterator __first, _InputIterator __last,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_uninitialized.h:76:9: note: parameter passing for argument of type ‘std::move_iterator<hdf5_tools::detail::Compound_Member_Description*>’ changed in GCC 7.1
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch --with python3 --buildsystem=pybuild \
--sourcedirectory=python
dh_testroot -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_prep -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_auto_install -a -O--buildsystem=pybuild -O--sourcedirectory=python
I: pybuild base:217: /usr/bin/python3 setup.py install --root /<<PKGBUILDDIR>>/debian/python3-fast5
running install
running build
running build_ext
running build_scripts
running install_lib
creating /<<PKGBUILDDIR>>/debian/python3-fast5
creating /<<PKGBUILDDIR>>/debian/python3-fast5/usr
creating /<<PKGBUILDDIR>>/debian/python3-fast5/usr/lib
creating /<<PKGBUILDDIR>>/debian/python3-fast5/usr/lib/python3.7
creating /<<PKGBUILDDIR>>/debian/python3-fast5/usr/lib/python3.7/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_fast5/build/fast5.cpython-37m-arm-linux-gnueabihf.so -> /<<PKGBUILDDIR>>/debian/python3-fast5/usr/lib/python3.7/dist-packages
running install_egg_info
running egg_info
creating fast5.egg-info
writing fast5.egg-info/PKG-INFO
writing dependency_links to fast5.egg-info/dependency_links.txt
writing top-level names to fast5.egg-info/top_level.txt
writing manifest file 'fast5.egg-info/SOURCES.txt'
reading manifest file 'fast5.egg-info/SOURCES.txt'
writing manifest file 'fast5.egg-info/SOURCES.txt'
Copying fast5.egg-info to /<<PKGBUILDDIR>>/debian/python3-fast5/usr/lib/python3.7/dist-packages/fast5-0.6.2.egg-info
Skipping SOURCES.txt
running install_scripts
creating /<<PKGBUILDDIR>>/debian/python3-fast5/usr/bin
copying build/scripts-3.7/f5ls -> /<<PKGBUILDDIR>>/debian/python3-fast5/usr/bin
copying build/scripts-3.7/f5pack -> /<<PKGBUILDDIR>>/debian/python3-fast5/usr/bin
changing mode of /<<PKGBUILDDIR>>/debian/python3-fast5/usr/bin/f5ls to 775
changing mode of /<<PKGBUILDDIR>>/debian/python3-fast5/usr/bin/f5pack to 775
debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install
mkdir -p debian/fast5/usr/bin/
mv debian/python3-fast5/usr/bin/* debian/fast5/usr/bin/
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installdocs -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_installchangelogs -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_installexamples -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_python3 -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_installinit -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_installsystemduser -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_perl -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_link -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_strip_nondeterminism -a -O--buildsystem=pybuild -O--sourcedirectory=python
debian/rules override_dh_compress
make[1]: Entering directory '/<<PKGBUILDDIR>>'
cd src && /usr/bin/make clean
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
dh_compress -X .cpp -X .hpp
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_fixperms -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_missing -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_dwz -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_strip -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_makeshlibs -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_shlibdeps -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_installdeb -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_gencontrol -a -O--buildsystem=pybuild -O--sourcedirectory=python
dpkg-gencontrol: warning: package python3-fast5: substitution variable ${python3:Provides} unused, but is defined
dpkg-gencontrol: warning: package python3-fast5: substitution variable ${python3:Versions} unused, but is defined
dpkg-gencontrol: warning: package python3-fast5: substitution variable ${python3:Provides} unused, but is defined
dpkg-gencontrol: warning: package python3-fast5: substitution variable ${python3:Versions} unused, but is defined
dh_md5sums -a -O--buildsystem=pybuild -O--sourcedirectory=python
dh_builddeb -a -O--buildsystem=pybuild -O--sourcedirectory=python
dpkg-deb: building package 'python3-fast5' in '../python3-fast5_0.6.5-4_armhf.deb'.
dpkg-deb: building package 'python3-fast5-dbgsym' in '../python3-fast5-dbgsym_0.6.5-4_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../fast5_0.6.5-4_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2019-11-23T05:15:29Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
fast5_0.6.5-4_armhf.changes:
----------------------------
Format: 1.8
Date: Thu, 21 Nov 2019 09:14:17 +0100
Source: fast5
Binary: python3-fast5 python3-fast5-dbgsym
Architecture: armhf
Version: 0.6.5-4
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
python3-fast5 - library for reading Oxford Nanopore Fast5 files -- Python 3
Closes: 943427
Changes:
fast5 (0.6.5-4) unstable; urgency=medium
.
[ Michael R. Crusoe ]
* Team upload.
* Drop Python2 call completely from autopkg test, (Closes: #943427)
Fix courtesy of Matthias Klose <doko@ubuntu.com>; thanks!
.
[ Andreas Tille ]
* Standards-Version: 4.4.1
* debian/copyright: Use spaces rather than tabs in continuation lines.
* Set upstream metadata fields: Repository.
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e10f90ee9b211a200ffc4875316e95bda3097092 2988364 python3-fast5-dbgsym_0.6.5-4_armhf.deb
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Files:
e57cd1a325e3a4925c2c91b9c017cea2 6411 science optional fast5_0.6.5-4_armhf.buildinfo
64fbeb513e48bfa29535d9dbad4b7de6 2988364 debug optional python3-fast5-dbgsym_0.6.5-4_armhf.deb
ee35431535ae0b0bd0dd9443fb7421e5 206596 python optional python3-fast5_0.6.5-4_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
python3-fast5-dbgsym_0.6.5-4_armhf.deb
--------------------------------------
new Debian package, version 2.0.
size 2988364 bytes: control archive=544 bytes.
387 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: python3-fast5-dbgsym
Source: fast5
Version: 0.6.5-4
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 3116
Depends: python3-fast5 (= 0.6.5-4)
Section: debug
Priority: optional
Description: debug symbols for python3-fast5
Build-Ids: 8deed2a7490e1a617a9ed107af689d609094c8d7
drwxr-xr-x root/root 0 2019-11-21 08:14 ./
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/debug/.build-id/8d/
-rw-r--r-- root/root 3180168 2019-11-21 08:14 ./usr/lib/debug/.build-id/8d/eed2a7490e1a617a9ed107af689d609094c8d7.debug
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/share/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-11-21 08:14 ./usr/share/doc/python3-fast5-dbgsym -> python3-fast5
python3-fast5_0.6.5-4_armhf.deb
-------------------------------
new Debian package, version 2.0.
size 206596 bytes: control archive=888 bytes.
583 bytes, 15 lines control
558 bytes, 6 lines md5sums
Package: python3-fast5
Source: fast5
Version: 0.6.5-4
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 711
Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.5), libhdf5-103, libstdc++6 (>= 9), python3 (<< 3.8), python3 (>= 3.7~)
Section: python
Priority: optional
Homepage: https://github.com/mateidavid/fast5
Description: library for reading Oxford Nanopore Fast5 files -- Python 3
A lightweight C++11 library to read raw signal data from Oxford
Nanopore's FAST5 files.
.
This package provides the Python 3 library
drwxr-xr-x root/root 0 2019-11-21 08:14 ./
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/python3/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/python3/dist-packages/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/
-rw-r--r-- root/root 278 2019-11-21 08:14 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/PKG-INFO
-rw-r--r-- root/root 1 2019-11-21 08:14 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/dependency_links.txt
-rw-r--r-- root/root 6 2019-11-21 08:14 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/top_level.txt
-rw-r--r-- root/root 710620 2019-11-21 08:14 ./usr/lib/python3/dist-packages/fast5.cpython-37m-arm-linux-gnueabihf.so
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/share/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-11-21 08:14 ./usr/share/doc/python3-fast5/
-rw-r--r-- root/root 1997 2019-11-21 08:14 ./usr/share/doc/python3-fast5/changelog.Debian.gz
-rw-r--r-- root/root 1440 2019-11-21 08:14 ./usr/share/doc/python3-fast5/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 38292
Build-Time: 230
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 365
Job: fast5_0.6.5-4
Machine Architecture: armhf
Package: fast5
Package-Time: 612
Source-Version: 0.6.5-4
Space: 38292
Status: successful
Version: 0.6.5-4
--------------------------------------------------------------------------------
Finished at 2019-11-23T05:15:29Z
Build needed 00:10:12, 38292k disk space