sbuild (Debian sbuild) 0.85.11~bpo12+1 (31 August 2024) on debusine-worker-arm64-demeter-05.freexian.com
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| abpoa 1.5.3-1+bd1 (arm64) Fri, 04 Oct 2024 23:23:59 +0000 |
+==============================================================================+
Package: abpoa
Version: 1.5.3-1+bd1
Source Version: 1.5.3-1
Distribution: sid
Machine Architecture: arm64
Host Architecture: arm64
Build Architecture: arm64
Build Type: any
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I: NOTICE: Log filtering will replace 'build/abpoa-zfuuYf/resolver-USPZPE' with '<<RESOLVERDIR>>'
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Get:1 file:/build/abpoa-zfuuYf/resolver-kj0tVK/apt_archive ./ InRelease
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Get:6 http://deb.debian.org/debian sid/main arm64 Packages [9878 kB]
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The following NEW packages will be installed:
appstream libappstream5 libatomic1 libbrotli1 libcurl3t64-gnutls
libglib2.0-0t64 libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3
libkrb5support0 libldap-2.5-0 libnghttp2-14 libnghttp3-9 libngtcp2-16
libngtcp2-crypto-gnutls8 libpsl5t64 librtmp1 libsasl2-2 libsasl2-modules-db
libssh2-1t64 libstemmer0d libxmlb2 shared-mime-info
The following packages will be upgraded:
bsdextrautils bsdutils libblkid1 libbsd0 libmount1 libsmartcols1 libuuid1
libyaml-libyaml-perl lintian login mount tzdata util-linux
13 upgraded, 24 newly installed, 0 to remove and 0 not upgraded.
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Get:17 http://deb.debian.org/debian sid/main arm64 libkeyutils1 arm64 1.6.3-3 [9112 B]
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Get:22 http://deb.debian.org/debian sid/main arm64 libldap-2.5-0 arm64 2.5.18+dfsg-3 [174 kB]
Get:23 http://deb.debian.org/debian sid/main arm64 libnghttp2-14 arm64 1.63.0-1 [71.2 kB]
Get:24 http://deb.debian.org/debian sid/main arm64 libnghttp3-9 arm64 1.4.0-1 [59.5 kB]
Get:25 http://deb.debian.org/debian sid/main arm64 libngtcp2-16 arm64 1.6.0-1 [112 kB]
Get:26 http://deb.debian.org/debian sid/main arm64 libngtcp2-crypto-gnutls8 arm64 1.6.0-1 [18.5 kB]
Get:27 http://deb.debian.org/debian sid/main arm64 libpsl5t64 arm64 0.21.2-1.1 [56.8 kB]
Get:28 http://deb.debian.org/debian sid/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b4 [56.7 kB]
Get:29 http://deb.debian.org/debian sid/main arm64 libssh2-1t64 arm64 1.11.0-7 [208 kB]
Get:30 http://deb.debian.org/debian sid/main arm64 libcurl3t64-gnutls arm64 8.10.1-1 [329 kB]
Get:31 http://deb.debian.org/debian sid/main arm64 libstemmer0d arm64 2.2.0-4+b1 [112 kB]
Get:32 http://deb.debian.org/debian sid/main arm64 libxmlb2 arm64 0.3.19-1 [58.6 kB]
Get:33 http://deb.debian.org/debian sid/main arm64 libappstream5 arm64 1.0.3-1 [207 kB]
Get:34 http://deb.debian.org/debian sid/main arm64 appstream arm64 1.0.3-1 [466 kB]
Get:35 http://deb.debian.org/debian sid/main arm64 libbsd0 arm64 0.12.2-2 [129 kB]
Get:36 http://deb.debian.org/debian sid/main arm64 lintian all 2.119.0 [1056 kB]
Get:37 http://deb.debian.org/debian sid/main arm64 libyaml-libyaml-perl arm64 0.902.0+ds-2 [33.6 kB]
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Current default time zone: 'Etc/UTC'
Local time is now: Fri Oct 4 23:24:31 UTC 2024.
Universal Time is now: Fri Oct 4 23:24:31 UTC 2024.
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Setting up libbsd0:arm64 (0.12.2-2) ...
Setting up libngtcp2-crypto-gnutls8:arm64 (1.6.0-1) ...
Setting up login (1:4.16.0-2+really2.40.2-9) ...
Setting up libldap-2.5-0:arm64 (2.5.18+dfsg-3) ...
Setting up libglib2.0-0t64:arm64 (2.82.1-1) ...
No schema files found: doing nothing.
Setting up shared-mime-info (2.4-5) ...
Warning: program compiled against libxml 212 using older 209
Setting up libgssapi-krb5-2:arm64 (1.21.3-3) ...
Setting up libxmlb2:arm64 (0.3.19-1) ...
Setting up libcurl3t64-gnutls:arm64 (8.10.1-1) ...
Setting up libappstream5:arm64 (1.0.3-1) ...
Setting up appstream (1.0.3-1) ...
✔ Metadata cache was updated successfully.
Setting up lintian (2.119.0) ...
Processing triggers for libc-bin (2.40-3) ...
Processing triggers for man-db (2.13.0-1) ...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Local sources
-------------
/tmp/debusine-fetch-exec-upload-cg42rhrz/abpoa_1.5.3-1.dsc exists in /tmp/debusine-fetch-exec-upload-cg42rhrz; copying to chroot
I: NOTICE: Log filtering will replace 'build/abpoa-zfuuYf/abpoa-1.5.3' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/abpoa-zfuuYf' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), dh-python, cython3, graphviz, libsimde-dev, libpython3-all-dev, python3-all-dev:any, python3-setuptools, python3-wheel, zlib1g-dev, build-essential, fakeroot, dumb-init
Filtered Build-Depends: debhelper-compat (= 13), dh-python, cython3, graphviz, libsimde-dev, libpython3-all-dev, python3-all-dev:any, python3-setuptools, python3-wheel, zlib1g-dev, build-essential, fakeroot, dumb-init
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [609 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [778 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [792 B]
Fetched 2179 B in 0s (205 kB/s)
Reading package lists...
Get:1 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ Release [609 B]
Get:2 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ Release [609 B]
Get:3 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ Release.gpg
Ign:3 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ Release.gpg
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev build-essential cpp cpp-14
cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu cython3 debhelper
dh-autoreconf dh-python dh-strip-nondeterminism dumb-init dwz fakeroot
fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono g++ g++-14
g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14
gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu graphviz libabsl20230802
libann0 libaom3 libasan8 libavif16 libc-dev-bin libc6-dev libcairo2 libcc1-0
libcdt5 libcgraph6 libcrypt-dev libdatrie1 libdav1d7 libde265-0
libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libexpat1-dev libfakeroot
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
libgav1-1 libgcc-14-dev libgd3 libgraphite2-3 libgts-0.7-5t64 libgvc6
libgvpr2 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1
libhwasan0 libice6 libimagequant0 libisl23 libitm1 libjbig0 libjpeg62-turbo
libjs-jquery libjs-sphinxdoc libjs-underscore liblab-gamut1 liblerc4
liblsan0 libltdl7 libmpc3 libmpfr6 libncursesw6 libnsl2 libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpixman-1-0
libpng16-16t64 libpython3-all-dev libpython3-dev libpython3-stdlib
libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib
libpython3.12t64 libpython3.13 libpython3.13-dev libpython3.13-minimal
libpython3.13-stdlib libraqm0 librav1e0.7 libsharpyuv0 libsimde-dev libsm6
libstdc++-14-dev libsvtav1enc2 libthai-data libthai0 libtiff6
libtirpc-common libtirpc3t64 libtool libtsan2 libubsan1 libwebp7 libx11-6
libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6
libxext6 libxmu6 libxpm4 libxrender1 libxt6t64 libyuv0 linux-libc-dev m4
media-types po-debconf python3 python3-all python3-all-dev
python3-autocommand python3-dev python3-inflect python3-jaraco.context
python3-jaraco.functools python3-minimal python3-more-itertools
python3-pkg-resources python3-setuptools python3-typeguard
python3-typing-extensions python3-wheel python3-zipp python3.12
python3.12-dev python3.12-minimal python3.13 python3.13-dev
python3.13-minimal rpcsvc-proto x11-common zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales
cpp-14-doc cython-doc dh-make flit python3-build python3-installer
gcc-14-doc gcc-multilib manpages-dev flex bison gdb gcc-doc
gdb-aarch64-linux-gnu gsfonts graphviz-doc libc-devtools glibc-doc
libgd-tools libheif-plugin-ffmpegdec libheif-plugin-jpegdec
libheif-plugin-jpegenc libheif-plugin-j2kdec libheif-plugin-j2kenc
libheif-plugin-kvazaar libheif-plugin-rav1e libheif-plugin-svtenc
libstdc++-14-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
libmail-box-perl python3-doc python3-tk python3-venv python-setuptools-doc
python3.12-venv python3.12-doc binfmt-support python3.13-venv python3.13-doc
Recommended packages:
fonts-liberation manpages manpages-dev libarchive-cpio-perl libgts-bin
libheif-plugin-x265 libheif-plugin-aomenc javascript-common libgpm2
libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev build-essential cpp cpp-14
cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu cython3 debhelper
dh-autoreconf dh-python dh-strip-nondeterminism dumb-init dwz fakeroot
fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono g++ g++-14
g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14
gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu graphviz libabsl20230802
libann0 libaom3 libasan8 libavif16 libc-dev-bin libc6-dev libcairo2 libcc1-0
libcdt5 libcgraph6 libcrypt-dev libdatrie1 libdav1d7 libde265-0
libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libexpat1-dev libfakeroot
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
libgav1-1 libgcc-14-dev libgd3 libgraphite2-3 libgts-0.7-5t64 libgvc6
libgvpr2 libharfbuzz0b libheif-plugin-dav1d libheif-plugin-libde265 libheif1
libhwasan0 libice6 libimagequant0 libisl23 libitm1 libjbig0 libjpeg62-turbo
libjs-jquery libjs-sphinxdoc libjs-underscore liblab-gamut1 liblerc4
liblsan0 libltdl7 libmpc3 libmpfr6 libncursesw6 libnsl2 libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpixman-1-0
libpng16-16t64 libpython3-all-dev libpython3-dev libpython3-stdlib
libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib
libpython3.12t64 libpython3.13 libpython3.13-dev libpython3.13-minimal
libpython3.13-stdlib libraqm0 librav1e0.7 libsharpyuv0 libsimde-dev libsm6
libstdc++-14-dev libsvtav1enc2 libthai-data libthai0 libtiff6
libtirpc-common libtirpc3t64 libtool libtsan2 libubsan1 libwebp7 libx11-6
libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6
libxext6 libxmu6 libxpm4 libxrender1 libxt6t64 libyuv0 linux-libc-dev m4
media-types po-debconf python3 python3-all python3-all-dev
python3-autocommand python3-dev python3-inflect python3-jaraco.context
python3-jaraco.functools python3-minimal python3-more-itertools
python3-pkg-resources python3-setuptools python3-typeguard
python3-typing-extensions python3-wheel python3-zipp python3.12
python3.12-dev python3.12-minimal python3.13 python3.13-dev
python3.13-minimal rpcsvc-proto sbuild-build-depends-main-dummy x11-common
zlib1g-dev
0 upgraded, 161 newly installed, 0 to remove and 0 not upgraded.
Need to get 106 MB/109 MB of archives.
After this operation, 450 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [952 B]
Get:2 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ python3-minimal 3.12.6-1+debusine1 [26.8 kB]
Get:3 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ libpython3-stdlib 3.12.6-1+debusine1 [9732 B]
Get:4 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ python3 3.12.6-1+debusine1 [27.8 kB]
Get:5 http://deb.debian.org/debian sid/main arm64 libpython3.12-minimal arm64 3.12.7-1 [807 kB]
Get:6 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ cython3 3.0.11+dfsg-1+debusine1 [2724 kB]
Get:7 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ libpython3-dev 3.12.6-1+debusine1 [9992 B]
Get:8 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ libpython3-all-dev 3.12.6-1+debusine1 [1084 B]
Get:9 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ python3-all 3.12.6-1+debusine1 [1056 B]
Get:10 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ python3-dev 3.12.6-1+debusine1 [26.1 kB]
Get:11 file:/<<BUILDDIR>>/resolver-kj0tVK/apt_archive ./ python3-all-dev 3.12.6-1+debusine1 [1084 B]
Get:12 http://deb.debian.org/debian sid/main arm64 libexpat1 arm64 2.6.3-1 [90.2 kB]
Get:13 http://deb.debian.org/debian sid/main arm64 python3.12-minimal arm64 3.12.7-1 [1941 kB]
Get:14 http://deb.debian.org/debian sid/main arm64 media-types all 10.1.0 [26.9 kB]
Get:15 http://deb.debian.org/debian sid/main arm64 libncursesw6 arm64 6.5-2 [124 kB]
Get:16 http://deb.debian.org/debian sid/main arm64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get:17 http://deb.debian.org/debian sid/main arm64 libtirpc3t64 arm64 1.3.4+ds-1.3 [78.4 kB]
Get:18 http://deb.debian.org/debian sid/main arm64 libnsl2 arm64 1.3.0-3+b2 [37.7 kB]
Get:19 http://deb.debian.org/debian sid/main arm64 libpython3.12-stdlib arm64 3.12.7-1 [1901 kB]
Get:20 http://deb.debian.org/debian sid/main arm64 python3.12 arm64 3.12.7-1 [671 kB]
Get:21 http://deb.debian.org/debian sid/main arm64 libpython3.13-minimal arm64 3.13.0~rc3-1 [849 kB]
Get:22 http://deb.debian.org/debian sid/main arm64 python3.13-minimal arm64 3.13.0~rc3-1 [1835 kB]
Get:23 http://deb.debian.org/debian sid/main arm64 m4 arm64 1.4.19-4 [277 kB]
Get:24 http://deb.debian.org/debian sid/main arm64 autoconf all 2.72-3 [493 kB]
Get:25 http://deb.debian.org/debian sid/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get:26 http://deb.debian.org/debian sid/main arm64 automake all 1:1.16.5-1.3 [823 kB]
Get:27 http://deb.debian.org/debian sid/main arm64 autopoint all 0.22.5-2 [723 kB]
Get:28 http://deb.debian.org/debian sid/main arm64 libc-dev-bin arm64 2.40-3 [50.9 kB]
Get:29 http://deb.debian.org/debian sid/main arm64 linux-libc-dev all 6.10.12-1 [2400 kB]
Get:30 http://deb.debian.org/debian sid/main arm64 libcrypt-dev arm64 1:4.4.36-5 [122 kB]
Get:31 http://deb.debian.org/debian sid/main arm64 rpcsvc-proto arm64 1.4.3-1 [59.7 kB]
Get:32 http://deb.debian.org/debian sid/main arm64 libc6-dev arm64 2.40-3 [1591 kB]
Get:33 http://deb.debian.org/debian sid/main arm64 libisl23 arm64 0.27-1 [601 kB]
Get:34 http://deb.debian.org/debian sid/main arm64 libmpfr6 arm64 4.2.1-1+b1 [674 kB]
Get:35 http://deb.debian.org/debian sid/main arm64 libmpc3 arm64 1.3.1-1+b2 [50.2 kB]
Get:36 http://deb.debian.org/debian sid/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-5 [9161 kB]
Get:37 http://deb.debian.org/debian sid/main arm64 cpp-14 arm64 14.2.0-5 [1280 B]
Get:38 http://deb.debian.org/debian sid/main arm64 cpp-aarch64-linux-gnu arm64 4:14.1.0-2 [4792 B]
Get:39 http://deb.debian.org/debian sid/main arm64 cpp arm64 4:14.1.0-2 [1572 B]
Get:40 http://deb.debian.org/debian sid/main arm64 libcc1-0 arm64 14.2.0-5 [42.0 kB]
Get:41 http://deb.debian.org/debian sid/main arm64 libitm1 arm64 14.2.0-5 [24.2 kB]
Get:42 http://deb.debian.org/debian sid/main arm64 libasan8 arm64 14.2.0-5 [2578 kB]
Get:43 http://deb.debian.org/debian sid/main arm64 liblsan0 arm64 14.2.0-5 [1162 kB]
Get:44 http://deb.debian.org/debian sid/main arm64 libtsan2 arm64 14.2.0-5 [2385 kB]
Get:45 http://deb.debian.org/debian sid/main arm64 libubsan1 arm64 14.2.0-5 [1040 kB]
Get:46 http://deb.debian.org/debian sid/main arm64 libhwasan0 arm64 14.2.0-5 [1442 kB]
Get:47 http://deb.debian.org/debian sid/main arm64 libgcc-14-dev arm64 14.2.0-5 [2363 kB]
Get:48 http://deb.debian.org/debian sid/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-5 [17.7 MB]
Get:49 http://deb.debian.org/debian sid/main arm64 gcc-14 arm64 14.2.0-5 [513 kB]
Get:50 http://deb.debian.org/debian sid/main arm64 gcc-aarch64-linux-gnu arm64 4:14.1.0-2 [1440 B]
Get:51 http://deb.debian.org/debian sid/main arm64 gcc arm64 4:14.1.0-2 [5136 B]
Get:52 http://deb.debian.org/debian sid/main arm64 libstdc++-14-dev arm64 14.2.0-5 [2263 kB]
Get:53 http://deb.debian.org/debian sid/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-5 [10.1 MB]
Get:54 http://deb.debian.org/debian sid/main arm64 g++-14 arm64 14.2.0-5 [19.7 kB]
Get:55 http://deb.debian.org/debian sid/main arm64 g++-aarch64-linux-gnu arm64 4:14.1.0-2 [1200 B]
Get:56 http://deb.debian.org/debian sid/main arm64 g++ arm64 4:14.1.0-2 [1328 B]
Get:57 http://deb.debian.org/debian sid/main arm64 build-essential arm64 12.10 [4516 B]
Get:58 http://deb.debian.org/debian sid/main arm64 libdebhelper-perl all 13.20 [89.7 kB]
Get:59 http://deb.debian.org/debian sid/main arm64 libtool all 2.4.7-7 [517 kB]
Get:60 http://deb.debian.org/debian sid/main arm64 dh-autoreconf all 20 [17.1 kB]
Get:61 http://deb.debian.org/debian sid/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB]
Get:62 http://deb.debian.org/debian sid/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B]
Get:63 http://deb.debian.org/debian sid/main arm64 libelf1t64 arm64 0.191-2 [188 kB]
Get:64 http://deb.debian.org/debian sid/main arm64 dwz arm64 0.15-1+b1 [102 kB]
Get:65 http://deb.debian.org/debian sid/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get:66 http://deb.debian.org/debian sid/main arm64 debhelper all 13.20 [915 kB]
Get:67 http://deb.debian.org/debian sid/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get:68 http://deb.debian.org/debian sid/main arm64 python3-more-itertools all 10.5.0-1 [63.8 kB]
Get:69 http://deb.debian.org/debian sid/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get:70 http://deb.debian.org/debian sid/main arm64 python3-typeguard all 4.3.0-1 [36.5 kB]
Get:71 http://deb.debian.org/debian sid/main arm64 python3-inflect all 7.3.1-2 [32.4 kB]
Get:72 http://deb.debian.org/debian sid/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get:73 http://deb.debian.org/debian sid/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get:74 http://deb.debian.org/debian sid/main arm64 python3-pkg-resources all 74.1.2-2 [213 kB]
Get:75 http://deb.debian.org/debian sid/main arm64 python3-zipp all 3.20.2-1 [10.3 kB]
Get:76 http://deb.debian.org/debian sid/main arm64 python3-setuptools all 74.1.2-2 [736 kB]
Get:77 http://deb.debian.org/debian sid/main arm64 dh-python all 6.20240824 [109 kB]
Get:78 http://deb.debian.org/debian sid/main arm64 dumb-init arm64 1.2.5-3 [13.4 kB]
Get:79 http://deb.debian.org/debian sid/main arm64 libfakeroot arm64 1.36-1 [29.1 kB]
Get:80 http://deb.debian.org/debian sid/main arm64 fakeroot arm64 1.36-1 [74.4 kB]
Get:81 http://deb.debian.org/debian sid/main arm64 libpng16-16t64 arm64 1.6.44-2 [273 kB]
Get:82 http://deb.debian.org/debian sid/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB]
Get:83 http://deb.debian.org/debian sid/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get:84 http://deb.debian.org/debian sid/main arm64 fonts-dejavu-core all 2.37-8 [840 kB]
Get:85 http://deb.debian.org/debian sid/main arm64 fontconfig-config arm64 2.15.0-1.1 [317 kB]
Get:86 http://deb.debian.org/debian sid/main arm64 libfontconfig1 arm64 2.15.0-1.1 [385 kB]
Get:87 http://deb.debian.org/debian sid/main arm64 fontconfig arm64 2.15.0-1.1 [462 kB]
Get:88 http://deb.debian.org/debian sid/main arm64 libann0 arm64 1.1.2+doc-9+b1 [23.6 kB]
Get:89 http://deb.debian.org/debian sid/main arm64 libcdt5 arm64 2.42.4-2 [39.1 kB]
Get:90 http://deb.debian.org/debian sid/main arm64 libcgraph6 arm64 2.42.4-2 [61.0 kB]
Get:91 http://deb.debian.org/debian sid/main arm64 libaom3 arm64 3.9.1-1 [1561 kB]
Get:92 http://deb.debian.org/debian sid/main arm64 libdav1d7 arm64 1.4.3-1 [251 kB]
Get:93 http://deb.debian.org/debian sid/main arm64 libabsl20230802 arm64 20230802.1-4 [432 kB]
Get:94 http://deb.debian.org/debian sid/main arm64 libgav1-1 arm64 0.19.0-2+b1 [481 kB]
Get:95 http://deb.debian.org/debian sid/main arm64 librav1e0.7 arm64 0.7.1-7+b1 [642 kB]
Get:96 http://deb.debian.org/debian sid/main arm64 libsvtav1enc2 arm64 2.2.1+dfsg-2 [1463 kB]
Get:97 http://deb.debian.org/debian sid/main arm64 libjpeg62-turbo arm64 1:2.1.5-3 [172 kB]
Get:98 http://deb.debian.org/debian sid/main arm64 libyuv0 arm64 0.0.1888.20240710-3 [130 kB]
Get:99 http://deb.debian.org/debian sid/main arm64 libavif16 arm64 1.1.1-1 [109 kB]
Get:100 http://deb.debian.org/debian sid/main arm64 libsharpyuv0 arm64 1.4.0-0.1 [111 kB]
Get:101 http://deb.debian.org/debian sid/main arm64 libheif-plugin-dav1d arm64 1.18.2-2 [10.9 kB]
Get:102 http://deb.debian.org/debian sid/main arm64 libde265-0 arm64 1.0.15-1+b2 [153 kB]
Get:103 http://deb.debian.org/debian sid/main arm64 libheif-plugin-libde265 arm64 1.18.2-2 [14.1 kB]
Get:104 http://deb.debian.org/debian sid/main arm64 libheif1 arm64 1.18.2-2 [272 kB]
Get:105 http://deb.debian.org/debian sid/main arm64 libimagequant0 arm64 2.18.0-1+b1 [34.6 kB]
Get:106 http://deb.debian.org/debian sid/main arm64 libfribidi0 arm64 1.0.15-1 [71.8 kB]
Get:107 http://deb.debian.org/debian sid/main arm64 libgraphite2-3 arm64 1.3.14-2 [69.2 kB]
Get:108 http://deb.debian.org/debian sid/main arm64 libharfbuzz0b arm64 9.0.0-1 [441 kB]
Get:109 http://deb.debian.org/debian sid/main arm64 libraqm0 arm64 0.10.1-1+b1 [13.7 kB]
Get:110 http://deb.debian.org/debian sid/main arm64 libdeflate0 arm64 1.21-1 [42.2 kB]
Get:111 http://deb.debian.org/debian sid/main arm64 libjbig0 arm64 2.1-6.1+b1 [30.4 kB]
Get:112 http://deb.debian.org/debian sid/main arm64 liblerc4 arm64 4.0.0+ds-4+b1 [142 kB]
Get:113 http://deb.debian.org/debian sid/main arm64 libwebp7 arm64 1.4.0-0.1 [267 kB]
Get:114 http://deb.debian.org/debian sid/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB]
Get:115 http://deb.debian.org/debian sid/main arm64 libxau6 arm64 1:1.0.9-1+b1 [18.1 kB]
Get:116 http://deb.debian.org/debian sid/main arm64 libxdmcp6 arm64 1:1.1.2-3+b1 [24.3 kB]
Get:117 http://deb.debian.org/debian sid/main arm64 libxcb1 arm64 1.17.0-2 [143 kB]
Get:118 http://deb.debian.org/debian sid/main arm64 libx11-data all 2:1.8.7-1 [328 kB]
Get:119 http://deb.debian.org/debian sid/main arm64 libx11-6 arm64 2:1.8.7-1+b1 [775 kB]
Get:120 http://deb.debian.org/debian sid/main arm64 libxpm4 arm64 1:3.5.17-1+b1 [52.9 kB]
Get:121 http://deb.debian.org/debian sid/main arm64 libgd3 arm64 2.3.3-12 [114 kB]
Get:122 http://deb.debian.org/debian sid/main arm64 libgts-0.7-5t64 arm64 0.7.6+darcs121130-5.2 [141 kB]
Get:123 http://deb.debian.org/debian sid/main arm64 libpixman-1-0 arm64 0.42.2-1+b1 [477 kB]
Get:124 http://deb.debian.org/debian sid/main arm64 libxcb-render0 arm64 1.17.0-2 [115 kB]
Get:125 http://deb.debian.org/debian sid/main arm64 libxcb-shm0 arm64 1.17.0-2 [105 kB]
Get:126 http://deb.debian.org/debian sid/main arm64 libxext6 arm64 2:1.3.4-1+b1 [51.7 kB]
Get:127 http://deb.debian.org/debian sid/main arm64 libxrender1 arm64 1:0.9.10-1.1+b1 [27.0 kB]
Get:128 http://deb.debian.org/debian sid/main arm64 libcairo2 arm64 1.18.2-2 [483 kB]
Get:129 http://deb.debian.org/debian sid/main arm64 libltdl7 arm64 2.4.7-7+b1 [393 kB]
Get:130 http://deb.debian.org/debian sid/main arm64 libthai-data all 0.1.29-2 [168 kB]
Get:131 http://deb.debian.org/debian sid/main arm64 libdatrie1 arm64 0.2.13-3 [37.2 kB]
Get:132 http://deb.debian.org/debian sid/main arm64 libthai0 arm64 0.1.29-2 [48.0 kB]
Get:133 http://deb.debian.org/debian sid/main arm64 libpango-1.0-0 arm64 1.54.0+ds-2 [210 kB]
Get:134 http://deb.debian.org/debian sid/main arm64 libpangoft2-1.0-0 arm64 1.54.0+ds-2 [51.8 kB]
Get:135 http://deb.debian.org/debian sid/main arm64 libpangocairo-1.0-0 arm64 1.54.0+ds-2 [33.4 kB]
Get:136 http://deb.debian.org/debian sid/main arm64 libpathplan4 arm64 2.42.4-2 [41.1 kB]
Get:137 http://deb.debian.org/debian sid/main arm64 libgvc6 arm64 2.42.4-2 [628 kB]
Get:138 http://deb.debian.org/debian sid/main arm64 libgvpr2 arm64 2.42.4-2 [181 kB]
Get:139 http://deb.debian.org/debian sid/main arm64 liblab-gamut1 arm64 2.42.4-2 [198 kB]
Get:140 http://deb.debian.org/debian sid/main arm64 x11-common all 1:7.7+23.1 [216 kB]
Get:141 http://deb.debian.org/debian sid/main arm64 libice6 arm64 2:1.0.10-1+b1 [53.7 kB]
Get:142 http://deb.debian.org/debian sid/main arm64 libsm6 arm64 2:1.2.3-1+b1 [32.7 kB]
Get:143 http://deb.debian.org/debian sid/main arm64 libxt6t64 arm64 1:1.2.1-1.2 [172 kB]
Get:144 http://deb.debian.org/debian sid/main arm64 libxmu6 arm64 2:1.1.3-3+b2 [55.5 kB]
Get:145 http://deb.debian.org/debian sid/main arm64 libxaw7 arm64 2:1.0.14-1+b2 [182 kB]
Get:146 http://deb.debian.org/debian sid/main arm64 graphviz arm64 2.42.4-2 [574 kB]
Get:147 http://deb.debian.org/debian sid/main arm64 libexpat1-dev arm64 2.6.3-1 [142 kB]
Get:148 http://deb.debian.org/debian sid/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get:149 http://deb.debian.org/debian sid/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get:150 http://deb.debian.org/debian sid/main arm64 libjs-sphinxdoc all 7.4.7-3 [158 kB]
Get:151 http://deb.debian.org/debian sid/main arm64 libpython3.12t64 arm64 3.12.7-1 [1982 kB]
Get:152 http://deb.debian.org/debian sid/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1 [916 kB]
Get:153 http://deb.debian.org/debian sid/main arm64 libpython3.12-dev arm64 3.12.7-1 [4793 kB]
Get:154 http://deb.debian.org/debian sid/main arm64 libpython3.13-stdlib arm64 3.13.0~rc3-1 [1920 kB]
Get:155 http://deb.debian.org/debian sid/main arm64 libpython3.13 arm64 3.13.0~rc3-1 [1959 kB]
Get:156 http://deb.debian.org/debian sid/main arm64 libpython3.13-dev arm64 3.13.0~rc3-1 [4668 kB]
Get:157 http://deb.debian.org/debian sid/main arm64 libsimde-dev all 0.8.2-1 [465 kB]
Get:158 http://deb.debian.org/debian sid/main arm64 python3.13 arm64 3.13.0~rc3-1 [730 kB]
Get:159 http://deb.debian.org/debian sid/main arm64 python3.12-dev arm64 3.12.7-1 [505 kB]
Get:160 http://deb.debian.org/debian sid/main arm64 python3.13-dev arm64 3.13.0~rc3-1 [504 kB]
Get:161 http://deb.debian.org/debian sid/main arm64 python3-wheel all 0.44.0-2 [53.4 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64'
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Setting up python3-wheel (0.44.0-2) ...
Setting up gcc-14 (14.2.0-5) ...
Setting up libpython3.13-dev:arm64 (3.13.0~rc3-1) ...
Setting up python3.12-dev (3.12.7-1) ...
Setting up cython3 (3.0.11+dfsg-1+debusine1) ...
Setting up python3-typing-extensions (4.12.2-2) ...
Setting up g++-aarch64-linux-gnu (4:14.1.0-2) ...
Setting up g++-14 (14.2.0-5) ...
Setting up python3-more-itertools (10.5.0-1) ...
Setting up libpython3-dev:arm64 (3.12.6-1+debusine1) ...
Setting up python3-jaraco.functools (4.1.0-1) ...
Setting up python3-jaraco.context (6.0.0-1) ...
Setting up libtool (2.4.7-7) ...
Setting up python3.13-dev (3.13.0~rc3-1) ...
Setting up python3-typeguard (4.3.0-1) ...
Setting up python3-all (3.12.6-1+debusine1) ...
Setting up gcc (4:14.1.0-2) ...
Setting up dh-autoreconf (20) ...
Setting up python3-inflect (7.3.1-2) ...
Setting up libpython3-all-dev:arm64 (3.12.6-1+debusine1) ...
Setting up python3-dev (3.12.6-1+debusine1) ...
Setting up g++ (4:14.1.0-2) ...
update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
Setting up build-essential (12.10) ...
Setting up python3-pkg-resources (74.1.2-2) ...
Setting up python3-all-dev (3.12.6-1+debusine1) ...
Setting up python3-setuptools (74.1.2-2) ...
Setting up debhelper (13.20) ...
Setting up dh-python (6.20240824) ...
Setting up libheif-plugin-dav1d:arm64 (1.18.2-2) ...
Setting up libheif-plugin-libde265:arm64 (1.18.2-2) ...
Setting up libheif1:arm64 (1.18.2-2) ...
Setting up libgd3:arm64 (2.3.3-12) ...
Setting up libgvc6 (2.42.4-2) ...
Setting up graphviz (2.42.4-2) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.40-3) ...
Processing triggers for man-db (2.13.0-1) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (arm64 included in any)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 6.1.0-25-cloud-arm64 #1 SMP Debian 6.1.106-3 (2024-08-26) arm64 (aarch64)
Toolchain package versions: binutils_2.43.1-5 dpkg-dev_1.22.11 g++-14_14.2.0-5 gcc-14_14.2.0-5 libc6-dev_2.40-3 libstdc++-14-dev_14.2.0-5 libstdc++6_14.2.0-5 linux-libc-dev_6.10.12-1
Package versions: appstream_1.0.3-1 apt_2.9.8 autoconf_2.72-3 automake_1:1.16.5-1.3 autopoint_0.22.5-2 autotools-dev_20220109.1 base-files_13.5 base-passwd_3.6.4 bash_5.2.32-1+b1 binutils_2.43.1-5 binutils-aarch64-linux-gnu_2.43.1-5 binutils-common_2.43.1-5 bsdextrautils_2.40.2-9 bsdutils_1:2.40.2-9 build-essential_12.10 bzip2_1.0.8-6 ca-certificates_20240203 coreutils_9.4-3.1 cpp_4:14.1.0-2 cpp-14_14.2.0-5 cpp-14-aarch64-linux-gnu_14.2.0-5 cpp-aarch64-linux-gnu_4:14.1.0-2 cython3_3.0.11+dfsg-1+debusine1 dash_0.5.12-9 debconf_1.5.87 debhelper_13.20 debian-archive-keyring_2023.4 debianutils_5.20 dh-autoreconf_20 dh-python_6.20240824 dh-strip-nondeterminism_1.14.0-1 diffstat_1.66-1 diffutils_1:3.10-1 dpkg_1.22.11 dpkg-dev_1.22.11 dumb-init_1.2.5-3 dwz_0.15-1+b1 e2fsprogs_1.47.1-1 fakeroot_1.36-1 file_1:5.45-3 findutils_4.10.0-3 fontconfig_2.15.0-1.1 fontconfig-config_2.15.0-1.1 fonts-dejavu-core_2.37-8 fonts-dejavu-mono_2.37-8 g++_4:14.1.0-2 g++-14_14.2.0-5 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+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: abpoa
Binary: abpoa, python3-pyabpoa
Architecture: any
Version: 1.5.3-1
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Étienne Mollier <emollier@debian.org>
Homepage: https://github.com/yangao07/abPOA
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/abpoa
Vcs-Git: https://salsa.debian.org/med-team/abpoa.git
Testsuite: autopkgtest, autopkgtest-pkg-python
Build-Depends: debhelper-compat (= 13), dh-python, cython3, graphviz <!nocheck>, libsimde-dev, libpython3-all-dev, python3-all-dev:any, python3-setuptools, python3-wheel, zlib1g-dev
Package-List:
abpoa deb science optional arch=any
python3-pyabpoa deb python optional arch=any
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Dgit: d1e006748b179fbb833ca2bd4099cd16b729231e debian archive/debian/1.5.3-1 https://git.dgit.debian.org/abpoa
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u/a+otXYA+Jotxg=
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-----END PGP SIGNATURE-----
gpgv: Signature made Wed Sep 25 19:10:18 2024 UTC
gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA
gpgv: issuer "emollier@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./abpoa_1.5.3-1.dsc: no acceptable signature found
dpkg-source: info: extracting abpoa in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking abpoa_1.5.3.orig.tar.gz
dpkg-source: info: unpacking abpoa_1.5.3-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying debian-simde.patch
dpkg-source: info: applying buildflags.patch
dpkg-source: info: applying baseline.patch
dpkg-source: info: applying relax-cython-dep.patch
Check disk space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 1.5.3-1+bd1
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
HOME=/sbuild-nonexistent
LANG=en_US.UTF-8
LC_ALL=C.UTF-8
LOGNAME=debusine-worker
OLDPWD=/
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/<<PKGBUILDDIR>>
SHELL=/bin/sh
USER=debusine-worker
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -us -uc -mDebusine Rebuild <debusine@example.net> -B -rfakeroot
dpkg-buildpackage: info: source package abpoa
dpkg-buildpackage: info: source version 1.5.3-1+bd1
dpkg-buildpackage: info: source distribution sid
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
debian/rules clean
dh clean --with=python3 --buildsystem=pybuild
debian/rules execute_before_dh_testdir
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# Guard against outdated maintainer manual page.
# Hint: help2man does mostly the right thing except for stderr
# capture, multiple commands support, and commands description.
grep -q 1.5.3 debian/manuals/abpoa.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py clean
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_pyabpoa/build' (and everything under it)
'build/bdist.linux-aarch64' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
I: pybuild base:311: python3.12 setup.py clean
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_pyabpoa/build' (and everything under it)
'build/bdist.linux-aarch64' does not exist -- can't clean it
'build/scripts-3.12' does not exist -- can't clean it
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary-arch
dh binary-arch --with=python3 --buildsystem=pybuild
debian/rules execute_before_dh_testdir
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# Guard against outdated maintainer manual page.
# Hint: help2man does mostly the right thing except for stderr
# capture, multiple commands support, and commands description.
grep -q 1.5.3 debian/manuals/abpoa.1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_update_autotools_config -a -O--buildsystem=pybuild
dh_autoreconf -a -O--buildsystem=pybuild
dh_auto_configure -a -O--buildsystem=pybuild
I: pybuild base:311: python3.13 setup.py config
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running config
I: pybuild base:311: python3.12 setup.py config
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running config
dh_auto_build -a -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3.13 setup.py build
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running build
running build_ext
/usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /<<PKGBUILDDIR>>/python/pyabpoa.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
Compiling python/pyabpoa.pyx because it changed.
[1/1] Cythonizing python/pyabpoa.pyx
building 'pyabpoa' extension
creating build
creating build/temp.linux-aarch64-cpython-313
creating build/temp.linux-aarch64-cpython-313/python
creating build/temp.linux-aarch64-cpython-313/src
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c python/pyabpoa.c -o build/temp.linux-aarch64-cpython-313/python/pyabpoa.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from python/pyabpoa.c:1285:
include/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_align.c -o build/temp.linux-aarch64-cpython-313/src/abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_align.c:7:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function]
176 | SCOPE int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’
234 | __KSEQ_READ(SCOPE) \
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_align.c:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_graph.c -o build/temp.linux-aarch64-cpython-313/src/abpoa_graph.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_graph.c:5:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function]
176 | SCOPE int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’
234 | __KSEQ_READ(SCOPE) \
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
162 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function]
156 | SCOPE kseq_t *kseq_init(type_t fd) \
| ^~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_align.h:4,
from src/abpoa_graph.c:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_output.c -o build/temp.linux-aarch64-cpython-313/src/abpoa_output.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_output.c:7:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function]
176 | SCOPE int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’
234 | __KSEQ_READ(SCOPE) \
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
162 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function]
156 | SCOPE kseq_t *kseq_init(type_t fd) \
| ^~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_output.c:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_plot.c -o build/temp.linux-aarch64-cpython-313/src/abpoa_plot.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa.h:5,
from src/abpoa_plot.c:3:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_seed.c -o build/temp.linux-aarch64-cpython-313/src/abpoa_seed.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
src/abpoa_seed.c: In function ‘abpoa_dp_chaining_of_local_chains’:
src/abpoa_seed.c:458:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
458 | for (i = _n; i < par_anchors->n; ++i) {
| ^
In file included from src/abpoa.h:5,
from src/abpoa_seed.c:5:
src/simd_instruction.h: At top level:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/abpoa_seq.c -o build/temp.linux-aarch64-cpython-313/src/abpoa_seq.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_seq.c:4:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
162 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function]
156 | SCOPE kseq_t *kseq_init(type_t fd) \
| ^~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_seq.h:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/kalloc.c -o build/temp.linux-aarch64-cpython-313/src/kalloc.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/kstring.c -o build/temp.linux-aarch64-cpython-313/src/kstring.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
src/kstring.c: In function ‘kvsprintf’:
src/kstring.c:15:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
15 | if (l + 1 > s->m - s->l) {
| ^
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/simd_abpoa_align.c -o build/temp.linux-aarch64-cpython-313/src/simd_abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/simd_check.c -o build/temp.linux-aarch64-cpython-313/src/simd_check.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/simd_check.c:1:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.13 -c src/utils.c -o build/temp.linux-aarch64-cpython-313/src/utils.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES build/temp.linux-aarch64-cpython-313/python/pyabpoa.o build/temp.linux-aarch64-cpython-313/src/abpoa_align.o build/temp.linux-aarch64-cpython-313/src/abpoa_graph.o build/temp.linux-aarch64-cpython-313/src/abpoa_output.o build/temp.linux-aarch64-cpython-313/src/abpoa_plot.o build/temp.linux-aarch64-cpython-313/src/abpoa_seed.o build/temp.linux-aarch64-cpython-313/src/abpoa_seq.o build/temp.linux-aarch64-cpython-313/src/kalloc.o build/temp.linux-aarch64-cpython-313/src/kstring.o build/temp.linux-aarch64-cpython-313/src/simd_abpoa_align.o build/temp.linux-aarch64-cpython-313/src/simd_check.o build/temp.linux-aarch64-cpython-313/src/utils.o -L/usr/lib/aarch64-linux-gnu -lz -lm -lpthread -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_pyabpoa/build/pyabpoa.cpython-313-aarch64-linux-gnu.so
I: pybuild base:311: /usr/bin/python3 setup.py build
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running build
running build_ext
building 'pyabpoa' extension
creating build/temp.linux-aarch64-cpython-312
creating build/temp.linux-aarch64-cpython-312/python
creating build/temp.linux-aarch64-cpython-312/src
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c python/pyabpoa.c -o build/temp.linux-aarch64-cpython-312/python/pyabpoa.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from python/pyabpoa.c:1285:
include/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_align.c -o build/temp.linux-aarch64-cpython-312/src/abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_align.c:7:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function]
176 | SCOPE int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’
234 | __KSEQ_READ(SCOPE) \
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_align.c:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_graph.c -o build/temp.linux-aarch64-cpython-312/src/abpoa_graph.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_graph.c:5:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function]
176 | SCOPE int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’
234 | __KSEQ_READ(SCOPE) \
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
162 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function]
156 | SCOPE kseq_t *kseq_init(type_t fd) \
| ^~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_align.h:4,
from src/abpoa_graph.c:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_output.c -o build/temp.linux-aarch64-cpython-312/src/abpoa_output.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_output.c:7:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:176:19: warning: ‘kseq_read’ defined but not used [-Wunused-function]
176 | SCOPE int kseq_read(kseq_t *seq) \
| ^~~~~~~~~
src/kseq.h:234:9: note: in expansion of macro ‘__KSEQ_READ’
234 | __KSEQ_READ(SCOPE) \
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
162 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function]
156 | SCOPE kseq_t *kseq_init(type_t fd) \
| ^~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_output.c:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_plot.c -o build/temp.linux-aarch64-cpython-312/src/abpoa_plot.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa.h:5,
from src/abpoa_plot.c:3:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_seed.c -o build/temp.linux-aarch64-cpython-312/src/abpoa_seed.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
src/abpoa_seed.c: In function ‘abpoa_dp_chaining_of_local_chains’:
src/abpoa_seed.c:458:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
458 | for (i = _n; i < par_anchors->n; ++i) {
| ^
In file included from src/abpoa.h:5,
from src/abpoa_seed.c:5:
src/simd_instruction.h: At top level:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/abpoa_seq.c -o build/temp.linux-aarch64-cpython-312/src/abpoa_seq.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/abpoa_seq.h:5,
from src/abpoa_seq.c:4:
src/kseq.h:217:16: warning: ‘kseq_copy’ defined but not used [-Wunused-function]
217 | SCOPE void kseq_copy(kseq_t *seq, kseq_t kseq)\
| ^~~~~~~~~
src/kseq.h:235:9: note: in expansion of macro ‘__KSEQ_COPY’
235 | __KSEQ_COPY(SCOPE)
| ^~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:162:20: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
162 | SCOPE void kseq_destroy(kseq_t *ks) \
| ^~~~~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
src/kseq.h:156:23: warning: ‘kseq_init’ defined but not used [-Wunused-function]
156 | SCOPE kseq_t *kseq_init(type_t fd) \
| ^~~~~~~~~
src/kseq.h:233:9: note: in expansion of macro ‘__KSEQ_BASIC’
233 | __KSEQ_BASIC(SCOPE, type_t) \
| ^~~~~~~~~~~~
src/kseq.h:237:35: note: in expansion of macro ‘KSEQ_INIT2’
237 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
| ^~~~~~~~~~
src/abpoa_seq.h:7:1: note: in expansion of macro ‘KSEQ_INIT’
7 | KSEQ_INIT(gzFile, gzread)
| ^~~~~~~~~
In file included from src/abpoa.h:5,
from src/abpoa_seq.h:4:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/kalloc.c -o build/temp.linux-aarch64-cpython-312/src/kalloc.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/kstring.c -o build/temp.linux-aarch64-cpython-312/src/kstring.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
src/kstring.c: In function ‘kvsprintf’:
src/kstring.c:15:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare]
15 | if (l + 1 > s->m - s->l) {
| ^
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/simd_abpoa_align.c -o build/temp.linux-aarch64-cpython-312/src/simd_abpoa_align.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/simd_check.c -o build/temp.linux-aarch64-cpython-312/src/simd_check.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
In file included from src/simd_check.c:1:
src/simd_instruction.h:614:14: warning: ‘SIMDMalloc’ defined but not used [-Wunused-function]
614 | static void *SIMDMalloc(size_t size, size_t align) {
| ^~~~~~~~~~
aarch64-linux-gnu-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -fPIC -Iinclude/ -I/usr/include/python3.12 -c src/utils.c -o build/temp.linux-aarch64-cpython-312/src/utils.o -O3 -Wno-misleading-indentation -Wno-error=declaration-after-statement -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES
aarch64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES build/temp.linux-aarch64-cpython-312/python/pyabpoa.o build/temp.linux-aarch64-cpython-312/src/abpoa_align.o build/temp.linux-aarch64-cpython-312/src/abpoa_graph.o build/temp.linux-aarch64-cpython-312/src/abpoa_output.o build/temp.linux-aarch64-cpython-312/src/abpoa_plot.o build/temp.linux-aarch64-cpython-312/src/abpoa_seed.o build/temp.linux-aarch64-cpython-312/src/abpoa_seq.o build/temp.linux-aarch64-cpython-312/src/kalloc.o build/temp.linux-aarch64-cpython-312/src/kstring.o build/temp.linux-aarch64-cpython-312/src/simd_abpoa_align.o build/temp.linux-aarch64-cpython-312/src/simd_check.o build/temp.linux-aarch64-cpython-312/src/utils.o -L/usr/lib/aarch64-linux-gnu -lz -lm -lpthread -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_pyabpoa/build/pyabpoa.cpython-312-aarch64-linux-gnu.so
debian/rules execute_after_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build --buildsystem=makefile -- all
make -j8 "INSTALL=install --strip-program=true" all
make[2]: Entering directory '/<<PKGBUILDDIR>>'
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -march=armv8-a+simd -D__AVX2__ -I./include src/abpoa.c -o src/abpoa.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_align.c -I./include -o src/abpoa_align.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_graph.c -I./include -o src/abpoa_graph.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_plot.c -I./include -o src/abpoa_plot.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seed.c -I./include -o src/abpoa_seed.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_seq.c -I./include -o src/abpoa_seq.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa_output.c -I./include -o src/abpoa_output.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kalloc.c -I./include -o src/kalloc.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/kstring.c -I./include -o src/kstring.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -march=armv8-a+simd -D__AVX2__ -I./include src/simd_abpoa_align.c -o src/simd_abpoa_align.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now -march=armv8-a+simd -D__AVX2__ -I./include src/simd_check.c -o src/simd_check.o
cc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/utils.c -I./include -o src/utils.o
In file included from /usr/include/string.h:548,
from src/abpoa_seed.c:4:
In function ‘memset’,
inlined from ‘abpoa_dp_chaining’ at src/abpoa_seed.c:549:36:
/usr/include/aarch64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified size between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
59 | return __builtin___memset_chk (__dest, __ch, __len,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
60 | __glibc_objsize0 (__dest));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~
if [ ! -d ./lib ]; then mkdir ./lib; fi
ar -csr lib/libabpoa.a ./src/abpoa_align.o ./src/abpoa_graph.o ./src/abpoa_plot.o ./src/abpoa_seed.o ./src/abpoa_seq.o ./src/abpoa_output.o ./src/kalloc.o ./src/kstring.o ./src/simd_abpoa_align.o ./src/simd_check.o ./src/utils.o
if [ ! -d ./bin ]; then mkdir ./bin; fi
cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -fopenmp-simd -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -DSIMDE_ENABLE_OPENMP -DSIMDE_ENABLE_NATIVE_ALIASES -O3 -Wall -Wno-unused-function -Wno-misleading-indentation -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wl,-z,relro -Wl,-z,now src/abpoa.o -I./include -L./lib -labpoa -lm -lz -lpthread -o bin/abpoa
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
mv -v bin/abpoa bin/abpoa.generic
renamed 'bin/abpoa' -> 'bin/abpoa.generic'
cp debian/abpoa-dispatch.sh bin/abpoa
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# Tests from the README.md document
./bin/abpoa ./test_data/seq.fa > cons.fa
[main] CMD: ./bin/abpoa.generic ./test_data/seq.fa
[abpoa_main] Real time: 0.002 sec; CPU: 0.005 sec; Peak RSS: 0.002 GB.
./bin/abpoa ./test_data/heter.fa > 2cons.fa
[main] CMD: ./bin/abpoa.generic ./test_data/heter.fa
[abpoa_main] Real time: 0.062 sec; CPU: 0.066 sec; Peak RSS: 0.008 GB.
./bin/abpoa -r1 ./test_data/seq.fa > out.msa
[main] CMD: ./bin/abpoa.generic -r1 ./test_data/seq.fa
[abpoa_main] Real time: 0.002 sec; CPU: 0.005 sec; Peak RSS: 0.002 GB.
./bin/abpoa -r2 ./test_data/seq.fa > out_cons.msa
[main] CMD: ./bin/abpoa.generic -r2 ./test_data/seq.fa
[abpoa_main] Real time: 0.002 sec; CPU: 0.005 sec; Peak RSS: 0.002 GB.
./bin/abpoa -r3 ./test_data/seq.fa > out.gfa
[main] CMD: ./bin/abpoa.generic -r3 ./test_data/seq.fa
[abpoa_main] Real time: 0.002 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB.
./bin/abpoa -r4 ./test_data/seq.fa > out4.gfa
[main] CMD: ./bin/abpoa.generic -r4 ./test_data/seq.fa
[abpoa_main] Real time: 0.003 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB.
cp out.gfa in.gfa
cp out.msa in.msa
./bin/abpoa -i in.gfa ./test_data/seq.fa -r3 > out.gfa
[main] CMD: ./bin/abpoa.generic -i in.gfa -r3 ./test_data/seq.fa
[abpoa_main] Real time: 0.003 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB.
./bin/abpoa -i in.msa ./test_data/seq.fa -r1 > out.msa
[main] CMD: ./bin/abpoa.generic -i in.msa -r1 ./test_data/seq.fa
[abpoa_main] Real time: 0.003 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB.
./bin/abpoa ./test_data/seq.fa -g poa.png > cons.fa
[main] CMD: ./bin/abpoa.generic -g poa.png ./test_data/seq.fa
[abpoa_main] Real time: 0.492 sec; CPU: 0.006 sec; Peak RSS: 0.002 GB.
./bin/abpoa ./test_data/heter.fa -d2
[main] CMD: ./bin/abpoa.generic -d2 ./test_data/heter.fa
[abpoa_main] Real time: 0.067 sec; CPU: 0.070 sec; Peak RSS: 0.010 GB.
>Consensus_sequence_1 0,2,3,4,10,13,14
CCATTCCCACCATCCTTACCATCAACATCACCATCCCCACCATCCCCAACACCATTCCCACCATCCCTACCATCACCATCACCATCCCCACCAACATCCCCACCACCATCCTCACTACCATCCCCACCACCATTTCCACCATTCCCACCACAGTCACCATCACCCCCACCATCCCCATCATCATCCGCACCATCCCCACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCTCCAACACCTCCCCCACCATCATCCCCACCATCCCCACCACCTTCTCCACCATCATTCTCACCATCCCCACCACCATCTCCACCACCATTCTCACCATCTCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCATCATCCCCACCATCC
>Consensus_sequence_2 1,5,6,7,8,9,11,12
CCATTCCCACCATCCTTACCATCAACATCACCATCCCCACCATCCCCAACACCATTCCCACCATCCCTACCATCACCATCACCATCCCCACCAACATCCCCACCACCATCCTCACTACCATCCCCACCACCATTTCCACCATTCCCACCACAGTCACCATCACCCCCACCATCCCCATCATCATCCGCACCATCCCCACCATCCCCACCACCATCTCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCCCATTACCATCCCCACCACCATCCCCATTACCATCCCCACCACCATTTCCACCATTCCCACCATCATCCCCACCACCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCATCCCCACCGCCATCCTCGTTACCATCCCCACCACCTTTTCCACCATTCCCACCATCTCCAACACCTCCCCCACCATCATCCCCACCATCCCCACCACCTTCTCCACCATCATTCTCACCATCCCCACCACCATCTCCACCACCATTCTCACCATCTCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCAACATCCCCACCATCCCCACCCCCATGCCCACCATCATCCCCACCATCC
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--buildsystem=pybuild
dh_prep -a -O--buildsystem=pybuild
dh_auto_install -a -O--buildsystem=pybuild
I: pybuild base:311: /usr/bin/python3.13 setup.py install --root /<<PKGBUILDDIR>>/debian/python3-pyabpoa
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` directly.
Instead, use pypa/build, pypa/installer or other
standards-based tools.
See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
********************************************************************************
!!
self.initialize_options()
running build
running build_ext
running install_lib
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.13
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.13/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_pyabpoa/build/pyabpoa.cpython-313-aarch64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.13/dist-packages
running install_egg_info
running egg_info
creating pyabpoa.egg-info
writing pyabpoa.egg-info/PKG-INFO
writing dependency_links to pyabpoa.egg-info/dependency_links.txt
writing top-level names to pyabpoa.egg-info/top_level.txt
writing manifest file 'pyabpoa.egg-info/SOURCES.txt'
reading manifest file 'pyabpoa.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSE'
writing manifest file 'pyabpoa.egg-info/SOURCES.txt'
Copying pyabpoa.egg-info to /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.13/dist-packages/pyabpoa-1.5.3.egg-info
Skipping SOURCES.txt
running install_scripts
I: pybuild base:311: /usr/bin/python3 setup.py install --root /<<PKGBUILDDIR>>/debian/python3-pyabpoa
/usr/lib/python3/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!
********************************************************************************
Requirements should be satisfied by a PEP 517 installer.
If you are using pip, you can try `pip install --use-pep517`.
********************************************************************************
!!
dist.fetch_build_eggs(dist.setup_requires)
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!
********************************************************************************
Please avoid running ``setup.py`` directly.
Instead, use pypa/build, pypa/installer or other
standards-based tools.
See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
********************************************************************************
!!
self.initialize_options()
running build
running build_ext
running install_lib
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.12
creating /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.12/dist-packages
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12_pyabpoa/build/pyabpoa.cpython-312-aarch64-linux-gnu.so -> /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.12/dist-packages
running install_egg_info
running egg_info
writing pyabpoa.egg-info/PKG-INFO
writing dependency_links to pyabpoa.egg-info/dependency_links.txt
writing top-level names to pyabpoa.egg-info/top_level.txt
reading manifest file 'pyabpoa.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSE'
writing manifest file 'pyabpoa.egg-info/SOURCES.txt'
Copying pyabpoa.egg-info to /<<PKGBUILDDIR>>/debian/python3-pyabpoa/usr/lib/python3.12/dist-packages/pyabpoa-1.5.3.egg-info
Skipping SOURCES.txt
running install_scripts
dh_install -a -O--buildsystem=pybuild
dh_installdocs -a -O--buildsystem=pybuild
dh_installchangelogs -a -O--buildsystem=pybuild
dh_installexamples -a -O--buildsystem=pybuild
dh_installman -a -O--buildsystem=pybuild
dh_python3 -a -O--buildsystem=pybuild
dh_installsystemduser -a -O--buildsystem=pybuild
dh_perl -a -O--buildsystem=pybuild
dh_link -a -O--buildsystem=pybuild
dh_strip_nondeterminism -a -O--buildsystem=pybuild
dh_compress -a -O--buildsystem=pybuild
dh_fixperms -a -O--buildsystem=pybuild
dh_missing -a -O--buildsystem=pybuild
dh_dwz -a -O--buildsystem=pybuild
dh_strip -a -O--buildsystem=pybuild
dh_makeshlibs -a -O--buildsystem=pybuild
dh_shlibdeps -a -O--buildsystem=pybuild
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 from: /lib/ld-linux-aarch64.so.1
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 from: /lib/ld-linux-aarch64.so.1
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged
dh_installdeb -a -O--buildsystem=pybuild
debian/rules override_dh_gencontrol
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_gencontrol -- \
-Vsimde:Built-Using="simde (= 0.8.2-1), "
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_md5sums -a -O--buildsystem=pybuild
dh_builddeb -a -O--buildsystem=pybuild
dpkg-deb: building package 'python3-pyabpoa-dbgsym' in '../python3-pyabpoa-dbgsym_1.5.3-1+bd1_arm64.deb'.
dpkg-deb: building package 'abpoa' in '../abpoa_1.5.3-1+bd1_arm64.deb'.
dpkg-deb: building package 'abpoa-dbgsym' in '../abpoa-dbgsym_1.5.3-1+bd1_arm64.deb'.
dpkg-deb: building package 'python3-pyabpoa' in '../python3-pyabpoa_1.5.3-1+bd1_arm64.deb'.
dpkg-genbuildinfo --build=any -O../abpoa_1.5.3-1+bd1_arm64.buildinfo
dpkg-genchanges --build=any -mDebusine Rebuild <debusine@example.net> -O../abpoa_1.5.3-1+bd1_arm64.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2024-10-04T23:26:58Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
abpoa_1.5.3-1+bd1_arm64.changes:
--------------------------------
Format: 1.8
Date: Fri, 04 Oct 2024 23:25:21 +0000
Source: abpoa (1.5.3-1)
Binary: abpoa abpoa-dbgsym python3-pyabpoa python3-pyabpoa-dbgsym
Binary-Only: yes
Architecture: arm64
Version: 1.5.3-1+bd1
Distribution: sid
Urgency: low
Maintainer: Debusine Rebuild <debusine@example.net>
Changed-By: Debusine Rebuild <debusine@example.net>
Description:
abpoa - adaptive banded Partial Order Alignment
python3-pyabpoa - adaptive banded Partial Order Alignment - python3 module
Changes:
abpoa (1.5.3-1+bd1) sid; urgency=low, binary-only=yes
.
* Append +bd1 to version number; no source changes
* Binary-only non-maintainer upload for arm64; no source changes.
* Rebuild for python3.13
Checksums-Sha1:
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Files:
98d39bfcb6823b89e311befc73c9ff22 463856 debug optional abpoa-dbgsym_1.5.3-1+bd1_arm64.deb
f259cf54086242656b86ad79096c17f2 9614 science optional abpoa_1.5.3-1+bd1_arm64.buildinfo
5240db4f142f279cab92ef82a983e705 136692 science optional abpoa_1.5.3-1+bd1_arm64.deb
0d7587c97c23e0e73627bcf8f14fb9c8 1119536 debug optional python3-pyabpoa-dbgsym_1.5.3-1+bd1_arm64.deb
aa214216c3c371724597b731930715e5 160952 python optional python3-pyabpoa_1.5.3-1+bd1_arm64.deb
+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
Format: 1.0
Source: abpoa (1.5.3-1)
Binary: abpoa abpoa-dbgsym python3-pyabpoa python3-pyabpoa-dbgsym
Architecture: arm64
Version: 1.5.3-1+bd1
Binary-Only-Changes:
abpoa (1.5.3-1+bd1) sid; urgency=low, binary-only=yes
.
* Append +bd1 to version number; no source changes
* Binary-only non-maintainer upload for arm64; no source changes.
* Rebuild for python3.13
.
-- Debusine Rebuild <debusine@example.net> Fri, 04 Oct 2024 23:25:21 +0000
Checksums-Md5:
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Build-Origin: Debian
Build-Architecture: arm64
Build-Date: Fri, 04 Oct 2024 23:26:58 +0000
Build-Path: /<<PKGBUILDDIR>>
Build-Tainted-By:
merged-usr-via-aliased-dirs
Installed-Build-Depends:
autoconf (= 2.72-3),
automake (= 1:1.16.5-1.3),
autopoint (= 0.22.5-2),
autotools-dev (= 20220109.1),
base-files (= 13.5),
base-passwd (= 3.6.4),
bash (= 5.2.32-1+b1),
binutils (= 2.43.1-5),
binutils-aarch64-linux-gnu (= 2.43.1-5),
binutils-common (= 2.43.1-5),
bsdextrautils (= 2.40.2-9),
bsdutils (= 1:2.40.2-9),
build-essential (= 12.10),
bzip2 (= 1.0.8-6),
coreutils (= 9.4-3.1),
cpp (= 4:14.1.0-2),
cpp-14 (= 14.2.0-5),
cpp-14-aarch64-linux-gnu (= 14.2.0-5),
cpp-aarch64-linux-gnu (= 4:14.1.0-2),
cython3 (= 3.0.11+dfsg-1+debusine1),
dash (= 0.5.12-9),
debconf (= 1.5.87),
debhelper (= 13.20),
debianutils (= 5.20),
dh-autoreconf (= 20),
dh-python (= 6.20240824),
dh-strip-nondeterminism (= 1.14.0-1),
diffutils (= 1:3.10-1),
dpkg (= 1.22.11),
dpkg-dev (= 1.22.11),
dwz (= 0.15-1+b1),
file (= 1:5.45-3),
findutils (= 4.10.0-3),
fontconfig (= 2.15.0-1.1),
fontconfig-config (= 2.15.0-1.1),
fonts-dejavu-core (= 2.37-8),
fonts-dejavu-mono (= 2.37-8),
g++ (= 4:14.1.0-2),
g++-14 (= 14.2.0-5),
g++-14-aarch64-linux-gnu (= 14.2.0-5),
g++-aarch64-linux-gnu (= 4:14.1.0-2),
gcc (= 4:14.1.0-2),
gcc-14 (= 14.2.0-5),
gcc-14-aarch64-linux-gnu (= 14.2.0-5),
gcc-14-base (= 14.2.0-5),
gcc-aarch64-linux-gnu (= 4:14.1.0-2),
gettext (= 0.22.5-2),
gettext-base (= 0.22.5-2),
graphviz (= 2.42.4-2),
grep (= 3.11-4),
groff-base (= 1.23.0-5),
gzip (= 1.12-1.1),
hostname (= 3.23+nmu2),
init-system-helpers (= 1.67),
intltool-debian (= 0.35.0+20060710.6),
libabsl20230802 (= 20230802.1-4),
libacl1 (= 2.3.2-2),
libann0 (= 1.1.2+doc-9+b1),
libaom3 (= 3.9.1-1),
libarchive-zip-perl (= 1.68-1),
libasan8 (= 14.2.0-5),
libatomic1 (= 14.2.0-5),
libattr1 (= 1:2.5.2-1),
libaudit-common (= 1:4.0.1-1),
libaudit1 (= 1:4.0.1-1),
libavif16 (= 1.1.1-1),
libbinutils (= 2.43.1-5),
libblkid1 (= 2.40.2-9),
libbrotli1 (= 1.1.0-2+b4),
libbsd0 (= 0.12.2-2),
libbz2-1.0 (= 1.0.8-6),
libc-bin (= 2.40-3),
libc-dev-bin (= 2.40-3),
libc6 (= 2.40-3),
libc6-dev (= 2.40-3),
libcairo2 (= 1.18.2-2),
libcap-ng0 (= 0.8.5-2),
libcap2 (= 1:2.66-5),
libcc1-0 (= 14.2.0-5),
libcdt5 (= 2.42.4-2),
libcgraph6 (= 2.42.4-2),
libcom-err2 (= 1.47.1-1),
libcrypt-dev (= 1:4.4.36-5),
libcrypt1 (= 1:4.4.36-5),
libctf-nobfd0 (= 2.43.1-5),
libctf0 (= 2.43.1-5),
libdatrie1 (= 0.2.13-3),
libdav1d7 (= 1.4.3-1),
libdb5.3t64 (= 5.3.28+dfsg2-7),
libde265-0 (= 1.0.15-1+b2),
libdebconfclient0 (= 0.272),
libdebhelper-perl (= 13.20),
libdeflate0 (= 1.21-1),
libdpkg-perl (= 1.22.11),
libelf1t64 (= 0.191-2),
libexpat1 (= 2.6.3-1),
libexpat1-dev (= 2.6.3-1),
libffi8 (= 3.4.6-1),
libfile-stripnondeterminism-perl (= 1.14.0-1),
libfontconfig1 (= 2.15.0-1.1),
libfreetype6 (= 2.13.3+dfsg-1),
libfribidi0 (= 1.0.15-1),
libgav1-1 (= 0.19.0-2+b1),
libgcc-14-dev (= 14.2.0-5),
libgcc-s1 (= 14.2.0-5),
libgd3 (= 2.3.3-12),
libgdbm-compat4t64 (= 1.24-2),
libgdbm6t64 (= 1.24-2),
libglib2.0-0t64 (= 2.82.1-1),
libgmp10 (= 2:6.3.0+dfsg-2+b1),
libgomp1 (= 14.2.0-5),
libgprofng0 (= 2.43.1-5),
libgraphite2-3 (= 1.3.14-2),
libgssapi-krb5-2 (= 1.21.3-3),
libgts-0.7-5t64 (= 0.7.6+darcs121130-5.2),
libgvc6 (= 2.42.4-2),
libgvpr2 (= 2.42.4-2),
libharfbuzz0b (= 9.0.0-1),
libheif-plugin-dav1d (= 1.18.2-2),
libheif-plugin-libde265 (= 1.18.2-2),
libheif1 (= 1.18.2-2),
libhwasan0 (= 14.2.0-5),
libice6 (= 2:1.0.10-1+b1),
libicu72 (= 72.1-5),
libimagequant0 (= 2.18.0-1+b1),
libisl23 (= 0.27-1),
libitm1 (= 14.2.0-5),
libjansson4 (= 2.14-2+b2),
libjbig0 (= 2.1-6.1+b1),
libjpeg62-turbo (= 1:2.1.5-3),
libjs-jquery (= 3.6.1+dfsg+~3.5.14-1),
libjs-sphinxdoc (= 7.4.7-3),
libjs-underscore (= 1.13.4~dfsg+~1.11.4-3),
libk5crypto3 (= 1.21.3-3),
libkeyutils1 (= 1.6.3-3),
libkrb5-3 (= 1.21.3-3),
libkrb5support0 (= 1.21.3-3),
liblab-gamut1 (= 2.42.4-2),
liblerc4 (= 4.0.0+ds-4+b1),
liblsan0 (= 14.2.0-5),
libltdl7 (= 2.4.7-7+b1),
liblzma5 (= 5.6.2-2),
libmagic-mgc (= 1:5.45-3),
libmagic1t64 (= 1:5.45-3),
libmd0 (= 1.1.0-2),
libmount1 (= 2.40.2-9),
libmpc3 (= 1.3.1-1+b2),
libmpfr6 (= 4.2.1-1+b1),
libncursesw6 (= 6.5-2),
libnsl2 (= 1.3.0-3+b2),
libpam-modules (= 1.5.3-7),
libpam-modules-bin (= 1.5.3-7),
libpam-runtime (= 1.5.3-7),
libpam0g (= 1.5.3-7),
libpango-1.0-0 (= 1.54.0+ds-2),
libpangocairo-1.0-0 (= 1.54.0+ds-2),
libpangoft2-1.0-0 (= 1.54.0+ds-2),
libpathplan4 (= 2.42.4-2),
libpcre2-8-0 (= 10.42-4+b1),
libperl5.38t64 (= 5.38.2-5),
libpipeline1 (= 1.5.8-1),
libpixman-1-0 (= 0.42.2-1+b1),
libpng16-16t64 (= 1.6.44-2),
libpython3-all-dev (= 3.12.6-1+debusine1),
libpython3-dev (= 3.12.6-1+debusine1),
libpython3-stdlib (= 3.12.6-1+debusine1),
libpython3.12-dev (= 3.12.7-1),
libpython3.12-minimal (= 3.12.7-1),
libpython3.12-stdlib (= 3.12.7-1),
libpython3.12t64 (= 3.12.7-1),
libpython3.13 (= 3.13.0~rc3-1),
libpython3.13-dev (= 3.13.0~rc3-1),
libpython3.13-minimal (= 3.13.0~rc3-1),
libpython3.13-stdlib (= 3.13.0~rc3-1),
libraqm0 (= 0.10.1-1+b1),
librav1e0.7 (= 0.7.1-7+b1),
libreadline8t64 (= 8.2-5),
libseccomp2 (= 2.5.5-1+b1),
libselinux1 (= 3.7-3),
libsframe1 (= 2.43.1-5),
libsharpyuv0 (= 1.4.0-0.1),
libsimde-dev (= 0.8.2-1),
libsm6 (= 2:1.2.3-1+b1),
libsmartcols1 (= 2.40.2-9),
libsqlite3-0 (= 3.46.1-1),
libssl3t64 (= 3.3.2-1),
libstdc++-14-dev (= 14.2.0-5),
libstdc++6 (= 14.2.0-5),
libsvtav1enc2 (= 2.2.1+dfsg-2),
libsystemd0 (= 256.6-1),
libthai-data (= 0.1.29-2),
libthai0 (= 0.1.29-2),
libtiff6 (= 4.5.1+git230720-5),
libtinfo6 (= 6.5-2),
libtirpc-common (= 1.3.4+ds-1.3),
libtirpc3t64 (= 1.3.4+ds-1.3),
libtool (= 2.4.7-7),
libtsan2 (= 14.2.0-5),
libubsan1 (= 14.2.0-5),
libuchardet0 (= 0.0.8-1+b1),
libudev1 (= 256.6-1),
libunistring5 (= 1.2-1),
libuuid1 (= 2.40.2-9),
libwebp7 (= 1.4.0-0.1),
libx11-6 (= 2:1.8.7-1+b1),
libx11-data (= 2:1.8.7-1),
libxau6 (= 1:1.0.9-1+b1),
libxaw7 (= 2:1.0.14-1+b2),
libxcb-render0 (= 1.17.0-2),
libxcb-shm0 (= 1.17.0-2),
libxcb1 (= 1.17.0-2),
libxdmcp6 (= 1:1.1.2-3+b1),
libxext6 (= 2:1.3.4-1+b1),
libxml2 (= 2.12.7+dfsg+really2.9.14-0.1),
libxmu6 (= 2:1.1.3-3+b2),
libxpm4 (= 1:3.5.17-1+b1),
libxrender1 (= 1:0.9.10-1.1+b1),
libxt6t64 (= 1:1.2.1-1.2),
libyuv0 (= 0.0.1888.20240710-3),
libzstd1 (= 1.5.6+dfsg-1),
linux-libc-dev (= 6.10.12-1),
m4 (= 1.4.19-4),
make (= 4.3-4.1),
man-db (= 2.13.0-1),
mawk (= 1.3.4.20240905-1),
media-types (= 10.1.0),
ncurses-base (= 6.5-2),
ncurses-bin (= 6.5-2),
netbase (= 6.4),
openssl-provider-legacy (= 3.3.2-1),
patch (= 2.7.6-7),
perl (= 5.38.2-5),
perl-base (= 5.38.2-5),
perl-modules-5.38 (= 5.38.2-5),
po-debconf (= 1.0.21+nmu1),
python3 (= 3.12.6-1+debusine1),
python3-all (= 3.12.6-1+debusine1),
python3-all-dev (= 3.12.6-1+debusine1),
python3-autocommand (= 2.2.2-3),
python3-dev (= 3.12.6-1+debusine1),
python3-inflect (= 7.3.1-2),
python3-jaraco.context (= 6.0.0-1),
python3-jaraco.functools (= 4.1.0-1),
python3-minimal (= 3.12.6-1+debusine1),
python3-more-itertools (= 10.5.0-1),
python3-pkg-resources (= 74.1.2-2),
python3-setuptools (= 74.1.2-2),
python3-typeguard (= 4.3.0-1),
python3-typing-extensions (= 4.12.2-2),
python3-wheel (= 0.44.0-2),
python3-zipp (= 3.20.2-1),
python3.12 (= 3.12.7-1),
python3.12-dev (= 3.12.7-1),
python3.12-minimal (= 3.12.7-1),
python3.13 (= 3.13.0~rc3-1),
python3.13-dev (= 3.13.0~rc3-1),
python3.13-minimal (= 3.13.0~rc3-1),
readline-common (= 8.2-5),
rpcsvc-proto (= 1.4.3-1),
sed (= 4.9-2),
sensible-utils (= 0.0.24),
sysvinit-utils (= 3.10-2),
tar (= 1.35+dfsg-3),
tzdata (= 2024b-1),
util-linux (= 2.40.2-9),
x11-common (= 1:7.7+23.1),
xz-utils (= 5.6.2-2),
zlib1g (= 1:1.3.dfsg+really1.3.1-1),
zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1)
Environment:
DEB_BUILD_OPTIONS="parallel=8"
LANG="C.UTF-8"
LC_COLLATE="C.UTF-8"
LC_CTYPE="C.UTF-8"
SOURCE_DATE_EPOCH="1728084321"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
abpoa-dbgsym_1.5.3-1+bd1_arm64.deb
----------------------------------
new Debian package, version 2.0.
size 463856 bytes: control archive=536 bytes.
380 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: abpoa-dbgsym
Source: abpoa (1.5.3-1)
Version: 1.5.3-1+bd1
Auto-Built-Package: debug-symbols
Architecture: arm64
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 478
Depends: abpoa (= 1.5.3-1+bd1)
Section: debug
Priority: optional
Description: debug symbols for abpoa
Build-Ids: c796aaf3d64b55ab2ac2bcbdb82d192344962e81
drwxr-xr-x root/root 0 2024-10-04 23:25 ./
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/lib/
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/lib/debug/
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/lib/debug/.build-id/c7/
-rw-r--r-- root/root 478984 2024-10-04 23:25 ./usr/lib/debug/.build-id/c7/96aaf3d64b55ab2ac2bcbdb82d192344962e81.debug
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/share/
drwxr-xr-x root/root 0 2024-10-04 23:25 ./usr/share/doc/
lrwxrwxrwx root/root 0 2024-10-04 23:25 ./usr/share/doc/abpoa-dbgsym -> abpoa
abpoa_1.5.3-1+bd1_arm64.deb
---------------------------
new Debian package, version 2.0.
size 136692 bytes: control archive=1384 bytes.
1237 bytes, 28 lines control
1280 bytes, 18 lines md5sums
Package: abpoa
Source: abpoa (1.5.3-1)
Version: 1.5.3-1+bd1
Architecture: arm64
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 401
Depends: libc6 (>= 2.34), zlib1g (>= 1:1.1.4), graphviz
Built-Using: simde (= 0.8.2-1)
Section: science
Priority: optional
Homepage: https://github.com/yangao07/abPOA
Description: adaptive banded Partial Order Alignment
abPOA is an extended version of Partial Order Alignment (POA) that performs
adaptive banded dynamic programming (DP) with an SIMD implementation. abPOA
can perform multiple sequence alignment (MSA) on a set of input sequences and
generate a consensus sequence by applying the heaviest bundling algorithm to
the final alignment graph.
.
abPOA can generate high-quality consensus sequences from error-prone long
reads and offer significant speed improvement over existing tools.
.
abPOA supports three alignment modes (global, local, extension) and flexible
scoring schemes that allow linear, affine and convex gap penalties. It right
now supports SSE2/SSE4.1/AVX2 vectorization.
.
For more information please refer to the paper[1] published in Bioinformatics.
.
[1]: https://dx.doi.org/10.1093/bioinformatics/btaa963
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python3-pyabpoa-dbgsym_1.5.3-1+bd1_arm64.deb
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Package: python3-pyabpoa-dbgsym
Source: abpoa (1.5.3-1)
Version: 1.5.3-1+bd1
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Installed-Size: 1177
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Priority: optional
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Package: python3-pyabpoa
Source: abpoa (1.5.3-1)
Version: 1.5.3-1+bd1
Architecture: arm64
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 804
Depends: libc6 (>= 2.33), zlib1g (>= 1:1.1.4), python3 (<< 3.14), python3 (>= 3.12~)
Section: python
Priority: optional
Homepage: https://github.com/yangao07/abPOA
Description: adaptive banded Partial Order Alignment - python3 module
abPOA is an extended version of Partial Order Alignment (POA) that performs
adaptive banded dynamic programming (DP) with an SIMD implementation. abPOA
can perform multiple sequence alignment (MSA) on a set of input sequences and
generate a consensus sequence by applying the heaviest bundling algorithm to
the final alignment graph.
.
abPOA can generate high-quality consensus sequences from error-prone long
reads and offer significant speed improvement over existing tools.
.
abPOA supports three alignment modes (global, local, extension) and flexible
scoring schemes that allow linear, affine and convex gap penalties. It right
now supports SSE2/SSE4.1/AVX2 vectorization.
.
This package provides the python3 module of abPOA.
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