tombo →
1.5.1-5 →
armhf → 2023-12-07 06:51:06
sbuild (Debian sbuild) 0.85.0 (04 January 2023) on test2023
+==============================================================================+
| tombo 1.5.1-5 (armhf) Thu, 07 Dec 2023 06:48:03 +0000 |
+==============================================================================+
Package: tombo
Version: 1.5.1-5
Source Version: 1.5.1-5
Distribution: trixie-staging
Machine Architecture: arm64
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/trixie-staging-armhf-sbuild-24862a2f-5c25-4b73-8777-af5b608e623b' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/tombo-hB0WZo/resolver-qDHEjE' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private trixie-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private trixie-staging/main Sources [14.3 MB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf Packages [15.0 MB]
Fetched 29.3 MB in 5s (5467 kB/s)
Reading package lists...
W: http://172.17.4.1/private/dists/trixie-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'tombo' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/tombo.git
Please use:
git clone https://salsa.debian.org/med-team/tombo.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 22.3 MB of source archives.
Get:1 http://172.17.4.1/private trixie-staging/main tombo 1.5.1-5 (dsc) [1662 B]
Get:2 http://172.17.4.1/private trixie-staging/main tombo 1.5.1-5 (tar) [22.3 MB]
Get:3 http://172.17.4.1/private trixie-staging/main tombo 1.5.1-5 (diff) [6916 B]
Fetched 22.3 MB in 3s (8369 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/tombo-hB0WZo/tombo-1.5.1' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/tombo-hB0WZo' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, sphinx-doc, python3-sphinx, python3-sphinx-rtd-theme, python3-sphinx-argparse, libjs-mathjax, python3-h5py, python3-mappy, python3-numpy, python3-scipy, python3-tqdm, python3-nose2, build-essential, fakeroot
Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, sphinx-doc, python3-sphinx, python3-sphinx-rtd-theme, python3-sphinx-argparse, libjs-mathjax, python3-h5py, python3-mappy, python3-numpy, python3-scipy, python3-tqdm, python3-nose2, build-essential, fakeroot
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 [922 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [888 B]
Fetched 2419 B in 0s (0 B/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils bsdutils
ca-certificates cython3 debhelper dh-autoreconf dh-python
dh-strip-nondeterminism docutils-common docutils-doc dpkg-dev dwz file
fonts-font-awesome fonts-lato fonts-mathjax gettext gettext-base groff-base
intltool-debian libaec0 libarchive-zip-perl libblas3 libblkid1 libbrotli1
libcurl4 libdebhelper-perl libdpkg-perl libelf1 libexpat1 libexpat1-dev
libfile-stripnondeterminism-perl libgfortran5 libhdf5-103-1 libhdf5-hl-100
libicu72 libjs-jquery libjs-mathjax libjs-sphinxdoc libjs-underscore
libjson-perl liblapack3 liblbfgsb0 liblzf1 libmagic-mgc libmagic1 libmount1
libnghttp2-14 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev
libpython3-stdlib libpython3.11 libpython3.11-dev libpython3.11-minimal
libpython3.11-stdlib librtmp1 libsmartcols1 libssh2-1 libsub-override-perl
libsz2 libtool libuchardet0 libuuid1 libxml2 m4 man-db media-types mount
openssl po-debconf python-babel-localedata python-requests-doc python3
python3-alabaster python3-all python3-all-dev python3-babel python3-certifi
python3-chardet python3-charset-normalizer python3-decorator python3-dev
python3-distutils python3-doc python3-docutils python3-h5py
python3-h5py-serial python3-idna python3-imagesize python3-jinja2
python3-lib2to3 python3-mappy python3-markupsafe python3-minimal
python3-nose2 python3-numpy python3-packaging python3-pkg-resources
python3-pygments python3-requests python3-roman python3-scipy
python3-setuptools python3-six python3-snowballstemmer python3-sphinx
python3-sphinx-argparse python3-sphinx-rtd-theme
python3-sphinxcontrib.jquery python3-tqdm python3-tz python3-urllib3
python3.11 python3.11-dev python3.11-doc python3.11-minimal sensible-utils
sgml-base sphinx-common sphinx-doc sphinx-rtd-theme-common util-linux
xml-core zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cython-doc dh-make flit
python3-build python3-installer python3-wheel debian-keyring gettext-doc
libasprintf-dev libgettextpo-dev groff git bzr fonts-mathjax-extras
fonts-stix libjs-mathjax-doc cryptsetup-bin libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser nfs-common
libmail-box-perl python3-tk python3-venv python-charset-normalizer-doc
python3-examples fonts-linuxlibertine | ttf-linux-libertine
texlive-lang-french texlive-latex-base texlive-latex-recommended
python-h5py-doc python-jinja2-doc python-nose2-doc gfortran python3-pytest
python-pygments-doc ttf-bitstream-vera python3-cryptography python3-openssl
python3-socks python-scipy-doc python-setuptools-doc python3-stemmer dvipng
fonts-freefont-otf imagemagick-6.q16 latexmk tex-gyre
texlive-fonts-recommended texlive-latex-extra texlive-plain-generic
python3-brotli python3.11-venv binfmt-support sgml-base-doc dosfstools kbd
util-linux-extra util-linux-locales
Recommended packages:
libalgorithm-merge-perl curl | wget | lynx libfile-fcntllock-perl
libarchive-cpio-perl javascript-common libjson-xs-perl publicsuffix
libltdl-dev uuid-runtime libmail-sendmail-perl libpaper-utils python3-pil
python3-coverage
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism
docutils-common docutils-doc dwz file fonts-font-awesome fonts-lato
fonts-mathjax gettext gettext-base groff-base intltool-debian libaec0
libarchive-zip-perl libblas3 libbrotli1 libcurl4 libdebhelper-perl libelf1
libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5
libhdf5-103-1 libhdf5-hl-100 libicu72 libjs-jquery libjs-mathjax
libjs-sphinxdoc libjs-underscore libjson-perl liblapack3 liblbfgsb0 liblzf1
libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 libpython3-all-dev
libpython3-dev libpython3-stdlib libpython3.11 libpython3.11-dev
libpython3.11-minimal libpython3.11-stdlib librtmp1 libssh2-1
libsub-override-perl libsz2 libtool libuchardet0 libxml2 m4 man-db
media-types openssl po-debconf python-babel-localedata python-requests-doc
python3 python3-alabaster python3-all python3-all-dev python3-babel
python3-certifi python3-chardet python3-charset-normalizer python3-decorator
python3-dev python3-distutils python3-doc python3-docutils python3-h5py
python3-h5py-serial python3-idna python3-imagesize python3-jinja2
python3-lib2to3 python3-mappy python3-markupsafe python3-minimal
python3-nose2 python3-numpy python3-packaging python3-pkg-resources
python3-pygments python3-requests python3-roman python3-scipy
python3-setuptools python3-six python3-snowballstemmer python3-sphinx
python3-sphinx-argparse python3-sphinx-rtd-theme
python3-sphinxcontrib.jquery python3-tqdm python3-tz python3-urllib3
python3.11 python3.11-dev python3.11-doc python3.11-minimal
sbuild-build-depends-main-dummy sensible-utils sgml-base sphinx-common
sphinx-doc sphinx-rtd-theme-common xml-core zlib1g-dev
The following packages will be upgraded:
bsdutils dpkg-dev libblkid1 libdpkg-perl libmount1 libsmartcols1 libuuid1
mount util-linux
9 upgraded, 122 newly installed, 0 to remove and 44 not upgraded.
1 not fully installed or removed.
Need to get 97.1 MB/99.1 MB of archives.
After this operation, 437 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [968 B]
Get:2 http://172.17.4.1/private trixie-staging/main armhf mount armhf 2.39.2-6 [134 kB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf bsdutils armhf 1:2.39.2-6 [86.5 kB]
Get:4 http://172.17.4.1/private trixie-staging/main armhf util-linux armhf 2.39.2-6 [1110 kB]
Get:5 http://172.17.4.1/private trixie-staging/main armhf fonts-lato all 2.015-1 [2780 kB]
Get:6 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-minimal armhf 3.11.6-3 [800 kB]
Get:7 http://172.17.4.1/private trixie-staging/main armhf libexpat1 armhf 2.5.0-2 [76.8 kB]
Get:8 http://172.17.4.1/private trixie-staging/main armhf python3.11-minimal armhf 3.11.6-3 [1674 kB]
Get:9 http://172.17.4.1/private trixie-staging/main armhf python3-minimal armhf 3.11.4-5 [26.2 kB]
Get:10 http://172.17.4.1/private trixie-staging/main armhf media-types all 10.1.0 [26.9 kB]
Get:11 http://172.17.4.1/private trixie-staging/main armhf libuuid1 armhf 2.39.2-6 [28.1 kB]
Get:12 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-stdlib armhf 3.11.6-3 [1679 kB]
Get:13 http://172.17.4.1/private trixie-staging/main armhf python3.11 armhf 3.11.6-3 [586 kB]
Get:14 http://172.17.4.1/private trixie-staging/main armhf libpython3-stdlib armhf 3.11.4-5 [9200 B]
Get:15 http://172.17.4.1/private trixie-staging/main armhf python3 armhf 3.11.4-5 [26.2 kB]
Get:16 http://172.17.4.1/private trixie-staging/main armhf sgml-base all 1.31 [15.4 kB]
Get:17 http://172.17.4.1/private trixie-staging/main armhf libblkid1 armhf 2.39.2-6 [145 kB]
Get:18 http://172.17.4.1/private trixie-staging/main armhf libmount1 armhf 2.39.2-6 [167 kB]
Get:19 http://172.17.4.1/private trixie-staging/main armhf libsmartcols1 armhf 2.39.2-6 [102 kB]
Get:20 http://172.17.4.1/private trixie-staging/main armhf libuchardet0 armhf 0.0.8-1 [65.5 kB]
Get:21 http://172.17.4.1/private trixie-staging/main armhf groff-base armhf 1.23.0-3 [1033 kB]
Get:22 http://172.17.4.1/private trixie-staging/main armhf bsdextrautils armhf 2.39.2-6 [81.2 kB]
Get:23 http://172.17.4.1/private trixie-staging/main armhf libpipeline1 armhf 1.5.7-1 [33.4 kB]
Get:24 http://172.17.4.1/private trixie-staging/main armhf man-db armhf 2.12.0-1 [1358 kB]
Get:25 http://172.17.4.1/private trixie-staging/main armhf sensible-utils all 0.0.20 [19.3 kB]
Get:26 http://172.17.4.1/private trixie-staging/main armhf openssl armhf 3.0.11-1 [1367 kB]
Get:27 http://172.17.4.1/private trixie-staging/main armhf ca-certificates all 20230311 [153 kB]
Get:28 http://172.17.4.1/private trixie-staging/main armhf libmagic-mgc armhf 1:5.45-2 [314 kB]
Get:29 http://172.17.4.1/private trixie-staging/main armhf libmagic1 armhf 1:5.45-2 [96.1 kB]
Get:30 http://172.17.4.1/private trixie-staging/main armhf file armhf 1:5.45-2 [41.6 kB]
Get:31 http://172.17.4.1/private trixie-staging/main armhf gettext-base armhf 0.21-13 [156 kB]
Get:32 http://172.17.4.1/private trixie-staging/main armhf m4 armhf 1.4.19-4 [256 kB]
Get:33 http://172.17.4.1/private trixie-staging/main armhf autoconf all 2.71-3 [332 kB]
Get:34 http://172.17.4.1/private trixie-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:35 http://172.17.4.1/private trixie-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:36 http://172.17.4.1/private trixie-staging/main armhf autopoint all 0.21-14 [496 kB]
Get:37 http://172.17.4.1/private trixie-staging/main armhf cython3 armhf 0.29.36-3 [1731 kB]
Get:38 http://172.17.4.1/private trixie-staging/main armhf libdebhelper-perl all 13.11.8 [82.1 kB]
Get:39 http://172.17.4.1/private trixie-staging/main armhf libtool all 2.4.7-7 [517 kB]
Get:40 http://172.17.4.1/private trixie-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:41 http://172.17.4.1/private trixie-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:42 http://172.17.4.1/private trixie-staging/main armhf libsub-override-perl all 0.09-4 [9304 B]
Get:43 http://172.17.4.1/private trixie-staging/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get:44 http://172.17.4.1/private trixie-staging/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get:45 http://172.17.4.1/private trixie-staging/main armhf libelf1 armhf 0.188-2.1+rpi1 [171 kB]
Get:46 http://172.17.4.1/private trixie-staging/main armhf dwz armhf 0.15-1 [92.4 kB]
Get:47 http://172.17.4.1/private trixie-staging/main armhf libicu72 armhf 72.1-4 [9009 kB]
Get:48 http://172.17.4.1/private trixie-staging/main armhf libxml2 armhf 2.9.14+dfsg-1.3 [571 kB]
Get:49 http://172.17.4.1/private trixie-staging/main armhf gettext armhf 0.21-13 [1201 kB]
Get:50 http://172.17.4.1/private trixie-staging/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:51 http://172.17.4.1/private trixie-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:52 http://172.17.4.1/private trixie-staging/main armhf debhelper all 13.11.8 [956 kB]
Get:53 http://172.17.4.1/private trixie-staging/main armhf python3-lib2to3 all 3.11.5-1 [77.5 kB]
Get:54 http://172.17.4.1/private trixie-staging/main armhf python3-distutils all 3.11.5-1 [131 kB]
Get:55 http://172.17.4.1/private trixie-staging/main armhf python3-pkg-resources all 68.1.2-2 [241 kB]
Get:56 http://172.17.4.1/private trixie-staging/main armhf python3-setuptools all 68.1.2-2 [468 kB]
Get:57 http://172.17.4.1/private trixie-staging/main armhf dh-python all 6.20231107 [107 kB]
Get:58 http://172.17.4.1/private trixie-staging/main armhf xml-core all 0.18+nmu1 [23.8 kB]
Get:59 http://172.17.4.1/private trixie-staging/main armhf docutils-common all 0.20.1+dfsg-3 [128 kB]
Get:60 http://172.17.4.1/private trixie-staging/main armhf docutils-doc all 0.20.1+dfsg-3 [1114 kB]
Get:61 http://172.17.4.1/private trixie-staging/main armhf fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB]
Get:62 http://172.17.4.1/private trixie-staging/main armhf fonts-mathjax all 2.7.9+dfsg-1 [2210 kB]
Get:63 http://172.17.4.1/private trixie-staging/main armhf libaec0 armhf 1.1.2-1 [21.3 kB]
Get:64 http://172.17.4.1/private trixie-staging/main armhf libblas3 armhf 3.11.0-2 [100.0 kB]
Get:65 http://172.17.4.1/private trixie-staging/main armhf libbrotli1 armhf 1.1.0-2 [280 kB]
Get:66 http://172.17.4.1/private trixie-staging/main armhf libnghttp2-14 armhf 1.58.0-1 [61.7 kB]
Get:67 http://172.17.4.1/private trixie-staging/main armhf libpsl5 armhf 0.21.2-1+b1 [57.8 kB]
Get:68 http://172.17.4.1/private trixie-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:69 http://172.17.4.1/private trixie-staging/main armhf libssh2-1 armhf 1.11.0-3 [195 kB]
Get:70 http://172.17.4.1/private trixie-staging/main armhf libcurl4 armhf 8.4.0-2+rpi1 [362 kB]
Get:71 http://172.17.4.1/private trixie-staging/main armhf libexpat1-dev armhf 2.5.0-2 [130 kB]
Get:72 http://172.17.4.1/private trixie-staging/main armhf libgfortran5 armhf 13.2.0-5+rpi1 [247 kB]
Get:73 http://172.17.4.1/private trixie-staging/main armhf libsz2 armhf 1.1.2-1 [7700 B]
Get:74 http://172.17.4.1/private trixie-staging/main armhf libhdf5-103-1 armhf 1.10.10+repack-3 [1215 kB]
Get:75 http://172.17.4.1/private trixie-staging/main armhf libhdf5-hl-100 armhf 1.10.10+repack-3 [59.9 kB]
Get:76 http://172.17.4.1/private trixie-staging/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB]
Get:77 http://172.17.4.1/private trixie-staging/main armhf libjs-mathjax all 2.7.9+dfsg-1 [5667 kB]
Get:78 http://172.17.4.1/private trixie-staging/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB]
Get:79 http://172.17.4.1/private trixie-staging/main armhf libjs-sphinxdoc all 7.2.6-2 [149 kB]
Get:80 http://172.17.4.1/private trixie-staging/main armhf libjson-perl all 4.10000-1 [87.5 kB]
Get:81 http://172.17.4.1/private trixie-staging/main armhf liblapack3 armhf 3.11.0-2 [1624 kB]
Get:82 http://172.17.4.1/private trixie-staging/main armhf liblbfgsb0 armhf 3.0+dfsg.4-1 [24.4 kB]
Get:83 http://172.17.4.1/private trixie-staging/main armhf liblzf1 armhf 3.6-4 [9296 B]
Get:84 http://172.17.4.1/private trixie-staging/main armhf libpython3.11 armhf 3.11.6-3 [1662 kB]
Get:85 http://172.17.4.1/private trixie-staging/main armhf zlib1g-dev armhf 1:1.2.13.dfsg-3 [901 kB]
Get:86 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-dev armhf 3.11.6-3 [3271 kB]
Get:87 http://172.17.4.1/private trixie-staging/main armhf libpython3-dev armhf 3.11.4-5 [9432 B]
Get:88 http://172.17.4.1/private trixie-staging/main armhf libpython3-all-dev armhf 3.11.4-5 [1068 B]
Get:89 http://172.17.4.1/private trixie-staging/main armhf python-babel-localedata all 2.10.3-3 [5611 kB]
Get:90 http://172.17.4.1/private trixie-staging/main armhf python-requests-doc all 2.31.0+dfsg-1 [190 kB]
Get:91 http://172.17.4.1/private trixie-staging/main armhf python3-alabaster all 0.7.12-1 [20.8 kB]
Get:92 http://172.17.4.1/private trixie-staging/main armhf python3-all armhf 3.11.4-5 [1060 B]
Get:93 http://172.17.4.1/private trixie-staging/main armhf python3.11-dev armhf 3.11.6-3 [508 kB]
Get:94 http://172.17.4.1/private trixie-staging/main armhf python3-dev armhf 3.11.4-5 [26.2 kB]
Get:95 http://172.17.4.1/private trixie-staging/main armhf python3-all-dev armhf 3.11.4-5 [1068 B]
Get:96 http://172.17.4.1/private trixie-staging/main armhf python3-tz all 2023.3.post1-1 [30.8 kB]
Get:97 http://172.17.4.1/private trixie-staging/main armhf python3-babel all 2.10.3-3 [100.0 kB]
Get:98 http://172.17.4.1/private trixie-staging/main armhf python3-certifi all 2023.7.22-1 [150 kB]
Get:99 http://172.17.4.1/private trixie-staging/main armhf python3-chardet all 5.2.0+dfsg-1 [107 kB]
Get:100 http://172.17.4.1/private trixie-staging/main armhf python3-charset-normalizer all 3.3.2-1 [51.6 kB]
Get:101 http://172.17.4.1/private trixie-staging/main armhf python3-decorator all 5.1.1-5 [15.1 kB]
Get:102 http://172.17.4.1/private trixie-staging/main armhf python3.11-doc all 3.11.6-3 [12.8 MB]
Get:103 http://172.17.4.1/private trixie-staging/main armhf python3-doc all 3.11.4-5 [9396 B]
Get:104 http://172.17.4.1/private trixie-staging/main armhf python3-roman all 3.3-3 [9880 B]
Get:105 http://172.17.4.1/private trixie-staging/main armhf python3-docutils all 0.20.1+dfsg-3 [389 kB]
Get:106 http://172.17.4.1/private trixie-staging/main armhf python3-numpy armhf 1:1.24.2-1 [3826 kB]
Get:107 http://172.17.4.1/private trixie-staging/main armhf python3-h5py-serial armhf 3.9.0-4 [727 kB]
Get:108 http://172.17.4.1/private trixie-staging/main armhf python3-h5py all 3.9.0-4 [14.3 kB]
Get:109 http://172.17.4.1/private trixie-staging/main armhf python3-idna all 3.3-2 [39.1 kB]
Get:110 http://172.17.4.1/private trixie-staging/main armhf python3-imagesize all 1.4.1-1 [6688 B]
Get:111 http://172.17.4.1/private trixie-staging/main armhf python3-markupsafe armhf 2.1.3-1 [12.8 kB]
Get:112 http://172.17.4.1/private trixie-staging/main armhf python3-jinja2 all 3.1.2-1 [119 kB]
Get:113 http://172.17.4.1/private trixie-staging/main armhf python3-mappy armhf 2.24+dfsg-3+b1 [143 kB]
Get:114 http://172.17.4.1/private trixie-staging/main armhf python3-six all 1.16.0-4 [17.5 kB]
Get:115 http://172.17.4.1/private trixie-staging/main armhf python3-nose2 all 0.14.0-1 [115 kB]
Get:116 http://172.17.4.1/private trixie-staging/main armhf python3-packaging all 23.2-1 [44.8 kB]
Get:117 http://172.17.4.1/private trixie-staging/main armhf python3-pygments all 2.15.1+dfsg-1 [817 kB]
Get:118 http://172.17.4.1/private trixie-staging/main armhf python3-urllib3 all 1.26.18-1 [116 kB]
Get:119 http://172.17.4.1/private trixie-staging/main armhf python3-requests all 2.31.0+dfsg-1 [68.6 kB]
Get:120 http://172.17.4.1/private trixie-staging/main armhf python3-scipy armhf 1.10.1-5+rpi1 [13.6 MB]
Get:121 http://172.17.4.1/private trixie-staging/main armhf python3-snowballstemmer all 2.2.0-4 [58.0 kB]
Get:122 http://172.17.4.1/private trixie-staging/main armhf sphinx-common all 7.2.6-2 [703 kB]
Get:123 http://172.17.4.1/private trixie-staging/main armhf python3-sphinx all 7.2.6-2 [552 kB]
Get:124 http://172.17.4.1/private trixie-staging/main armhf sphinx-rtd-theme-common all 2.0.0+dfsg-1 [1021 kB]
Get:125 http://172.17.4.1/private trixie-staging/main armhf python3-sphinx-argparse all 0.3.2-1 [37.1 kB]
Get:126 http://172.17.4.1/private trixie-staging/main armhf python3-sphinxcontrib.jquery all 4.1-4 [7272 B]
Get:127 http://172.17.4.1/private trixie-staging/main armhf python3-sphinx-rtd-theme all 2.0.0+dfsg-1 [28.3 kB]
Get:128 http://172.17.4.1/private trixie-staging/main armhf python3-tqdm all 4.64.1-1 [97.7 kB]
Get:129 http://172.17.4.1/private trixie-staging/main armhf sphinx-doc all 7.2.6-2 [2375 kB]
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Not building database; man-db/auto-update is not 'true'.
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Processing triggers for libc-bin (2.37-12+rpi2) ...
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Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 6.1.47-v8+ #1 SMP PREEMPT Fri Sep 1 07:05:33 BST 2023 arm64 (aarch64)
Toolchain package versions: binutils_2.41-6+rpi1 dpkg-dev_1.22.1+rpi1 g++-12_12.3.0-10+rpi1 g++-13_13.2.0-5+rpi1 gcc-12_12.3.0-10+rpi1 gcc-13_13.2.0-5+rpi1 libc6-dev_2.37-12+rpi2 libstdc++-12-dev_12.3.0-10+rpi1 libstdc++-13-dev_13.2.0-5+rpi1 libstdc++6_13.2.0-5+rpi1 linux-libc-dev_6.5.6-1+rpi1
Package versions: adduser_3.137 apt_2.7.6 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13+rpi1 base-passwd_3.6.2 bash_5.2.15-2 binutils_2.41-6+rpi1 binutils-arm-linux-gnueabihf_2.41-6+rpi1 binutils-common_2.41-6+rpi1 bsdextrautils_2.39.2-6 bsdutils_1:2.39.2-6 build-essential_12.9 bzip2_1.0.8-5+b2 ca-certificates_20230311 coreutils_9.1-1 cpp_4:13.2.0-1+rpi1 cpp-12_12.3.0-10+rpi1 cpp-13_13.2.0-5+rpi1 cython3_0.29.36-3 dash_0.5.12-6 debconf_1.5.82 debhelper_13.11.8 debianutils_5.14 dh-autoreconf_20 dh-python_6.20231107 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1 dirmngr_2.2.40-1.1 docutils-common_0.20.1+dfsg-3 docutils-doc_0.20.1+dfsg-3 dpkg_1.22.1+rpi1 dpkg-dev_1.22.1+rpi1 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.32.1-1 file_1:5.45-2 findutils_4.9.0-5 fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1 fonts-lato_2.015-1 fonts-mathjax_2.7.9+dfsg-1 g++_4:13.2.0-1+rpi1 g++-12_12.3.0-10+rpi1 g++-13_13.2.0-5+rpi1 gcc_4:13.2.0-1+rpi1 gcc-10-base_10.4.0-7+rpi1 gcc-12_12.3.0-10+rpi1 gcc-12-base_12.3.0-10+rpi1 gcc-13_13.2.0-5+rpi1 gcc-13-base_13.2.0-5+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-13 gettext-base_0.21-13 gnupg_2.2.40-1.1 gnupg-l10n_2.2.40-1.1 gnupg-utils_2.2.40-1.1 gpg_2.2.40-1.1 gpg-agent_2.2.40-1.1 gpg-wks-client_2.2.40-1.1 gpg-wks-server_2.2.40-1.1 gpgconf_2.2.40-1.1 gpgsm_2.2.40-1.1 gpgv_2.2.40-1.1 grep_3.11-3 groff-base_1.23.0-3 gzip_1.12-1 hostname_3.23+nmu1 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 libacl1_2.3.1-3 libaec0_1.1.2-1 libapt-pkg6.0_2.7.6 libarchive-zip-perl_1.68-1 libasan8_13.2.0-5+rpi1 libassuan0_2.5.6-1 libatomic1_13.2.0-5+rpi1 libattr1_1:2.5.1-4 libaudit-common_1:3.1.1-1 libaudit1_1:3.1.1-1 libbinutils_2.41-6+rpi1 libblas3_3.11.0-2 libblkid1_2.39.2-6 libbrotli1_1.1.0-2 libbz2-1.0_1.0.8-5+b2 libc-bin_2.37-12+rpi2 libc-dev-bin_2.37-12+rpi2 libc6_2.37-12+rpi2 libc6-dev_2.37-12+rpi2 libcap-ng0_0.8.3-1+b1 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libjson-perl_4.10000-1 libk5crypto3_1.20.1-4 libkeyutils1_1.6.3-2 libkrb5-3_1.20.1-4 libkrb5support0_1.20.1-4 libksba8_1.6.4-2 liblapack3_3.11.0-2 liblbfgsb0_3.0+dfsg.4-1 libldap-2.5-0_2.5.13+dfsg-5+rpi1 liblocale-gettext-perl_1.07-6 liblz4-1_1.9.4-1+rpi1+b1 liblzf1_3.6-4 liblzma5_5.4.4-0.1 libmagic-mgc_1:5.45-2 libmagic1_1:5.45-2 libmd0_1.1.0-1 libmount1_2.39.2-6 libmpc3_1.3.1-1 libmpfr6_4.2.1-1 libncursesw6_6.4+20231016-1 libnettle8_3.9.1-2 libnghttp2-14_1.58.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libp11-kit0_0.25.0-5 libpam-modules_1.5.2-9.1 libpam-modules-bin_1.5.2-9.1 libpam-runtime_1.5.2-9.1 libpam0g_1.5.2-9.1 libpcre2-8-0_10.42-4 libperl5.36_5.36.0-9 libpipeline1_1.5.7-1 libpsl5_0.21.2-1+b1 libpython3-all-dev_3.11.4-5 libpython3-dev_3.11.4-5 libpython3-stdlib_3.11.4-5 libpython3.11_3.11.6-3 libpython3.11-dev_3.11.6-3 libpython3.11-minimal_3.11.6-3 libpython3.11-stdlib_3.11.6-3 libreadline8_8.2-1.3 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg1-3 libsasl2-modules-db_2.1.28+dfsg1-3 libseccomp2_2.5.4-1+rpi1+b1 libselinux1_3.5-1 libsemanage-common_3.5-1 libsemanage2_3.5-1 libsepol2_3.5-1 libsframe1_2.41-6+rpi1 libsmartcols1_2.39.2-6 libsqlite3-0_3.43.2-1 libss2_1.47.0-2 libssh2-1_1.11.0-3 libssl3_3.0.11-1 libstdc++-12-dev_12.3.0-10+rpi1 libstdc++-13-dev_13.2.0-5+rpi1 libstdc++6_13.2.0-5+rpi1 libsub-override-perl_0.09-4 libsystemd0_254.5-1+rpi1 libsz2_1.1.2-1 libtasn1-6_4.19.0-3 libtext-charwidth-perl_0.04-11 libtext-iconv-perl_1.7-8 libtinfo6_6.4+20231016-1 libtirpc-common_1.3.3+ds-1 libtirpc-dev_1.3.3+ds-1 libtirpc3_1.3.3+ds-1 libtool_2.4.7-7 libubsan1_13.2.0-5+rpi1 libuchardet0_0.0.8-1 libudev1_254.5-1+rpi1 libunistring5_1.1-2 libuuid1_2.39.2-6 libxml2_2.9.14+dfsg-1.3 libxxhash0_0.8.2-2 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.5.6-1+rpi1 login_1:4.13+dfsg1-3 logsave_1.47.0-2 lsb-base_11.6+rpi1 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.0-1 mawk_1.3.4.20230808-1 media-types_10.1.0 mount_2.39.2-6 ncurses-base_6.4+20231016-1 ncurses-bin_6.4+20231016-1 openssl_3.0.11-1 passwd_1:4.13+dfsg1-3 patch_2.7.6-7 perl_5.36.0-9 perl-base_5.36.0-9 perl-modules-5.36_5.36.0-9 pinentry-curses_1.2.1-1 po-debconf_1.0.21+nmu1 python-babel-localedata_2.10.3-3 python-requests-doc_2.31.0+dfsg-1 python3_3.11.4-5 python3-alabaster_0.7.12-1 python3-all_3.11.4-5 python3-all-dev_3.11.4-5 python3-babel_2.10.3-3 python3-certifi_2023.7.22-1 python3-chardet_5.2.0+dfsg-1 python3-charset-normalizer_3.3.2-1 python3-decorator_5.1.1-5 python3-dev_3.11.4-5 python3-distutils_3.11.5-1 python3-doc_3.11.4-5 python3-docutils_0.20.1+dfsg-3 python3-h5py_3.9.0-4 python3-h5py-serial_3.9.0-4 python3-idna_3.3-2 python3-imagesize_1.4.1-1 python3-jinja2_3.1.2-1 python3-lib2to3_3.11.5-1 python3-mappy_2.24+dfsg-3+b1 python3-markupsafe_2.1.3-1 python3-minimal_3.11.4-5 python3-nose2_0.14.0-1 python3-numpy_1:1.24.2-1 python3-packaging_23.2-1 python3-pkg-resources_68.1.2-2 python3-pygments_2.15.1+dfsg-1 python3-requests_2.31.0+dfsg-1 python3-roman_3.3-3 python3-scipy_1.10.1-5+rpi1 python3-setuptools_68.1.2-2 python3-six_1.16.0-4 python3-snowballstemmer_2.2.0-4 python3-sphinx_7.2.6-2 python3-sphinx-argparse_0.3.2-1 python3-sphinx-rtd-theme_2.0.0+dfsg-1 python3-sphinxcontrib.jquery_4.1-4 python3-tqdm_4.64.1-1 python3-tz_2023.3.post1-1 python3-urllib3_1.26.18-1 python3.11_3.11.6-3 python3.11-dev_3.11.6-3 python3.11-doc_3.11.6-3 python3.11-minimal_3.11.6-3 raspbian-archive-keyring_20120528.2 readline-common_8.2-1.3 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 sgml-base_1.31 sphinx-common_7.2.6-2 sphinx-doc_7.2.6-2 sphinx-rtd-theme-common_2.0.0+dfsg-1 sysvinit-utils_3.08-3 tar_1.34+dfsg-1.2 tzdata_2023c-10 usr-is-merged_37 util-linux_2.39.2-6 xml-core_0.18+nmu1 xz-utils_5.4.4-0.1 zlib1g_1:1.2.13.dfsg-3 zlib1g-dev_1:1.2.13.dfsg-3
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 3.0 (quilt)
Source: tombo
Binary: tombo, tombo-doc
Architecture: any all
Version: 1.5.1-5
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Homepage: https://github.com/nanoporetech/tombo
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/tombo
Vcs-Git: https://salsa.debian.org/med-team/tombo.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), dh-python, python3-all-dev, python3-setuptools, cython3, sphinx-doc, python3-sphinx, python3-sphinx-rtd-theme, python3-sphinx-argparse, libjs-mathjax, python3-h5py <!nocheck>, python3-mappy <!nocheck>, python3-numpy <!nocheck>, python3-scipy <!nocheck>, python3-tqdm <!nocheck>, python3-nose2 <!nocheck>
Package-List:
tombo deb science optional arch=any
tombo-doc deb doc optional arch=all
Checksums-Sha1:
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ebef5e33399d7bd6694c5f4755c400d0ca764242 6916 tombo_1.5.1-5.debian.tar.xz
Checksums-Sha256:
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2f6aea837d88b42135f801c47bc71d160cf179fcec1037e4ac3364cdd86b0e2c 6916 tombo_1.5.1-5.debian.tar.xz
Files:
3709e4f4d6f4c58ec2d6ae216059929c 22294835 tombo_1.5.1.orig.tar.gz
27ab116140742617145b9d970188c278 6916 tombo_1.5.1-5.debian.tar.xz
-----BEGIN PGP SIGNATURE-----
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gpgv: Signature made Sun Dec 3 19:14:13 2023 UTC
gpgv: using EDDSA key A095B66EE09024BEE6A2F0722A27904BD7243EDA
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./tombo_1.5.1-5.dsc: no acceptable signature found
dpkg-source: info: extracting tombo in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking tombo_1.5.1.orig.tar.gz
dpkg-source: info: unpacking tombo_1.5.1-5.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying no_future.patch
dpkg-source: info: applying 2to3.patch
dpkg-source: info: applying mathjax.patch
dpkg-source: info: applying cython3-fix.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LANG=en_GB.UTF-8
LC_ALL=C.UTF-8
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=trixie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=trixie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=124
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=trixie-staging-armhf-sbuild-24862a2f-5c25-4b73-8777-af5b608e623b
SCHROOT_UID=114
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -us -uc -mRaspbian pi5 test autobuilder <root@raspbian.org> -B -rfakeroot
dpkg-buildpackage: info: source package tombo
dpkg-buildpackage: info: source version 1.5.1-5
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with python3,sphinxdoc --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:310: python3.11 setup.py clean
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build' (and everything under it)
'build/bdist.linux-armv7l' does not exist -- can't clean it
'build/scripts-3.11' 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,sphinxdoc --buildsystem=pybuild
dh_update_autotools_config -a -O--buildsystem=pybuild
dh_autoreconf -a -O--buildsystem=pybuild
dh_auto_configure -a -O--buildsystem=pybuild
I: pybuild base:310: python3.11 setup.py config
running config
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build
I: pybuild base:310: /usr/bin/python3 setup.py build
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/__init__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/__main__.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_default_parameters.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_event_resquiggle.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_filter_reads.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_option_parsers.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_plot_commands.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_preprocess.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_text_output_commands.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_version.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/resquiggle.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/tombo_helper.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/tombo_stats.py -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
running egg_info
creating ont_tombo.egg-info
writing ont_tombo.egg-info/PKG-INFO
writing dependency_links to ont_tombo.egg-info/dependency_links.txt
writing entry points to ont_tombo.egg-info/entry_points.txt
writing requirements to ont_tombo.egg-info/requires.txt
writing top-level names to ont_tombo.egg-info/top_level.txt
writing manifest file 'ont_tombo.egg-info/SOURCES.txt'
reading manifest file 'ont_tombo.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching '*' under directory 'cython'
adding license file 'LICENSE.md'
writing manifest file 'ont_tombo.egg-info/SOURCES.txt'
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'tombo.R_scripts' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'tombo.R_scripts' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'tombo.R_scripts' to be distributed and are
already explicitly excluding 'tombo.R_scripts' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'tombo.tombo_models' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'tombo.tombo_models' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'tombo.tombo_models' to be distributed and are
already explicitly excluding 'tombo.tombo_models' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
copying tombo/_c_dynamic_programming.pyx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
copying tombo/_c_helper.pyx -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/debugDP.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/debugFit.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/debugRawDP.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotGroupComp.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotKmerDist.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotModelComp.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotMotifStats.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotMultiReadCorr.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotPerReadStats.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotROC.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotROCPerRead.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotReadCorr.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotSigMDS.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotSingleRead.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
copying tombo/R_scripts/plotSingleRun.R -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.DNA.5mC.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.DNA.6mA.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.DNA.CpG.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.DNA.dam.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.DNA.dcm.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.DNA.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.RNA.180mV.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.RNA.200mV.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
copying tombo/tombo_models/tombo.RNA.5mC.model -> /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models
running build_ext
cythoning tombo/_c_dynamic_programming.pyx to tombo/_c_dynamic_programming.cpp
/usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /<<PKGBUILDDIR>>/tombo/_c_dynamic_programming.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
cythoning tombo/_c_helper.pyx to tombo/_c_helper.cpp
/usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /<<PKGBUILDDIR>>/tombo/_c_helper.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
building 'tombo._c_dynamic_programming' extension
creating build
creating build/temp.linux-armv7l-cpython-311
creating build/temp.linux-armv7l-cpython-311/tombo
arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c tombo/_c_dynamic_programming.cpp -o build/temp.linux-armv7l-cpython-311/tombo/_c_dynamic_programming.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1940,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5,
from tombo/_c_dynamic_programming.cpp:766:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
tombo/_c_dynamic_programming.cpp: In function ‘PyObject* __pyx_pf_5tombo_22_c_dynamic_programming_2c_reg_z_scores(PyObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, PyArrayObject*, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_INT_t, PyObject*)’:
tombo/_c_dynamic_programming.cpp:3796:36: warning: ‘__pyx_v_np_max_half_z_score’ may be used uninitialized [-Wmaybe-uninitialized]
3796 | __pyx_t_20 = PyFloat_FromDouble(__pyx_v_np_max_half_z_score); if (unlikely(!__pyx_t_20)) __PYX_ERR(0, 93, __pyx_L1_error)
| ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
tombo/_c_dynamic_programming.cpp:3005:51: note: ‘__pyx_v_np_max_half_z_score’ was declared here
3005 | __pyx_t_5tombo_22_c_dynamic_programming_DTYPE_t __pyx_v_np_max_half_z_score;
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-311/tombo/_c_dynamic_programming.o -L/usr/lib/arm-linux-gnueabihf -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.cpython-311-arm-linux-gnueabihf.so
building 'tombo._c_helper' extension
arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.11 -c tombo/_c_helper.cpp -o build/temp.linux-armv7l-cpython-311/tombo/_c_helper.o
In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1940,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:5,
from tombo/_c_helper.cpp:766:
/usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
17 | #warning "Using deprecated NumPy API, disable it with " \
| ^~~~~~~
arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-cpython-311/tombo/_c_helper.o -L/usr/lib/arm-linux-gnueabihf -o /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_c_helper.cpython-311-arm-linux-gnueabihf.so
sphinx-build -N -bhtml docs docs/build
Running Sphinx v7.2.6
making output directory... done
building [mo]: targets for 0 po files that are out of date
writing output...
building [html]: targets for 11 source files that are out of date
updating environment: [new config] 11 added, 0 changed, 0 removed
[2Kreading sources... [ 9%] examples
[2Kreading sources... [ 18%] filtering
[2Kreading sources... [ 27%] index
[2Kreading sources... [ 36%] model_training
[2Kreading sources... [ 45%] modified_base_detection
[2Kreading sources... [ 55%] plotting
[2Kreading sources... [ 64%] resquiggle
[2Kreading sources... [ 73%] rna
[2Kreading sources... [ 82%] text_output
[2Kreading sources... [ 91%] tombo
[2Kreading sources... [100%] tutorials
WARNING: autodoc: failed to import module 'tombo'; the following exception was raised:
No module named 'tombo'
WARNING: autodoc: failed to import module 'resquiggle' from module 'tombo'; the following exception was raised:
No module named 'tombo'
WARNING: autodoc: failed to import module 'tombo_helper' from module 'tombo'; the following exception was raised:
No module named 'tombo'
WARNING: autodoc: failed to import module 'tombo_stats' from module 'tombo'; the following exception was raised:
No module named 'tombo'
looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
copying assets... copying static files... done
copying extra files... done
done
[2Kwriting output... [ 9%] examples
[2Kwriting output... [ 18%] filtering
[2Kwriting output... [ 27%] index
[2Kwriting output... [ 36%] model_training
[2Kwriting output... [ 45%] modified_base_detection
[2Kwriting output... [ 55%] plotting
[2Kwriting output... [ 64%] resquiggle
[2Kwriting output... [ 73%] rna
[2Kwriting output... [ 82%] text_output
[2Kwriting output... [ 91%] tombo
[2Kwriting output... [100%] tutorials
generating indices... genindex done
highlighting module code...
writing additional pages... search done
[2Kcopying images... [ 4%] _images/testing_method_comparison.png
[2Kcopying images... [ 9%] _images/alt_density_est.png
[2Kcopying images... [ 13%] _images/old_correction_plot.png
[2Kcopying images... [ 17%] _images/outlier_robust_llr.gif
[2Kcopying images... [ 22%] _images/dampened_fraction.png
[2Kcopying images... [ 26%] _images/single_samp.png
[2Kcopying images... [ 30%] _images/sample_comp.png
[2Kcopying images... [ 35%] _images/model_comp.png
[2Kcopying images... [ 39%] _images/alt_model_comp.png
[2Kcopying images... [ 43%] _images/boxplot.png
[2Kcopying images... [ 48%] _images/quantile.png
[2Kcopying images... [ 52%] _images/density.png
[2Kcopying images... [ 57%] _images/pre_read_5mC.png
[2Kcopying images... [ 61%] _images/per_read_do_novo.png
[2Kcopying images... [ 65%] _images/stat_dist.png
[2Kcopying images... [ 70%] _images/kmer_levels.png
[2Kcopying images... [ 74%] _images/roc.png
[2Kcopying images... [ 78%] _images/per_read_stat_dist.png
[2Kcopying images... [ 83%] _images/begin_half_z_scores.png
[2Kcopying images... [ 87%] _images/begin_forward_pass.png
[2Kcopying images... [ 91%] _images/adaptive_half_z_scores.png
[2Kcopying images... [ 96%] _images/adaptive_forward_pass.png
[2Kcopying images... [100%] _images/stat_dist_null.png
dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded, 4 warnings.
The HTML pages are in docs/build.
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a -O--buildsystem=pybuild
I: pybuild base:310: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build; python3.11 -m nose2 -v
----------------------------------------------------------------------
Ran 0 tests in 0.000s
OK
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:310: /usr/bin/python3 setup.py install --root /<<PKGBUILDDIR>>/debian/tmp
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_py
running egg_info
writing ont_tombo.egg-info/PKG-INFO
writing dependency_links to ont_tombo.egg-info/dependency_links.txt
writing entry points to ont_tombo.egg-info/entry_points.txt
writing requirements to ont_tombo.egg-info/requires.txt
writing top-level names to ont_tombo.egg-info/top_level.txt
reading manifest file 'ont_tombo.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching '*' under directory 'cython'
adding license file 'LICENSE.md'
writing manifest file 'ont_tombo.egg-info/SOURCES.txt'
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'tombo.R_scripts' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'tombo.R_scripts' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'tombo.R_scripts' to be distributed and are
already explicitly excluding 'tombo.R_scripts' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
/usr/lib/python3/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration.
!!
********************************************************************************
############################
# Package would be ignored #
############################
Python recognizes 'tombo.tombo_models' as an importable package[^1],
but it is absent from setuptools' `packages` configuration.
This leads to an ambiguous overall configuration. If you want to distribute this
package, please make sure that 'tombo.tombo_models' is explicitly added
to the `packages` configuration field.
Alternatively, you can also rely on setuptools' discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/package_discovery.html
If you don't want 'tombo.tombo_models' to be distributed and are
already explicitly excluding 'tombo.tombo_models' via
`find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
you can try to use `exclude_package_data`, or `include-package-data=False` in
combination with a more fine grained `package-data` configuration.
You can read more about "package data files" on setuptools documentation page:
- https://setuptools.pypa.io/en/latest/userguide/datafiles.html
[^1]: For Python, any directory (with suitable naming) can be imported,
even if it does not contain any `.py` files.
On the other hand, currently there is no concept of package data
directory, all directories are treated like packages.
********************************************************************************
!!
check.warn(importable)
running build_ext
skipping 'tombo/_c_dynamic_programming.cpp' Cython extension (up-to-date)
skipping 'tombo/_c_helper.cpp' Cython extension (up-to-date)
running install_lib
creating /<<PKGBUILDDIR>>/debian/tmp/usr
creating /<<PKGBUILDDIR>>/debian/tmp/usr/lib
creating /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11
creating /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages
creating /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/__init__.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/__main__.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_default_parameters.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_event_resquiggle.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_filter_reads.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_option_parsers.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_plot_commands.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_preprocess.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_text_output_commands.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_version.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/resquiggle.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_helper.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_stats.py -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.pyx -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_c_helper.pyx -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
creating /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugDP.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugFit.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/debugRawDP.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotGroupComp.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotKmerDist.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotModelComp.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMotifStats.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotMultiReadCorr.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotPerReadStats.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROC.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotROCPerRead.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotReadCorr.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSigMDS.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRead.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/R_scripts/plotSingleRun.R -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/R_scripts
creating /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.5mC.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.6mA.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.CpG.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dam.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.dcm.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.DNA.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.180mV.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.200mV.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/tombo_models/tombo.RNA.5mC.model -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_models
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_c_dynamic_programming.cpython-311-arm-linux-gnueabihf.so -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/tombo/_c_helper.cpython-311-arm-linux-gnueabihf.so -> /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__init__.py to __init__.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/__main__.py to __main__.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_default_parameters.py to _default_parameters.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_event_resquiggle.py to _event_resquiggle.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_filter_reads.py to _filter_reads.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_option_parsers.py to _option_parsers.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_preprocess.py to _preprocess.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_text_output_commands.py to _text_output_commands.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/_version.py to _version.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/resquiggle.py to resquiggle.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_helper.py to tombo_helper.cpython-311.pyc
byte-compiling /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/tombo/tombo_stats.py to tombo_stats.cpython-311.pyc
running install_egg_info
Copying ont_tombo.egg-info to /<<PKGBUILDDIR>>/debian/tmp/usr/lib/python3.11/dist-packages/ont_tombo-1.5.1.egg-info
Skipping SOURCES.txt
running install_scripts
Installing tombo script to /<<PKGBUILDDIR>>/debian/tmp/usr/bin
dh_install -a -O--buildsystem=pybuild
dh_installdocs -a -O--buildsystem=pybuild
dh_sphinxdoc -a -O--buildsystem=pybuild
dh_sphinxdoc: warning: Sphinx documentation not found
dh_installchangelogs -a -O--buildsystem=pybuild
dh_installman -a -O--buildsystem=pybuild
dh_python3 -a -O--buildsystem=pybuild
I: dh_python3 tools:114: replacing shebang in debian/tombo/usr/share/tombo/scripts/dump_per_read_statistics.py
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
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_fixperms
find debian -name "*.model" -exec chmod -x \{\} \;
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
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
dh_installdeb -a -O--buildsystem=pybuild
dh_gencontrol -a -O--buildsystem=pybuild
dh_md5sums -a -O--buildsystem=pybuild
dh_builddeb -a -O--buildsystem=pybuild
dpkg-deb: building package 'tombo-dbgsym' in '../tombo-dbgsym_1.5.1-5_armhf.deb'.
dpkg-deb: building package 'tombo' in '../tombo_1.5.1-5_armhf.deb'.
dpkg-genbuildinfo --build=any -O../tombo_1.5.1-5_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian pi5 test autobuilder <root@raspbian.org> -O../tombo_1.5.1-5_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2023-12-07T06:51:01Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
tombo_1.5.1-5_armhf.changes:
----------------------------
Format: 1.8
Date: Mon, 04 Dec 2023 00:38:50 +0530
Source: tombo
Binary: tombo tombo-dbgsym
Architecture: armhf
Version: 1.5.1-5
Distribution: trixie-staging
Urgency: medium
Maintainer: Raspbian pi5 test autobuilder <root@raspbian.org>
Changed-By: Nilesh Patra <nilesh@debian.org>
Description:
tombo - identification of modified nucleotides from raw nanopore sequenci
Closes: 1056041 1056892
Changes:
tombo (1.5.1-5) unstable; urgency=medium
.
* Team Upload.
* Add patch to fix FTBFS with cython3 (Closes: #1056041, #1056892)
* Bump Standards-Version to 4.6.2 (no changes needed)
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Files:
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51b5bcbb685cc587c81f46cdd4cc758d 8326 science optional tombo_1.5.1-5_armhf.buildinfo
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+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
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Source: tombo
Binary: tombo tombo-dbgsym
Architecture: armhf
Version: 1.5.1-5
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Build-Origin: Raspbian
Build-Architecture: armhf
Build-Date: Thu, 07 Dec 2023 06:51:01 +0000
Build-Path: /<<PKGBUILDDIR>>
Installed-Build-Depends:
autoconf (= 2.71-3),
automake (= 1:1.16.5-1.3),
autopoint (= 0.21-14),
autotools-dev (= 20220109.1),
base-files (= 13+rpi1),
base-passwd (= 3.6.2),
bash (= 5.2.15-2),
binutils (= 2.41-6+rpi1),
binutils-arm-linux-gnueabihf (= 2.41-6+rpi1),
binutils-common (= 2.41-6+rpi1),
bsdextrautils (= 2.39.2-6),
bsdutils (= 1:2.39.2-6),
build-essential (= 12.9),
bzip2 (= 1.0.8-5+b2),
ca-certificates (= 20230311),
coreutils (= 9.1-1),
cpp (= 4:13.2.0-1+rpi1),
cpp-12 (= 12.3.0-10+rpi1),
cpp-13 (= 13.2.0-5+rpi1),
cython3 (= 0.29.36-3),
dash (= 0.5.12-6),
debconf (= 1.5.82),
debhelper (= 13.11.8),
debianutils (= 5.14),
dh-autoreconf (= 20),
dh-python (= 6.20231107),
dh-strip-nondeterminism (= 1.13.1-1),
diffutils (= 1:3.10-1),
docutils-common (= 0.20.1+dfsg-3),
docutils-doc (= 0.20.1+dfsg-3),
dpkg (= 1.22.1+rpi1),
dpkg-dev (= 1.22.1+rpi1),
dwz (= 0.15-1),
file (= 1:5.45-2),
findutils (= 4.9.0-5),
fonts-font-awesome (= 5.0.10+really4.7.0~dfsg-4.1),
fonts-lato (= 2.015-1),
fonts-mathjax (= 2.7.9+dfsg-1),
g++ (= 4:13.2.0-1+rpi1),
g++-13 (= 13.2.0-5+rpi1),
gcc (= 4:13.2.0-1+rpi1),
gcc-12 (= 12.3.0-10+rpi1),
gcc-12-base (= 12.3.0-10+rpi1),
gcc-13 (= 13.2.0-5+rpi1),
gcc-13-base (= 13.2.0-5+rpi1),
gettext (= 0.21-13),
gettext-base (= 0.21-13),
grep (= 3.11-3),
groff-base (= 1.23.0-3),
gzip (= 1.12-1),
hostname (= 3.23+nmu1),
init-system-helpers (= 1.65.2),
intltool-debian (= 0.35.0+20060710.6),
libacl1 (= 2.3.1-3),
libaec0 (= 1.1.2-1),
libarchive-zip-perl (= 1.68-1),
libasan8 (= 13.2.0-5+rpi1),
libatomic1 (= 13.2.0-5+rpi1),
libattr1 (= 1:2.5.1-4),
libaudit-common (= 1:3.1.1-1),
libaudit1 (= 1:3.1.1-1),
libbinutils (= 2.41-6+rpi1),
libblas3 (= 3.11.0-2),
libblkid1 (= 2.39.2-6),
libbrotli1 (= 1.1.0-2),
libbz2-1.0 (= 1.0.8-5+b2),
libc-bin (= 2.37-12+rpi2),
libc-dev-bin (= 2.37-12+rpi2),
libc6 (= 2.37-12+rpi2),
libc6-dev (= 2.37-12+rpi2),
libcap-ng0 (= 0.8.3-1+b1),
libcap2 (= 1:2.66-4),
libcc1-0 (= 13.2.0-5+rpi1),
libcom-err2 (= 1.47.0-2),
libcrypt-dev (= 1:4.4.36-2),
libcrypt1 (= 1:4.4.36-2),
libctf-nobfd0 (= 2.41-6+rpi1),
libctf0 (= 2.41-6+rpi1),
libcurl4 (= 8.4.0-2+rpi1),
libdb5.3 (= 5.3.28+dfsg2-2),
libdebconfclient0 (= 0.271),
libdebhelper-perl (= 13.11.8),
libdpkg-perl (= 1.22.1+rpi1),
libelf1 (= 0.188-2.1+rpi1),
libexpat1 (= 2.5.0-2),
libexpat1-dev (= 2.5.0-2),
libffi8 (= 3.4.4-1),
libfile-stripnondeterminism-perl (= 1.13.1-1),
libgcc-12-dev (= 12.3.0-10+rpi1),
libgcc-13-dev (= 13.2.0-5+rpi1),
libgcc-s1 (= 13.2.0-5+rpi1),
libgcrypt20 (= 1.10.2-3),
libgdbm-compat4 (= 1.23-3),
libgdbm6 (= 1.23-3),
libgfortran5 (= 13.2.0-5+rpi1),
libgmp10 (= 2:6.3.0+dfsg-2),
libgnutls30 (= 3.8.1-4),
libgomp1 (= 13.2.0-5+rpi1),
libgpg-error0 (= 1.47-2),
libgssapi-krb5-2 (= 1.20.1-4),
libhdf5-103-1 (= 1.10.10+repack-3),
libhdf5-hl-100 (= 1.10.10+repack-3),
libhogweed6 (= 3.9.1-2),
libicu72 (= 72.1-4),
libidn2-0 (= 2.3.4-1),
libisl23 (= 0.26-3),
libjansson4 (= 2.14-2),
libjs-jquery (= 3.6.1+dfsg+~3.5.14-1),
libjs-mathjax (= 2.7.9+dfsg-1),
libjs-sphinxdoc (= 7.2.6-2),
libjs-underscore (= 1.13.4~dfsg+~1.11.4-3),
libjson-perl (= 4.10000-1),
libk5crypto3 (= 1.20.1-4),
libkeyutils1 (= 1.6.3-2),
libkrb5-3 (= 1.20.1-4),
libkrb5support0 (= 1.20.1-4),
liblapack3 (= 3.11.0-2),
liblbfgsb0 (= 3.0+dfsg.4-1),
libldap-2.5-0 (= 2.5.13+dfsg-5+rpi1),
liblz4-1 (= 1.9.4-1+rpi1+b1),
liblzf1 (= 3.6-4),
liblzma5 (= 5.4.4-0.1),
libmagic-mgc (= 1:5.45-2),
libmagic1 (= 1:5.45-2),
libmd0 (= 1.1.0-1),
libmount1 (= 2.39.2-6),
libmpc3 (= 1.3.1-1),
libmpfr6 (= 4.2.1-1),
libncursesw6 (= 6.4+20231016-1),
libnettle8 (= 3.9.1-2),
libnghttp2-14 (= 1.58.0-1),
libnsl-dev (= 1.3.0-2),
libnsl2 (= 1.3.0-2),
libp11-kit0 (= 0.25.0-5),
libpam-modules (= 1.5.2-9.1),
libpam-modules-bin (= 1.5.2-9.1),
libpam-runtime (= 1.5.2-9.1),
libpam0g (= 1.5.2-9.1),
libpcre2-8-0 (= 10.42-4),
libperl5.36 (= 5.36.0-9),
libpipeline1 (= 1.5.7-1),
libpsl5 (= 0.21.2-1+b1),
libpython3-all-dev (= 3.11.4-5),
libpython3-dev (= 3.11.4-5),
libpython3-stdlib (= 3.11.4-5),
libpython3.11 (= 3.11.6-3),
libpython3.11-dev (= 3.11.6-3),
libpython3.11-minimal (= 3.11.6-3),
libpython3.11-stdlib (= 3.11.6-3),
libreadline8 (= 8.2-1.3),
librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2),
libsasl2-2 (= 2.1.28+dfsg1-3),
libsasl2-modules-db (= 2.1.28+dfsg1-3),
libseccomp2 (= 2.5.4-1+rpi1+b1),
libselinux1 (= 3.5-1),
libsframe1 (= 2.41-6+rpi1),
libsmartcols1 (= 2.39.2-6),
libsqlite3-0 (= 3.43.2-1),
libssh2-1 (= 1.11.0-3),
libssl3 (= 3.0.11-1),
libstdc++-13-dev (= 13.2.0-5+rpi1),
libstdc++6 (= 13.2.0-5+rpi1),
libsub-override-perl (= 0.09-4),
libsystemd0 (= 254.5-1+rpi1),
libsz2 (= 1.1.2-1),
libtasn1-6 (= 4.19.0-3),
libtinfo6 (= 6.4+20231016-1),
libtirpc-common (= 1.3.3+ds-1),
libtirpc-dev (= 1.3.3+ds-1),
libtirpc3 (= 1.3.3+ds-1),
libtool (= 2.4.7-7),
libubsan1 (= 13.2.0-5+rpi1),
libuchardet0 (= 0.0.8-1),
libudev1 (= 254.5-1+rpi1),
libunistring5 (= 1.1-2),
libuuid1 (= 2.39.2-6),
libxml2 (= 2.9.14+dfsg-1.3),
libzstd1 (= 1.5.5+dfsg2-2),
linux-libc-dev (= 6.5.6-1+rpi1),
login (= 1:4.13+dfsg1-3),
m4 (= 1.4.19-4),
make (= 4.3-4.1),
man-db (= 2.12.0-1),
mawk (= 1.3.4.20230808-1),
media-types (= 10.1.0),
ncurses-base (= 6.4+20231016-1),
ncurses-bin (= 6.4+20231016-1),
openssl (= 3.0.11-1),
patch (= 2.7.6-7),
perl (= 5.36.0-9),
perl-base (= 5.36.0-9),
perl-modules-5.36 (= 5.36.0-9),
po-debconf (= 1.0.21+nmu1),
python-babel-localedata (= 2.10.3-3),
python-requests-doc (= 2.31.0+dfsg-1),
python3 (= 3.11.4-5),
python3-alabaster (= 0.7.12-1),
python3-all (= 3.11.4-5),
python3-all-dev (= 3.11.4-5),
python3-babel (= 2.10.3-3),
python3-certifi (= 2023.7.22-1),
python3-chardet (= 5.2.0+dfsg-1),
python3-charset-normalizer (= 3.3.2-1),
python3-decorator (= 5.1.1-5),
python3-dev (= 3.11.4-5),
python3-distutils (= 3.11.5-1),
python3-doc (= 3.11.4-5),
python3-docutils (= 0.20.1+dfsg-3),
python3-h5py (= 3.9.0-4),
python3-h5py-serial (= 3.9.0-4),
python3-idna (= 3.3-2),
python3-imagesize (= 1.4.1-1),
python3-jinja2 (= 3.1.2-1),
python3-lib2to3 (= 3.11.5-1),
python3-mappy (= 2.24+dfsg-3+b1),
python3-markupsafe (= 2.1.3-1),
python3-minimal (= 3.11.4-5),
python3-nose2 (= 0.14.0-1),
python3-numpy (= 1:1.24.2-1),
python3-packaging (= 23.2-1),
python3-pkg-resources (= 68.1.2-2),
python3-pygments (= 2.15.1+dfsg-1),
python3-requests (= 2.31.0+dfsg-1),
python3-roman (= 3.3-3),
python3-scipy (= 1.10.1-5+rpi1),
python3-setuptools (= 68.1.2-2),
python3-six (= 1.16.0-4),
python3-snowballstemmer (= 2.2.0-4),
python3-sphinx (= 7.2.6-2),
python3-sphinx-argparse (= 0.3.2-1),
python3-sphinx-rtd-theme (= 2.0.0+dfsg-1),
python3-sphinxcontrib.jquery (= 4.1-4),
python3-tqdm (= 4.64.1-1),
python3-tz (= 2023.3.post1-1),
python3-urllib3 (= 1.26.18-1),
python3.11 (= 3.11.6-3),
python3.11-dev (= 3.11.6-3),
python3.11-doc (= 3.11.6-3),
python3.11-minimal (= 3.11.6-3),
readline-common (= 8.2-1.3),
rpcsvc-proto (= 1.4.3-1),
sed (= 4.9-1),
sensible-utils (= 0.0.20),
sgml-base (= 1.31),
sphinx-common (= 7.2.6-2),
sphinx-doc (= 7.2.6-2),
sphinx-rtd-theme-common (= 2.0.0+dfsg-1),
sysvinit-utils (= 3.08-3),
tar (= 1.34+dfsg-1.2),
tzdata (= 2023c-10),
usr-is-merged (= 37),
util-linux (= 2.39.2-6),
xml-core (= 0.18+nmu1),
xz-utils (= 5.4.4-0.1),
zlib1g (= 1:1.2.13.dfsg-3),
zlib1g-dev (= 1:1.2.13.dfsg-3)
Environment:
DEB_BUILD_OPTIONS="parallel=4"
LANG="en_GB.UTF-8"
LC_ALL="C.UTF-8"
LC_COLLATE="C.UTF-8"
SOURCE_DATE_EPOCH="1701630530"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
tombo-dbgsym_1.5.1-5_armhf.deb
------------------------------
new Debian package, version 2.0.
size 381236 bytes: control archive=640 bytes.
403 bytes, 12 lines control
297 bytes, 3 lines md5sums
Package: tombo-dbgsym
Source: tombo
Version: 1.5.1-5
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 446
Depends: tombo (= 1.5.1-5)
Section: debug
Priority: optional
Description: debug symbols for tombo
Build-Ids: 0b9ed6a937da988d5be23a0f5ad589e35bc827c4 c75e0d220457dde3fa781e535cd838aab4870f1f
drwxr-xr-x root/root 0 2023-12-03 19:08 ./
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/debug/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/debug/.build-id/0b/
-rw-r--r-- root/root 235968 2023-12-03 19:08 ./usr/lib/debug/.build-id/0b/9ed6a937da988d5be23a0f5ad589e35bc827c4.debug
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/debug/.build-id/c7/
-rw-r--r-- root/root 183632 2023-12-03 19:08 ./usr/lib/debug/.build-id/c7/5e0d220457dde3fa781e535cd838aab4870f1f.debug
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 21632 2023-12-03 19:08 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/tombo.debug
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/share/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/share/doc/
lrwxrwxrwx root/root 0 2023-12-03 19:08 ./usr/share/doc/tombo-dbgsym -> tombo
tombo_1.5.1-5_armhf.deb
-----------------------
new Debian package, version 2.0.
size 421004 bytes: control archive=2816 bytes.
774 bytes, 14 lines control
5454 bytes, 60 lines md5sums
458 bytes, 19 lines * postinst #!/bin/sh
370 bytes, 12 lines * prerm #!/bin/sh
Package: tombo
Version: 1.5.1-5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1381
Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.5), cython3, python3 (<< 3.12), python3 (>= 3.11~), python3-h5py, python3-mappy, python3-numpy, python3-pkg-resources, python3-scipy, python3-tqdm, python3:any
Recommends: python3-pyfaidx, python3-rpy2
Section: science
Priority: optional
Homepage: https://github.com/nanoporetech/tombo
Description: identification of modified nucleotides from raw nanopore sequencing data
Tombo is a suite of tools primarily for the identification of modified
nucleotides from nanopore sequencing data. Tombo also provides tools for
the analysis and visualization of raw nanopore signal.
drwxr-xr-x root/root 0 2023-12-03 19:08 ./
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/bin/
-rwxr-xr-x root/root 960 2023-12-03 19:08 ./usr/bin/tombo
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/python3/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/python3/dist-packages/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/python3/dist-packages/ont_tombo-1.5.1.egg-info/
-rw-r--r-- root/root 6814 2023-12-03 19:08 ./usr/lib/python3/dist-packages/ont_tombo-1.5.1.egg-info/PKG-INFO
-rw-r--r-- root/root 1 2023-12-03 19:08 ./usr/lib/python3/dist-packages/ont_tombo-1.5.1.egg-info/dependency_links.txt
-rw-r--r-- root/root 46 2023-12-03 19:08 ./usr/lib/python3/dist-packages/ont_tombo-1.5.1.egg-info/entry_points.txt
-rw-r--r-- root/root 28 2023-12-03 19:08 ./usr/lib/python3/dist-packages/ont_tombo-1.5.1.egg-info/requires.txt
-rw-r--r-- root/root 6 2023-12-03 19:08 ./usr/lib/python3/dist-packages/ont_tombo-1.5.1.egg-info/top_level.txt
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/python3/dist-packages/tombo/
drwxr-xr-x root/root 0 2023-12-03 19:08 ./usr/lib/python3/dist-packages/tombo/R_scripts/
-rw-r--r-- root/root 1254 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/debugDP.R
-rw-r--r-- root/root 1013 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/debugFit.R
-rw-r--r-- root/root 1888 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/debugRawDP.R
-rw-r--r-- root/root 5508 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotGroupComp.R
-rw-r--r-- root/root 5177 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotKmerDist.R
-rw-r--r-- root/root 12234 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotModelComp.R
-rw-r--r-- root/root 6939 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotMotifStats.R
-rw-r--r-- root/root 2942 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotMultiReadCorr.R
-rw-r--r-- root/root 3862 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotPerReadStats.R
-rw-r--r-- root/root 382 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotROC.R
-rw-r--r-- root/root 1072 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotROCPerRead.R
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-rw-r--r-- root/root 369 2020-02-20 00:02 ./usr/lib/python3/dist-packages/tombo/R_scripts/plotSigMDS.R
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+------------------------------------------------------------------------------+
| Post Build |
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+------------------------------------------------------------------------------+
| Cleanup |
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Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build Type: any
Build-Space: 64608
Build-Time: 22
Distribution: trixie-staging
Host Architecture: armhf
Install-Time: 144
Job: tombo_1.5.1-5
Machine Architecture: arm64
Package: tombo
Package-Time: 178
Source-Version: 1.5.1-5
Space: 64608
Status: successful
Version: 1.5.1-5
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Finished at 2023-12-07T06:51:01Z
Build needed 00:02:58, 64608k disk space